[med-svn] [SCM] Processing of sequence alignments in SAM and BAM formats. branch, meta, updated. meta/0.1.13-1-1-gee1241d
Charles Plessy
plessy at debian.org
Tue Mar 29 04:42:34 UTC 2011
The following commit has been merged in the meta branch:
commit ee1241d3a2e25aa476e41986141db27e9c15b09f
Author: Charles Plessy <plessy at debian.org>
Date: Tue Mar 29 13:39:41 2011 +0900
# Uploaded samtools 0.1.14-1.
diff --git a/amd64.changes b/amd64.changes
index cf5574c..c410fc6 100644
--- a/amd64.changes
+++ b/amd64.changes
@@ -2,11 +2,11 @@
Hash: SHA256
Format: 1.8
-Date: Wed, 02 Mar 2011 13:54:34 +0900
+Date: Tue, 29 Mar 2011 13:13:54 +0900
Source: samtools
Binary: samtools libbam-dev
Architecture: source amd64
-Version: 0.1.13-1
+Version: 0.1.14-1
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
@@ -14,50 +14,43 @@ Changed-By: Charles Plessy <plessy at debian.org>
Description:
libbam-dev - manipulates nucleotide sequence alignments in BAM or SAM format
samtools - processing sequence alignments in SAM and BAM formats
-Closes: 606004 616025
Changes:
- samtools (0.1.13-1) unstable; urgency=low
+ samtools (0.1.14-1) unstable; urgency=low
.
- * New upstream release:
- - backward incompatible with VCF/BCF generated by samtools older
- than r921 inclusive (0.1.12a is r862);
- - buildable with with ld --as-needed (Closes: #606004);
- - the helper tool bcf-fix.pl was removed.
- * Install the manual page of bcftools (debian/rules,
- debian/samtools.manpages). Closes: #616025.
+ * New upstream release.
Checksums-Sha1:
- 14cb9ff4205c0908b2593fd41212dfbce70204a5 1939 samtools_0.1.13-1.dsc
- 8ab22994c9e899648a8731cdfd6b1e4b1ed8773e 365042 samtools_0.1.13.orig.tar.bz2
- 90988bd1dbae817e970401941ec0f59697b978b4 6523 samtools_0.1.13-1.debian.tar.gz
- b94d8b20ee82a855439225995cd21d3d9ba6878b 580550 samtools_0.1.13-1_amd64.deb
- d990aca5b5f63a23cf7720f2b977849b4cde3856 161408 libbam-dev_0.1.13-1_amd64.deb
+ 62df6b20afe456dd9367aa2214b1691cde28d020 1939 samtools_0.1.14-1.dsc
+ 03d537ae69afa1607ba3f88a45aaff27d3ba4bd1 370287 samtools_0.1.14.orig.tar.bz2
+ 3363682d767cc5aad089f40c49e3c70484da5be2 6869 samtools_0.1.14-1.debian.tar.gz
+ cd07ae55e6c70a148ec68e60de7d32ae58adb733 593618 samtools_0.1.14-1_amd64.deb
+ 1ad8d4c64330f90a6d3b60cd2a06dce44fa1ef41 165312 libbam-dev_0.1.14-1_amd64.deb
Checksums-Sha256:
- 352ef2f864b9e4995b8e2ecce7db9e10f5997f1de441169cc3ae2af8509970f8 1939 samtools_0.1.13-1.dsc
- e0d182c31abb4f784c2abc1ad6dce19c7e4adfab7afa968c63b05d964104d69f 365042 samtools_0.1.13.orig.tar.bz2
- b3a6f67b01700754f1bcc0fa83d25521416ef5504d0b5edf93da1db8642ea85a 6523 samtools_0.1.13-1.debian.tar.gz
- 061ca89ee9ad31ad5bdf3d203aa7f449322f6dd32c81c9a8ed91d637d97efa74 580550 samtools_0.1.13-1_amd64.deb
- 229e885b66be5bc3fa85f5d55688da08fca77915cceea18034786bbb50fb643e 161408 libbam-dev_0.1.13-1_amd64.deb
+ bb4e109187e11c57e13237a8d491d108499038d1d9d4dab79e38a86c95b523d2 1939 samtools_0.1.14-1.dsc
+ 8bbe8fe4240fe98868891a27093e86ffb3149b716d9659db28c84df0c91d5975 370287 samtools_0.1.14.orig.tar.bz2
+ 048f6988bbc21acd19f54e2f42ed105834981220f35a32397c6c202c53443265 6869 samtools_0.1.14-1.debian.tar.gz
+ d7aa1cc47b6eeb4bac688ebb8ebd11108feda8f0d37471850a6d20609020d2c2 593618 samtools_0.1.14-1_amd64.deb
+ 9722646d951eb7f65799b5838eeffadb170ed01e6348047e7ec97c403f68d09a 165312 libbam-dev_0.1.14-1_amd64.deb
Files:
- 15ab3b741fea8cb262d687a252e84c3c 1939 science optional samtools_0.1.13-1.dsc
- 2e66b94639f90d10cc935bb145ef71f3 365042 science optional samtools_0.1.13.orig.tar.bz2
- e5f9a79e9b675ab785f139f25b2a289e 6523 science optional samtools_0.1.13-1.debian.tar.gz
- 08d99759c6f9ee85bc8122ef80a262d0 580550 science optional samtools_0.1.13-1_amd64.deb
- 438b272f8b7aa775457a619359aa4027 161408 libdevel optional libbam-dev_0.1.13-1_amd64.deb
+ e17f770090ed9c540e9cf0e5a0100704 1939 science optional samtools_0.1.14-1.dsc
+ aa2bed7b3d96e64cbeb3726f1fb6d880 370287 science optional samtools_0.1.14.orig.tar.bz2
+ b3c31d72685018d26682d460667a77a8 6869 science optional samtools_0.1.14-1.debian.tar.gz
+ d4018bd1b0f86e2caa76be65d162629c 593618 science optional samtools_0.1.14-1_amd64.deb
+ 0c35b980860354f363a1011ea11bafe8 165312 libdevel optional libbam-dev_0.1.14-1_amd64.deb
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diff --git a/amd64.log b/amd64.log
index d488b9e..75047ee 100644
--- a/amd64.log
+++ b/amd64.log
@@ -1,17 +1,26 @@
-sbuild (Debian sbuild) 0.60.8 (12 Dec 2010) on anx178.gsc.riken.jp
+sbuild (Debian sbuild) 0.62.1 (20 Mar 2011) on anx191
╔══════════════════════════════════════════════════════════════════════════════╗
-║ samtools 0.1.13-1 (amd64) 02 Mar 2011 14:03 ║
+║ samtools 0.1.14-1 (amd64) 29 Mar 2011 13:22 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: samtools
-Version: 0.1.13-1
-Source Version: 0.1.13-1
+Version: 0.1.14-1
+Source Version: 0.1.14-1
+Distribution: unstable
Architecture: amd64
-Hit http://ftp.riken.jp unstable InRelease
-Hit http://ftp.riken.jp unstable/main Sources/DiffIndex
-Hit http://ftp.riken.jp unstable/main amd64 Packages/DiffIndex
-Hit http://ftp.riken.jp unstable/main TranslationIndex
+
+I: NOTICE: Log filtering will replace '/build/samtools-1cRb9h' with 'BUILDDIR'
+I: NOTICE: Log filtering will replace '/var/lib/schroot/mount/sid-amd64-sbuild-3db42e15-0b96-4c9c-9601-7c786fbde54a' with 'CHROOT'
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Update chroot │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Hit http://ftp.jp.debian.org sid InRelease
+Get:1 http://ftp.jp.debian.org sid/main amd64 Packages/DiffIndex [2038 B]
+Hit http://ftp.jp.debian.org sid/main TranslationIndex
+Fetched 2038 B in 0s (3880 B/s)
Reading package lists...
Reading package lists...
Building dependency tree...
@@ -26,106 +35,75 @@ Reading state information...
Local sources
─────────────
-samtools_0.1.13-1.dsc exists in .; copying to chroot
+samtools_0.1.14-1.dsc exists in .; copying to chroot
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-3C_rcI/apt_archive/sbuild-build-depends-core-dummy.deb'.
+OK
+Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install core build dependencies (internal resolver) │
+│ Install core build dependencies (apt-based resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
-Build-Depends: build-essential, fakeroot
-Checking for already installed dependencies...
-build-essential: already installed (11.5)
-fakeroot: already installed (1.14.5-2)
-Checking for dependency conflicts...
-Installing positive dependencies:
+Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
-0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
-Removing negative dependencies:
+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 0 not upgraded.
+Need to get 0 B/706 B of archives.
+After this operation, 0 B of additional disk space will be used.
+Selecting previously deselected package sbuild-build-depends-core-dummy.
+(Reading database ... 10292 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, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 8), cdbs, libncurses5-dev, zlib1g-dev
+Filtered Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 8), cdbs, libncurses5-dev, zlib1g-dev
+dpkg-deb: building package `sbuild-build-depends-samtools-dummy' in `BUILDDIR/resolver-CUSO_g/apt_archive/sbuild-build-depends-samtools-dummy.deb'.
+OK
Reading package lists...
-Building dependency tree...
-Reading state information...
-0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
-Checking correctness of dependencies...
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install samtools build dependencies (internal resolver) │
+│ Install samtools build dependencies (apt-based resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
-Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 8), cdbs, libncurses5-dev, zlib1g-dev
-Checking for already installed dependencies...
-base-files: already installed (6.1)
-base-passwd: already installed (3.5.22)
-bash: already installed (4.1-3)
-coreutils: already installed (8.5-1)
-dash: already installed (0.5.5.1-7.4)
-debianutils: already installed (3.4.4)
-diffutils: already installed (1:3.0-1)
-dpkg: already installed (1.15.8.10)
-e2fsprogs: already installed (1.41.12-2)
-findutils: already installed (4.4.2-1+b1)
-grep: already installed (2.6.3-3)
-gzip: already installed (1.3.12-9)
-hostname: already installed (3.05)
-ncurses-base: already installed (5.7+20100313-5)
-ncurses-bin: already installed (5.7+20100313-5)
-perl-base: already installed (5.10.1-17)
-sed: already installed (4.2.1-9)
-login: already installed (1:4.1.4.2+svn3283-3)
-sysvinit-utils: already installed (2.88dsf-13.1)
-sysvinit: already installed (2.88dsf-13.1)
-tar: already installed (1.25-3)
-bsdutils: already installed (1:2.17.2-9.1)
-mount: already installed (2.17.2-9.1)
-util-linux: already installed (2.17.2-9.1)
-libc6-dev: already installed (2.11.2-13)
-gcc: already installed (4:4.4.5-2 >= 4:4.4.3 is satisfied)
-g++: already installed (4:4.4.5-2 >= 4:4.4.3 is satisfied)
-make: already installed (3.81-8)
-dpkg-dev: already installed (1.15.8.10 >= 1.13.5 is satisfied)
-debhelper: missing
-Using default version 8.1.2
-cdbs: missing
-libncurses5-dev: missing
-zlib1g-dev: missing
-Checking for dependency conflicts...
-Installing positive dependencies: debhelper cdbs libncurses5-dev zlib1g-dev
+Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following extra packages will be installed:
- bsdmainutils file gettext gettext-base groff-base html2text intltool-debian
- libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1 libunistring0 libxml2
- man-db po-debconf
+ bsdmainutils cdbs debhelper file gettext gettext-base groff-base html2text
+ intltool-debian libcroco3 libglib2.0-0 libmagic1 libncurses5-dev libpcre3
+ libpipeline1 libunistring0 libxml2 man-db po-debconf zlib1g-dev
Suggested packages:
wamerican wordlist whois vacation devscripts doc-base dh-make gettext-doc
- groff less www-browser libmail-box-perl
+ groff ncurses-doc less www-browser libmail-box-perl
Recommended packages:
autotools-dev curl wget lynx-cur autopoint libglib2.0-data shared-mime-info
xml-core libmail-sendmail-perl
The following NEW packages will be installed:
bsdmainutils cdbs debhelper file gettext gettext-base groff-base html2text
intltool-debian libcroco3 libglib2.0-0 libmagic1 libncurses5-dev libpcre3
- libpipeline1 libunistring0 libxml2 man-db po-debconf zlib1g-dev
-0 upgraded, 20 newly installed, 0 to remove and 0 not upgraded.
-Need to get 3241 kB/12.2 MB of archives.
-After this operation, 36.6 MB of additional disk space will be used.
-Get:1 http://ftp.riken.jp/Linux/debian/debian/ unstable/main libglib2.0-0 amd64 2.28.1-1+b1 [1609 kB]
-Get:2 http://ftp.riken.jp/Linux/debian/debian/ unstable/main libncurses5-dev amd64 5.7+20100313-5 [1632 kB]
+ libpipeline1 libunistring0 libxml2 man-db po-debconf
+ sbuild-build-depends-samtools-dummy zlib1g-dev
debconf: delaying package configuration, since apt-utils is not installed
-Fetched 3241 kB in 0s (10.9 MB/s)
+0 upgraded, 21 newly installed, 0 to remove and 0 not upgraded.
+Need to get 0 B/11.1 MB of archives.
+After this operation, 31.3 MB of additional disk space will be used.
Selecting previously deselected package bsdmainutils.
-(Reading database ... 10174 files and directories currently installed.)
+(Reading database ... 10292 files and directories currently installed.)
Unpacking bsdmainutils (from .../bsdmainutils_8.2.2_amd64.deb) ...
Selecting previously deselected package groff-base.
-Unpacking groff-base (from .../groff-base_1.21-4_amd64.deb) ...
+Unpacking groff-base (from .../groff-base_1.21-5_amd64.deb) ...
Selecting previously deselected package libpipeline1.
-Unpacking libpipeline1 (from .../libpipeline1_1.1.0-1_amd64.deb) ...
+Unpacking libpipeline1 (from .../libpipeline1_1.2.0-1_amd64.deb) ...
Selecting previously deselected package man-db.
Unpacking man-db (from .../man-db_2.5.9-4_amd64.deb) ...
Selecting previously deselected package libmagic1.
@@ -141,7 +119,7 @@ Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_amd64.deb) ...
Selecting previously deselected package html2text.
Unpacking html2text (from .../html2text_1.3.2a-15_amd64.deb) ...
Selecting previously deselected package libglib2.0-0.
-Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.1-1+b1_amd64.deb) ...
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.2-1_amd64.deb) ...
Selecting previously deselected package libcroco3.
Unpacking libcroco3 (from .../libcroco3_0.6.2-1_amd64.deb) ...
Selecting previously deselected package libunistring0.
@@ -149,26 +127,25 @@ Unpacking libunistring0 (from .../libunistring0_0.9.3-3_amd64.deb) ...
Selecting previously deselected package gettext.
Unpacking gettext (from .../gettext_0.18.1.1-3_amd64.deb) ...
Selecting previously deselected package intltool-debian.
-Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ...
+Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_amd64.deb) ...
Selecting previously deselected package po-debconf.
-Unpacking po-debconf (from .../po-debconf_1.0.16+nmu1_all.deb) ...
+Unpacking po-debconf (from .../po-debconf_1.0.16+nmu1_amd64.deb) ...
Selecting previously deselected package debhelper.
-Unpacking debhelper (from .../debhelper_8.1.2_all.deb) ...
+Unpacking debhelper (from .../debhelper_8.1.2_amd64.deb) ...
Selecting previously deselected package cdbs.
-Unpacking cdbs (from .../archives/cdbs_0.4.92_all.deb) ...
+Unpacking cdbs (from .../archives/cdbs_0.4.92_amd64.deb) ...
Selecting previously deselected package libncurses5-dev.
-Unpacking libncurses5-dev (from .../libncurses5-dev_5.7+20100313-5_amd64.deb) ...
+Unpacking libncurses5-dev (from .../libncurses5-dev_5.8+20110307-1_amd64.deb) ...
Selecting previously deselected package zlib1g-dev.
Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_amd64.deb) ...
+Selecting previously deselected package sbuild-build-depends-samtools-dummy.
+Unpacking sbuild-build-depends-samtools-dummy (from .../sbuild-build-depends-samtools-dummy.deb) ...
Setting up bsdmainutils (8.2.2) ...
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 groff-base (1.21-4) ...
-Setting up libpipeline1 (1.1.0-1) ...
+Setting up groff-base (1.21-5) ...
+Setting up libpipeline1 (1.2.0-1) ...
Setting up man-db (2.5.9-4) ...
-debconf: unable to initialize frontend: Dialog
-debconf: (TERM is not set, so the dialog frontend is not usable.)
-debconf: falling back to frontend: Readline
Building database of manual pages ...
Setting up libmagic1 (5.04-5) ...
Setting up file (5.04-5) ...
@@ -176,7 +153,7 @@ Setting up gettext-base (0.18.1.1-3) ...
Setting up libpcre3 (8.12-3) ...
Setting up libxml2 (2.7.8.dfsg-2) ...
Setting up html2text (1.3.2a-15) ...
-Setting up libglib2.0-0 (2.28.1-1+b1) ...
+Setting up libglib2.0-0 (2.28.2-1) ...
No schema files found: doing nothing.
Setting up libcroco3 (0.6.2-1) ...
Setting up libunistring0 (0.9.3-3) ...
@@ -185,17 +162,17 @@ Setting up intltool-debian (0.35.0+20060710.1) ...
Setting up po-debconf (1.0.16+nmu1) ...
Setting up debhelper (8.1.2) ...
Setting up cdbs (0.4.92) ...
-Setting up libncurses5-dev (5.7+20100313-5) ...
+Setting up libncurses5-dev (5.8+20110307-1) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
-Removing negative dependencies:
-Reading package lists...
-Building dependency tree...
-Reading state information...
-0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
-Checking correctness of dependencies...
-Kernel: Linux 2.6.32-5-vserver-amd64 amd64 (x86_64)
-Toolchain package versions: binutils_2.21.0.20110216-2 dpkg-dev_1.15.8.10 g++-4.4_4.4.5-13 gcc-4.4_4.4.5-13 libc6-dev_2.11.2-13 libstdc++6_4.5.2-4 libstdc++6-4.4-dev_4.4.5-13 linux-libc-dev_2.6.37-2
-Package versions: apt_0.8.11.5 base-files_6.1 base-passwd_3.5.22 bash_4.1-3 binutils_2.21.0.20110216-2 bsdmainutils_8.2.2 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.92 coreutils_8.5-1 cpp_4:4.4.5-2 cpp-4.4_4.4.5-13 dash_0.5.5.1-7.4 debconf_1.5.38 debconf-i18n_1.5.38 debfoster_2.7-1.1 debhelper_8.1.2 debian-archive-keyring_2010.08.28 debianutils_3.4.4 diffutils_1:3.0-1 dpkg_1.15.8.10 dpkg-dev_1.15.8.10 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.14.5-2 file_5.04-5 findutils_4.4.2-1+b1 g++_4:4.4.5-2 g++-4.4_4.4.5-13 gcc_4:4.4.5-2 gcc-4.4_4.4.5-13 gcc-4.4-base_4.4.5-13 gcc-4.5-base_4.5.2-4 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.6.3-3 groff-base_1.21-4 gzip_1.3.12-9 hostname_3.05 html2text_1.3.2a-15 initscripts_2.88dsf-13.1 insserv_1.14.0-2 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-4 libattr1_1:2.4.44-2 libblkid1_2.17.2-9.1 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-13 libc-dev-bin_2.11.2-13 libc6_2.11.2-13 libc6-dev_2.11.2-13 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libdb4.7_4.7.25-12 libdb4.8_4.8.30-5 libdpkg-perl_1.15.8.10 libgc1c2_1:7.1-6 libgcc1_1:4.5.2-4 libgdbm3_1.8.3-9 libglib2.0-0_2.28.1-1+b1 libgmp3c2_2:4.3.2+dfsg-1 libgomp1_4.5.2-4 liblocale-gettext-perl_1.05-6 liblzma2_5.0.0-2 libmagic1_5.04-5 libmpfr4_3.0.0-7 libncurses5_5.7+20100313-5 libncurses5-dev_5.7+20100313-5 libpam-modules_1.1.2-2 libpam-runtime_1.1.2-2 libpam0g_1.1.2-2 libpcre3_8.12-3 libpipeline1_1.1.0-1 libreadline6_6.1-3 libselinux1_2.0.96-1 libsepol1_2.0.42-1 libslang2_2.2.2-4 libss2_1.41.12-2 libstdc++6_4.5.2-4 libstdc++6-4.4-dev_4.4.5-13 libtext-charwidth-perl_0.04-6 libtext-iconv-perl_1.7-2 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-3 libusb-0.1-4_2:0.1.12-17 libuuid1_2.17.2-9.1 libxml2_2.7.8.dfsg-2 linux-libc-dev_2.6.37-2 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-27 make_3.81-8 man-db_2.5.9-4 mawk_1.3.3-15 mount_2.17.2-9.1 ncurses-base_5.7+20100313-5 ncurses-bin_5.7+20100313-5 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-1 perl_5.10.1-17 perl-base_5.10.1-17 perl-modules_5.10.1-17 po-debconf_1.0.16+nmu1 readline-common_6.1-3 sed_4.2.1-9 sensible-utils_0.0.6 sysv-rc_2.88dsf-13.1 sysvinit_2.88dsf-13.1 sysvinit-utils_2.88dsf-13.1 tar_1.25-3 tzdata_2011b-2 util-linux_2.17.2-9.1 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+Setting up sbuild-build-depends-samtools-dummy (0.invalid.0) ...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Build environment │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Kernel: Linux 2.6.32-5-amd64 amd64 (x86_64)
+Toolchain package versions: binutils_2.21.0.20110327-1 dpkg-dev_1.15.8.10 g++-4.5_4.5.2-7 gcc-4.5_4.5.2-7 libc6-dev_2.11.2-13 libstdc++6_4.6.0-1 libstdc++6-4.5-dev_4.5.2-7 linux-libc-dev_2.6.38-1
+Package versions: apt_0.8.13 base-files_6.1 base-passwd_3.5.22 bash_4.1-3 binutils_2.21.0.20110327-1 bsdmainutils_8.2.2 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.92 coreutils_8.5-1 cpp_4:4.5.2-2 cpp-4.5_4.5.2-7 dash_0.5.5.1-7.4 debconf_1.5.38 debconf-i18n_1.5.38 debfoster_2.7-1.1 debhelper_8.1.2 debian-archive-keyring_2010.08.28 debianutils_3.4.4 diffutils_1:3.0-1 dpkg_1.15.8.10 dpkg-dev_1.15.8.10 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.14.5-2 file_5.04-5 findutils_4.4.2-1+b1 g++_4:4.5.2-2 g++-4.5_4.5.2-7 gcc_4:4.5.2-2 gcc-4.4-base_4.4.5-14 gcc-4.5_4.5.2-7 gcc-4.5-base_4.5.2-7 gcc-4.6-base_4.6.0-1 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.6.3-3 groff-base_1.21-5 gzip_1.3.12-9 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.1 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-4 libattr1_1:2.4.44-2 libblkid1_2.17.2-9.1 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-13 libc-dev-bin_2.11.2-13 libc6_2.11.2-13 libc6-dev_2.11.2-13 libcloog-ppl0_0.15.9-3 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libdb4.7_4.7.25-12 libdb4.8_4.8.30-5 libdpkg-perl_1.15.8.10 libelfg0_0.8.13-1 libgc1c2_1:7.1-7 libgcc1_1:4.6.0-1 libgdbm3_1.8.3-9 libglib2.0-0_2.28.2-1 libgmp10_2:5.0.1+dfsg-7 libgmpxx4ldbl_2:5.0.1+dfsg-7 libgomp1_4.6.0-1 liblocale-gettext-perl_1.05-6 liblzma2_5.0.0-2 libmagic1_5.04-5 libmpc2_0.9-2 libmpfr4_3.0.0-9 libncurses5_5.8+20110307-1 libncurses5-dev_5.8+20110307-1 libpam-modules_1.1.2-2 libpam-runtime_1.1.2-2 libpam0g_1.1.2-2 libpcre3_8.12-3 libpipeline1_1.2.0-1 libppl-c4_0.11.2-3 libppl9_0.11.2-3 libpwl5_0.11.2-3 libreadline6_6.1-3 libselinux1_2.0.96-1 libsepol1_2.0.42-1 libslang2_2.2.2-4 libss2_1.41.12-2 libstdc++6_4.6.0-1 libstdc++6-4.5-dev_4.5.2-7 libtext-charwidth-perl_0.04-6 libtext-iconv-perl_1.7-2 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-3 libusb-0.1-4_2:0.1.12-17 libuuid1_2.17.2-9.1 libxml2_2.7.8.dfsg-2 linux-libc-dev_2.6.38-1 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-27 make_3.81-8 man-db_2.5.9-4 mawk_1.3.3-15 mount_2.17.2-9.1 ncurses-base_5.8+20110307-1 ncurses-bin_5.8+20110307-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-1 perl_5.10.1-18 perl-base_5.10.1-18 perl-modules_5.10.1-18 po-debconf_1.0.16+nmu1 readline-common_6.1-3 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-samtools-dummy_0.invalid.0 sed_4.2.1-9 sensible-utils_0.0.6 sysv-rc_2.88dsf-13.1 sysvinit_2.88dsf-13.1 sysvinit-utils_2.88dsf-13.1 tar_1.25-3 tzdata_2011d-1 util-linux_2.17.2-9.1 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -205,14 +182,15 @@ Package versions: apt_0.8.11.5 base-files_6.1 base-passwd_3.5.22 bash_4.1-3 binu
Unpack source
─────────────
-dpkg-source: warning: extracting unsigned source package (samtools_0.1.13-1.dsc)
-dpkg-source: info: extracting samtools in samtools-0.1.13
-dpkg-source: info: unpacking samtools_0.1.13.orig.tar.bz2
-dpkg-source: info: unpacking samtools_0.1.13-1.debian.tar.gz
+dpkg-source: warning: extracting unsigned source package (samtools_0.1.14-1.dsc)
+dpkg-source: info: extracting samtools in samtools-0.1.14
+dpkg-source: info: unpacking samtools_0.1.14.orig.tar.bz2
+dpkg-source: info: unpacking samtools_0.1.14-1.debian.tar.gz
Check disc space
────────────────
+Sufficient free space for build
dpkg-buildpackage
─────────────────
@@ -223,41 +201,41 @@ dpkg-buildpackage: export CXXFLAGS from dpkg-buildflags (origin: vendor): -g -O2
dpkg-buildpackage: export FFLAGS from dpkg-buildflags (origin: vendor): -g -O2
dpkg-buildpackage: export LDFLAGS from dpkg-buildflags (origin: vendor):
dpkg-buildpackage: source package samtools
-dpkg-buildpackage: source version 0.1.13-1
+dpkg-buildpackage: source version 0.1.14-1
dpkg-buildpackage: source changed by Charles Plessy <plessy at debian.org>
- dpkg-source --before-build samtools-0.1.13
+ dpkg-source --before-build samtools-0.1.14
dpkg-buildpackage: host architecture amd64
fakeroot debian/rules clean
test -x debian/rules
dh_testroot
rm -f debian/stamp-makefile-build debian/stamp-makefile-install
/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -fPIC" CXXFLAGS="-g -O2 -g -O2" CPPFLAGS="" LDFLAGS="" -k clean
-make[1]: Entering directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13'
-make[2]: Entering directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13'
+make[1]: Entering directory `BUILDDIR/samtools-0.1.14'
+make[2]: Entering directory `BUILDDIR/samtools-0.1.14'
rm -fr gmon.out *.o a.out *.exe *.dSYM razip bgzip samtools *~ *.a *.so.* *.so *.dylib
-make[2]: Leaving directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13'
-make[2]: Entering directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13/bcftools'
+make[2]: Leaving directory `BUILDDIR/samtools-0.1.14'
+make[2]: Entering directory `BUILDDIR/samtools-0.1.14/bcftools'
rm -fr gmon.out *.o a.out *.dSYM bcftools *~ *.a bcf.aux bcf.log bcf.pdf *.class libbcf.*.dylib libbcf.so*
-make[2]: Leaving directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13/bcftools'
-make[2]: Entering directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13/misc'
+make[2]: Leaving directory `BUILDDIR/samtools-0.1.14/bcftools'
+make[2]: Entering directory `BUILDDIR/samtools-0.1.14/misc'
rm -fr gmon.out *.o a.out *.exe *.dSYM md5sum-lite md5fa maq2sam-short maq2sam-long wgsim *~ *.a
-make[2]: Leaving directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13/misc'
-make[1]: Leaving directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13'
+make[2]: Leaving directory `BUILDDIR/samtools-0.1.14/misc'
+make[1]: Leaving directory `BUILDDIR/samtools-0.1.14'
rm -f debian/stamp-makefile-check
dh_clean
rm -f examples/calDepth examples/ex1.bam examples/ex1.bam.bai examples/ex1.fa.fai examples/ex1.glf examples/ex1.glfview.gz examples/ex1.pileup.gz examples/ex1a.bam examples/ex1b.bam examples/ex1f-rmduppe.bam examples/ex1f-rmdupse.bam examples/ex1f.bam examples/ex1f.rg examples/ex1.bcf
- dpkg-source -b samtools-0.1.13
+ dpkg-source -b samtools-0.1.14
dpkg-source: info: using source format `3.0 (quilt)'
-dpkg-source: info: building samtools using existing ./samtools_0.1.13.orig.tar.bz2
-dpkg-source: info: building samtools in samtools_0.1.13-1.debian.tar.gz
-dpkg-source: info: building samtools in samtools_0.1.13-1.dsc
+dpkg-source: info: building samtools using existing ./samtools_0.1.14.orig.tar.bz2
+dpkg-source: info: building samtools in samtools_0.1.14-1.debian.tar.gz
+dpkg-source: info: building samtools in samtools_0.1.14-1.dsc
debian/rules build
test -x debian/rules
mkdir -p "."
/usr/share/cdbs/1/rules/buildcore.mk:109: WARNING: DEB_DH_BUILDDEB_ARGS is a deprecated variable
/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -fPIC" CXXFLAGS="-g -O2 -g -O2" CPPFLAGS="" LDFLAGS="" all all-recur razip lib
-make[1]: Entering directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13'
-make[2]: Entering directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13'
+make[1]: Entering directory `BUILDDIR/samtools-0.1.14'
+make[2]: Entering directory `BUILDDIR/samtools-0.1.14'
gcc -c -g -O2 -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bgzf.c -o bgzf.o
gcc -c -g -O2 -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. kstring.c -o kstring.o
gcc -c -g -O2 -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_aux.c -o bam_aux.o
@@ -276,9 +254,10 @@ gcc -c -g -O2 -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_K
gcc -c -g -O2 -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. sam_header.c -o sam_header.o
gcc -c -g -O2 -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_reheader.c -o bam_reheader.o
gcc -c -g -O2 -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. kprobaln.c -o kprobaln.o
-ar -cru libbam.a bgzf.o kstring.o bam_aux.o bam.o bam_import.o sam.o bam_index.o bam_pileup.o bam_lpileup.o bam_md.o glf.o razf.o faidx.o knetfile.o bam_sort.o sam_header.o bam_reheader.o kprobaln.o
-make[2]: Leaving directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13'
-make[2]: Entering directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13/bcftools'
+gcc -c -g -O2 -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_cat.c -o bam_cat.o
+ar -cru libbam.a bgzf.o kstring.o bam_aux.o bam.o bam_import.o sam.o bam_index.o bam_pileup.o bam_lpileup.o bam_md.o glf.o razf.o faidx.o knetfile.o bam_sort.o sam_header.o bam_reheader.o kprobaln.o bam_cat.o
+make[2]: Leaving directory `BUILDDIR/samtools-0.1.14'
+make[2]: Entering directory `BUILDDIR/samtools-0.1.14/bcftools'
gcc -c -g -O2 -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. bcf.c -o bcf.o
gcc -c -g -O2 -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. vcf.c -o vcf.o
gcc -c -g -O2 -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. bcfutils.c -o bcfutils.o
@@ -289,10 +268,10 @@ gcc -c -g -O2 -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_K
gcc -c -g -O2 -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. fet.c -o fet.o
gcc -c -g -O2 -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. bcf2qcall.c -o bcf2qcall.o
ar -cru libbcf.a bcf.o vcf.o bcfutils.o prob1.o ld.o kfunc.o index.o fet.o bcf2qcall.o
-make[2]: Leaving directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13/bcftools'
-make[2]: Entering directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13/misc'
+make[2]: Leaving directory `BUILDDIR/samtools-0.1.14/bcftools'
+make[2]: Entering directory `BUILDDIR/samtools-0.1.14/misc'
make[2]: Nothing to be done for `lib'.
-make[2]: Leaving directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13/misc'
+make[2]: Leaving directory `BUILDDIR/samtools-0.1.14/misc'
gcc -c -g -O2 -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_tview.c -o bam_tview.o
gcc -c -g -O2 -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_maqcns.c -o bam_maqcns.o
gcc -c -g -O2 -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. bam_plcmd.c -o bam_plcmd.o
@@ -311,24 +290,24 @@ gcc -c -g -O2 -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_K
gcc -c -g -O2 -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. cut_target.c -o cut_target.o
gcc -c -g -O2 -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. phase.c -o phase.o
gcc -g -O2 -g -O2 -fPIC -o samtools bam_tview.o bam_maqcns.o bam_plcmd.o sam_view.o bam_rmdup.o bam_rmdupse.o bam_mate.o bam_stat.o bam_color.o bamtk.o kaln.o bam2bcf.o bam2bcf_indel.o errmod.o sample.o cut_target.o phase.o -Lbcftools libbam.a -lbcf -lcurses -lm -lz
-make[2]: Entering directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13'
-make[3]: Entering directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13'
+make[2]: Entering directory `BUILDDIR/samtools-0.1.14'
+make[3]: Entering directory `BUILDDIR/samtools-0.1.14'
make[3]: Nothing to be done for `lib'.
-make[3]: Leaving directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13'
-make[3]: Entering directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13/bcftools'
+make[3]: Leaving directory `BUILDDIR/samtools-0.1.14'
+make[3]: Entering directory `BUILDDIR/samtools-0.1.14/bcftools'
make[3]: Nothing to be done for `lib'.
-make[3]: Leaving directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13/bcftools'
-make[3]: Entering directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13/misc'
+make[3]: Leaving directory `BUILDDIR/samtools-0.1.14/bcftools'
+make[3]: Entering directory `BUILDDIR/samtools-0.1.14/misc'
make[3]: Nothing to be done for `lib'.
-make[3]: Leaving directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13/misc'
+make[3]: Leaving directory `BUILDDIR/samtools-0.1.14/misc'
gcc -g -O2 -g -O2 -fPIC -o samtools bam_tview.o bam_maqcns.o bam_plcmd.o sam_view.o bam_rmdup.o bam_rmdupse.o bam_mate.o bam_stat.o bam_color.o bamtk.o kaln.o bam2bcf.o bam2bcf_indel.o errmod.o sample.o cut_target.o phase.o -Lbcftools libbam.a -lbcf -lcurses -lm -lz
-make[2]: Leaving directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13'
-make[2]: Entering directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13/bcftools'
+make[2]: Leaving directory `BUILDDIR/samtools-0.1.14'
+make[2]: Entering directory `BUILDDIR/samtools-0.1.14/bcftools'
gcc -c -g -O2 -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. call1.c -o call1.o
gcc -c -g -O2 -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I.. -I. main.c -o main.o
gcc -g -O2 -g -O2 -fPIC -o bcftools call1.o main.o ../kstring.o ../bgzf.o ../knetfile.o -L. -lbcf -lm -lz
-make[2]: Leaving directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13/bcftools'
-make[2]: Entering directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13/misc'
+make[2]: Leaving directory `BUILDDIR/samtools-0.1.14/bcftools'
+make[2]: Entering directory `BUILDDIR/samtools-0.1.14/misc'
gcc -c -g -O2 -g -O2 -fPIC -DMD5SUM_MAIN -o md5sum-lite.o md5.c
gcc -g -O2 -g -O2 -fPIC -o md5sum-lite md5sum-lite.o
gcc -c -g -O2 -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. md5.c -o md5.o
@@ -338,14 +317,14 @@ gcc -g -O2 -g -O2 -fPIC -o maq2sam-short maq2sam.c -lz
gcc -g -O2 -g -O2 -fPIC -DMAQ_LONGREADS -o maq2sam-long maq2sam.c -lz
gcc -c -g -O2 -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. wgsim.c -o wgsim.o
gcc -g -O2 -g -O2 -fPIC -o wgsim wgsim.o -lm
-make[2]: Leaving directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13/misc'
+make[2]: Leaving directory `BUILDDIR/samtools-0.1.14/misc'
gcc -c -g -O2 -g -O2 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_USE_KNETFILE -D_CURSES_LIB=1 -I. razip.c -o razip.o
gcc -g -O2 -g -O2 -fPIC -o razip razf.o razip.o knetfile.o -lz
make[1]: Nothing to be done for `lib'.
-make[1]: Leaving directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13'
+make[1]: Leaving directory `BUILDDIR/samtools-0.1.14'
touch debian/stamp-makefile-build
/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -fPIC" CXXFLAGS="-g -O2 -g -O2" CPPFLAGS="" LDFLAGS="" -C examples all
-make[1]: Entering directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13/examples'
+make[1]: Entering directory `BUILDDIR/samtools-0.1.14/examples'
../samtools faidx ex1.fa
../samtools import ex1.fa.fai ex1.sam.gz ex1.bam
[sam_header_read2] 2 sequences loaded.
@@ -374,7 +353,7 @@ gcc -g -Wall -O2 -I.. calDepth.c -o calDepth -L.. -lbam -lm -lz
# You can now launch the viewer with: 'samtools tview ex1.bam ex1.fa'
-make[1]: Leaving directory `/build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13/examples'
+make[1]: Leaving directory `BUILDDIR/samtools-0.1.14/examples'
touch debian/stamp-makefile-check
fakeroot debian/rules binary
test -x debian/rules
@@ -408,7 +387,7 @@ dh_bugfiles -psamtools
dh_install -psamtools
dh_link -psamtools
dh_installmime -psamtools
-install -m 644 bcftools/README /build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13/debian/samtools/usr/share/doc/samtools/README.bcftools
+install -m 644 bcftools/README BUILDDIR/samtools-0.1.14/debian/samtools/usr/share/doc/samtools/README.bcftools
dh_installdocs -plibbam-dev ./NEWS ./AUTHORS
dh_installexamples -plibbam-dev
dh_installman -plibbam-dev
@@ -433,7 +412,7 @@ dh_strip -psamtools
dh_compress -psamtools
dh_fixperms -psamtools
dh_makeshlibs -psamtools
-sed -i 's|^#!/software/bin/python|#!/usr/bin/python|' /build/charles-samtools_0.1.13-1-amd64-AuP0Ve/samtools-0.1.13/debian/samtools/usr/share/samtools/varfilter.py
+sed -i 's|^#!/software/bin/python|#!/usr/bin/python|' BUILDDIR/samtools-0.1.14/debian/samtools/usr/share/samtools/varfilter.py
dh_strip -plibbam-dev
dh_compress -plibbam-dev
dh_fixperms -plibbam-dev
@@ -448,26 +427,38 @@ dh_gencontrol -psamtools
dpkg-gencontrol: warning: package samtools: unused substitution variable ${perl:Depends}
dh_md5sums -psamtools
dh_builddeb -psamtools -- -Z=bzip2
-dpkg-deb: building package `samtools' in `../samtools_0.1.13-1_amd64.deb'.
+dpkg-deb: building package `samtools' in `../samtools_0.1.14-1_amd64.deb'.
dh_gencontrol -plibbam-dev
dpkg-gencontrol: warning: Depends field of package libbam-dev: unknown substitution variable ${shlibs:Depends}
dh_md5sums -plibbam-dev
dh_builddeb -plibbam-dev -- -Z=bzip2
-dpkg-deb: building package `libbam-dev' in `../libbam-dev_0.1.13-1_amd64.deb'.
- dpkg-genchanges >../samtools_0.1.13-1_amd64.changes
+dpkg-deb: building package `libbam-dev' in `../libbam-dev_0.1.14-1_amd64.deb'.
+ dpkg-genchanges >../samtools_0.1.14-1_amd64.changes
dpkg-genchanges: including full source code in upload
- dpkg-source --after-build samtools-0.1.13
+ dpkg-source --after-build samtools-0.1.14
dpkg-buildpackage: full upload (original source is included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110302-1404
+Build finished at 20110329-1323
+
+Finished
+────────
+
+I: Built successfully
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Changes │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+samtools_0.1.14-1_amd64.changes:
+────────────────────────────────
-samtools_0.1.13-1_amd64.changes:
Format: 1.8
-Date: Wed, 02 Mar 2011 13:54:34 +0900
+Date: Tue, 29 Mar 2011 13:13:54 +0900
Source: samtools
Binary: samtools libbam-dev
Architecture: source amd64
-Version: 0.1.13-1
+Version: 0.1.14-1
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
@@ -475,54 +466,47 @@ Changed-By: Charles Plessy <plessy at debian.org>
Description:
libbam-dev - manipulates nucleotide sequence alignments in BAM or SAM format
samtools - processing sequence alignments in SAM and BAM formats
-Closes: 606004 616025
Changes:
- samtools (0.1.13-1) unstable; urgency=low
+ samtools (0.1.14-1) unstable; urgency=low
.
- * New upstream release:
- - backward incompatible with VCF/BCF generated by samtools older
- than r921 inclusive (0.1.12a is r862);
- - buildable with with ld --as-needed (Closes: #606004);
- - the helper tool bcf-fix.pl was removed.
- * Install the manual page of bcftools (debian/rules,
- debian/samtools.manpages). Closes: #616025.
+ * New upstream release.
Checksums-Sha1:
- 0d34c49309660cbb2f85fc46b55e81642901e8e2 1053 samtools_0.1.13-1.dsc
- 8ab22994c9e899648a8731cdfd6b1e4b1ed8773e 365042 samtools_0.1.13.orig.tar.bz2
- 90988bd1dbae817e970401941ec0f59697b978b4 6523 samtools_0.1.13-1.debian.tar.gz
- b94d8b20ee82a855439225995cd21d3d9ba6878b 580550 samtools_0.1.13-1_amd64.deb
- d990aca5b5f63a23cf7720f2b977849b4cde3856 161408 libbam-dev_0.1.13-1_amd64.deb
+ b4b787bd76c986989c7694bb6e9cdc7ffa64d6f2 1053 samtools_0.1.14-1.dsc
+ 03d537ae69afa1607ba3f88a45aaff27d3ba4bd1 370287 samtools_0.1.14.orig.tar.bz2
+ 3363682d767cc5aad089f40c49e3c70484da5be2 6869 samtools_0.1.14-1.debian.tar.gz
+ cd07ae55e6c70a148ec68e60de7d32ae58adb733 593618 samtools_0.1.14-1_amd64.deb
+ 1ad8d4c64330f90a6d3b60cd2a06dce44fa1ef41 165312 libbam-dev_0.1.14-1_amd64.deb
Checksums-Sha256:
- e26e6398cc8099d5bc7be18b7fcb3c2dfce346ed94661866d4df954d6647133e 1053 samtools_0.1.13-1.dsc
- e0d182c31abb4f784c2abc1ad6dce19c7e4adfab7afa968c63b05d964104d69f 365042 samtools_0.1.13.orig.tar.bz2
- b3a6f67b01700754f1bcc0fa83d25521416ef5504d0b5edf93da1db8642ea85a 6523 samtools_0.1.13-1.debian.tar.gz
- 061ca89ee9ad31ad5bdf3d203aa7f449322f6dd32c81c9a8ed91d637d97efa74 580550 samtools_0.1.13-1_amd64.deb
- 229e885b66be5bc3fa85f5d55688da08fca77915cceea18034786bbb50fb643e 161408 libbam-dev_0.1.13-1_amd64.deb
+ 1b12c881d8b4a944ea81cd12a420e653c1f81ccd09763591c47ecc4798e461bb 1053 samtools_0.1.14-1.dsc
+ 8bbe8fe4240fe98868891a27093e86ffb3149b716d9659db28c84df0c91d5975 370287 samtools_0.1.14.orig.tar.bz2
+ 048f6988bbc21acd19f54e2f42ed105834981220f35a32397c6c202c53443265 6869 samtools_0.1.14-1.debian.tar.gz
+ d7aa1cc47b6eeb4bac688ebb8ebd11108feda8f0d37471850a6d20609020d2c2 593618 samtools_0.1.14-1_amd64.deb
+ 9722646d951eb7f65799b5838eeffadb170ed01e6348047e7ec97c403f68d09a 165312 libbam-dev_0.1.14-1_amd64.deb
Files:
- 9474bf851c1b597932c8edc3d3ec56fc 1053 science optional samtools_0.1.13-1.dsc
- 2e66b94639f90d10cc935bb145ef71f3 365042 science optional samtools_0.1.13.orig.tar.bz2
- e5f9a79e9b675ab785f139f25b2a289e 6523 science optional samtools_0.1.13-1.debian.tar.gz
- 08d99759c6f9ee85bc8122ef80a262d0 580550 science optional samtools_0.1.13-1_amd64.deb
- 438b272f8b7aa775457a619359aa4027 161408 libdevel optional libbam-dev_0.1.13-1_amd64.deb
+ 5694dd95bd348ab7c85b1933b780c2ac 1053 science optional samtools_0.1.14-1.dsc
+ aa2bed7b3d96e64cbeb3726f1fb6d880 370287 science optional samtools_0.1.14.orig.tar.bz2
+ b3c31d72685018d26682d460667a77a8 6869 science optional samtools_0.1.14-1.debian.tar.gz
+ d4018bd1b0f86e2caa76be65d162629c 593618 science optional samtools_0.1.14-1_amd64.deb
+ 0c35b980860354f363a1011ea11bafe8 165312 libdevel optional libbam-dev_0.1.14-1_amd64.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-samtools_0.1.13-1_amd64.deb
+samtools_0.1.14-1_amd64.deb
───────────────────────────
new debian package, version 2.0.
- size 580550 bytes: control archive= 1791 bytes.
- 792 bytes, 16 lines control
+ size 593618 bytes: control archive= 1785 bytes.
+ 786 bytes, 16 lines control
2520 bytes, 38 lines md5sums
Package: samtools
- Version: 0.1.13-1
+ Version: 0.1.14-1
Architecture: amd64
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 1044
- Depends: libc6 (>= 2.7), libncurses5 (>= 5.7+20100313), zlib1g (>= 1:1.2.3.3.dfsg)
+ Installed-Size: 1072
+ Depends: libc6 (>= 2.7), libncurses5 (>= 5.5-5~), zlib1g (>= 1:1.2.3.3.dfsg)
Suggests: python
Section: science
Priority: optional
@@ -534,71 +518,71 @@ samtools_0.1.13-1_amd64.deb
to retrieve reads in any regions swiftly. It is designed to work on a stream,
and is able to open a BAM (not SAM) file on a remote FTP or HTTP server.
-drwxr-xr-x root/root 0 2011-03-02 14:04 ./
-drwxr-xr-x root/root 0 2011-03-02 14:04 ./usr/
-drwxr-xr-x root/root 0 2011-03-02 14:04 ./usr/bin/
--rwxr-xr-x root/root 356592 2011-03-02 14:04 ./usr/bin/samtools
--rwxr-xr-x root/root 24832 2011-03-02 14:04 ./usr/bin/razip
--rwxr-xr-x root/root 93576 2011-03-02 14:04 ./usr/bin/bcftools
-drwxr-xr-x root/root 0 2011-03-02 14:04 ./usr/lib/
-drwxr-xr-x root/root 0 2011-03-02 14:04 ./usr/lib/samtools/
--rwxr-xr-x root/root 8472 2011-03-02 14:04 ./usr/lib/samtools/md5sum-lite
--rwxr-xr-x root/root 8184 2011-03-02 14:04 ./usr/lib/samtools/maq2sam-long
--rwxr-xr-x root/root 19248 2011-03-02 14:04 ./usr/lib/samtools/wgsim
--rwxr-xr-x root/root 8136 2011-03-02 14:04 ./usr/lib/samtools/maq2sam-short
--rwxr-xr-x root/root 11680 2011-03-02 14:04 ./usr/lib/samtools/md5fa
-drwxr-xr-x root/root 0 2011-03-02 14:04 ./usr/share/
-drwxr-xr-x root/root 0 2011-03-02 14:04 ./usr/share/samtools/
+drwxr-xr-x root/root 0 2011-03-29 13:23 ./
+drwxr-xr-x root/root 0 2011-03-29 13:23 ./usr/
+drwxr-xr-x root/root 0 2011-03-29 13:23 ./usr/lib/
+drwxr-xr-x root/root 0 2011-03-29 13:23 ./usr/lib/samtools/
+-rwxr-xr-x root/root 11880 2011-03-29 13:23 ./usr/lib/samtools/md5fa
+-rwxr-xr-x root/root 19248 2011-03-29 13:23 ./usr/lib/samtools/wgsim
+-rwxr-xr-x root/root 8560 2011-03-29 13:23 ./usr/lib/samtools/md5sum-lite
+-rwxr-xr-x root/root 8128 2011-03-29 13:23 ./usr/lib/samtools/maq2sam-short
+-rwxr-xr-x root/root 8224 2011-03-29 13:23 ./usr/lib/samtools/maq2sam-long
+drwxr-xr-x root/root 0 2011-03-29 13:23 ./usr/bin/
+-rwxr-xr-x root/root 376080 2011-03-29 13:23 ./usr/bin/samtools
+-rwxr-xr-x root/root 24768 2011-03-29 13:23 ./usr/bin/razip
+-rwxr-xr-x root/root 106280 2011-03-29 13:23 ./usr/bin/bcftools
+drwxr-xr-x root/root 0 2011-03-29 13:23 ./usr/share/
+drwxr-xr-x root/root 0 2011-03-29 13:23 ./usr/share/samtools/
+-rwxr-xr-x root/root 18572 2011-03-22 12:09 ./usr/share/samtools/export2sam.pl
+-rwxr-xr-x root/root 5778 2011-03-29 13:23 ./usr/share/samtools/varfilter.py
+-rwxr-xr-x root/root 4996 2010-11-17 13:16 ./usr/share/samtools/interpolate_sam.pl
+-rwxr-xr-x root/root 2397 2010-11-17 13:16 ./usr/share/samtools/zoom2sam.pl
+-rwxr-xr-x root/root 2022 2010-11-17 13:16 ./usr/share/samtools/psl2sam.pl
+-rwxr-xr-x root/root 2112 2010-11-17 13:16 ./usr/share/samtools/bowtie2sam.pl
+-rwxr-xr-x root/root 2696 2010-11-17 13:16 ./usr/share/samtools/soap2sam.pl
+-rwxr-xr-x root/root 7881 2010-11-17 13:16 ./usr/share/samtools/sam2vcf.pl
+-rwxr-xr-x root/root 14299 2010-11-17 13:16 ./usr/share/samtools/samtools.pl
+-rwxr-xr-x root/root 15437 2011-03-02 04:50 ./usr/share/samtools/vcfutils.pl
-rwxr-xr-x root/root 2415 2010-11-17 13:16 ./usr/share/samtools/blast2sam.pl
-rwxr-xr-x root/root 2729 2010-11-17 13:16 ./usr/share/samtools/wgsim_eval.pl
--rwxr-xr-x root/root 15437 2011-03-02 04:50 ./usr/share/samtools/vcfutils.pl
--rwxr-xr-x root/root 7881 2010-11-17 13:16 ./usr/share/samtools/sam2vcf.pl
--rwxr-xr-x root/root 2696 2010-11-17 13:16 ./usr/share/samtools/soap2sam.pl
--rwxr-xr-x root/root 2397 2010-11-17 13:16 ./usr/share/samtools/zoom2sam.pl
-rwxr-xr-x root/root 5989 2010-11-17 13:16 ./usr/share/samtools/novo2sam.pl
--rwxr-xr-x root/root 14299 2010-11-17 13:16 ./usr/share/samtools/samtools.pl
--rwxr-xr-x root/root 15255 2010-11-17 13:16 ./usr/share/samtools/export2sam.pl
--rwxr-xr-x root/root 2112 2010-11-17 13:16 ./usr/share/samtools/bowtie2sam.pl
--rwxr-xr-x root/root 2022 2010-11-17 13:16 ./usr/share/samtools/psl2sam.pl
--rwxr-xr-x root/root 5778 2011-03-02 14:04 ./usr/share/samtools/varfilter.py
--rwxr-xr-x root/root 4996 2010-11-17 13:16 ./usr/share/samtools/interpolate_sam.pl
-drwxr-xr-x root/root 0 2011-03-02 14:04 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-03-02 14:04 ./usr/share/doc/samtools/
--rw-r--r-- root/root 1280 2011-03-02 13:54 ./usr/share/doc/samtools/changelog.Debian.gz
--rw-r--r-- root/root 916 2010-11-17 13:16 ./usr/share/doc/samtools/AUTHORS
--rw-r--r-- root/root 592 2011-03-02 13:30 ./usr/share/doc/samtools/reference
--rw-r--r-- root/root 1031 2011-03-02 13:30 ./usr/share/doc/samtools/README.Debian
--rw-r--r-- root/root 33578 2011-03-02 04:50 ./usr/share/doc/samtools/changelog.gz
--rw-r--r-- root/root 1966 2011-03-02 14:04 ./usr/share/doc/samtools/README.bcftools
--rw-r--r-- root/root 7887 2011-03-02 04:50 ./usr/share/doc/samtools/NEWS.gz
-drwxr-xr-x root/root 0 2011-03-02 14:04 ./usr/share/doc/samtools/examples/
--rw-r--r-- root/root 114565 2010-11-17 13:16 ./usr/share/doc/samtools/examples/ex1.sam.gz
+drwxr-xr-x root/root 0 2011-03-29 13:23 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-03-29 13:23 ./usr/share/man/man1/
+-rw-r--r-- root/root 2005 2011-03-29 13:23 ./usr/share/man/man1/bcftools.1.gz
+-rw-r--r-- root/root 430 2011-03-29 13:23 ./usr/share/man/man1/razip.1.gz
+-rw-r--r-- root/root 8393 2011-03-29 13:23 ./usr/share/man/man1/samtools.1.gz
+drwxr-xr-x root/root 0 2011-03-29 13:23 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-03-29 13:23 ./usr/share/doc/samtools/
+drwxr-xr-x root/root 0 2011-03-29 13:23 ./usr/share/doc/samtools/examples/
-rw-r--r-- root/root 3225 2010-11-17 13:16 ./usr/share/doc/samtools/examples/ex1.fa
+-rw-r--r-- root/root 114565 2010-11-17 13:16 ./usr/share/doc/samtools/examples/ex1.sam.gz
-rw-r--r-- root/root 764 2010-11-17 13:16 ./usr/share/doc/samtools/examples/toy.sam
--rw-r--r-- root/root 126609 2011-03-02 14:04 ./usr/share/doc/samtools/examples/ex1.bam.gz
--rw-r--r-- root/root 98 2010-11-17 13:16 ./usr/share/doc/samtools/examples/toy.fa
+-rw-r--r-- root/root 126609 2011-03-29 13:23 ./usr/share/doc/samtools/examples/ex1.bam.gz
-rw-r--r-- root/root 886 2010-11-17 13:16 ./usr/share/doc/samtools/examples/00README.txt
--rw-r--r-- root/root 5171 2011-03-02 13:37 ./usr/share/doc/samtools/copyright
-drwxr-xr-x root/root 0 2011-03-02 14:04 ./usr/share/man/
-drwxr-xr-x root/root 0 2011-03-02 14:04 ./usr/share/man/man1/
--rw-r--r-- root/root 1229 2011-03-02 14:04 ./usr/share/man/man1/bcftools.1.gz
--rw-r--r-- root/root 430 2011-03-02 14:04 ./usr/share/man/man1/razip.1.gz
--rw-r--r-- root/root 8164 2011-03-02 14:04 ./usr/share/man/man1/samtools.1.gz
+-rw-r--r-- root/root 98 2010-11-17 13:16 ./usr/share/doc/samtools/examples/toy.fa
+-rw-r--r-- root/root 33578 2011-03-02 04:50 ./usr/share/doc/samtools/changelog.gz
+-rw-r--r-- root/root 8225 2011-03-22 12:09 ./usr/share/doc/samtools/NEWS.gz
+-rw-r--r-- root/root 916 2010-11-17 13:16 ./usr/share/doc/samtools/AUTHORS
+-rw-r--r-- root/root 5287 2011-03-29 13:05 ./usr/share/doc/samtools/copyright
+-rw-r--r-- root/root 1966 2011-03-29 13:23 ./usr/share/doc/samtools/README.bcftools
+-rw-r--r-- root/root 1296 2011-03-29 13:14 ./usr/share/doc/samtools/changelog.Debian.gz
+-rw-r--r-- root/root 1031 2011-03-29 12:51 ./usr/share/doc/samtools/README.Debian
+-rw-r--r-- root/root 592 2011-03-29 12:51 ./usr/share/doc/samtools/reference
-libbam-dev_0.1.13-1_amd64.deb
+libbam-dev_0.1.14-1_amd64.deb
─────────────────────────────
new debian package, version 2.0.
- size 161408 bytes: control archive= 898 bytes.
+ size 165312 bytes: control archive= 900 bytes.
674 bytes, 15 lines control
618 bytes, 10 lines md5sums
Package: libbam-dev
Source: samtools
- Version: 0.1.13-1
+ Version: 0.1.14-1
Architecture: amd64
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 444
+ Installed-Size: 460
Section: libdevel
Priority: optional
Homepage: http://samtools.sourceforge.net
@@ -609,37 +593,35 @@ libbam-dev_0.1.13-1_amd64.deb
sorting, merging, generating pileup, and quickly retrieval of reads overlapped
with a specified region.
-drwxr-xr-x root/root 0 2011-03-02 14:04 ./
-drwxr-xr-x root/root 0 2011-03-02 14:04 ./usr/
-drwxr-xr-x root/root 0 2011-03-02 14:04 ./usr/lib/
--rw-r--r-- root/root 296276 2011-03-02 14:04 ./usr/lib/libbam.a
-drwxr-xr-x root/root 0 2011-03-02 14:04 ./usr/include/
--rw-r--r-- root/root 24165 2011-03-02 04:50 ./usr/include/bam.h
--rw-r--r-- root/root 3188 2010-11-17 13:16 ./usr/include/faidx.h
+drwxr-xr-x root/root 0 2011-03-29 13:23 ./
+drwxr-xr-x root/root 0 2011-03-29 13:23 ./usr/
+drwxr-xr-x root/root 0 2011-03-29 13:23 ./usr/lib/
+-rw-r--r-- root/root 314106 2011-03-29 13:23 ./usr/lib/libbam.a
+drwxr-xr-x root/root 0 2011-03-29 13:23 ./usr/include/
-rw-r--r-- root/root 17815 2011-03-02 04:50 ./usr/include/khash.h
--rw-r--r-- root/root 4599 2010-11-17 13:16 ./usr/include/bgzf.h
-drwxr-xr-x root/root 0 2011-03-02 14:04 ./usr/share/
-drwxr-xr-x root/root 0 2011-03-02 14:04 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-03-02 14:04 ./usr/share/doc/libbam-dev/
--rw-r--r-- root/root 1280 2011-03-02 13:54 ./usr/share/doc/libbam-dev/changelog.Debian.gz
--rw-r--r-- root/root 916 2010-11-17 13:16 ./usr/share/doc/libbam-dev/AUTHORS
+-rw-r--r-- root/root 3188 2010-11-17 13:16 ./usr/include/faidx.h
+-rw-r--r-- root/root 4580 2011-03-22 12:09 ./usr/include/bgzf.h
+-rw-r--r-- root/root 24165 2011-03-22 12:09 ./usr/include/bam.h
+drwxr-xr-x root/root 0 2011-03-29 13:23 ./usr/share/
+drwxr-xr-x root/root 0 2011-03-29 13:23 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-03-29 13:23 ./usr/share/doc/libbam-dev/
-rw-r--r-- root/root 33578 2011-03-02 04:50 ./usr/share/doc/libbam-dev/changelog.gz
--rw-r--r-- root/root 7887 2011-03-02 04:50 ./usr/share/doc/libbam-dev/NEWS.gz
--rw-r--r-- root/root 5171 2011-03-02 13:37 ./usr/share/doc/libbam-dev/copyright
+-rw-r--r-- root/root 8225 2011-03-22 12:09 ./usr/share/doc/libbam-dev/NEWS.gz
+-rw-r--r-- root/root 916 2010-11-17 13:16 ./usr/share/doc/libbam-dev/AUTHORS
+-rw-r--r-- root/root 5287 2011-03-29 13:05 ./usr/share/doc/libbam-dev/copyright
+-rw-r--r-- root/root 1296 2011-03-29 13:14 ./usr/share/doc/libbam-dev/changelog.Debian.gz
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Finished │
+│ Post Build │
└──────────────────────────────────────────────────────────────────────────────┘
-Built successfully
-────────────────────────────────────────────────────────────────────────────────
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Post Build │
+│ Cleanup │
└──────────────────────────────────────────────────────────────────────────────┘
-Purging /var/lib/schroot/mount/unstable-amd64-sbuild-5aa3d7c4-ddc6-46d9-91f7-0f31ab5e2769/build/charles-samtools_0.1.13-1-amd64-AuP0Ve
+Purging CHROOTBUILDDIR
Reading package lists...
Building dependency tree...
Reading state information...
@@ -651,17 +633,16 @@ The following packages will be REMOVED:
bsdmainutils* cdbs* debhelper* file* gettext* gettext-base* groff-base*
html2text* intltool-debian* libcroco3* libglib2.0-0* libmagic1*
libncurses5-dev* libpcre3* libpipeline1* libunistring0* libxml2* man-db*
- po-debconf* zlib1g-dev*
-0 upgraded, 0 newly installed, 20 to remove and 0 not upgraded.
-After this operation, 36.6 MB disk space will be freed.
-(Reading database ... 12625 files and directories currently installed.)
+ po-debconf* sbuild-build-depends-core-dummy*
+ sbuild-build-depends-samtools-dummy* zlib1g-dev*
+0 upgraded, 0 newly installed, 22 to remove and 0 not upgraded.
+After this operation, 31.3 MB disk space will be freed.
+(Reading database ... 11735 files and directories currently installed.)
+Removing sbuild-build-depends-samtools-dummy ...
Removing cdbs ...
Removing debhelper ...
Removing man-db ...
Purging configuration files for man-db ...
-debconf: unable to initialize frontend: Dialog
-debconf: (TERM is not set, so the dialog frontend is not usable.)
-debconf: falling back to frontend: Readline
Removing bsdmainutils ...
Purging configuration files for bsdmainutils ...
Removing file ...
@@ -688,6 +669,7 @@ Removing libunistring0 ...
Purging configuration files for libunistring0 ...
Removing libxml2 ...
Purging configuration files for libxml2 ...
+Removing sbuild-build-depends-core-dummy ...
Removing zlib1g-dev ...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -695,17 +677,17 @@ Removing zlib1g-dev ...
└──────────────────────────────────────────────────────────────────────────────┘
Architecture: amd64
-Build-Space: 10856
-Build-Time: 24
+Build-Space: 12048
+Build-Time: 20
Distribution: unstable
-Install-Time: 6
-Job: samtools_0.1.13-1.dsc
+Install-Time: 26
+Job: samtools_0.1.14-1.dsc
Package: samtools
-Package-Time: 32
-Source-Version: 0.1.13-1
-Space: 10856
+Package-Time: 48
+Source-Version: 0.1.14-1
+Space: 12048
Status: successful
-Version: 0.1.13-1
+Version: 0.1.14-1
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110302-1404
-Build needed 00:00:32, 10856k disc space
+Finished at 20110329-1323
+Build needed 00:00:48, 12048k disc space
diff --git a/dsc b/dsc
index 113adcd..027dd03 100644
--- a/dsc
+++ b/dsc
@@ -5,7 +5,7 @@ Format: 3.0 (quilt)
Source: samtools
Binary: samtools, libbam-dev
Architecture: any
-Version: 0.1.13-1
+Version: 0.1.14-1
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
Uploaders: Charles Plessy <plessy at debian.org>
Dm-Upload-Allowed: yes
@@ -15,29 +15,29 @@ Vcs-Browser: http://git.debian.org/?p=debian-med/samtools.git
Vcs-Git: git://git.debian.org/debian-med/samtools.git
Build-Depends: debhelper (>= 8), cdbs, libncurses5-dev, zlib1g-dev
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- 90988bd1dbae817e970401941ec0f59697b978b4 6523 samtools_0.1.13-1.debian.tar.gz
+ 03d537ae69afa1607ba3f88a45aaff27d3ba4bd1 370287 samtools_0.1.14.orig.tar.bz2
+ 3363682d767cc5aad089f40c49e3c70484da5be2 6869 samtools_0.1.14-1.debian.tar.gz
Checksums-Sha256:
- e0d182c31abb4f784c2abc1ad6dce19c7e4adfab7afa968c63b05d964104d69f 365042 samtools_0.1.13.orig.tar.bz2
- b3a6f67b01700754f1bcc0fa83d25521416ef5504d0b5edf93da1db8642ea85a 6523 samtools_0.1.13-1.debian.tar.gz
+ 8bbe8fe4240fe98868891a27093e86ffb3149b716d9659db28c84df0c91d5975 370287 samtools_0.1.14.orig.tar.bz2
+ 048f6988bbc21acd19f54e2f42ed105834981220f35a32397c6c202c53443265 6869 samtools_0.1.14-1.debian.tar.gz
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- 2e66b94639f90d10cc935bb145ef71f3 365042 samtools_0.1.13.orig.tar.bz2
- e5f9a79e9b675ab785f139f25b2a289e 6523 samtools_0.1.13-1.debian.tar.gz
+ aa2bed7b3d96e64cbeb3726f1fb6d880 370287 samtools_0.1.14.orig.tar.bz2
+ b3c31d72685018d26682d460667a77a8 6869 samtools_0.1.14-1.debian.tar.gz
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--
Processing of sequence alignments in SAM and BAM formats.
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