last-align →
359-1 →
armhf → 2013-10-16 09:37:56
sbuild (Debian sbuild) 0.63.2 (18 Aug 2012) on testbuildd.raspbian.org
╔══════════════════════════════════════════════════════════════════════════════╗
║ last-align 359-1 (armhf) 16 Oct 2013 09:26 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: last-align
Version: 359-1
Source Version: 359-1
Distribution: jessie-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'build/last-align-lTKn17/last-align-359' with '«PKGBUILDDIR»'
I: NOTICE: Log filtering will replace 'build/last-align-lTKn17' with '«BUILDDIR»'
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/jessie-staging-armhf-sbuild-5bcd3937-b888-48e6-8611-f2a2ac5e68bd' with '«CHROOT»'
┌──────────────────────────────────────────────────────────────────────────────┐
│ Update chroot │
└──────────────────────────────────────────────────────────────────────────────┘
Get:1 http://172.17.0.1 jessie-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1 jessie-staging/main Sources [6941 kB]
Get:3 http://172.17.0.1 jessie-staging/main armhf Packages [8056 kB]
Ign http://172.17.0.1 jessie-staging/main Translation-en
Fetched 15.0 MB in 1min 55s (130 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Fetch source files │
└──────────────────────────────────────────────────────────────────────────────┘
Check APT
─────────
Checking available source versions...
Download source files with APT
──────────────────────────────
Reading package lists...
Building dependency tree...
Reading state information...
NOTICE: 'last-align' packaging is maintained in the 'Svn' version control system at:
svn://anonscm.debian.org/debian-med/trunk/packages/last-align/trunk/
Need to get 341 kB of source archives.
Get:1 http://172.17.0.1/private/ jessie-staging/main last-align 359-1 (dsc) [2004 B]
Get:2 http://172.17.0.1/private/ jessie-staging/main last-align 359-1 (tar) [331 kB]
Get:3 http://172.17.0.1/private/ jessie-staging/main last-align 359-1 (diff) [7992 B]
Fetched 341 kB in 6s (51.2 kB/s)
Download complete and in download only mode
Check arch
──────────
Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/«BUILDDIR»/resolver-l4TSGg/apt_archive/sbuild-build-depends-core-dummy.deb'.
OK
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Install core 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-core-dummy
debconf: delaying package configuration, since apt-utils is not installed
0 upgraded, 1 newly installed, 0 to remove and 27 not upgraded.
Need to get 0 B/704 B of archives.
After this operation, 0 B of additional disk space will be used.
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 12118 files and directories currently installed.)
Unpacking sbuild-build-depends-core-dummy (from .../sbuild-build-depends-core-dummy.deb) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
Merged Build-Depends: base-files, base-passwd, bash, bsdutils, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, libc-bin, login, mount, ncurses-base, ncurses-bin, perl-base, sed, sysvinit, sysvinit-utils, tar, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 9), help2man, python-imaging
Filtered Build-Depends: base-files, base-passwd, bash, bsdutils, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, libc-bin, login, mount, ncurses-base, ncurses-bin, perl-base, sed, sysvinit, sysvinit-utils, tar, util-linux, libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 9), help2man, python-imaging
dpkg-deb: building package `sbuild-build-depends-last-align-dummy' in `/«BUILDDIR»/resolver-cyavVp/apt_archive/sbuild-build-depends-last-align-dummy.deb'.
OK
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Install last-align build dependencies (apt-based resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following extra packages will be installed:
bsdmainutils debhelper file gettext gettext-base groff-base help2man
intltool-debian libasprintf0c2 libcroco3 libexpat1 libffi6 libfreetype6
libglib2.0-0 libjpeg8 liblcms1 liblocale-gettext-perl libmagic1 libpipeline1
libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libsqlite3-0
libssl1.0.0 libunistring0 libxml2 man-db mime-support po-debconf python
python-imaging python-minimal python2.7 python2.7-minimal
Suggested packages:
wamerican wordlist whois vacation dh-make gettext-doc groff liblcms-utils
less www-browser libmail-box-perl python-doc python-tk python-imaging-doc
python-imaging-dbg python2.7-doc binfmt-support
Recommended packages:
curl wget lynx-cur autopoint libasprintf-dev libgettextpo-dev
libglib2.0-data shared-mime-info xml-core libmail-sendmail-perl
The following NEW packages will be installed:
bsdmainutils debhelper file gettext gettext-base groff-base help2man
intltool-debian libasprintf0c2 libcroco3 libexpat1 libffi6 libfreetype6
libglib2.0-0 libjpeg8 liblcms1 liblocale-gettext-perl libmagic1 libpipeline1
libpython-stdlib libpython2.7-minimal libpython2.7-stdlib libsqlite3-0
libssl1.0.0 libunistring0 libxml2 man-db mime-support po-debconf python
python-imaging python-minimal python2.7 python2.7-minimal
sbuild-build-depends-last-align-dummy
0 upgraded, 35 newly installed, 0 to remove and 27 not upgraded.
Need to get 16.1 MB/16.1 MB of archives.
After this operation, 43.4 MB of additional disk space will be used.
Get:1 http://172.17.0.1/private/ jessie-staging/main libpipeline1 armhf 1.2.4-1 [36.9 kB]
Get:2 http://172.17.0.1/private/ jessie-staging/main libssl1.0.0 armhf 1.0.1e-3+rpi1 [1039 kB]
Get:3 http://172.17.0.1/private/ jessie-staging/main groff-base armhf 1.22.2-3 [666 kB]
Get:4 http://172.17.0.1/private/ jessie-staging/main bsdmainutils armhf 9.0.5 [206 kB]
Get:5 http://172.17.0.1/private/ jessie-staging/main man-db armhf 2.6.5-2 [949 kB]
Get:6 http://172.17.0.1/private/ jessie-staging/main liblocale-gettext-perl armhf 1.05-7+b3 [19.6 kB]
Get:7 http://172.17.0.1/private/ jessie-staging/main libasprintf0c2 armhf 0.18.3.1-1 [29.4 kB]
Get:8 http://172.17.0.1/private/ jessie-staging/main libmagic1 armhf 1:5.14-2 [213 kB]
Get:9 http://172.17.0.1/private/ jessie-staging/main libsqlite3-0 armhf 3.8.0.2-1 [397 kB]
Get:10 http://172.17.0.1/private/ jessie-staging/main libxml2 armhf 2.9.1+dfsg1-3 [836 kB]
Get:11 http://172.17.0.1/private/ jessie-staging/main libpython2.7-minimal armhf 2.7.5-8+rpi2 [541 kB]
Get:12 http://172.17.0.1/private/ jessie-staging/main python2.7-minimal armhf 2.7.5-8+rpi2 [1494 kB]
Get:13 http://172.17.0.1/private/ jessie-staging/main libffi6 armhf 3.0.13-4 [19.8 kB]
Get:14 http://172.17.0.1/private/ jessie-staging/main libglib2.0-0 armhf 2.36.4-1 [1907 kB]
Get:15 http://172.17.0.1/private/ jessie-staging/main libcroco3 armhf 0.6.8-2 [119 kB]
Get:16 http://172.17.0.1/private/ jessie-staging/main libexpat1 armhf 2.1.0-4 [117 kB]
Get:17 http://172.17.0.1/private/ jessie-staging/main libfreetype6 armhf 2.4.9-1.1 [401 kB]
Get:18 http://172.17.0.1/private/ jessie-staging/main libjpeg8 armhf 8d-1 [132 kB]
Get:19 http://172.17.0.1/private/ jessie-staging/main liblcms1 armhf 1.19.dfsg-1.2 [98.5 kB]
Get:20 http://172.17.0.1/private/ jessie-staging/main libunistring0 armhf 0.9.3-5 [408 kB]
Get:21 http://172.17.0.1/private/ jessie-staging/main file armhf 1:5.14-2 [53.8 kB]
Get:22 http://172.17.0.1/private/ jessie-staging/main gettext-base armhf 0.18.3.1-1 [136 kB]
Get:23 http://172.17.0.1/private/ jessie-staging/main mime-support all 3.54 [36.4 kB]
Get:24 http://172.17.0.1/private/ jessie-staging/main libpython2.7-stdlib armhf 2.7.5-8+rpi2 [2478 kB]
Get:25 http://172.17.0.1/private/ jessie-staging/main python2.7 armhf 2.7.5-8+rpi2 [234 kB]
Get:26 http://172.17.0.1/private/ jessie-staging/main python-minimal armhf 2.7.5-5 [43.1 kB]
Get:27 http://172.17.0.1/private/ jessie-staging/main libpython-stdlib armhf 2.7.5-5 [19.8 kB]
Get:28 http://172.17.0.1/private/ jessie-staging/main python armhf 2.7.5-5 [180 kB]
Get:29 http://172.17.0.1/private/ jessie-staging/main gettext armhf 0.18.3.1-1 [1837 kB]
Get:30 http://172.17.0.1/private/ jessie-staging/main intltool-debian all 0.35.0+20060710.1 [29.8 kB]
Get:31 http://172.17.0.1/private/ jessie-staging/main po-debconf all 1.0.16+nmu2 [223 kB]
Get:32 http://172.17.0.1/private/ jessie-staging/main debhelper all 9.20130921 [688 kB]
Get:33 http://172.17.0.1/private/ jessie-staging/main help2man armhf 1.43.3 [104 kB]
Get:34 http://172.17.0.1/private/ jessie-staging/main python-imaging armhf 1.1.7-4 [414 kB]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 16.1 MB in 27s (595 kB/s)
Selecting previously unselected package libpipeline1:armhf.
(Reading database ... 12118 files and directories currently installed.)
Unpacking libpipeline1:armhf (from .../libpipeline1_1.2.4-1_armhf.deb) ...
Selecting previously unselected package libssl1.0.0:armhf.
Unpacking libssl1.0.0:armhf (from .../libssl1.0.0_1.0.1e-3+rpi1_armhf.deb) ...
Selecting previously unselected package groff-base.
Unpacking groff-base (from .../groff-base_1.22.2-3_armhf.deb) ...
Selecting previously unselected package bsdmainutils.
Unpacking bsdmainutils (from .../bsdmainutils_9.0.5_armhf.deb) ...
Selecting previously unselected package man-db.
Unpacking man-db (from .../man-db_2.6.5-2_armhf.deb) ...
Selecting previously unselected package liblocale-gettext-perl.
Unpacking liblocale-gettext-perl (from .../liblocale-gettext-perl_1.05-7+b3_armhf.deb) ...
Selecting previously unselected package libasprintf0c2:armhf.
Unpacking libasprintf0c2:armhf (from .../libasprintf0c2_0.18.3.1-1_armhf.deb) ...
Selecting previously unselected package libmagic1:armhf.
Unpacking libmagic1:armhf (from .../libmagic1_1%3a5.14-2_armhf.deb) ...
Selecting previously unselected package libsqlite3-0:armhf.
Unpacking libsqlite3-0:armhf (from .../libsqlite3-0_3.8.0.2-1_armhf.deb) ...
Selecting previously unselected package libxml2:armhf.
Unpacking libxml2:armhf (from .../libxml2_2.9.1+dfsg1-3_armhf.deb) ...
Selecting previously unselected package libpython2.7-minimal.
Unpacking libpython2.7-minimal (from .../libpython2.7-minimal_2.7.5-8+rpi2_armhf.deb) ...
Selecting previously unselected package python2.7-minimal.
Unpacking python2.7-minimal (from .../python2.7-minimal_2.7.5-8+rpi2_armhf.deb) ...
Selecting previously unselected package libffi6:armhf.
Unpacking libffi6:armhf (from .../libffi6_3.0.13-4_armhf.deb) ...
Selecting previously unselected package libglib2.0-0:armhf.
Unpacking libglib2.0-0:armhf (from .../libglib2.0-0_2.36.4-1_armhf.deb) ...
Selecting previously unselected package libcroco3:armhf.
Unpacking libcroco3:armhf (from .../libcroco3_0.6.8-2_armhf.deb) ...
Selecting previously unselected package libexpat1:armhf.
Unpacking libexpat1:armhf (from .../libexpat1_2.1.0-4_armhf.deb) ...
Selecting previously unselected package libfreetype6:armhf.
Unpacking libfreetype6:armhf (from .../libfreetype6_2.4.9-1.1_armhf.deb) ...
Selecting previously unselected package libjpeg8:armhf.
Unpacking libjpeg8:armhf (from .../libjpeg8_8d-1_armhf.deb) ...
Selecting previously unselected package liblcms1:armhf.
Unpacking liblcms1:armhf (from .../liblcms1_1.19.dfsg-1.2_armhf.deb) ...
Selecting previously unselected package libunistring0:armhf.
Unpacking libunistring0:armhf (from .../libunistring0_0.9.3-5_armhf.deb) ...
Selecting previously unselected package file.
Unpacking file (from .../file_1%3a5.14-2_armhf.deb) ...
Selecting previously unselected package gettext-base.
Unpacking gettext-base (from .../gettext-base_0.18.3.1-1_armhf.deb) ...
Selecting previously unselected package mime-support.
Unpacking mime-support (from .../mime-support_3.54_all.deb) ...
Selecting previously unselected package libpython2.7-stdlib.
Unpacking libpython2.7-stdlib (from .../libpython2.7-stdlib_2.7.5-8+rpi2_armhf.deb) ...
Selecting previously unselected package python2.7.
Unpacking python2.7 (from .../python2.7_2.7.5-8+rpi2_armhf.deb) ...
Selecting previously unselected package python-minimal.
Unpacking python-minimal (from .../python-minimal_2.7.5-5_armhf.deb) ...
Selecting previously unselected package libpython-stdlib:armhf.
Unpacking libpython-stdlib:armhf (from .../libpython-stdlib_2.7.5-5_armhf.deb) ...
Selecting previously unselected package python.
Unpacking python (from .../python_2.7.5-5_armhf.deb) ...
Selecting previously unselected package gettext.
Unpacking gettext (from .../gettext_0.18.3.1-1_armhf.deb) ...
Selecting previously unselected package intltool-debian.
Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ...
Selecting previously unselected package po-debconf.
Unpacking po-debconf (from .../po-debconf_1.0.16+nmu2_all.deb) ...
Selecting previously unselected package debhelper.
Unpacking debhelper (from .../debhelper_9.20130921_all.deb) ...
Selecting previously unselected package help2man.
Unpacking help2man (from .../help2man_1.43.3_armhf.deb) ...
Selecting previously unselected package python-imaging.
Unpacking python-imaging (from .../python-imaging_1.1.7-4_armhf.deb) ...
Selecting previously unselected package sbuild-build-depends-last-align-dummy.
Unpacking sbuild-build-depends-last-align-dummy (from .../sbuild-build-depends-last-align-dummy.deb) ...
Setting up libpipeline1:armhf (1.2.4-1) ...
Setting up libssl1.0.0:armhf (1.0.1e-3+rpi1) ...
Setting up groff-base (1.22.2-3) ...
Setting up bsdmainutils (9.0.5) ...
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 man-db (2.6.5-2) ...
Not building database; man-db/auto-update is not 'true'.
Setting up liblocale-gettext-perl (1.05-7+b3) ...
Setting up libasprintf0c2:armhf (0.18.3.1-1) ...
Setting up libmagic1:armhf (1:5.14-2) ...
Setting up libsqlite3-0:armhf (3.8.0.2-1) ...
Setting up libxml2:armhf (2.9.1+dfsg1-3) ...
Setting up libpython2.7-minimal (2.7.5-8+rpi2) ...
Setting up python2.7-minimal (2.7.5-8+rpi2) ...
Setting up libffi6:armhf (3.0.13-4) ...
Setting up libglib2.0-0:armhf (2.36.4-1) ...
No schema files found: doing nothing.
Setting up libcroco3:armhf (0.6.8-2) ...
Setting up libexpat1:armhf (2.1.0-4) ...
Setting up libfreetype6:armhf (2.4.9-1.1) ...
Setting up libjpeg8:armhf (8d-1) ...
Setting up liblcms1:armhf (1.19.dfsg-1.2) ...
Setting up libunistring0:armhf (0.9.3-5) ...
Setting up file (1:5.14-2) ...
Setting up gettext-base (0.18.3.1-1) ...
Setting up mime-support (3.54) ...
update-alternatives: using /usr/bin/see to provide /usr/bin/view (view) in auto mode
Setting up libpython2.7-stdlib (2.7.5-8+rpi2) ...
Setting up python2.7 (2.7.5-8+rpi2) ...
Setting up python-minimal (2.7.5-5) ...
Setting up libpython-stdlib:armhf (2.7.5-5) ...
Setting up python (2.7.5-5) ...
Setting up gettext (0.18.3.1-1) ...
Setting up intltool-debian (0.35.0+20060710.1) ...
Setting up po-debconf (1.0.16+nmu2) ...
Setting up debhelper (9.20130921) ...
Setting up help2man (1.43.3) ...
Setting up python-imaging (1.1.7-4) ...
Setting up sbuild-build-depends-last-align-dummy (0.invalid.0) ...
Processing triggers for libc-bin ...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build environment │
└──────────────────────────────────────────────────────────────────────────────┘
Kernel: Linux 3.11.0-armv7-x13 armhf (armv7l)
Toolchain package versions: binutils_2.23.52.20130828-1 dpkg-dev_1.16.10 g++-4.6_4.6.4-4+rpi1 g++-4.8_4.8.1-6+rpi1 gcc-4.6_4.6.4-4+rpi1 gcc-4.8_4.8.1-6+rpi1 libc6-dev_2.17-92+rpi1 libstdc++-4.8-dev_4.8.1-6+rpi1 libstdc++6_4.8.1-6+rpi1 libstdc++6-4.6-dev_4.6.4-4+rpi1 linux-libc-dev_3.10.1-1+rpi1+b2
Package versions: apt_0.9.11.4+rpi1 base-files_7.2+rpi1 base-passwd_3.5.28 bash_4.2+dfsg-1 binutils_2.23.52.20130828-1 bsdmainutils_9.0.5 bsdutils_1:2.20.1-5.5 build-essential_11.6 bzip2_1.0.6-5 coreutils_8.21-1 cpio_2.11+dfsg-1 cpp_4:4.8.1-3 cpp-4.6_4.6.4-4+rpi1 cpp-4.8_4.8.1-6+rpi1 dash_0.5.7-3 debconf_1.5.51 debfoster_2.7-1.2 debhelper_9.20130921 debianutils_4.4 diffutils_1:3.3-1 dpkg_1.16.10 dpkg-dev_1.16.10 e2fslibs_1.42.8-1 e2fsprogs_1.42.8-1 fakeroot_1.18.4-2 file_1:5.14-2 findutils_4.4.2-6 g++_4:4.8.1-3 g++-4.6_4.6.4-4+rpi1 g++-4.8_4.8.1-6+rpi1 gcc_4:4.8.1-3 gcc-4.5-base_4.5.3-12+rpi1 gcc-4.6_4.6.4-4+rpi1 gcc-4.6-base_4.6.4-4+rpi1 gcc-4.7-base_4.7.3-4+rpi1 gcc-4.8_4.8.1-6+rpi1 gcc-4.8-base_4.8.1-6+rpi1 gettext_0.18.3.1-1 gettext-base_0.18.3.1-1 gnupg_1.4.14-1 gpgv_1.4.14-1 grep_2.14-3 groff-base_1.22.2-3 gzip_1.6-2 help2man_1.43.3 hostname_3.14 initramfs-tools_0.113 initscripts_2.88dsf-43 insserv_1.14.0-5 intltool-debian_0.35.0+20060710.1 klibc-utils_2.0.1-3.1+rpi1 kmod_9-3 libacl1_2.2.52-1 libapt-pkg4.12_0.9.11.4+rpi1 libarchive-extract-perl_0.68-1 libasan0_4.8.1-6+rpi1 libasprintf0c2_0.18.3.1-1 libatomic1_4.8.1-6+rpi1 libattr1_1:2.4.47-1 libblkid1_2.20.1-5.5 libbz2-1.0_1.0.6-5 libc-bin_2.17-92+rpi1 libc-dev-bin_2.17-92+rpi1 libc6_2.17-92+rpi1 libc6-dev_2.17-92+rpi1 libcap2_1:2.22-1.2 libclass-isa-perl_0.36-5 libcloog-isl4_0.18.0-2 libcomerr2_1.42.8-1 libcroco3_0.6.8-2 libdb5.1_5.1.29-6 libdbus-1-3_1.6.14-1 libdpkg-perl_1.16.10 libexpat1_2.1.0-4 libffi6_3.0.13-4 libfreetype6_2.4.9-1.1 libgc1c2_1:7.2d-5 libgcc-4.8-dev_4.8.1-6+rpi1 libgcc1_1:4.8.1-6+rpi1 libgdbm3_1.8.3-12 libglib2.0-0_2.36.4-1 libgmp10_2:5.1.2+dfsg-3 libgomp1_4.8.1-6+rpi1 libisl10_0.11.2-1 libjpeg8_8d-1 libklibc_2.0.1-3.1+rpi1 libkmod2_9-3 liblcms1_1.19.dfsg-1.2 liblocale-gettext-perl_1.05-7+b3 liblzma5_5.1.1alpha+20120614-2 libmagic1_1:5.14-2 libmodule-pluggable-perl_4.8-1 libmount1_2.20.1-5.5 libmpc2_0.9-4 libmpc3_1.0.1-1 libmpfr4_3.1.1-2 libncurses5_5.9+20130608-1 libncursesw5_5.9+20130608-1 libpam-modules_1.1.3-9 libpam-modules-bin_1.1.3-9 libpam-runtime_1.1.3-9 libpam0g_1.1.3-9 libpcre3_1:8.31-2 libpipeline1_1.2.4-1 libpod-latex-perl_0.61-1 libprocps0_1:3.3.4-2 libpython-stdlib_2.7.5-5 libpython2.7-minimal_2.7.5-8+rpi2 libpython2.7-stdlib_2.7.5-8+rpi2 libreadline6_6.2+dfsg-0.1 libselinux1_2.1.13-2 libsemanage-common_2.1.10-2 libsemanage1_2.1.10-2 libsepol1_2.1.9-2 libslang2_2.2.4-15 libsqlite3-0_3.8.0.2-1 libss2_1.42.8-1 libssl1.0.0_1.0.1e-3+rpi1 libstdc++-4.8-dev_4.8.1-6+rpi1 libstdc++6_4.8.1-6+rpi1 libstdc++6-4.6-dev_4.6.4-4+rpi1 libswitch-perl_2.16-2 libterm-ui-perl_0.36-1 libtimedate-perl_1.2000-1 libtinfo5_5.9+20130608-1 libudev0_175-7.2 libudev1_204-5 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-23.2 libustr-1.0-1_1.0.4-3 libuuid1_2.20.1-5.5 libxml2_2.9.1+dfsg1-3 linux-libc-dev_3.10.1-1+rpi1+b2 login_1:4.1.5.1-1 lsb-base_4.1+Debian8+rpi1 make_3.81-8.2 makedev_2.3.1-93 man-db_2.6.5-2 mawk_1.3.3-17 mime-support_3.54 mount_2.20.1-5.5 multiarch-support_2.17-92+rpi1 ncurses-base_5.9+20130608-1 ncurses-bin_5.9+20130608-1 passwd_1:4.1.5.1-1 patch_2.7.1-3 perl_5.18.1-4 perl-base_5.18.1-4 perl-modules_5.18.1-4 plymouth_0.8.8-6+deb8u1 po-debconf_1.0.16+nmu2 procps_1:3.3.4-2 python_2.7.5-5 python-imaging_1.1.7-4 python-minimal_2.7.5-5 python2.7_2.7.5-8+rpi2 python2.7-minimal_2.7.5-8+rpi2 raspbian-archive-keyring_20120528.2 readline-common_6.2+dfsg-0.1 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-last-align-dummy_0.invalid.0 sed_4.2.2-2 sensible-utils_0.0.9 sysv-rc_2.88dsf-43 sysvinit_2.88dsf-43 sysvinit-utils_2.88dsf-43 tar_1.26+dfsg-8 tzdata_2013d-1 udev_204-5 util-linux_2.20.1-5.5 xz-utils_5.1.1alpha+20120614-2 zlib1g_1:1.2.8.dfsg-1
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
└──────────────────────────────────────────────────────────────────────────────┘
Unpack source
─────────────
gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error
gpgv: Signature made Sun Oct 6 04:31:49 2013 UTC using RSA key ID 2295D502
gpgv: Can't check signature: public key not found
dpkg-source: warning: failed to verify signature on ./last-align_359-1.dsc
dpkg-source: info: extracting last-align in last-align-359
dpkg-source: info: unpacking last-align_359.orig.tar.xz
dpkg-source: info: unpacking last-align_359-1.debian.tar.gz
Check disc space
────────────────
Sufficient free space for build
User Environment
────────────────
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LANG=en_US.UTF-8
LC_ALL=POSIX
LOGNAME=root
LS_OPTIONS=--color=auto
MAIL=/var/mail/root
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
PWD=/root
SCHROOT_ALIAS_NAME=jessie-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=jessie-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=111
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=jessie-staging-armhf-sbuild-5bcd3937-b888-48e6-8611-f2a2ac5e68bd
SCHROOT_UID=106
SCHROOT_USER=buildd
SHELL=/bin/sh
SHLVL=1
SSH_CLIENT=192.168.1.2 45410 22
SSH_CONNECTION=192.168.1.2 45410 192.168.1.45 22
SSH_TTY=/dev/pts/0
TERM=xterm
USER=root
XDG_SESSION_COOKIE=106ef489ba27ee071ab233f6518d3bce-1380046912.711892-759150774
_=/etc/init.d/buildd
dpkg-buildpackage
─────────────────
dpkg-buildpackage: source package last-align
dpkg-buildpackage: source version 359-1
dpkg-source --before-build last-align-359
dpkg-buildpackage: host architecture armhf
fakeroot debian/rules clean
dh clean
dh_testdir
dh_auto_clean
make[1]: Entering directory `/«PKGBUILDDIR»'
make[2]: Entering directory `/«PKGBUILDDIR»/src'
rm -f lastdb lastal lastex last-split lambda_calculator.o
make[2]: Leaving directory `/«PKGBUILDDIR»/src'
make[1]: Leaving directory `/«PKGBUILDDIR»'
dh_clean
debian/rules build-arch
dh build-arch
dh_testdir -a
dh_auto_configure -a
debian/rules override_dh_auto_build
make[1]: Entering directory `/«PKGBUILDDIR»'
make all CXXFLAGS="-g -O2 -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic" CFLAGS="-g -O2" CPPFLAGS="" LDFLAGS=""
make[2]: Entering directory `/«PKGBUILDDIR»'
make[3]: Entering directory `/«PKGBUILDDIR»/src'
if test -e ../.hg ; \
then echo \"`hg id -n`\" | cmp -s version.hh - || echo \"`hg id -n`\" > version.hh ; \
elif test -e ../.hg_archival.txt ; \
then echo \"`grep latesttagdistance ../.hg_archival.txt | cut -d' ' -f2`\" | cmp -s version.hh - || echo \"`grep latesttagdistance ../.hg_archival.txt | cut -d' ' -f2`\" > version.hh ; \
else test -e version.hh || echo \"UNKNOWN\" > version.hh ; \
fi
g++ -g -O2 -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -o lastdb Alphabet.cc MultiSequence.cc CyclicSubsetSeed.cc SubsetSuffixArray.cc LastdbArguments.cc io.cc fileMap.cc SubsetSuffixArraySort.cc MultiSequenceQual.cc lastdb.cc
SubsetSuffixArraySort.cc: In member function 'void cbrc::SubsetSuffixArray::sortIndex(const uchar*, cbrc::SubsetSuffixArray::indexT)':
SubsetSuffixArraySort.cc:224:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
if( end - beg <= maxUnsortedInterval ) continue;
^
gcc -g -O2 -c CA_code/lambda_calculator.c
g++ -g -O2 -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -o lastal Alphabet.cc MultiSequence.cc CyclicSubsetSeed.cc SubsetSuffixArray.cc LastalArguments.cc io.cc fileMap.cc ScoreMatrix.cc DiagonalTable.cc SegmentPair.cc Alignment.cc GappedXdropAligner.cc SegmentPairPot.cc AlignmentPot.cc GeneralizedAffineGapCosts.cc Centroid.cc LambdaCalculator.cc TwoQualityScoreMatrix.cc OneQualityScoreMatrix.cc QualityPssmMaker.cc GeneticCode.cc gaplessXdrop.cc gaplessPssmXdrop.cc gaplessTwoQualityXdrop.cc AlignmentWrite.cc MultiSequenceQual.cc GappedXdropAlignerPssm.cc GappedXdropAligner2qual.cc GappedXdropAligner3frame.cc lastal.cc lambda_calculator.o
g++ -Igumbel_params -g -O2 -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -o lastex Alphabet.cc LastexArguments.cc io.cc ScoreMatrix.cc lastex.cc gumbel_params/*.cpp
In file included from gumbel_params/sls_pvalues.hpp:52:0,
from gumbel_params/mcf_local_alignment_evaluer.hpp:10,
from lastex.cc:7:
gumbel_params/sls_normal_distr_array.hpp:47:15: warning: 'ncbi::blast::Sls::normal_distr_array_for_P_values_calculation' defined but not used [-Wunused-variable]
static double normal_distr_array_for_P_values_calculation[NORMAL_DISTR_ARRAY_DIM+1]={
^
In file included from gumbel_params/sls_alp_sim.hpp:51:0,
from gumbel_params/mcf_local_alignment_evaluer.cpp:6:
gumbel_params/sls_alp_data.hpp:469:18: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:487:18: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:531:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:542:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:552:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:559:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:565:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:571:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:577:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:667:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:728:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:741:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:805:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:866:10: warning: extra ';' [-Wpedantic]
};
^
In file included from gumbel_params/sls_alp_sim.hpp:52:0,
from gumbel_params/mcf_local_alignment_evaluer.cpp:6:
gumbel_params/sls_alp.hpp:152:26: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.hpp:191:26: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.hpp:208:26: warning: extra ';' [-Wpedantic]
};
^
In file included from gumbel_params/sls_pvalues.hpp:52:0,
from gumbel_params/mcf_local_alignment_evaluer.hpp:10,
from gumbel_params/mcf_local_alignment_evaluer.cpp:3:
gumbel_params/sls_normal_distr_array.hpp:47:15: warning: 'ncbi::blast::Sls::normal_distr_array_for_P_values_calculation' defined but not used [-Wunused-variable]
static double normal_distr_array_for_P_values_calculation[NORMAL_DISTR_ARRAY_DIM+1]={
^
In file included from gumbel_params/sls_alp_sim.hpp:51:0,
from gumbel_params/mcf_local_alignment_evaluer.cpp:6:
gumbel_params/sls_alp_data.hpp:74:21: warning: 'ncbi::blast::Sls::small_long' defined but not used [-Wunused-variable]
static Int4 small_long=(Int4)((double)kMin_I4/2.0);
^
gumbel_params/sls_alp_data.hpp:75:23: warning: 'ncbi::blast::Sls::dbl_max_log' defined but not used [-Wunused-variable]
static double dbl_max_log=log(DBL_MAX);
^
In file included from gumbel_params/njn_dynprogprob.cpp:41:0:
gumbel_params/njn_dynprogprob.cpp: In member function 'virtual void ncbi::blast::Njn::DynProgProb::clear(Int4, Int4, const double*)':
gumbel_params/njn_dynprogprob.cpp:97:23: warning: suggest parentheses around '&&' within '||' [-Wparentheses]
prob_ && valueLower_ < valueUpper_);
^
gumbel_params/njn_dynprogprob.cpp: In member function 'virtual void ncbi::blast::Njn::DynProgProb::update()':
gumbel_params/njn_dynprogprob.cpp:214:12: warning: unused variable 'arrayPos' [-Wunused-variable]
size_t arrayPos = 0;
^
gumbel_params/njn_dynprogproblim.cpp: In member function 'virtual void ncbi::blast::Njn::DynProgProbLim::update()':
gumbel_params/njn_dynprogproblim.cpp:157:12: warning: unused variable 'arrayPos' [-Wunused-variable]
size_t arrayPos = 0;
^
In file included from gumbel_params/njn_localmaxstat.cpp:40:0:
gumbel_params/sls_alp_data.hpp:469:18: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:487:18: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:531:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:542:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:552:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:559:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:565:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:571:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:577:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:667:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:728:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:741:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:805:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:866:10: warning: extra ';' [-Wpedantic]
};
^
In file included from gumbel_params/njn_localmaxstat.cpp:44:0:
gumbel_params/njn_function.hpp:125:80: warning: extra ';' [-Wpedantic]
template <typename T> bool isProb (T x_) {return 0.0 <= x_ && x_ <= 1.0;}; // the closest value to x_ in the interval [0.0, 1.0]
^
gumbel_params/njn_localmaxstat.cpp: In member function 'void ncbi::blast::Njn::LocalMaxStat::copy(size_t, const Int4*, const double*)':
gumbel_params/njn_localmaxstat.cpp:154:12: warning: unused variable 'j' [-Wunused-variable]
size_t j = 0;
^
gumbel_params/njn_localmaxstat.cpp:155:10: warning: unused variable 'iter' [-Wunused-variable]
Int4 iter = 0;
^
gumbel_params/njn_localmaxstat.cpp:156:10: warning: unused variable 'value' [-Wunused-variable]
Int4 value = 0;
^
In file included from gumbel_params/njn_localmaxstat.cpp:40:0:
gumbel_params/sls_alp_data.hpp: At global scope:
gumbel_params/sls_alp_data.hpp:74:21: warning: 'ncbi::blast::Sls::small_long' defined but not used [-Wunused-variable]
static Int4 small_long=(Int4)((double)kMin_I4/2.0);
^
gumbel_params/sls_alp_data.hpp:75:23: warning: 'ncbi::blast::Sls::dbl_max_log' defined but not used [-Wunused-variable]
static double dbl_max_log=log(DBL_MAX);
^
gumbel_params/njn_localmaxstatmatrix.cpp: In member function 'void ncbi::blast::Njn::LocalMaxStatMatrix::copy(ncbi::blast::Njn::LocalMaxStat, size_t, const Int4* const*, const double*, const double*, size_t)':
gumbel_params/njn_localmaxstatmatrix.cpp:147:12: warning: unused variable 'j' [-Wunused-variable]
size_t j = 0;
^
In file included from gumbel_params/njn_localmaxstatmatrix.cpp:42:0:
gumbel_params/njn_memutil.hpp: In instantiation of 'void ncbi::blast::Njn::MemUtil::deleteMatrix(T**&, size_t, size_t) [with T = int; size_t = unsigned int]':
gumbel_params/njn_localmaxstatmatrix.cpp:67:89: required from here
gumbel_params/njn_memutil.hpp:111:14: warning: unused parameter 'n_' [-Wunused-parameter]
void deleteMatrix (T **&matrix, size_t m_, size_t n_)
^
gumbel_params/njn_memutil.hpp: In instantiation of 'void ncbi::blast::Njn::MemUtil::deleteMatrix(T**&, size_t, size_t) [with T = double; size_t = unsigned int]':
gumbel_params/njn_localmaxstatmatrix.cpp:129:82: required from here
gumbel_params/njn_memutil.hpp:111:14: warning: unused parameter 'n_' [-Wunused-parameter]
In file included from gumbel_params/njn_localmaxstatutil.cpp:43:0:
gumbel_params/njn_root.hpp:182:13: warning: invoking macro BEGIN_SCOPE argument 1: empty macro arguments are undefined in ISO C90 and ISO C++98 [enabled by default]
BEGIN_SCOPE()
^
In file included from gumbel_params/njn_root.hpp:44:0,
from gumbel_params/njn_localmaxstatutil.cpp:43:
gumbel_params/njn_function.hpp:125:80: warning: extra ';' [-Wpedantic]
template <typename T> bool isProb (T x_) {return 0.0 <= x_ && x_ <= 1.0;}; // the closest value to x_ in the interval [0.0, 1.0]
^
In file included from gumbel_params/njn_localmaxstatutil.cpp:43:0:
gumbel_params/njn_root.hpp:190:17: warning: unused parameter 'y_' [-Wunused-parameter]
double f (double x_, const double &y_) {return (*s_f) (x_);}
^
gumbel_params/njn_root.hpp:191:17: warning: unused parameter 'y_' [-Wunused-parameter]
double df (double x_, const double &y_) {return (*s_df) (x_);}
^
In file included from gumbel_params/njn_localmaxstatutil.cpp:45:0:
gumbel_params/sls_alp_data.hpp:469:18: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:487:18: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:531:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:542:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:552:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:559:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:565:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:571:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:577:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:667:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:728:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:741:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:805:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:866:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:74:21: warning: 'ncbi::blast::Sls::small_long' defined but not used [-Wunused-variable]
static Int4 small_long=(Int4)((double)kMin_I4/2.0);
^
gumbel_params/sls_alp_data.hpp:75:23: warning: 'ncbi::blast::Sls::dbl_max_log' defined but not used [-Wunused-variable]
static double dbl_max_log=log(DBL_MAX);
^
In file included from gumbel_params/sls_alp.hpp:48:0,
from gumbel_params/sls_alp.cpp:38:
gumbel_params/sls_alp_data.hpp:469:18: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:487:18: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:531:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:542:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:552:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:559:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:565:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:571:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:577:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:667:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:728:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:741:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:805:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:866:10: warning: extra ';' [-Wpedantic]
};
^
In file included from gumbel_params/sls_alp.cpp:38:0:
gumbel_params/sls_alp.hpp:152:26: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.hpp:191:26: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.hpp:208:26: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.cpp:202:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.cpp:353:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.cpp:445:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.cpp:455:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.cpp:464:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.cpp: In member function 'bool ncbi::blast::Sls::alp::one_step_of_importance_sampling_without_weight_calculation(Int4, Int4)':
gumbel_params/sls_alp.cpp:470:14: warning: variable 'previous_state_' set but not used [-Wunused-but-set-variable]
char previous_state_;
^
gumbel_params/sls_alp.cpp:474:14: warning: variable 'length1_change_' set but not used [-Wunused-but-set-variable]
bool length1_change_;
^
gumbel_params/sls_alp.cpp:475:14: warning: variable 'length2_change_' set but not used [-Wunused-but-set-variable]
bool length2_change_;
^
gumbel_params/sls_alp.cpp: At global scope:
gumbel_params/sls_alp.cpp:595:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.cpp:663:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.cpp:827:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.cpp:1031:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.cpp:1126:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.cpp:1151:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.cpp:1327:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.cpp:1329:6: warning: unused parameter 'ff_' [-Wunused-parameter]
void alp::check_time_function(
^
gumbel_params/sls_alp.cpp:1356:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.cpp: In member function 'void ncbi::blast::Sls::alp::increment_H_weights_with_sentinels(Int4)':
gumbel_params/sls_alp.cpp:1435:14: warning: unused variable 'gap_tmp' [-Wunused-variable]
Int4 gap_tmp=-d_alp_data->d_open-d_H_matr_len_1*d_alp_data->d_epen;
^
gumbel_params/sls_alp.cpp: At global scope:
gumbel_params/sls_alp.cpp:1590:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.cpp:1593:6: warning: unused parameter 'nalp_' [-Wunused-parameter]
void alp::restore_state(
^
gumbel_params/sls_alp.cpp:1645:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.cpp:1661:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.cpp:1756:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.cpp:1831:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.cpp:1915:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.cpp:1978:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.cpp:1992:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.cpp:2007:2: warning: extra ';' [-Wpedantic]
};
^
In file included from gumbel_params/sls_alp.hpp:48:0,
from gumbel_params/sls_alp.cpp:38:
gumbel_params/sls_alp_data.hpp:75:23: warning: 'ncbi::blast::Sls::dbl_max_log' defined but not used [-Wunused-variable]
static double dbl_max_log=log(DBL_MAX);
^
In file included from gumbel_params/sls_alp_data.cpp:40:0:
gumbel_params/sls_alp_data.hpp:469:18: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:487:18: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:531:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:542:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:552:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:559:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:565:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:571:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:577:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:667:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:728:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:741:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:805:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:866:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.cpp:345:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.cpp: In constructor 'ncbi::blast::Sls::alp_data::alp_data(Int4, Int4, Int4, std::string, std::string, std::string, double, double, double, double, std::string)':
gumbel_params/sls_alp_data.cpp:468:34: warning: comparison of unsigned expression < 0 is always false [-Wtype-limits]
if(random_factor<0)
^
gumbel_params/sls_alp_data.cpp: At global scope:
gumbel_params/sls_alp_data.cpp:648:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.cpp:667:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.cpp:699:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.cpp:802:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.cpp:829:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.cpp:858:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.cpp:941:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.cpp:1042:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.cpp:1130:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.cpp:1166:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.cpp:1185:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.cpp:1196:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.cpp:1208:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.cpp:1481:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.cpp:1495:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.cpp:1520:2: warning: extra ';' [-Wpedantic]
};
^
In file included from gumbel_params/sls_alp_data.cpp:40:0:
gumbel_params/sls_alp_data.hpp:74:21: warning: 'ncbi::blast::Sls::small_long' defined but not used [-Wunused-variable]
static Int4 small_long=(Int4)((double)kMin_I4/2.0);
^
gumbel_params/sls_alp_data.hpp:75:23: warning: 'ncbi::blast::Sls::dbl_max_log' defined but not used [-Wunused-variable]
static double dbl_max_log=log(DBL_MAX);
^
In file included from gumbel_params/sls_alp_regression.hpp:51:0,
from gumbel_params/sls_alp_regression.cpp:38:
gumbel_params/sls_alp_data.hpp:469:18: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:487:18: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:531:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:542:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:552:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:559:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:565:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:571:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:577:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:667:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:728:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:741:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:805:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:866:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_regression.cpp:115:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_regression.cpp:179:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_regression.cpp:227:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_regression.cpp:367:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_regression.cpp: In static member function 'static double ncbi::blast::Sls::alp_reg::function_for_robust_regression_sum_with_cut_LSM(double*, double*, Int4, Int4, double, double&, double&, double&, double&, bool&)':
gumbel_params/sls_alp_regression.cpp:389:16: warning: unused variable 'a11_error' [-Wunused-variable]
double a11_error=0;
^
gumbel_params/sls_alp_regression.cpp:390:16: warning: unused variable 'a12_error' [-Wunused-variable]
double a12_error=0;
^
gumbel_params/sls_alp_regression.cpp:391:16: warning: unused variable 'a21_error' [-Wunused-variable]
double a21_error=0;
^
gumbel_params/sls_alp_regression.cpp:392:16: warning: unused variable 'a22_error' [-Wunused-variable]
double a22_error=0;
^
gumbel_params/sls_alp_regression.cpp: At global scope:
gumbel_params/sls_alp_regression.cpp:447:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_regression.cpp: In static member function 'static void ncbi::blast::Sls::alp_reg::robust_regression_sum_with_cut_LSM_beta1_is_defined(Int4, Int4, double*, double*, bool, bool, double, double&, double, double&, double, Int4&, Int4&, bool&)':
gumbel_params/sls_alp_regression.cpp:521:16: warning: variable 'beta1_opt' set but not used [-Wunused-but-set-variable]
double beta1_opt=beta1_;
^
gumbel_params/sls_alp_regression.cpp:523:16: warning: variable 'beta1_opt_error' set but not used [-Wunused-but-set-variable]
double beta1_opt_error=beta1_error_;
^
gumbel_params/sls_alp_regression.cpp: At global scope:
gumbel_params/sls_alp_regression.cpp:577:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_regression.cpp: In static member function 'static double ncbi::blast::Sls::alp_reg::function_for_robust_regression_sum_with_cut_LSM_beta1_is_defined(double*, double*, Int4, Int4, double, double&, double, double&, double, bool&)':
gumbel_params/sls_alp_regression.cpp:596:16: warning: unused variable 'a11_error' [-Wunused-variable]
double a11_error=0;
^
gumbel_params/sls_alp_regression.cpp:597:16: warning: unused variable 'a12_error' [-Wunused-variable]
double a12_error=0;
^
gumbel_params/sls_alp_regression.cpp: At global scope:
gumbel_params/sls_alp_regression.cpp:646:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_regression.cpp:658:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_regression.cpp:675:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_regression.cpp:723:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_regression.cpp:745:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_regression.cpp:747:8: warning: unused parameter 'v1_' [-Wunused-parameter]
double alp_reg::error_of_the_sum(//v1_+v2_
^
gumbel_params/sls_alp_regression.cpp:747:8: warning: unused parameter 'v2_' [-Wunused-parameter]
gumbel_params/sls_alp_regression.cpp:759:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_regression.cpp:783:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_regression.cpp:872:2: warning: extra ';' [-Wpedantic]
};
^
In file included from gumbel_params/sls_alp_regression.hpp:51:0,
from gumbel_params/sls_alp_regression.cpp:38:
gumbel_params/sls_alp_data.hpp:74:21: warning: 'ncbi::blast::Sls::small_long' defined but not used [-Wunused-variable]
static Int4 small_long=(Int4)((double)kMin_I4/2.0);
^
gumbel_params/sls_alp_data.hpp:75:23: warning: 'ncbi::blast::Sls::dbl_max_log' defined but not used [-Wunused-variable]
static double dbl_max_log=log(DBL_MAX);
^
In file included from gumbel_params/sls_alp_sim.hpp:51:0,
from gumbel_params/sls_alp_sim.cpp:39:
gumbel_params/sls_alp_data.hpp:469:18: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:487:18: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:531:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:542:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:552:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:559:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:565:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:571:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:577:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:667:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:728:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:741:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:805:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:866:10: warning: extra ';' [-Wpedantic]
};
^
In file included from gumbel_params/sls_alp_sim.hpp:52:0,
from gumbel_params/sls_alp_sim.cpp:39:
gumbel_params/sls_alp.hpp:152:26: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.hpp:191:26: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp.hpp:208:26: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_sim.cpp: In constructor 'ncbi::blast::Sls::alp_sim::alp_sim(ncbi::blast::Sls::alp_data*)':
gumbel_params/sls_alp_sim.cpp:477:24: warning: unused variable 'memory_after2' [-Wunused-variable]
double memory_after2=d_alp_data->d_memory_size_in_MB;
^
gumbel_params/sls_alp_sim.cpp:724:24: warning: unused variable 'memory_after3' [-Wunused-variable]
double memory_after3=d_alp_data->d_memory_size_in_MB;
^
gumbel_params/sls_alp_sim.cpp: At global scope:
gumbel_params/sls_alp_sim.cpp:785:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_sim.cpp:795:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_sim.cpp:872:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_sim.cpp:891:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_sim.cpp:894:6: warning: unused parameter 'time_' [-Wunused-parameter]
void alp_sim::output_main_parameters2m_new(
^
gumbel_params/sls_alp_sim.cpp:894:6: warning: unused parameter 'M_min_' [-Wunused-parameter]
gumbel_params/sls_alp_sim.cpp:1014:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_sim.cpp:1034:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_sim.cpp:1047:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_sim.cpp:1068:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_sim.cpp:1072:6: warning: unused parameter 'nalp' [-Wunused-parameter]
void alp_sim::calculate_main_parameters2m(
^
gumbel_params/sls_alp_sim.cpp:1072:6: warning: unused parameter 'C2' [-Wunused-parameter]
gumbel_params/sls_alp_sim.cpp:1072:6: warning: unused parameter 'C2_error' [-Wunused-parameter]
gumbel_params/sls_alp_sim.cpp:1072:6: warning: unused parameter 'C4' [-Wunused-parameter]
gumbel_params/sls_alp_sim.cpp:1072:6: warning: unused parameter 'C4_error' [-Wunused-parameter]
gumbel_params/sls_alp_sim.cpp:1824:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_sim.cpp:1840:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_sim.cpp:1863:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_sim.cpp:1966:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_sim.cpp:2027:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_sim.cpp:2306:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_sim.cpp:2427:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_sim.cpp:2439:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_sim.cpp:2441:6: warning: unused parameter 'alp_distr_errors' [-Wunused-parameter]
void alp_sim::calculate_FSC(
^
gumbel_params/sls_alp_sim.cpp:2441:6: warning: unused parameter 'lambda_error_' [-Wunused-parameter]
gumbel_params/sls_alp_sim.cpp:3033:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_sim.cpp:3074:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_sim.cpp:3078:6: warning: unused parameter 'ind1_' [-Wunused-parameter]
void alp_sim::calculate_C(
^
gumbel_params/sls_alp_sim.cpp:3078:6: warning: unused parameter 'ind2_' [-Wunused-parameter]
gumbel_params/sls_alp_sim.cpp:3400:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_sim.cpp:3557:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_sim.cpp:3670:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_sim.cpp:3831:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_sim.cpp:3835:6: warning: unused parameter 'ind1_' [-Wunused-parameter]
void alp_sim::calculate_lambda(
^
gumbel_params/sls_alp_sim.cpp:3835:6: warning: unused parameter 'ind2_' [-Wunused-parameter]
gumbel_params/sls_alp_sim.cpp:3963:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_sim.cpp:3989:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_sim.cpp:4172:2: warning: extra ';' [-Wpedantic]
};
^
In file included from gumbel_params/sls_alp_sim.hpp:51:0,
from gumbel_params/sls_alp_sim.cpp:39:
gumbel_params/sls_alp_data.hpp:74:21: warning: 'ncbi::blast::Sls::small_long' defined but not used [-Wunused-variable]
static Int4 small_long=(Int4)((double)kMin_I4/2.0);
^
In file included from gumbel_params/sls_pvalues.cpp:41:0:
gumbel_params/sls_alp_data.hpp:469:18: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:487:18: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:531:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:542:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:552:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:559:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:565:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:571:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:577:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:667:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:728:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:741:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:805:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_alp_data.hpp:866:10: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_pvalues.cpp:52:8: warning: unused parameter 'v1_' [-Wunused-parameter]
double pvalues::error_of_the_sum(//v1_+v2_
^
gumbel_params/sls_pvalues.cpp:52:8: warning: unused parameter 'v2_' [-Wunused-parameter]
gumbel_params/sls_pvalues.cpp:64:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_pvalues.cpp:86:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_pvalues.cpp:103:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_pvalues.cpp:151:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_pvalues.cpp:167:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_pvalues.cpp:228:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_pvalues.cpp:248:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_pvalues.cpp:259:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_pvalues.cpp:571:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_pvalues.cpp:575:6: warning: unused parameter 'P_error_' [-Wunused-parameter]
void pvalues::get_appr_tail_prob_with_cov_without_errors(
^
gumbel_params/sls_pvalues.cpp:825:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_pvalues.cpp:827:6: warning: unused parameter 'area_' [-Wunused-parameter]
void pvalues::get_P_error_using_splitting_method(
^
gumbel_params/sls_pvalues.cpp:961:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_pvalues.cpp:1006:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_pvalues.cpp:1012:2: warning: extra ';' [-Wpedantic]
};
^
gumbel_params/sls_pvalues.cpp:1148:2: warning: extra ';' [-Wpedantic]
};
^
In file included from gumbel_params/sls_pvalues.cpp:41:0:
gumbel_params/sls_alp_data.hpp:74:21: warning: 'ncbi::blast::Sls::small_long' defined but not used [-Wunused-variable]
static Int4 small_long=(Int4)((double)kMin_I4/2.0);
^
gumbel_params/sls_alp_data.hpp:75:23: warning: 'ncbi::blast::Sls::dbl_max_log' defined but not used [-Wunused-variable]
static double dbl_max_log=log(DBL_MAX);
^
g++ -I. -g -O2 -Wall -Wextra -Wcast-qual -Wswitch-enum -Wundef -Wcast-align -Wno-long-long -ansi -pedantic -o last-split split/*.cc Alphabet.cc MultiSequence.cc fileMap.cc
split/last-split.cc: In function 'void doOneQuery(std::vector<cbrc::UnsplitAlignment>::const_iterator, std::vector<cbrc::UnsplitAlignment>::const_iterator, cbrc::SplitAligner&, const LastSplitOptions&)':
split/last-split.cc:103:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
for (unsigned i = 0; i < end - beg; ++i) {
^
make[3]: Leaving directory `/«PKGBUILDDIR»/src'
make[2]: Leaving directory `/«PKGBUILDDIR»'
make[1]: Leaving directory `/«PKGBUILDDIR»'
dh_auto_test -a
fakeroot debian/rules binary-arch
dh binary-arch
dh_testroot -a
dh_prep -a
debian/rules override_dh_auto_install
make[1]: Entering directory `/«PKGBUILDDIR»'
make install prefix=/«PKGBUILDDIR»/debian/last-align/usr
make[2]: Entering directory `/«PKGBUILDDIR»'
make[3]: Entering directory `/«PKGBUILDDIR»/src'
if test -e ../.hg ; \
then echo \"`hg id -n`\" | cmp -s version.hh - || echo \"`hg id -n`\" > version.hh ; \
elif test -e ../.hg_archival.txt ; \
then echo \"`grep latesttagdistance ../.hg_archival.txt | cut -d' ' -f2`\" | cmp -s version.hh - || echo \"`grep latesttagdistance ../.hg_archival.txt | cut -d' ' -f2`\" > version.hh ; \
else test -e version.hh || echo \"UNKNOWN\" > version.hh ; \
fi
make[3]: Leaving directory `/«PKGBUILDDIR»/src'
mkdir -p /«PKGBUILDDIR»/debian/last-align/usr/bin
cp src/last?? src/last-split scripts/*.?? /«PKGBUILDDIR»/debian/last-align/usr/bin
make[2]: Leaving directory `/«PKGBUILDDIR»'
prename 's/.py$//' debian/last-align/usr/bin/*py
prename 's/.sh$//' debian/last-align/usr/bin/*sh
mkdir -p /«PKGBUILDDIR»/debian/last-align/usr/share/man/man1/
help2man --no-info --name='make a dotplot, a.k.a. Oxford Grid, of alignments in LAST tabular format' \
--version-string="359" \
/«PKGBUILDDIR»/scripts/last-dotplot.py > /«PKGBUILDDIR»/debian/last-align/usr/share/man/man1//last-dotplot.1
help2man --no-info --name="genome-scale comparison of biological sequences" \
--version-string="359" --help-option="-h" \
/«PKGBUILDDIR»/src/lastal > /«PKGBUILDDIR»/debian/last-align/usr/share/man/man1//lastal.1
help2man --no-info --name="genome-scale comparison of biological sequences" \
--version-string="359" --help-option="-h" \
/«PKGBUILDDIR»/src/lastdb > /«PKGBUILDDIR»/debian/last-align/usr/share/man/man1//lastdb.1
help2man --no-info --name="Calculate expected numbers of alignments for random sequences." \
--version-string="359" --help-option="-h" \
/«PKGBUILDDIR»/src/lastex > /«PKGBUILDDIR»/debian/last-align/usr/share/man/man1//lastex.1
help2man --no-info --version-string="359" \
--name="Sort MAF-format alignments by sequence name" \
/«PKGBUILDDIR»/scripts/maf-sort.sh > /«PKGBUILDDIR»/debian/last-align/usr/share/man/man1//maf-sort.1
help2man --no-info --version-string="359" \
--name="changes the order of the sequences in MAF-format alignments" \
/«PKGBUILDDIR»/scripts/maf-swap.py > /«PKGBUILDDIR»/debian/last-align/usr/share/man/man1//maf-swap.1
help2man --no-info --version-string="359" \
--name="Add extra column with mapping probabilities" \
/«PKGBUILDDIR»/scripts/last-map-probs.py > /«PKGBUILDDIR»/debian/last-align/usr/share/man/man1//last-map-probs.1
help2man --no-info --version-string="359" \
--name="Read files of lastal output, merge corresponding batches, and write them." \
/«PKGBUILDDIR»/scripts/last-merge-batches.py > /«PKGBUILDDIR»/debian/last-align/usr/share/man/man1//last-merge-batches.1
help2man --no-info --version-string="359" \
--name="Clean up MAF-format alignments" \
/«PKGBUILDDIR»/scripts/last-reduce-alignments.sh > /«PKGBUILDDIR»/debian/last-align/usr/share/man/man1//last-reduce-alignments.1
help2man --no-info --version-string="359" \
--name='Remove MAF-format alignments which are "dominated" by others' \
/«PKGBUILDDIR»/scripts/last-remove-dominated.py > /«PKGBUILDDIR»/debian/last-align/usr/share/man/man1//last-remove-dominated.1
help2man --no-info --version-string="359" \
--name='Estimates "split" or "spliced" alignments.' \
/«PKGBUILDDIR»/src/last-split > /«PKGBUILDDIR»/debian/last-align/usr/share/man/man1//last-split.1
help2man --no-info --version-string="359" \
--name="Join two or more sets of MAF-format multiple alignments" \
/«PKGBUILDDIR»/scripts/maf-join.py > /«PKGBUILDDIR»/debian/last-align/usr/share/man/man1//maf-join.1
help2man --no-info --version-string="359" \
--name="Convert MAF-format alignments to tabular format" \
/«PKGBUILDDIR»/scripts/maf-convert.py > /«PKGBUILDDIR»/debian/last-align/usr/share/man/man1//maf-convert.1
help2man --no-info --version-string="359" \
--name="Cull alignments whose top\-sequence coordinates are contained in LIMIT or more" \
/«PKGBUILDDIR»/scripts/maf-cull.py > /«PKGBUILDDIR»/debian/last-align/usr/share/man/man1//maf-cull.1
help2man --no-info --version-string="359" \
--name="Read alignments of paired DNA reads to a genome" \
/«PKGBUILDDIR»/scripts/last-pair-probs.py > /«PKGBUILDDIR»/debian/last-align/usr/share/man/man1//last-pair-probs.1
make[1]: Leaving directory `/«PKGBUILDDIR»'
dh_installdocs -a
debian/rules override_dh_installchangelogs
make[1]: Entering directory `/«PKGBUILDDIR»'
dh_installchangelogs ChangeLog.txt
make[1]: Leaving directory `/«PKGBUILDDIR»'
dh_installexamples -a
dh_installman -a
dh_perl -a
dh_link -a
dh_compress -a
dh_fixperms -a
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
dh_installdeb -a
dh_gencontrol -a
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
dh_md5sums -a
debian/rules override_dh_builddeb
make[1]: Entering directory `/«PKGBUILDDIR»'
dh_builddeb -- -Z xz
dpkg-deb: building package `last-align' in `../last-align_359-1_armhf.deb'.
make[1]: Leaving directory `/«PKGBUILDDIR»'
dpkg-genchanges -B -mRaspbian nitrogen6x test autobuilder <root@raspbian.org> >../last-align_359-1_armhf.changes
dpkg-genchanges: arch-specific upload - not including arch-independent packages
dpkg-genchanges: binary-only upload - not including any source code
dpkg-source --after-build last-align-359
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
Build finished at 20131016-0939
Finished
────────
I: Built successfully
┌──────────────────────────────────────────────────────────────────────────────┐
│ Changes │
└──────────────────────────────────────────────────────────────────────────────┘
last-align_359-1_armhf.changes:
───────────────────────────────
Format: 1.8
Date: Sun, 06 Oct 2013 12:16:12 +0900
Source: last-align
Binary: last-align
Architecture: armhf
Version: 359-1
Distribution: jessie-staging
Urgency: low
Maintainer: Raspbian nitrogen6x test autobuilder <root@raspbian.org>
Changed-By: Charles Plessy <plessy@debian.org>
Description:
last-align - genome-scale comparison of biological sequences
Changes:
last-align (359-1) unstable; urgency=low
.
* New upstream release.
* debian/control:
- Removed Pre-Depends on dpkg as Ubuntu LTS is released.
- Removed obsolete DM-Upload-Allowed field.
- Use canonical VCS URLs.
- Normalised with config-model-edit.
- Removed version constraint on help2man, satisfied in oldstable.
- Mark conformance with Policy version 3.9.4.
* debian/watch: updated.
* debian/rules:
- Restore xz compression of the binary packages.
- Produce a manual page for ‘last-split’ with help2man.
Checksums-Sha1:
ffbfbd0eb7b8c316c8ef5c44313fef069d91aa78 400666 last-align_359-1_armhf.deb
Checksums-Sha256:
2fa8bf37c54ff700cb2c813a0eafa9cb8bb5d149a82cfe891a527b41f1fdf1fd 400666 last-align_359-1_armhf.deb
Files:
737e4766f1bc8d39855a146fab6a1e00 400666 science optional last-align_359-1_armhf.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
last-align_359-1_armhf.deb
──────────────────────────
new debian package, version 2.0.
size 400666 bytes: control archive=3077 bytes.
1159 bytes, 24 lines control
5656 bytes, 79 lines md5sums
Package: last-align
Version: 359-1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 1076
Depends: libc6 (>= 2.4), libgcc1 (>= 1:4.4.0), libstdc++6 (>= 4.4.0)
Recommends: python, python-imaging
Section: science
Priority: optional
Homepage: http://last.cbrc.jp/
Description: genome-scale comparison of biological sequences
LAST is software for comparing and aligning sequences, typically DNA or
protein sequences. LAST is similar to BLAST, but it copes better with very
large amounts of sequence data. Here are two things LAST is good at:
.
* Comparing large (e.g. mammalian) genomes.
* Mapping lots of sequence tags onto a genome.
.
The main technical innovation is that LAST finds initial matches based on
their multiplicity, instead of using a fixed size (e.g. BLAST uses 10-mers).
This allows one to map tags to genomes without repeat-masking, without becoming
overwhelmed by repetitive hits. To find these variable-sized matches, it uses
a suffix array (inspired by Vmatch). To achieve high sensitivity, it uses a
discontiguous suffix array, analogous to spaced seeds.
drwxr-xr-x root/root 0 2013-10-16 09:39 ./
drwxr-xr-x root/root 0 2013-10-16 09:39 ./usr/
drwxr-xr-x root/root 0 2013-10-16 09:39 ./usr/bin/
-rwxr-xr-x root/root 10911 2013-10-16 09:39 ./usr/bin/last-dotplot
-rwxr-xr-x root/root 4512 2013-10-16 09:39 ./usr/bin/last-map-probs
-rwxr-xr-x root/root 1117 2013-10-16 09:39 ./usr/bin/last-merge-batches
-rwxr-xr-x root/root 15330 2013-10-16 09:39 ./usr/bin/last-pair-probs
-rwxr-xr-x root/root 6035 2013-10-16 09:39 ./usr/bin/last-remove-dominated
-rwxr-xr-x root/root 22381 2013-10-16 09:39 ./usr/bin/maf-convert
-rwxr-xr-x root/root 4266 2013-10-16 09:39 ./usr/bin/maf-cull
-rwxr-xr-x root/root 8992 2013-10-16 09:39 ./usr/bin/maf-join
-rwxr-xr-x root/root 4762 2013-10-16 09:39 ./usr/bin/maf-swap
-rwxr-xr-x root/root 1187 2013-10-16 09:39 ./usr/bin/last-reduce-alignments
-rwxr-xr-x root/root 2027 2013-10-16 09:39 ./usr/bin/maf-sort
-rwxr-xr-x root/root 239836 2013-10-16 09:39 ./usr/bin/lastal
-rwxr-xr-x root/root 96356 2013-10-16 09:39 ./usr/bin/lastdb
-rwxr-xr-x root/root 247832 2013-10-16 09:39 ./usr/bin/lastex
-rwxr-xr-x root/root 158904 2013-10-16 09:39 ./usr/bin/last-split
drwxr-xr-x root/root 0 2013-10-16 09:39 ./usr/share/
drwxr-xr-x root/root 0 2013-10-16 09:39 ./usr/share/man/
drwxr-xr-x root/root 0 2013-10-16 09:39 ./usr/share/man/man1/
-rw-r--r-- root/root 528 2013-10-16 09:39 ./usr/share/man/man1/last-dotplot.1.gz
-rw-r--r-- root/root 1278 2013-10-16 09:39 ./usr/share/man/man1/lastal.1.gz
-rw-r--r-- root/root 680 2013-10-16 09:39 ./usr/share/man/man1/lastdb.1.gz
-rw-r--r-- root/root 608 2013-10-16 09:39 ./usr/share/man/man1/lastex.1.gz
-rw-r--r-- root/root 307 2013-10-16 09:39 ./usr/share/man/man1/maf-sort.1.gz
-rw-r--r-- root/root 333 2013-10-16 09:39 ./usr/share/man/man1/maf-swap.1.gz
-rw-r--r-- root/root 474 2013-10-16 09:39 ./usr/share/man/man1/last-map-probs.1.gz
-rw-r--r-- root/root 296 2013-10-16 09:39 ./usr/share/man/man1/last-merge-batches.1.gz
-rw-r--r-- root/root 296 2013-10-16 09:39 ./usr/share/man/man1/last-reduce-alignments.1.gz
-rw-r--r-- root/root 291 2013-10-16 09:39 ./usr/share/man/man1/last-remove-dominated.1.gz
-rw-r--r-- root/root 639 2013-10-16 09:39 ./usr/share/man/man1/last-split.1.gz
-rw-r--r-- root/root 276 2013-10-16 09:39 ./usr/share/man/man1/maf-join.1.gz
-rw-r--r-- root/root 529 2013-10-16 09:39 ./usr/share/man/man1/maf-convert.1.gz
-rw-r--r-- root/root 361 2013-10-16 09:39 ./usr/share/man/man1/maf-cull.1.gz
-rw-r--r-- root/root 639 2013-10-16 09:39 ./usr/share/man/man1/last-pair-probs.1.gz
drwxr-xr-x root/root 0 2013-10-16 09:39 ./usr/share/doc/
drwxr-xr-x root/root 0 2013-10-16 09:39 ./usr/share/doc/last-align/
-rw-r--r-- root/root 11875 2013-10-04 05:53 ./usr/share/doc/last-align/bisulfite.html
-rw-r--r-- root/root 11853 2013-10-04 05:53 ./usr/share/doc/last-align/FAQ.html
-rw-r--r-- root/root 2918 2013-10-04 05:53 ./usr/share/doc/last-align/FAQ.txt
-rw-r--r-- root/root 80 2013-10-04 05:53 ./usr/share/doc/last-align/last-doc.css
-rw-r--r-- root/root 11219 2013-10-04 05:53 ./usr/share/doc/last-align/last-map-probs.html
-rw-r--r-- root/root 3182 2013-10-04 05:53 ./usr/share/doc/last-align/last-map-probs.txt
-rw-r--r-- root/root 15072 2013-10-04 05:53 ./usr/share/doc/last-align/last-pair-probs.html
-rw-r--r-- root/root 19005 2013-10-04 05:53 ./usr/share/doc/last-align/last-split.html
-rw-r--r-- root/root 21678 2013-10-04 05:53 ./usr/share/doc/last-align/last-tutorial.html
-rw-r--r-- root/root 11596 2013-10-04 05:53 ./usr/share/doc/last-align/last.html
-rw-r--r-- root/root 3969 2013-10-04 05:53 ./usr/share/doc/last-align/last.txt
-rw-r--r-- root/root 11392 2013-10-04 05:53 ./usr/share/doc/last-align/maf-convert.html
-rw-r--r-- root/root 3137 2013-10-04 05:53 ./usr/share/doc/last-align/maf-convert.txt
-rw-r--r-- root/root 8293 2013-10-04 05:53 ./usr/share/doc/last-align/maf-cull.html
-rw-r--r-- root/root 1024 2013-10-04 05:53 ./usr/share/doc/last-align/maf-cull.txt
-rw-r--r-- root/root 624 2013-10-04 05:53 ./usr/share/doc/last-align/Makefile
-rw-r--r-- root/root 2736 2013-10-06 03:07 ./usr/share/doc/last-align/copyright
drwxr-xr-x root/root 0 2013-10-16 09:39 ./usr/share/doc/last-align/examples/
-rw-r--r-- root/root 224 2013-10-04 05:53 ./usr/share/doc/last-align/examples/bisulfite_f.mat
-rw-r--r-- root/root 200 2013-10-04 05:53 ./usr/share/doc/last-align/examples/bisulfite_f.seed
-rw-r--r-- root/root 224 2013-10-04 05:53 ./usr/share/doc/last-align/examples/bisulfite_r.mat
-rw-r--r-- root/root 200 2013-10-04 05:53 ./usr/share/doc/last-align/examples/bisulfite_r.seed
-rw-r--r-- root/root 749 2013-10-04 05:53 ./usr/share/doc/last-align/examples/hoxd70.mat
-rwxr-xr-x root/root 1810 2013-10-04 05:53 ./usr/share/doc/last-align/examples/lastal-bisulfite-paired.sh
-rwxr-xr-x root/root 1256 2013-10-04 05:53 ./usr/share/doc/last-align/examples/multiMito.sh
-rw-r--r-- root/root 712 2013-10-04 05:53 ./usr/share/doc/last-align/examples/titv212.mat
-rw-r--r-- root/root 539 2013-10-04 05:53 ./usr/share/doc/last-align/examples/vertebrateMito.gc
-rw-r--r-- root/root 919 2013-10-04 05:53 ./usr/share/doc/last-align/examples/yass.seed
-rw-r--r-- root/root 5504 2013-10-04 05:53 ./usr/share/doc/last-align/examples/chickenMito.fa.gz
-rw-r--r-- root/root 5675 2013-10-04 05:53 ./usr/share/doc/last-align/examples/fuguMito.fa.gz
-rw-r--r-- root/root 5562 2013-10-04 05:53 ./usr/share/doc/last-align/examples/humanMito.fa.gz
-rw-r--r-- root/root 5424 2013-10-04 05:53 ./usr/share/doc/last-align/examples/mouseMito.fa.gz
-rw-r--r-- root/root 40898 2013-10-04 05:53 ./usr/share/doc/last-align/examples/multiMito.maf.gz
-rw-r--r-- root/root 9148 2013-10-04 05:53 ./usr/share/doc/last-align/examples/myalns.maf.gz
-rw-r--r-- root/root 1789 2013-10-04 05:53 ./usr/share/doc/last-align/bisulfite.txt.gz
-rw-r--r-- root/root 2431 2013-10-04 05:53 ./usr/share/doc/last-align/last-pair-probs.txt.gz
-rw-r--r-- root/root 1690 2013-10-04 05:53 ./usr/share/doc/last-align/last-scripts.txt.gz
-rw-r--r-- root/root 3035 2013-10-04 05:53 ./usr/share/doc/last-align/last-split.txt.gz
-rw-r--r-- root/root 4105 2013-10-04 05:53 ./usr/share/doc/last-align/last-tutorial.txt.gz
-rw-r--r-- root/root 5588 2013-10-04 05:53 ./usr/share/doc/last-align/lastal.txt.gz
-rw-r--r-- root/root 2331 2013-10-04 05:53 ./usr/share/doc/last-align/lastdb.txt.gz
-rw-r--r-- root/root 2628 2013-10-04 05:53 ./usr/share/doc/last-align/lastex.txt.gz
-rw-r--r-- root/root 2347 2013-10-04 05:53 ./usr/share/doc/last-align/tag-seeds.txt.gz
-rw-r--r-- root/root 3440 2013-10-06 03:18 ./usr/share/doc/last-align/changelog.Debian.gz
-rw-r--r-- root/root 201 2010-05-23 14:43 ./usr/share/doc/last-align/NEWS.Debian.gz
-rw-r--r-- root/root 17369 2013-10-04 05:53 ./usr/share/doc/last-align/changelog.gz
drwxr-xr-x root/root 0 2013-10-16 09:39 ./usr/share/doc-base/
-rw-r--r-- root/root 293 2009-04-08 11:19 ./usr/share/doc-base/last-align-scripts
-rw-r--r-- root/root 294 2008-12-28 12:36 ./usr/share/doc-base/last-align-seeds
-rw-r--r-- root/root 281 2011-03-11 22:51 ./usr/share/doc-base/last-align-manual
-rw-r--r-- root/root 486 2010-06-24 10:06 ./usr/share/doc-base/last-align-lastex
┌──────────────────────────────────────────────────────────────────────────────┐
│ Post Build │
└──────────────────────────────────────────────────────────────────────────────┘
┌──────────────────────────────────────────────────────────────────────────────┐
│ Cleanup │
└──────────────────────────────────────────────────────────────────────────────┘
Purging /«BUILDDIR»
Not cleaning session: cloned chroot in use
┌──────────────────────────────────────────────────────────────────────────────┐
│ Summary │
└──────────────────────────────────────────────────────────────────────────────┘
Build Architecture: armhf
Build-Space: 12468
Build-Time: 481
Distribution: jessie-staging
Host Architecture: armhf
Install-Time: 186
Job: last-align_359-1
Machine Architecture: armhf
Package: last-align
Package-Time: 808
Source-Version: 359-1
Space: 12468
Status: successful
Version: 359-1
────────────────────────────────────────────────────────────────────────────────
Finished at 20131016-0939
Build needed 00:13:28, 12468k disc space