[med-svn] [SCM] bwa branch, meta, updated. meta/0.5.9-2-9-gb329b15
Charles Plessy
plessy at debian.org
Tue Nov 15 08:44:02 UTC 2011
The following commit has been merged in the meta branch:
commit 6ed038bd9c61fe00995ebda5dc57977fd80b2d2d
Author: Charles Plessy <plessy at debian.org>
Date: Tue Nov 15 17:34:02 2011 +0900
Build logs for 0.5.10-1.
diff --git a/armel.log b/armel.log
index 0dc0865..f52a66e 100644
--- a/armel.log
+++ b/armel.log
@@ -1,46 +1,48 @@
-From buildd at ancina.debian.org Sat Mar 12 16:42:51 2011
+From buildd at ancina.debian.org Mon Nov 14 04:41:28 2011
Return-path: <buildd at ancina.debian.org>
-Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
+Received: from kokkonen.debian.org ([2001:41b8:202:deb:1a1a:0:52c3:4b61])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
- CN=merikanto.debian.org,
- EMAIL=hostmaster at merikanto.debian.org (verified)
+ CN=kokkonen.debian.org,
+ EMAIL=hostmaster at kokkonen.debian.org (verified)
by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at ancina.debian.org>)
- id 1PyRtz-0001RD-Av
- for logs at buildd.debian.org; Sat, 12 Mar 2011 16:42:51 +0000
+ (Exim 4.72) (envelope-from <buildd at ancina.debian.org>)
+ id 1RPoMJ-0000Uf-T9
+ for logs at buildd.debian.org; Mon, 14 Nov 2011 04:41:28 +0000
Received: from ancina.ugent.be ([157.193.39.13] helo=ancina.debian.org)
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
CN=ancina.debian.org, EMAIL=hostmaster at ancina.debian.org (verified)
- by merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at ancina.debian.org>)
- id 1PyRtw-0004dl-32; Sat, 12 Mar 2011 16:42:48 +0000
+ by kokkonen.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at ancina.debian.org>)
+ id 1RPoMJ-0006Mz-3m
+ for logs at buildd.debian.org; Mon, 14 Nov 2011 04:41:27 +0000
Received: from buildd by ancina.debian.org with local (Exim 4.69)
(envelope-from <buildd at ancina.debian.org>)
- id 1PyRtq-0006mX-43; Sat, 12 Mar 2011 16:42:42 +0000
+ id 1RPoMH-0003TV-Ui; Mon, 14 Nov 2011 04:41:25 +0000
+MIME-Version: 1.0
+Content-Transfer-Encoding: binary
+X-Mailer: MIME::Lite 3.021 (F2.76; B3.07_01; Q3.07)
+Date: Mon, 14 Nov 2011 04:41:25 +0000
From: Build Daemon <buildd at ancina.debian.org>
-To: nchip at kos.to, logs at buildd.debian.org, zumbi at kos.to
-Subject: Log for successful build of bwa_0.5.9-2 on armel (dist=sid)
-Content-Type: text/plain; charset=UTF-8
-Content-Transfer-Encoding: 8bit
-Message-Id: <E1PyRtq-0006mX-43 at ancina.debian.org>
-Date: Sat, 12 Mar 2011 16:42:42 +0000
+To: buildd-porters at ancina.debian.org,logs at buildd.debian.org
+Subject: Log for successful build of bwa_0.5.10-1 on armel (dist=sid)
+Key-Id: 82E89EDA
+Message-Id: <E1RPoMH-0003TV-Ui at ancina.debian.org>
Delivered-To: logs at buildd.debian.org
-sbuild (Debian sbuild) 0.60.5 (14 Nov 2010) on ancina.debian.org
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on ancina.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bwa 0.5.9-2 (armel) 12 Mar 2011 16:39 ║
+║ bwa 0.5.10-1 (armel) 14 Nov 2011 04:38 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bwa
-Version: 0.5.9-2
+Version: 0.5.10-1
+Source Version: 0.5.10-1
Architecture: armel
-Chroot Build Dir: /var/lib/schroot/mount/sid-armel-sbuild-759e875c-3a5c-4544-8c5b-9dbf30d57b9b/build/buildd-bwa_0.5.9-2-armel-i0oXM5
-Start Time: 20110312-1639
Hit http://ftp.de.debian.org sid InRelease
Hit http://incoming.debian.org sid InRelease
Ign http://incoming.debian.org InRelease
-Get:1 http://incoming.debian.org Release.gpg [835 B]
+Get:1 http://incoming.debian.org Release.gpg [836 B]
Get:2 http://incoming.debian.org Release [1604 B]
Hit http://ftp.de.debian.org sid/main Sources/DiffIndex
Hit http://ftp.de.debian.org sid/contrib Sources/DiffIndex
@@ -49,17 +51,17 @@ Hit http://ftp.de.debian.org sid/contrib armel Packages/DiffIndex
Ign http://ftp.de.debian.org sid/contrib TranslationIndex
Hit http://ftp.de.debian.org sid/main TranslationIndex
Hit http://incoming.debian.org sid/main Sources/DiffIndex
-Ign http://ftp.de.debian.org sid/contrib Translation-en
Hit http://incoming.debian.org sid/contrib Sources/DiffIndex
Hit http://incoming.debian.org sid/main armel Packages/DiffIndex
Hit http://incoming.debian.org sid/contrib armel Packages/DiffIndex
+Ign http://ftp.de.debian.org sid/contrib Translation-en
Ign http://incoming.debian.org sid/contrib TranslationIndex
Hit http://incoming.debian.org sid/main TranslationIndex
-Get:3 http://incoming.debian.org Sources [29.0 kB]
-Get:4 http://incoming.debian.org Packages [391 kB]
+Get:3 http://incoming.debian.org Sources [37.6 kB]
+Get:4 http://incoming.debian.org Packages [341 kB]
Ign http://incoming.debian.org Translation-en
Ign http://incoming.debian.org sid/contrib Translation-en
-Fetched 423 kB in 9s (43.2 kB/s)
+Fetched 381 kB in 12s (29.3 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -79,105 +81,91 @@ Reading package lists...
Building dependency tree...
Reading state information...
NOTICE: 'bwa' packaging is maintained in the 'Git' version control system at:
-git://git.debian.org/git/debian-med/bwa.git
-Need to get 119 kB of source archives.
-Get:1 http://ftp.de.debian.org/debian/ sid/main bwa 0.5.9-2 (dsc) [1245 B]
-Get:2 http://ftp.de.debian.org/debian/ sid/main bwa 0.5.9-2 (tar) [114 kB]
-Get:3 http://ftp.de.debian.org/debian/ sid/main bwa 0.5.9-2 (diff) [3828 B]
-Fetched 119 kB in 0s (458 kB/s)
+git://git.debian.org/debian-med/bwa.git
+Need to get 126 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (dsc) [1929 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (tar) [120 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (diff) [4113 B]
+Fetched 126 kB in 0s (175 kB/s)
Download complete and in download only mode
Check arch
──────────
-** Using build dependencies supplied by package:
-Build-Depends: debhelper (>= 8), zlib1g-dev
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install build dependencies (internal resolver) │
+│ Install core build dependencies (internal resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
-Checking for already installed source dependencies...
-debhelper: missing
-Using default version 8.1.2
-zlib1g-dev: missing
-Checking for source dependency conflicts...
-Installing positive dependencies: debhelper zlib1g-dev
+Build-Depends: build-essential, fakeroot
+Checking for already installed dependencies...
+build-essential: already installed (11.5)
+fakeroot: already installed (1.18.1-1)
+Checking for dependency conflicts...
+Installing positive dependencies:
Reading package lists...
Building dependency tree...
Reading state information...
-The following extra packages will be installed:
- file gettext gettext-base groff-base html2text intltool-debian libcroco3
- libglib2.0-0 libmagic1 libpipeline1 libunistring0 libxml2 man-db po-debconf
-Suggested packages:
- dh-make gettext-doc groff less www-browser libmail-box-perl
-Recommended packages:
- curl wget lynx-cur autopoint libglib2.0-data shared-mime-info xml-core
- libmail-sendmail-perl
-The following NEW packages will be installed:
- debhelper file gettext gettext-base groff-base html2text intltool-debian
- libcroco3 libglib2.0-0 libmagic1 libpipeline1 libunistring0 libxml2 man-db
- po-debconf zlib1g-dev
-debconf: delaying package configuration, since apt-utils is not installed
-0 upgraded, 16 newly installed, 0 to remove and 3 not upgraded.
-Need to get 0 B/8436 kB of archives.
-After this operation, 25.3 MB of additional disk space will be used.
-Selecting previously deselected package groff-base.
-(Reading database ... 10888 files and directories currently installed.)
-Unpacking groff-base (from .../groff-base_1.21-4_armel.deb) ...
-Selecting previously deselected package libpipeline1.
-Unpacking libpipeline1 (from .../libpipeline1_1.1.0-1_armel.deb) ...
-Selecting previously deselected package man-db.
-Unpacking man-db (from .../man-db_2.5.9-4_armel.deb) ...
-Selecting previously deselected package libmagic1.
-Unpacking libmagic1 (from .../libmagic1_5.04-5_armel.deb) ...
-Selecting previously deselected package file.
-Unpacking file (from .../archives/file_5.04-5_armel.deb) ...
-Selecting previously deselected package gettext-base.
-Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_armel.deb) ...
-Selecting previously deselected package libxml2.
-Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_armel.deb) ...
-Selecting previously deselected package html2text.
-Unpacking html2text (from .../html2text_1.3.2a-15_armel.deb) ...
-Selecting previously deselected package libglib2.0-0.
-Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.1-1+b1_armel.deb) ...
-Selecting previously deselected package libcroco3.
-Unpacking libcroco3 (from .../libcroco3_0.6.2-1_armel.deb) ...
-Selecting previously deselected package libunistring0.
-Unpacking libunistring0 (from .../libunistring0_0.9.3-3_armel.deb) ...
-Selecting previously deselected package gettext.
-Unpacking gettext (from .../gettext_0.18.1.1-3_armel.deb) ...
-Selecting previously deselected package intltool-debian.
-Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ...
-Selecting previously deselected package po-debconf.
-Unpacking po-debconf (from .../po-debconf_1.0.16+nmu1_all.deb) ...
-Selecting previously deselected package debhelper.
-Unpacking debhelper (from .../debhelper_8.1.2_all.deb) ...
-Selecting previously deselected package zlib1g-dev.
-Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_armel.deb) ...
-Setting up groff-base (1.21-4) ...
-Setting up libpipeline1 (1.1.0-1) ...
-Setting up man-db (2.5.9-4) ...
-Building database of manual pages ...
-Setting up libmagic1 (5.04-5) ...
-Setting up file (5.04-5) ...
-Setting up gettext-base (0.18.1.1-3) ...
-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) ...
-No schema files found: doing nothing.
-Setting up libcroco3 (0.6.2-1) ...
-Setting up libunistring0 (0.9.3-3) ...
-Setting up gettext (0.18.1.1-3) ...
-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 zlib1g-dev (1:1.2.3.4.dfsg-3) ...
+0 upgraded, 0 newly installed, 0 to remove and 27 not upgraded.
Removing negative dependencies:
-Checking correctness of source dependencies...
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 27 not upgraded.
+Checking correctness of dependencies...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install bwa build dependencies (internal 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), zlib1g-dev
+Checking for already installed dependencies...
+base-files: already installed (6.5)
+base-passwd: already installed (3.5.23)
+bash: already installed (4.1-3)
+coreutils: already installed (8.13-3)
+dash: already installed (0.5.7-2)
+debianutils: already installed (4.0.4)
+diffutils: already installed (1:3.2-1)
+dpkg: already installed (1.16.1.1)
+e2fsprogs: already installed (1.42~WIP-2011-10-16-1)
+findutils: already installed (4.4.2-1+b1)
+grep: already installed (2.9-2)
+gzip: already installed (1.4-1)
+hostname: already installed (3.06)
+ncurses-base: already installed (5.9-2)
+ncurses-bin: already installed (5.9-4)
+perl-base: already installed (5.12.4-6)
+sed: already installed (4.2.1-9)
+login: already installed (1:4.1.4.2+svn3283-3)
+sysvinit-utils: already installed (2.88dsf-13.12)
+sysvinit: already installed (2.88dsf-13.12)
+tar: already installed (1.26-2)
+bsdutils: already installed (1:2.19.1-5)
+mount: already installed (2.19.1-5)
+util-linux: already installed (2.19.1-5)
+libc6-dev: already installed (2.13-21)
+gcc: already installed (4:4.6.1-3 >= 4:4.4.3 is satisfied)
+g++: already installed (4:4.6.1-3 >= 4:4.4.3 is satisfied)
+make: already installed (3.81-8.1)
+dpkg-dev: already installed (1.16.1.1 >= 1.13.5 is satisfied)
+debhelper: already installed (8.9.8 >= 8 is satisfied)
+zlib1g-dev: already installed (1:1.2.3.4.dfsg-3)
+Checking for dependency conflicts...
+Installing positive dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 27 not upgraded.
+Removing negative dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 27 not upgraded.
+Checking correctness of dependencies...
Kernel: Linux 2.6.31-rc9 armel (armv5tel)
-Toolchain package versions: libc6-dev_2.11.2-13 dpkg-dev_1.15.8.10 linux-libc-dev_2.6.37-2 gcc-4.5_4.5.2-5 g++-4.5_4.5.2-5 binutils_2.21.0.20110302-1 libstdc++6-4.5-dev_4.5.2-5 libstdc++6_4.5.2-5
-Package versions: apt_0.8.11.5 base-files_6.1 base-passwd_3.5.22 bash_4.1-3 binutils_2.21.0.20110302-1 bsdmainutils_8.2.2 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 coreutils_8.5-1 cpio_2.11-7 cpp_4:4.5.2-2 cpp-4.5_4.5.2-5 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 dmsetup_2:1.02.63-2 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_4.5.2-5 gawk_1:3.1.7.dfsg-5 gcc_4:4.5.2-2 gcc-4.2-base_4.2.4-6 gcc-4.4-base_4.4.5-13 gcc-4.5_4.5.2-5 gcc-4.5-base_4.5.2-5 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_3.06 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 libcloog-ppl0_0.15.9-2 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libdb4.7_4.7.25-12 libdb4.8_4.8.30-5 libdevmapper1.02.1_2:1.02.63-2 libdpkg-perl_1.15.8.10 libelfg0_0.8.13-1 libgc1c2_1:7.1-7 libgcc1_1:4.5.2-5 libgcrypt11_1.4.6-5 libgdbm3_1.8.3-9 libglib2.0-0_2.28.1-1+b1 libgmp10_2:5.0.1+dfsg-6 libgmp3c2_2:4.3.2+dfsg-1 libgmpxx4ldbl_2:5.0.1+dfsg-6 libgnutls26_2.10.5-1 libgomp1_4.5.2-5 libgpg-error0_1.10-0.3 libgpm2_1.20.4-3.3 libldap-2.4-2_2.4.23-7 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 libncursesw5_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_1.1.0-1 libpng12-0_1.2.44-1 libppl-c2_0.10.2-9 libppl7_0.10.2-9 libreadline6_6.1-3 libsasl2-2_2.1.23.dfsg1-7 libselinux1_2.0.96-1 libsepol1_2.0.42-1 libslang2_2.2.2-4 libss2_1.41.12-2 libssl0.9.8_0.9.8o-5 libstdc++6_4.5.2-5 libstdc++6-4.5-dev_4.5.2-5 libtasn1-3_2.9-2 libtext-charwidth-perl_0.04-6 libtext-iconv-perl_1.7-2 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libudev0_166-1 libunistring0_0.9.3-3 libusb-0.1-4_2:0.1.12-17 libuuid1_2.17.2-9.1 libvolume-id1_0.141-2 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_5.8+20110307-1 ncurses-bin_5.8+20110307-1 netbase_4.45 nullmailer_1:1.04-1.2 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 procps_1:3.2.8-10 psmisc_22.13-1 readline-common_6.1-3 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.7.4p6-1 sysv-rc_2.88dsf-13.1 sysvinit_2.88dsf-13.1 sysvinit-utils_2.88dsf-13.1 tar_1.25-3 tzdata_2011c-1 util-linux_2.17.2-9.1 wget_1.12-2.1 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+Toolchain package versions: binutils_2.21.90.20111025-1 dpkg-dev_1.16.1.1 g++-4.6_4.6.2-4 gcc-4.6_4.6.2-4 libc6-dev_2.13-21 libstdc++6_4.6.2-4 libstdc++6-4.6-dev_4.6.2-4 linux-libc-dev_3.0.0-5
+Package versions: apex-nslu2_1.6.10 apt_0.8.15.9 apt-utils_0.8.15.9 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 bc_1.06.95-2 bf-utf-source_0.05-0.1 binutils_2.21.90.20111025-1 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 ca-certificates_20111022 cmake_2.8.5-1 cmake-data_2.8.5-1 coreutils_8.13-3 cpio_2.11-7 cpp_4:4.6.1-3 cpp-4.6_4.6.2-4 cramfsprogs_1.1-6 dash_0.5.7-2 dctrl-tools_2.19 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.8 debian-archive-keyring_2010.08.28 debiandoc-sgml_1.2.25 debianutils_4.0.4 devio_1.2-1+b1 diffutils_1:3.2-1 dmsetup_2:1.02.67-1 dns323-firmware-tools_0.3-2 docbook-xml_4.5-7 docbook-xsl_1.75.2+dfsg-5 dpkg_1.16.1.1 dpkg-dev_1.16.1.1 e2fslibs_1.42~WIP-2011-10-16-1 e2fsprogs_1.42~WIP-2011-10-16-1 emacsen-common_1.4.22 fakeroot_1.18.1-1 file_5.09-2 findutils_4.4.2-1+b1 fontconfig_2.8.0-3 fontconfig-config_2.8.0-3 g++_4:4.6.1-3 g++-4.6_4.6.2-4 gawk_1:3.1.8+dfsg-0.1 gcc_4:4.6.1-3 gcc-4.2-base_4.2.4-6 gcc-4.4-base_4.4.6-11 gcc-4.5-base_4.5.3-9 gcc-4.6_4.6.2-4 gcc-4.6-base_4.6.2-4 generatorrunner_0.6.14-2 genext2fs_1.4.1-3 genisoimage_9:1.1.11-2 gettext_0.18.1.1-5 gettext-base_0.18.1.1-5 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.12 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-4 libapiextractor-dev_0.10.8-1 libapiextractor0.10_0.10.8-1 libarchive1_2.8.5-3+b1 libattr1_1:2.4.46-3 libaudio2_1.9.3-1 libblkid1_2.19.1-5 libbogl-dev_0.1.18-5 libbogl0_0.1.18-5 libbz2-1.0_1.0.5-7 libc-bin_2.13-21 libc-dev-bin_2.13-21 libc6_2.13-21 libc6-dev_2.13-21 libc6-pic_2.13-21 libcomerr2_1.42~WIP-2011-10-16-1 libcroco3_0.6.2-2 libcurl3_7.21.7-3 libcurl3-gnutls_7.21.7-3 libdb4.8_4.8.30-10 libdb5.1_5.1.25-11 libdbus-1-3_1.4.16-1 libdevmapper1.02.1_2:1.02.67-1 libdpkg-perl_1.16.1.1 libexpat1_2.0.1-7 libexpat1-dev_2.0.1-7 libfontconfig1_2.8.0-3 libfreetype6_2.4.7-2 libgc1c2_1:7.1-8 libgcc1_1:4.6.2-4 libgcrypt11_1.5.0-3 libgd2-noxpm_2.0.36~rc1~dfsg-6 libgdbm3_1.8.3-10 libgenrunner-dev_0.6.14-2 libgenrunner0.6_0.6.14-2 libglib2.0-0_2.28.8-1 libgmp10_2:5.0.2+dfsg-2 libgnutls26_2.12.14-2 libgomp1_4.6.2-4 libgpg-error0_1.10-1 libgpm2_1.20.4-4 libgssapi-krb5-2_1.9.1+dfsg-3 libhtml-parser-perl_3.69-1 libhtml-tagset-perl_3.20-2 libice6_2:1.0.7-2 libidn11_1.22-3 libjpeg8_8c-2 libk5crypto3_1.9.1+dfsg-3 libkeyutils1_1.5.2-2 libkrb5-3_1.9.1+dfsg-3 libkrb5support0_1.9.1+dfsg-3 liblcms1_1.19.dfsg-1+b1 libldap-2.4-2_2.4.25-4 liblzma2_5.1.1alpha+20110809-2 liblzma5_5.1.1alpha+20110809-3 libmagic1_5.09-2 libmng1_1.0.10-3 libmount1_2.19.1-5 libmpc2_0.9-4 libmpfr4_3.1.0-2 libncurses5_5.9-4 libncursesw5_5.9-4 libnewt-dev_0.52.11-2.1 libnewt-pic_0.52.11-2.1 libnewt0.52_0.52.11-2.1 libp11-kit0_0.8-2 libpam-modules_1.1.3-4 libpam-modules-bin_1.1.3-4 libpam-runtime_1.1.3-4 libpam0g_1.1.3-5 libpcre3_8.12-4 libpipeline1_1.2.0-3 libpng12-0_1.2.46-3 libpng12-dev_1.2.46-3 libpython2.6_2.6.7-4 libpython2.7_2.7.2-7 libqt4-dbus_4:4.7.3-8 libqt4-declarative_4:4.7.3-8 libqt4-designer_4:4.7.3-8 libqt4-dev_4:4.7.3-8 libqt4-help_4:4.7.3-8 libqt4-network_4:4.7.3-8 libqt4-qt3support_4:4.7.3-8 libqt4-script_4:4.7.3-8 libqt4-scripttools_4:4.7.3-8 libqt4-sql_4:4.7.3-8 libqt4-svg_4:4.7.3-8 libqt4-test_4:4.7.3-8 libqt4-xml_4:4.7.3-8 libqt4-xmlpatterns_4:4.7.3-8 libqtcore4_4:4.7.3-8 libqtgui4_4:4.7.3-8 libreadline5_5.2-11 libreadline6_6.2-7 libroman-perl_1.23-1 librtmp0_2.4~20110711.gitc28f1bab-1 libruby1.8_1.8.7.352-2 libsasl2-2_2.1.25.dfsg1-2 libselinux1_2.1.0-4 libsepol1_2.1.0-1.1 libsgmls-perl_1.03ii-32 libsigsegv2_2.9-4 libslang2_2.2.4-3 libslang2-dev_2.2.4-3 libslang2-pic_2.2.4-3 libsm6_2:1.2.0-2 libsp1c2_1.3.4-1.2.1-47.1 libsparsehash-dev_1.10-1 libsqlite3-0_3.7.9-2 libss2_1.42~WIP-2011-10-16-1 libssh2-1_1.2.8-2 libssl-dev_1.0.0e-2.1 libssl1.0.0_1.0.0e-2.1 libstdc++6_4.6.2-4 libstdc++6-4.6-dev_4.6.2-4 libtasn1-3_2.10-1 libtext-format-perl_0.53-1 libtiff4_3.9.5-2 libtimedate-perl_1.2000-1 libtinfo5_5.9-4 libudev0_172-1 libunistring0_0.9.3-4 liburi-perl_1.59-1 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libvolume-id1_0.141-2 libx11-6_2:1.4.4-4 libx11-data_2:1.4.4-2 libxau6_1:1.0.6-4+b1 libxcb1_1.7-4+b1 libxdmcp6_1:1.1.0-4 libxext6_2:1.3.0-3 libxml2_2.7.8.dfsg-5 libxmlrpc-core-c3_1.16.33-3.1 libxrender1_1:0.9.6-2 libxslt1.1_1.1.26-8 libxt6_1:1.1.1-2 linux-libc-dev_3.0.0-5 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-16 mime-support_3.51-1 mklibs_0.1.33 mklibs-copy_0.1.33 module-init-tools_3.16-1 mount_2.19.1-5 multiarch-support_2.13-21 ncurses-base_5.9-2 ncurses-bin_5.9-4 netbase_4.46 nullmailer_1:1.05-1 openssl_1.0.0e-2 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-6 perl-base_5.12.4-6 perl-modules_5.12.4-6 po-debconf_1.0.16+nmu1 procps_1:3.2.8-11 psmisc_22.14-1 python_2.7.2-9 python-all_2.7.2-9 python-all-dbg_2.7.2-9 python-all-dev_2.7.2-9 python-dbg_2.7.2-9 python-dev_2.7.2-9 python-minimal_2.7.2-9 python2.6_2.6.7-4 python2.6-dbg_2.6.7-4 python2.6-dev_2.6.7-4 python2.6-minimal_2.6.7-4 python2.7_2.7.2-7 python2.7-dbg_2.7.2-7 python2.7-dev_2.7.2-7 python2.7-minimal_2.7.2-7 qt4-linguist-tools_4:4.7.3-8 qt4-qmake_4:4.7.3-8 readline-common_6.2-7 ruby1.8_1.8.7.352-2 sed_4.2.1-9 sensible-utils_0.0.6 sgml-base_1.26+nmu1 sgml-data_2.0.6 sgmlspl_1.03ii-32 slugimage_1:0.0+r104-5 sp_1.3.4-1.2.1-47.1 sudo_1.8.3-1 sysv-rc_2.88dsf-13.12 sysvinit_2.88dsf-13.12 sysvinit-utils_2.88dsf-13.12 tar_1.26-2 ttf-dejavu-core_2.33-2 tzdata_2011n-1 u-boot-tools_2011.09-1 uboot-mkimage_2011.09-1 ucf_3.0025+nmu2 util-linux_2.19.1-5 wget_1.13.4-1 x11-common_1:7.6+9 xml-core_0.13 xsltproc_1.1.26-8 xz-utils_5.1.1alpha+20110809-3 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -187,14 +175,13 @@ 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: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
-gpgv: Signature made Fri Mar 11 21:59:41 2011 UTC using DSA key ID C09FD35A
+gpgv: Signature made Mon Nov 14 04:21:35 2011 UTC using RSA key ID 2295D502
gpgv: Can't check signature: public key not found
-dpkg-source: warning: failed to verify signature on ./bwa_0.5.9-2.dsc
-dpkg-source: info: extracting bwa in bwa-0.5.9
-dpkg-source: info: unpacking bwa_0.5.9.orig.tar.bz2
-dpkg-source: info: unpacking bwa_0.5.9-2.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bwa_0.5.10-1.dsc
+dpkg-source: info: extracting bwa in bwa-0.5.10
+dpkg-source: info: unpacking bwa_0.5.10.orig.tar.bz2
+dpkg-source: info: unpacking bwa_0.5.10-1.debian.tar.gz
Check disc space
────────────────
@@ -203,42 +190,43 @@ Check disc space
dpkg-buildpackage
─────────────────
-dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
-dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
-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 bwa
-dpkg-buildpackage: source version 0.5.9-2
- dpkg-source --before-build bwa-0.5.9
+dpkg-buildpackage: source version 0.5.10-1
+ dpkg-source --before-build bwa-0.5.10
dpkg-buildpackage: host architecture armel
- /usr/bin/fakeroot debian/rules clean
+ fakeroot debian/rules clean
dh clean
dh_testdir
dh_auto_clean
-make[1]: Entering directory `/build/buildd-bwa_0.5.9-2-armel-i0oXM5/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-armel-i0oXM5/bwa-0.5.9'
+make[1]: Entering directory `/build/buildd-bwa_0.5.10-1-armel-Ih7NSm/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-armel-Ih7NSm/bwa-0.5.10'
rm -f gmon.out *.o a.out bwa *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-armel-i0oXM5/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-armel-i0oXM5/bwa-0.5.9/bwt_gen'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-armel-Ih7NSm/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-armel-Ih7NSm/bwa-0.5.10/bwt_gen'
rm -f gmon.out *.o a.out *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-armel-i0oXM5/bwa-0.5.9/bwt_gen'
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9-2-armel-i0oXM5/bwa-0.5.9'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-armel-Ih7NSm/bwa-0.5.10/bwt_gen'
+make[1]: Leaving directory `/build/buildd-bwa_0.5.10-1-armel-Ih7NSm/bwa-0.5.10'
dh_clean
debian/rules build
dh build
dh_testdir
dh_auto_configure
dh_auto_build
-make[1]: Entering directory `/build/buildd-bwa_0.5.9-2-armel-i0oXM5/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-armel-i0oXM5/bwa-0.5.9'
+make[1]: Entering directory `/build/buildd-bwa_0.5.10-1-armel-Ih7NSm/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-armel-Ih7NSm/bwa-0.5.10'
make[2]: Nothing to be done for `lib'.
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-armel-i0oXM5/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-armel-i0oXM5/bwa-0.5.9/bwt_gen'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-armel-Ih7NSm/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-armel-Ih7NSm/bwa-0.5.10/bwt_gen'
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt_gen.c -o bwt_gen.o
+bwt_gen.c: In function 'BWTIncBuildRelativeRank':
+bwt_gen.c:824:15: warning: variable 'oldInverseSa0RelativeRank' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncMergeBwt':
+bwt_gen.c:899:15: warning: variable 'bitsInWordMinusBitPerChar' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD QSufSort.c -o QSufSort.o
-ar -cru libbwtgen.a bwt_gen.o QSufSort.o
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-armel-i0oXM5/bwa-0.5.9/bwt_gen'
+QSufSort.c: In function 'QSufSortSuffixSort':
+QSufSort.c:89:6: warning: variable 'maxNumInputSymbol' set but not used [-Wunused-but-set-variable]
+ar -scru libbwtgen.a bwt_gen.o QSufSort.o
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-armel-Ih7NSm/bwa-0.5.10/bwt_gen'
gcc -c -g -Wall -O2 -DHAVE_PTHREAD utils.c -o utils.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt.c -o bwt.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtio.c -o bwtio.o
@@ -247,25 +235,37 @@ gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtgap.c -o bwtgap.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD is.c -o is.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bntseq.c -o bntseq.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtmisc.c -o bwtmisc.o
+bwtmisc.c: In function 'bwa_pac_rev_core':
+bwtmisc.c:163:20: warning: variable 'j' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtindex.c -o bwtindex.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD stdaln.c -o stdaln.o
+stdaln.c: In function 'aln_local_core':
+stdaln.c:545:25: warning: variable 'b' set but not used [-Wunused-but-set-variable]
+stdaln.c: In function 'aln_extend_core':
+stdaln.c:865:16: warning: variable 'tmp_len' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD simple_dp.c -o simple_dp.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwaseqio.c -o bwaseqio.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwase.c -o bwase.o
+bwase.c: In function 'bwa_aln2seq_core':
+bwase.c:75:15: warning: variable 'k' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_print_sam1':
+bwase.c:452:17: warning: variable 'm_is_N' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwape.c -o bwape.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD kstring.c -o kstring.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD cs2nt.c -o cs2nt.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_core.c -o bwtsw2_core.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_main.c -o bwtsw2_main.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_aux.c -o bwtsw2_aux.o
+bwtsw2_aux.c: In function 'gen_cigar':
+bwtsw2_aux.c:193:7: warning: variable 'score' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt_lite.c -o bwt_lite.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_chain.c -o bwtsw2_chain.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bamlite.c -o bamlite.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD main.c -o main.o
gcc -g -Wall -O2 -DHAVE_PTHREAD utils.o bwt.o bwtio.o bwtaln.o bwtgap.o is.o bntseq.o bwtmisc.o bwtindex.o stdaln.o simple_dp.o bwaseqio.o bwase.o bwape.o kstring.o cs2nt.o bwtsw2_core.o bwtsw2_main.o bwtsw2_aux.o bwt_lite.o bwtsw2_chain.o bamlite.o main.o -o bwa -lm -lz -lpthread -Lbwt_gen -lbwtgen
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9-2-armel-i0oXM5/bwa-0.5.9'
+make[1]: Leaving directory `/build/buildd-bwa_0.5.10-1-armel-Ih7NSm/bwa-0.5.10'
dh_auto_test
- /usr/bin/fakeroot debian/rules binary-arch
+ fakeroot debian/rules binary-arch
dh binary-arch
dh_testroot -a
dh_prep -a
@@ -293,7 +293,9 @@ dh binary-arch
dh_installudev -a
dh_installwm -a
dh_installxfonts -a
+ dh_installgsettings -a
dh_bugfiles -a
+ dh_ucf -a
dh_lintian -a
dh_gconf -a
dh_icons -a
@@ -310,57 +312,61 @@ dh binary-arch
dpkg-gencontrol: warning: package bwa: unused substitution variable ${perl:Depends}
dh_md5sums -a
dh_builddeb -a
-dpkg-deb: building package `bwa' in `../bwa_0.5.9-2_armel.deb'.
- dpkg-genchanges -B -marmel Build Daemon (ancina) <buildd_armel-ancina at buildd.debian.org> >../bwa_0.5.9-2_armel.changes
+dpkg-deb: building package `bwa' in `../bwa_0.5.10-1_armel.deb'.
+ dpkg-genchanges -B -marmel Build Daemon (ancina) <buildd_armel-ancina at buildd.debian.org> >../bwa_0.5.10-1_armel.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 bwa-0.5.9
+ dpkg-source --after-build bwa-0.5.10
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110312-1642
+Build finished at 20111114-0441
-bwa_0.5.9-2_armel.changes:
+bwa_0.5.10-1_armel.changes:
Format: 1.8
-Date: Fri, 11 Mar 2011 22:49:07 +0100
+Date: Mon, 14 Nov 2011 13:12:50 +0900
Source: bwa
Binary: bwa
Architecture: armel
-Version: 0.5.9-2
+Version: 0.5.10-1
Distribution: sid
Urgency: low
Maintainer: armel Build Daemon (ancina) <buildd_armel-ancina at buildd.debian.org>
-Changed-By: Andreas Tille <tille at debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
Description:
bwa - Burrows-Wheeler Aligner
Changes:
- bwa (0.5.9-2) unstable; urgency=low
+ bwa (0.5.10-1) unstable; urgency=low
.
- * Watchfile should not regard rc releases.
- * Drop cdbs in favour of dh
+ [a01f6ca] New upstream release.
+ [6d7bc7f] Conforms with Debian Policy version 3.9.2.
+ [125c73d] Corrected Vcs-Git URL.
+ [37f43c9] Normalised machine-readable copyright file with config-edit.
+ [4e2e0d0] Distribute xa2multi.pl in ‘usr/share/bwa’.
+ [b106d64] Removed redundant ChangeLog file, already installed by Debhelper.
Checksums-Sha1:
- 3191c3e8c275550bf53f24c50c306d7612e93ec3 142398 bwa_0.5.9-2_armel.deb
+ 5e5b84b28c09e0a1cb51db5e77a5dcbad15d47fe 138288 bwa_0.5.10-1_armel.deb
Checksums-Sha256:
- 231417aee63684dabc94b098cea210978bf1589f713ffdeacbf855ff0af402e7 142398 bwa_0.5.9-2_armel.deb
+ c98aceeb9ccb708d8e4d4709e0a6cfa3d9797fe14f291fa8b2191962767b87f6 138288 bwa_0.5.10-1_armel.deb
Files:
- b59384fd8cf3f12829a20a17beeb9b5c 142398 science optional bwa_0.5.9-2_armel.deb
+ 0b93acf76c4a2f26242077b1544a1de8 138288 science optional bwa_0.5.10-1_armel.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bwa_0.5.9-2_armel.deb
-─────────────────────
+bwa_0.5.10-1_armel.deb
+──────────────────────
new debian package, version 2.0.
- size 142398 bytes: control archive= 980 bytes.
- 774 bytes, 17 lines control
- 615 bytes, 10 lines md5sums
+ size 138288 bytes: control archive= 995 bytes.
+ 775 bytes, 17 lines control
+ 610 bytes, 10 lines md5sums
Package: bwa
- Version: 0.5.9-2
+ Version: 0.5.10-1
Architecture: armel
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 316
+ Installed-Size: 274
Depends: libc6 (>= 2.7), zlib1g (>= 1:1.1.4)
Suggests: samtools
Section: science
@@ -374,25 +380,25 @@ bwa_0.5.9-2_armel.deb
to around 100 kbp. Both algorithms do gapped alignment. They are usually more
accurate and faster on queries with low error rates.
-drwxr-xr-x root/root 0 2011-03-12 16:42 ./
-drwxr-xr-x root/root 0 2011-03-12 16:42 ./usr/
-drwxr-xr-x root/root 0 2011-03-12 16:42 ./usr/bin/
--rwxr-xr-x root/root 198312 2011-03-12 16:42 ./usr/bin/bwa
-drwxr-xr-x root/root 0 2011-03-12 16:42 ./usr/share/
-drwxr-xr-x root/root 0 2011-03-12 16:42 ./usr/share/man/
-drwxr-xr-x root/root 0 2011-03-12 16:42 ./usr/share/man/man1/
--rw-r--r-- root/root 7554 2011-03-12 16:42 ./usr/share/man/man1/bwa.1.gz
-drwxr-xr-x root/root 0 2011-03-12 16:42 ./usr/share/bwa/
--rwxr-xr-x root/root 616 2011-01-25 00:00 ./usr/share/bwa/qualfa2fq.pl
--rwxr-xr-x root/root 3176 2011-01-25 00:00 ./usr/share/bwa/solid2fastq.pl
-drwxr-xr-x root/root 0 2011-03-12 16:42 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-03-12 16:42 ./usr/share/doc/bwa/
--rw-r--r-- root/root 5857 2011-01-25 00:00 ./usr/share/doc/bwa/NEWS.gz
--rw-r--r-- root/root 957 2011-03-11 21:54 ./usr/share/doc/bwa/changelog.Debian.gz
--rw-r--r-- root/root 17912 2011-01-25 00:00 ./usr/share/doc/bwa/changelog.gz
--rw-r--r-- root/root 634 2011-01-25 00:00 ./usr/share/doc/bwa/README
--rw-r--r-- root/root 2676 2011-02-08 07:09 ./usr/share/doc/bwa/copyright
--rw-r--r-- root/root 17912 2011-01-25 00:00 ./usr/share/doc/bwa/ChangeLog.gz
+drwxr-xr-x root/root 0 2011-11-14 04:40 ./
+drwxr-xr-x root/root 0 2011-11-14 04:40 ./usr/
+drwxr-xr-x root/root 0 2011-11-14 04:41 ./usr/bin/
+-rwxr-xr-x root/root 198360 2011-11-14 04:41 ./usr/bin/bwa
+drwxr-xr-x root/root 0 2011-11-14 04:40 ./usr/share/
+drwxr-xr-x root/root 0 2011-11-14 04:40 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-11-14 04:41 ./usr/share/man/man1/
+-rw-r--r-- root/root 7554 2011-11-14 04:40 ./usr/share/man/man1/bwa.1.gz
+drwxr-xr-x root/root 0 2011-11-14 04:40 ./usr/share/bwa/
+-rwxr-xr-x root/root 616 2011-11-13 01:07 ./usr/share/bwa/qualfa2fq.pl
+-rwxr-xr-x root/root 3176 2011-11-13 01:07 ./usr/share/bwa/solid2fastq.pl
+-rwxr-xr-x root/root 730 2011-11-13 01:07 ./usr/share/bwa/xa2multi.pl
+drwxr-xr-x root/root 0 2011-11-14 04:40 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-11-14 04:41 ./usr/share/doc/bwa/
+-rw-r--r-- root/root 5857 2011-11-13 01:08 ./usr/share/doc/bwa/NEWS.gz
+-rw-r--r-- root/root 1159 2011-11-14 04:16 ./usr/share/doc/bwa/changelog.Debian.gz
+-rw-r--r-- root/root 17912 2011-11-13 01:07 ./usr/share/doc/bwa/changelog.gz
+-rw-r--r-- root/root 634 2011-11-13 01:07 ./usr/share/doc/bwa/README
+-rw-r--r-- root/root 2740 2011-11-14 04:09 ./usr/share/doc/bwa/copyright
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -401,34 +407,38 @@ drwxr-xr-x root/root 0 2011-03-12 16:42 ./usr/share/doc/bwa/
Built successfully
────────────────────────────────────────────────────────────────────────────────
-Purging /var/lib/schroot/mount/sid-armel-sbuild-759e875c-3a5c-4544-8c5b-9dbf30d57b9b/build/buildd-bwa_0.5.9-2-armel-i0oXM5
-(Reading database ... 12098 files and directories currently installed.)
-Removing zlib1g-dev ...
-Removing debhelper ...
-Removing po-debconf ...
-Removing man-db ...
-Purging configuration files for man-db ...
-Removing intltool-debian ...
-Removing groff-base ...
-Purging configuration files for groff-base ...
-Removing gettext ...
-Removing file ...
-Removing html2text ...
-Purging configuration files for html2text ...
-Removing gettext-base ...
-Removing libunistring0 ...
-Purging configuration files for libunistring0 ...
-Removing libcroco3 ...
-Purging configuration files for libcroco3 ...
-Removing libmagic1 ...
-Purging configuration files for libmagic1 ...
-Removing libpipeline1 ...
-Purging configuration files for libpipeline1 ...
-Removing libxml2 ...
-Purging configuration files for libxml2 ...
-Removing libglib2.0-0 ...
-Purging configuration files for libglib2.0-0 ...
-────────────────────────────────────────────────────────────────────────────────
-Finished at 20110312-1642
-Build needed 00:02:55, 2620k disc space
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /var/lib/schroot/mount/sid-armel-sbuild-2b189384-b91f-4db1-83ee-d01065ae0b59/build/buildd-bwa_0.5.10-1-armel-Ih7NSm
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 27 not upgraded.
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 27 not upgraded.
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Architecture: armel
+Build-Space: 2632
+Build-Time: 139
+Distribution: sid
+Install-Time: 19
+Job: bwa_0.5.10-1
+Package: bwa
+Package-Time: 197
+Source-Version: 0.5.10-1
+Space: 2632
+Status: successful
+Version: 0.5.10-1
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20111114-0441
+Build needed 00:03:17, 2632k disc space
+Signature with key '82E89EDA' requested:
diff --git a/hurd-i386.log b/hurd-i386.log
index 955e939..a28cf5c 100644
--- a/hurd-i386.log
+++ b/hurd-i386.log
@@ -1,67 +1,89 @@
-From buildd at mozart.debian.net Sat Mar 12 08:34:32 2011
-Return-path: <buildd at mozart.debian.net>
+From buildd at bach.debian.net Mon Nov 14 04:46:43 2011
+Return-path: <buildd at bach.debian.net>
Received: from callisto.debian.net ([80.87.129.151])
by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at mozart.debian.net>)
- id 1PyKHP-0000qs-Nm
- for logs at buildd.debian.org; Sat, 12 Mar 2011 08:34:32 +0000
-Received: from mozart.debian.net ([10.1.0.1])
+ (Exim 4.72) (envelope-from <buildd at bach.debian.net>)
+ id 1RPoRO-0001GT-Gw
+ for logs at buildd.debian.org; Mon, 14 Nov 2011 04:46:43 +0000
+Received: from bach.debian.net ([10.3.0.1])
by callisto.debian.net with esmtp (Exim 4.69)
- (envelope-from <buildd at mozart.debian.net>)
- id 1PyKHM-0002p4-2F; Sat, 12 Mar 2011 08:34:28 +0000
-Received: from buildd by mozart.debian.net with local (Exim 4.72)
- (envelope-from <buildd at mozart.debian.net>)
- id 1PyKHO-00078M-BD; Sat, 12 Mar 2011 08:34:30 +0000
-Date: Sat, 12 Mar 2011 08:34:30 +0000
-Message-Id: <E1PyKHO-00078M-BD at mozart.debian.net>
-From: Build Daemon <buildd at mozart.debian.net>
-To: samuel.thibault at labri.fr, mbanck at gmx.net, logs at debian-ports.org,
- logs at buildd.debian.org, debian-hurd-build-logs at lists.alioth.debian.org
-Subject: Log for successful build of bwa_0.5.9-2 on hurd-i386 (dist=sid)
+ (envelope-from <buildd at bach.debian.net>)
+ id 1RPoRM-0006Me-OA; Mon, 14 Nov 2011 04:46:40 +0000
+Received: from buildd by bach.debian.net with local (Exim 4.72)
+ (envelope-from <buildd at bach.debian.net>)
+ id 1RPoRO-0006VA-CE; Mon, 14 Nov 2011 04:46:42 +0000
+Date: Mon, 14 Nov 2011 04:46:42 +0000
+Message-Id: <E1RPoRO-0006VA-CE at bach.debian.net>
+From: Build Daemon <buildd at bach.debian.net>
+To: samuel.thibault at ens-lyon.org,mbanck at gmx.net,logs at buildd.debian.org
+Subject: Log for successful build of bwa_0.5.10-1 on hurd-i386 (dist=unstable)
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit
Delivered-To: logs at buildd.debian.org
-sbuild (Debian sbuild) 0.59.1 (31 Jan 2010) on mozart.debian.net
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on bach.debian.net
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bwa 0.5.9-2 (hurd-i386) 12 mars 2011 08:31 ║
+║ bwa 0.5.10-1 (hurd-i386) 14 nov. 2011 04:42 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bwa
-Version: 0.5.9-2
+Version: 0.5.10-1
+Source Version: 0.5.10-1
Architecture: hurd-i386
-Chroot Build Dir: /home/buildd/build/chroot-sid/build/buildd-bwa_0.5.9-2-hurd-i386-1stCUo
-Start Time: 20110312-0831
-Ign file: ./ InRelease
-Ign file: ./ Release.gpg
-Ign file: ./ Release
-Ign file: ./ Translation-en
-Hit http://ftp.uk.debian.org sid InRelease
+Get:1 http://ftp.uk.debian.org sid InRelease [146 kB]
+Get:2 http://ftp.fr.debian.org sid InRelease [146 kB]
+Ign http://incoming.debian.org InRelease
Ign http://ftp.debian-ports.org unreleased InRelease
+Get:3 http://incoming.debian.org Release.gpg [836 B]
+Get:4 http://ftp.uk.debian.org sid/main Sources/DiffIndex [2038 B]
Hit http://ftp.debian-ports.org unreleased Release.gpg
-Ign http://incoming.debian.org InRelease
-Hit http://ftp.debian-ports.org unreleased Release
-Hit http://ftp.uk.debian.org sid/main Sources/DiffIndex
-Hit http://incoming.debian.org Release.gpg
+Get:5 http://incoming.debian.org Release [1604 B]
+Get:6 http://ftp.fr.debian.org sid/main Sources/DiffIndex [2038 B]
Hit http://ftp.uk.debian.org sid/contrib Sources/DiffIndex
Hit http://ftp.uk.debian.org sid/non-free Sources/DiffIndex
-Hit http://ftp.uk.debian.org sid/main hurd-i386 Packages/DiffIndex
+Get:7 http://ftp.uk.debian.org sid/main hurd-i386 Packages/DiffIndex [2038 B]
Hit http://ftp.uk.debian.org sid/contrib hurd-i386 Packages/DiffIndex
Hit http://ftp.uk.debian.org sid/non-free hurd-i386 Packages/DiffIndex
Ign http://ftp.uk.debian.org sid/contrib TranslationIndex
-Hit http://ftp.uk.debian.org sid/main TranslationIndex
+Get:8 http://ftp.uk.debian.org sid/main TranslationIndex [2045 B]
Ign http://ftp.uk.debian.org sid/non-free TranslationIndex
-Hit http://ftp.debian-ports.org unreleased/main hurd-i386 Packages
-Hit http://incoming.debian.org Release
-Ign http://ftp.debian-ports.org unreleased/main TranslationIndex
+Hit http://ftp.debian-ports.org unreleased Release
+Get:9 http://incoming.debian.org Sources [37.6 kB]
+Hit http://ftp.fr.debian.org sid/contrib Sources/DiffIndex
+Hit http://ftp.fr.debian.org sid/non-free Sources/DiffIndex
+Get:10 http://ftp.fr.debian.org sid/main hurd-i386 Packages/DiffIndex [2038 B]
+Hit http://ftp.fr.debian.org sid/contrib hurd-i386 Packages/DiffIndex
+Hit http://ftp.fr.debian.org sid/non-free hurd-i386 Packages/DiffIndex
+Ign http://ftp.fr.debian.org sid/contrib TranslationIndex
+Get:11 http://ftp.uk.debian.org sid/main 2011-11-14-0212.51.pdiff [9020 B]
+Get:12 http://ftp.uk.debian.org sid/main hurd-i386 2011-11-14-0212.51.pdiff [13.4 kB]
+Hit http://ftp.uk.debian.org sid/main Translation-fr
+Get:13 http://ftp.fr.debian.org sid/main TranslationIndex [2045 B]
+Ign http://ftp.fr.debian.org sid/non-free TranslationIndex
+Get:14 http://ftp.fr.debian.org sid/main 2011-11-14-0212.51.pdiff [9020 B]
+Get:15 http://ftp.fr.debian.org sid/main hurd-i386 2011-11-14-0212.51.pdiff [13.4 kB]
+Hit http://ftp.fr.debian.org sid/main Translation-fr
+Get:16 http://ftp.uk.debian.org sid/main 2011-11-14-0212.51.pdiff [9020 B]
+Get:17 http://incoming.debian.org Packages [341 kB]
Ign http://ftp.uk.debian.org sid/contrib Translation-en
+Ign http://ftp.uk.debian.org sid/contrib Translation-fr
Ign http://ftp.uk.debian.org sid/non-free Translation-en
-Ign http://ftp.debian-ports.org unreleased/main Translation-en
-Hit http://incoming.debian.org Sources
-Get:1 http://incoming.debian.org Packages [486 kB]
+Ign http://ftp.uk.debian.org sid/non-free Translation-fr
+Hit http://ftp.debian-ports.org unreleased/main hurd-i386 Packages
+Ign http://ftp.debian-ports.org unreleased/main TranslationIndex
+Ign http://ftp.fr.debian.org sid/contrib Translation-en
+Ign http://ftp.fr.debian.org sid/contrib Translation-fr
+Ign http://ftp.fr.debian.org sid/non-free Translation-en
+Ign http://ftp.fr.debian.org sid/non-free Translation-fr
Ign http://incoming.debian.org Translation-en
-Fetched 486 kB in 53s (9135 B/s)
+Ign http://incoming.debian.org Translation-fr
+Ign http://ftp.debian-ports.org unreleased/main Translation-en
+Ign http://ftp.debian-ports.org unreleased/main Translation-fr
+Get:18 http://ftp.uk.debian.org sid/main hurd-i386 2011-11-14-0212.51.pdiff [13.4 kB]
+Get:19 http://ftp.fr.debian.org sid/main 2011-11-14-0212.51.pdiff [9020 B]
+Get:20 http://ftp.fr.debian.org sid/main hurd-i386 2011-11-14-0212.51.pdiff [13.4 kB]
+Fetched 730 kB in 2min 27s (4961 B/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -81,34 +103,91 @@ Reading package lists...
Building dependency tree...
Reading state information...
NOTICE: 'bwa' packaging is maintained in the 'Git' version control system at:
-git://git.debian.org/git/debian-med/bwa.git
-Need to get 119 kB of source archives.
-Get:1 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (dsc) [1245 B]
-Get:2 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (tar) [114 kB]
-Get:3 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (diff) [3828 B]
-Fetched 119 kB in 0s (154 kB/s)
+git://git.debian.org/debian-med/bwa.git
+Need to get 126 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (dsc) [1929 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (tar) [120 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (diff) [4113 B]
+Fetched 126 kB in 0s (153 kB/s)
Download complete and in download only mode
Check arch
──────────
-** Using build dependencies supplied by package:
-Build-Depends: debhelper (>= 8), zlib1g-dev
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install build dependencies (internal resolver) │
+│ Install core build dependencies (internal resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Build-Depends: build-essential, fakeroot
+Checking for already installed dependencies...
+build-essential: already installed (11.5)
+fakeroot: already installed (1.15.1-1)
+Checking for dependency conflicts...
+Installing positive dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 77 not upgraded.
+Removing negative dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 77 not upgraded.
+Checking correctness of dependencies...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install bwa build dependencies (internal resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
-Checking for already installed source dependencies...
-debhelper: already installed (8.1.2 >= 8 is satisfied)
+Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, hurd, ncurses-base, ncurses-bin, perl-base, sed, sysvinit-utils, sysvinit, tar, bsdutils, util-linux, libc0.3-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), hurd-dev, debhelper (>= 8), zlib1g-dev
+Checking for already installed dependencies...
+base-files: already installed (6.4)
+base-passwd: already installed (3.5.22)
+bash: already installed (4.1-3+hurd.1)
+coreutils: already installed (8.5-1)
+dash: already installed (0.5.5.1-7.4)
+debianutils: already installed (4.0.2)
+diffutils: already installed (1:3.0-1)
+dpkg: already installed (1.16.0.3)
+e2fsprogs: already installed (1.42~WIP-2011-07-02-1)
+findutils: already installed (4.4.2-1+b1)
+grep: already installed (2.9-1)
+gzip: already installed (1.3.12-9)
+hostname: already installed (3.06)
+hurd: already installed (20111106-1)
+ncurses-base: already installed (5.9-1)
+ncurses-bin: already installed (5.9-4)
+perl-base: already installed (5.14.2-3)
+sed: already installed (4.2.1-9)
+sysvinit-utils: already installed (2.88dsf-13.10)
+sysvinit: already installed (2.88dsf-13.10)
+tar: already installed (1.25-2)
+bsdutils: already installed (1:2.16.2-0)
+util-linux: already installed (2.16.2-0)
+libc0.3-dev: already installed (2.13-21)
+gcc: already installed (4:4.6.1-3 >= 4:4.4.3 is satisfied)
+g++: already installed (4:4.6.0-6 >= 4:4.4.3 is satisfied)
+make: already installed (3.81-8.1)
+dpkg-dev: already installed (1.16.1 >= 1.13.5 is satisfied)
+hurd-dev: already installed (20111106-1)
+debhelper: already installed (8.9.8 >= 8 is satisfied)
zlib1g-dev: already installed (1:1.2.3.4.dfsg-3)
-Checking for source dependency conflicts...
+Checking for dependency conflicts...
Installing positive dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 77 not upgraded.
Removing negative dependencies:
-Checking correctness of source dependencies...
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 77 not upgraded.
+Checking correctness of dependencies...
Kernel: GNU 0.3 hurd-i386 (i686-AT386)
-Toolchain package versions: libc0.3-dev_2.11.2-13 dpkg-dev_1.15.8.10 hurd-dev_20110303-1~1 gnumach-dev_2:1.3.99.dfsg.git20100732-1 gcc-4.4_4.4.5-10 g++-4.4_4.4.5-10 binutils_2.20.1-15 libstdc++6-4.4-dev_4.4.5-10 libstdc++6_4.5.2-4
-Package versions: adduser_3.112+nmu1 apt_0.8.11.5+b1 apt-utils_0.8.11.5+b1 base-files_5.9 base-passwd_3.5.22 bash_4.1-3+hurd.1 binutils_2.20.1-15 bsdmainutils_8.0.13 bsdutils_1:2.16.2-0 build-essential_11.5 bzip2_1.0.5-6 coreutils_8.5-1 cpp_4:4.4.5-4 cpp-4.4_4.4.5-10 cron_3.0pl1-115 dash_0.5.5.1-7 debconf_1.5.35 debconf-english_1.5.35 debfoster_2.6-2 debhelper_8.1.2 debian-archive-keyring_2010.08.28 debian-ports-archive-keyring_2011.01.12 debianutils_3.4.1 deborphan_1.7.28 dialog_1.1-20100428-1 diffutils_1:3.0-1 dpkg_1.15.8.5 dpkg-dev_1.15.8.10 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.12.4 file_5.03-5+b1 findutils_4.4.2-1 fontconfig_2.8.0-2.1 fontconfig-config_2.8.0-2.1 g++_4:4.4.4-2 g++-4.4_4.4.5-10 gawk_1:3.1.7.dfsg-5 gcc_4:4.4.5-4 gcc-4.4_4.4.5-10 gcc-4.4-base_4.4.5-10 gcc-4.5-base_4.5.2-4 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gfortran-4.4_4.4.5-10 gnumach-dev_2:1.3.99.dfsg.git20100732-1 gnupg_1.4.10-4 gpgv_1.4.10-4 grep_2.6.3-3 groff-base_1.21-4 gzip_1.3.12-9 hostname_3.04 html2text_1.3.2a-15+b1 hurd_20110303-1~1 hurd-dev_20110303-1~1 initscripts_2.88dsf-12 insserv_1.14.0-2 install-info_4.13a.dfsg.1-5 intltool-debian_0.35.0+20060710.1 libacl1_2.2.47-3 libapt-pkg-dev_0.8.11.5+b1 libattr1_1:2.4.44-2 libblkid1_2.16.2-0 libboost-iostreams1.42.0_1.42.0-4 libbsd0_0.2.0-1 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-13 libc-dev-bin_2.11.2-13 libc0.3_2.11.2-13 libc0.3-dev_2.11.2-13 libc0.3-xen_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 libdigest-sha1-perl_2.13-1 libdpkg-perl_1.15.8.10 libept-dev_1.0.3+b2 libept1_1.0.3+b2 libexpat1_2.0.1-7 libfontconfig1_2.8.0-2.1 libfreetype6_2.4.4-1 libgcc1_1:4.4.5-10 libgcrypt11_1.4.6-5 libgdbm3_1.8.3-9 libgfortran3_4.4.5-10 libglib2.0-0_2.28.1-1+b1 libglib2.0-data_2.28.0-1 libgmp3c2_2:4.3.2+dfsg-1+b1 libgmpxx4ldbl_2:5.0.1+dfsg-6 libgnutls26_2.10.4-2 libgomp1_4.4.5-10 libgpg-error0_1.10-0.3 libidn11_1.20-1 libldap-2.4-2_2.4.17-1 liblocale-gettext-perl_1.05-6 liblzma2_5.0.0-2 libmagic1_5.03-5+b1 libmpfr4_3.0.0-7 libncurses5_5.8+20110307-1 libncursesw5_5.8+20110307-1 libpam-modules_1.1.1-6 libpam-runtime_1.1.1-6 libpam0g_1.1.2-2 libparted0debian1_2.3-3+hurd.1 libpcre3_8.12-3+b1 libpng12-0_1.2.44-1 libpopt0_1.16-1 libpthread-stubs0_0.3-2 libpthread-stubs0-dev_0.3-2 libreadline6_6.1-3 libsasl2-2_2.1.23.dfsg1-7 libsasl2-modules_2.1.23.dfsg1-7 libslang2_2.1.4-3 libss2_1.41.12-2 libssl0.9.8_0.9.8o-5 libstdc++6_4.5.2-4 libstdc++6-4.4-dev_4.4.5-10 libtagcoll2-dev_2.0.11-1.1 libtasn1-3_2.9-2 libtimedate-perl_1.2000-1 libunistring0_0.9.3-3 libuuid1_2.16.2-0 libwibble-dev_0.1.26-1 libwrap0_7.6.dbs-8 libxapian-dev_1.2.3-2 libxapian22_1.2.3-2 libxml2_2.7.8.dfsg-2 lsb-base_3.2-25 lynx-cur_2.8.8dev.8-1 make_3.81-8 man-db_2.5.7-4 mawk_1.3.3-15 mime-support_3.48-1 ncurses-base_5.7+20100313-4 ncurses-bin_5.8+20110307-1 netbase_4.42 netcat-traditional_1.10-38 passwd_1:4.1.4.2+svn3283-2 patch_2.6-3 perl_5.10.1-17 perl-base_5.10.1-17 perl-modules_5.10.1-17 pkg-config_0.25-1 po-debconf_1.0.16 procps_1:3.2.7-11 psmisc_22.3-1 random-egd_0.5-0+hurd.1 readline-common_6.1-3 sed_4.2.1-7 sensible-utils_0.0.4 sgml-base_1.26+nmu1 shared-mime-info_0.71-3 sudo_1.7.2p7-1 sysv-rc_2.88dsf-12 sysvinit_2.88dsf-12 sysvinit-utils_2.88dsf-12 tar_1.23-3 ttf-dejavu-core_2.31-1 type-handling_0.2.23 tzdata_2010m-1 ucf_3.0025+nmu1 util-linux_2.16.2-0 xml-core_0.13 xz-utils_4.999.9beta+20100810-1 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+Toolchain package versions: binutils_2.21.53.20110823-3+hurd.1 dpkg-dev_1.16.1 g++-4.5_4.5.3-8 g++-4.6_4.6.1-9+hurd.1 gcc-4.4_4.4.6-10 gcc-4.5_4.5.3-8 gcc-4.6_4.6.1-9+hurd.1 gnumach-dev_2:1.3.99.dfsg.git20110609-1 hurd-dev_20111106-1 libc0.3-dev_2.13-21 libstdc++6_4.6.1-9+hurd.1 libstdc++6-4.5-dev_4.5.3-8 libstdc++6-4.6-dev_4.6.1-9+hurd.1
+Package versions: adduser_3.113 apt_0.8.15.8 apt-utils_0.8.15.8 autopoint_0.18.1.1-4 base-files_6.4 base-passwd_3.5.22 bash_4.1-3+hurd.1 binutils_2.21.53.20110823-3+hurd.1 bsd-mailx_8.1.2-0.20100314cvs-1 bsdmainutils_8.2.3 bsdutils_1:2.16.2-0 build-essential_11.5 bzip2_1.0.5-7 ca-certificates_20110502+nmu1 coreutils_8.5-1 cpio_2.11-7 cpp_4:4.6.1-3 cpp-4.4_4.4.6-10 cpp-4.5_4.5.3-8 cpp-4.6_4.6.1-9+hurd.1 cron_3.0pl1-118 dash_0.5.5.1-7.4 debconf_1.5.40 debfoster_2.6-2 debhelper_8.9.8 debian-archive-keyring_2010.08.28 debian-ports-archive-keyring_2011.01.12 debianutils_4.0.2 deborphan_1.7.28.5 dialog_1.1-20110707-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.1 e2fslibs_1.42~WIP-2011-07-02-1 e2fsprogs_1.42~WIP-2011-07-02-1 exim4-base_4.76-2+b3 exim4-config_4.76-2 exim4-daemon-light_4.76-2+b3 fakeroot_1.15.1-1 file_5.08-1 findutils_4.4.2-1+b1 fontconfig_2.8.0-3 fontconfig-config_2.8.0-3 g++_4:4.6.0-6 g++-4.5_4.5.3-8 g++-4.6_4.6.1-9+hurd.1 gawk_1:3.1.7.dfsg-5 gcc_4:4.6.1-3 gcc-4.2-base_4.2.4-6+b1 gcc-4.4_4.4.6-10 gcc-4.4-base_4.4.6-10 gcc-4.5_4.5.3-8 gcc-4.5-base_4.5.3-8 gcc-4.6_4.6.1-9+hurd.1 gcc-4.6-base_4.6.1-9+hurd.1 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gfortran_4:4.6.1-3 gfortran-4.6_4.6.1-9+hurd.1 git_1:1.7.6.3-1 git-man_1:1.7.6.3-1 gnumach-dev_2:1.3.99.dfsg.git20110609-1 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-1 groff-base_1.21-6 gzip_1.3.12-9 hostname_3.06 html2text_1.3.2a-15+b1 hurd_20111106-1 hurd-dev_20111106-1 initscripts_2.88dsf-13.10 insserv_1.14.0-2.1 install-info_4.13a.dfsg.1-6 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-4 libapt-pkg-dev_0.8.15.8 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libboost-iostreams1.46.1_1.46.1-7 libbsd0_0.3.0-1 libbz2-1.0_1.0.5-7 libc-bin_2.13-21 libc-dev-bin_2.13-21 libc0.3_2.13-21 libc0.3-dev_2.13-21 libc0.3-xen_2.13-21 libclass-isa-perl_0.36-2 libcomerr2_1.42~WIP-2011-10-16-1 libcroco3_0.6.2-1 libcurl3-gnutls_7.21.7-3 libdb5.1_5.1.25-11 libdpkg-perl_1.16.1 libelfg0_0.8.13-3 libept-dev_1.0.5 libept1_1.0.5 liberror-perl_0.17-1 libexpat1_2.0.1-7.2 libfontconfig1_2.8.0-3 libfreetype6_2.4.7-2 libgcc1_1:4.6.1-9+hurd.1 libgcrypt11_1.5.0-3 libgdbm3_1.8.3-10 libgfortran3_4.6.1-9+hurd.1 libglib2.0-0_2.28.8-1 libglib2.0-data_2.28.6-1 libgmp10_2:5.0.2+dfsg-2 libgnutls26_2.12.10-2 libgomp1_4.6.1-9+hurd.1 libgpg-error0_1.10-1 libidn11_1.22-3 libldap-2.4-2_2.4.25-4 liblockfile-bin_1.09-3 liblockfile1_1.09-3 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.08-1 libmpc2_0.9-4 libmpfr4_3.1.0-2 libncurses5_5.9-4 libncursesw5_5.9-4 libp11-kit0_0.7-2 libpam-modules_1.1.3-2 libpam-modules-bin_1.1.3-2 libpam-runtime_1.1.3-2 libpam0g_1.1.3-6 libparted0debian1_2.3-3+hurd.1 libpcre3_8.12-4 libpipeline1_1.2.0-3 libpng12-0_1.2.46-3 libpopt0_1.16-1 libpthread-stubs0_0.3-2.1+hurd.1 libpthread-stubs0-dev_0.3-2.1+hurd.1 libquadmath0_4.6.1-9+hurd.1 libreadline6_6.2-7 librtmp0_2.4~20110711.gitc28f1bab-1 libsasl2-2_2.1.24~rc1.dfsg1+cvs2011-05-23-6 libsasl2-modules_2.1.24~rc1.dfsg1+cvs2011-05-23-6 libslang2_2.2.4-3 libss2_1.42~WIP-2011-07-02-1 libssl0.9.8_0.9.8o-7+b1 libssl1.0.0_1.0.0e-2.1 libstdc++6_4.6.1-9+hurd.1 libstdc++6-4.5-dev_4.5.3-8 libstdc++6-4.6-dev_4.6.1-9+hurd.1 libswitch-perl_2.16-2 libsysfs2_2.1.0+repack-1 libtagcoll2-dev_2.0.13-1 libtasn1-3_2.10-1 libtimedate-perl_1.2000-1 libtinfo5_5.9-4 libunistring0_0.9.3-5 libusb-0.1-4p_2:0.1.12-13+hurd.1 libuuid1_2.19.1-5 libwibble-dev_0.1.26-1 libxapian-dev_1.2.7-1 libxapian22_1.2.7-1 libxml2_2.7.8.dfsg-5 lsb-base_3.2-27 lynx-cur_2.8.8dev.9-2+b1 make_3.81-8.1 man-db_2.6.0.2-1 mawk_1.3.3-15 mime-support_3.51-1 multiarch-support_2.13-10 ncurses-base_5.9-1 ncurses-bin_5.9-4 netbase_4.46 netcat-traditional_1.10-39 openssl_1.0.0e-2 original-awk_2011-05-06-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.14.2-3 perl-base_5.14.2-3 perl-modules_5.14.2-3 pkg-config_0.26-1 po-debconf_1.0.16+nmu1 procps_1:3.2.8-10 psmisc_22.3-1 readline-common_6.2-2 sed_4.2.1-9 sensible-utils_0.0.6 sgml-base_1.26+nmu1 shared-mime-info_0.90-1 sudo_1.7.2p7-1 sysv-rc_2.88dsf-13.10 sysvinit_2.88dsf-13.10 sysvinit-utils_2.88dsf-13.10 tar_1.25-2 ttf-bitstream-vera_1.10-8 ttf-freefont_20100919-1 type-handling_0.2.23 tzdata_2011h-3 ucf_3.0025+nmu2 util-linux_2.16.2-0 xml-core_0.13 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -118,14 +197,13 @@ Package versions: adduser_3.112+nmu1 apt_0.8.11.5+b1 apt-utils_0.8.11.5+b1 base-
Unpack source
─────────────
-dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
-gpgv: Signature made Fri Mar 11 21:59:41 2011 UTC using DSA key ID C09FD35A
+gpgv: Signature made Mon Nov 14 04:21:35 2011 UTC using RSA key ID 2295D502
gpgv: Can't check signature: public key not found
-dpkg-source: warning: failed to verify signature on ./bwa_0.5.9-2.dsc
-dpkg-source: info: extracting bwa in bwa-0.5.9
-dpkg-source: info: unpacking bwa_0.5.9.orig.tar.bz2
-dpkg-source: info: unpacking bwa_0.5.9-2.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bwa_0.5.10-1.dsc
+dpkg-source: info: extracting bwa in bwa-0.5.10
+dpkg-source: info: unpacking bwa_0.5.10.orig.tar.bz2
+dpkg-source: info: unpacking bwa_0.5.10-1.debian.tar.gz
Check disc space
────────────────
@@ -134,47 +212,59 @@ Check disc space
dpkg-buildpackage
─────────────────
-dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
-dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
-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: dpkg-buildflags (origin: vendor): CFLAGS = -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security
+dpkg-buildpackage: dpkg-buildflags (origin: vendor): CPPFLAGS =
+dpkg-buildpackage: dpkg-buildflags (origin: vendor): CXXFLAGS = -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security
+dpkg-buildpackage: dpkg-buildflags (origin: vendor): FFLAGS = -g -O2
+dpkg-buildpackage: dpkg-buildflags (origin: vendor): LDFLAGS = -Wl,-z,relro
dpkg-buildpackage: source package bwa
-dpkg-buildpackage: source version 0.5.9-2
- dpkg-source --before-build bwa-0.5.9
+dpkg-buildpackage: source version 0.5.10-1
+ dpkg-source --before-build bwa-0.5.10
dpkg-buildpackage: host architecture hurd-i386
/usr/bin/fakeroot debian/rules clean
dh clean
dh_testdir
dh_auto_clean
-make[1]: Entering directory `/build/buildd-bwa_0.5.9-2-hurd-i386-1stCUo/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-hurd-i386-1stCUo/bwa-0.5.9'
+make[1]: Entering directory `/build/buildd-bwa_0.5.10-1-hurd-i386-kYXFNm/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-hurd-i386-kYXFNm/bwa-0.5.10'
rm -f gmon.out *.o a.out bwa *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-hurd-i386-1stCUo/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-hurd-i386-1stCUo/bwa-0.5.9/bwt_gen'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-hurd-i386-kYXFNm/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-hurd-i386-kYXFNm/bwa-0.5.10/bwt_gen'
rm -f gmon.out *.o a.out *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-hurd-i386-1stCUo/bwa-0.5.9/bwt_gen'
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9-2-hurd-i386-1stCUo/bwa-0.5.9'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-hurd-i386-kYXFNm/bwa-0.5.10/bwt_gen'
+make[1]: Leaving directory `/build/buildd-bwa_0.5.10-1-hurd-i386-kYXFNm/bwa-0.5.10'
dh_clean
debian/rules build
dh build
dh_testdir
dh_auto_configure
dh_auto_build
-make[1]: Entering directory `/build/buildd-bwa_0.5.9-2-hurd-i386-1stCUo/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-hurd-i386-1stCUo/bwa-0.5.9'
+make[1]: Entering directory `/build/buildd-bwa_0.5.10-1-hurd-i386-kYXFNm/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-hurd-i386-kYXFNm/bwa-0.5.10'
make[2]: Nothing to be done for `lib'.
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-hurd-i386-1stCUo/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-hurd-i386-1stCUo/bwa-0.5.9/bwt_gen'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-hurd-i386-kYXFNm/bwa-0.5.10'
+bwt_gen.c: In function 'BWTIncBuildRelativeRank':
+bwt_gen.c:824:15: warning: variable 'oldInverseSa0RelativeRank' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncMergeBwt':
+bwt_gen.c:899:15: warning: variable 'bitsInWordMinusBitPerChar' set but not used [-Wunused-but-set-variable]
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-hurd-i386-kYXFNm/bwa-0.5.10/bwt_gen'
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt_gen.c -o bwt_gen.o
+QSufSort.c: In function 'QSufSortSuffixSort':
+QSufSort.c:89:6: warning: variable 'maxNumInputSymbol' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD QSufSort.c -o QSufSort.o
-ar -cru libbwtgen.a bwt_gen.o QSufSort.o
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-hurd-i386-1stCUo/bwa-0.5.9/bwt_gen'
+ar -scru libbwtgen.a bwt_gen.o QSufSort.o
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-hurd-i386-kYXFNm/bwa-0.5.10/bwt_gen'
gcc -c -g -Wall -O2 -DHAVE_PTHREAD utils.c -o utils.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt.c -o bwt.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtio.c -o bwtio.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtaln.c -o bwtaln.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtgap.c -o bwtgap.o
+bwtmisc.c: In function 'bwa_pac_rev_core':
+bwtmisc.c:163:20: warning: variable 'j' set but not used [-Wunused-but-set-variable]
+stdaln.c: In function 'aln_local_core':
+stdaln.c:545:25: warning: variable 'b' set but not used [-Wunused-but-set-variable]
+stdaln.c: In function 'aln_extend_core':
+stdaln.c:865:16: warning: variable 'tmp_len' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD is.c -o is.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bntseq.c -o bntseq.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtmisc.c -o bwtmisc.o
@@ -182,11 +272,17 @@ gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtindex.c -o bwtindex.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD stdaln.c -o stdaln.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD simple_dp.c -o simple_dp.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwaseqio.c -o bwaseqio.o
+bwase.c: In function 'bwa_aln2seq_core':
+bwase.c:75:15: warning: variable 'k' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_print_sam1':
+bwase.c:452:17: warning: variable 'm_is_N' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwase.c -o bwase.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwape.c -o bwape.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD kstring.c -o kstring.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD cs2nt.c -o cs2nt.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_core.c -o bwtsw2_core.o
+bwtsw2_aux.c: In function 'gen_cigar':
+bwtsw2_aux.c:193:7: warning: variable 'score' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_main.c -o bwtsw2_main.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_aux.c -o bwtsw2_aux.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt_lite.c -o bwt_lite.o
@@ -194,7 +290,7 @@ gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_chain.c -o bwtsw2_chain.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bamlite.c -o bamlite.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD main.c -o main.o
gcc -g -Wall -O2 -DHAVE_PTHREAD utils.o bwt.o bwtio.o bwtaln.o bwtgap.o is.o bntseq.o bwtmisc.o bwtindex.o stdaln.o simple_dp.o bwaseqio.o bwase.o bwape.o kstring.o cs2nt.o bwtsw2_core.o bwtsw2_main.o bwtsw2_aux.o bwt_lite.o bwtsw2_chain.o bamlite.o main.o -o bwa -lm -lz -lpthread -Lbwt_gen -lbwtgen
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9-2-hurd-i386-1stCUo/bwa-0.5.9'
+make[1]: Leaving directory `/build/buildd-bwa_0.5.10-1-hurd-i386-kYXFNm/bwa-0.5.10'
dh_auto_test
/usr/bin/fakeroot debian/rules binary-arch
dh binary-arch
@@ -224,7 +320,9 @@ dh binary-arch
dh_installudev -a
dh_installwm -a
dh_installxfonts -a
+ dh_installgsettings -a
dh_bugfiles -a
+ dh_ucf -a
dh_lintian -a
dh_gconf -a
dh_icons -a
@@ -241,58 +339,62 @@ dh binary-arch
dpkg-gencontrol: warning: package bwa: unused substitution variable ${perl:Depends}
dh_md5sums -a
dh_builddeb -a
-dpkg-deb: building package `bwa' in `../bwa_0.5.9-2_hurd-i386.deb'.
- dpkg-genchanges -B -mDebian GNU/Hurd Build Daemon <buildd_hurd-i386-mozart at buildd.debian.org> >../bwa_0.5.9-2_hurd-i386.changes
+dpkg-deb: building package `bwa' in `../bwa_0.5.10-1_hurd-i386.deb'.
+ dpkg-genchanges -B -mDebian GNU/Hurd Build Daemon <buildd_hurd-i386-bach at buildd.debian.org> >../bwa_0.5.10-1_hurd-i386.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 bwa-0.5.9
+ dpkg-source --after-build bwa-0.5.10
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110312-0834
+Build finished at 20111114-0446
-bwa_0.5.9-2_hurd-i386.changes:
+bwa_0.5.10-1_hurd-i386.changes:
Format: 1.8
-Date: Fri, 11 Mar 2011 22:49:07 +0100
+Date: Mon, 14 Nov 2011 13:12:50 +0900
Source: bwa
Binary: bwa
Architecture: hurd-i386
-Version: 0.5.9-2
-Distribution: sid
+Version: 0.5.10-1
+Distribution: unstable
Urgency: low
-Maintainer: Debian GNU/Hurd Build Daemon <buildd_hurd-i386-mozart at buildd.debian.org>
-Changed-By: Andreas Tille <tille at debian.org>
+Maintainer: Debian GNU/Hurd Build Daemon <buildd_hurd-i386-bach at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
Description:
bwa - Burrows-Wheeler Aligner
Changes:
- bwa (0.5.9-2) unstable; urgency=low
+ bwa (0.5.10-1) unstable; urgency=low
.
- * Watchfile should not regard rc releases.
- * Drop cdbs in favour of dh
+ [a01f6ca] New upstream release.
+ [6d7bc7f] Conforms with Debian Policy version 3.9.2.
+ [125c73d] Corrected Vcs-Git URL.
+ [37f43c9] Normalised machine-readable copyright file with config-edit.
+ [4e2e0d0] Distribute xa2multi.pl in ‘usr/share/bwa’.
+ [b106d64] Removed redundant ChangeLog file, already installed by Debhelper.
Checksums-Sha1:
- e86a4224dde31ddcb08bf87cbdee5bad59aa3ac7 139066 bwa_0.5.9-2_hurd-i386.deb
+ 0886e828f2d645d6a9414e3ec362b619fb0fbe2e 142682 bwa_0.5.10-1_hurd-i386.deb
Checksums-Sha256:
- 9285b0ef75df0158d28ba727331487068c45253f45de72cc90fd603cbff0eca1 139066 bwa_0.5.9-2_hurd-i386.deb
+ cfe6a204b0455b5f7fe615ec24c7149e19a0145a06b66bdd5d15807effb38d0e 142682 bwa_0.5.10-1_hurd-i386.deb
Files:
- 2bba7a28b0abe4113832d57810cb742c 139066 science optional bwa_0.5.9-2_hurd-i386.deb
+ 4389e57e70fc246589076332d3864b18 142682 science optional bwa_0.5.10-1_hurd-i386.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bwa_0.5.9-2_hurd-i386.deb
-─────────────────────────
+bwa_0.5.10-1_hurd-i386.deb
+──────────────────────────
new debian package, version 2.0.
- size 139066 bytes: control archive= 985 bytes.
+ size 142682 bytes: control archive= 1000 bytes.
787 bytes, 17 lines control
- 615 bytes, 10 lines md5sums
+ 610 bytes, 10 lines md5sums
Package: bwa
- Version: 0.5.9-2
+ Version: 0.5.10-1
Architecture: hurd-i386
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 320
- Depends: hurd, libc0.3 (>= 2.11), zlib1g (>= 1:1.1.4)
+ Installed-Size: 298
+ Depends: hurd, libc0.3 (>= 2.7), zlib1g (>= 1:1.1.4)
Suggests: samtools
Section: science
Priority: optional
@@ -305,25 +407,25 @@ bwa_0.5.9-2_hurd-i386.deb
to around 100 kbp. Both algorithms do gapped alignment. They are usually more
accurate and faster on queries with low error rates.
-drwxr-xr-x root/root 0 2011-03-12 08:33 ./
-drwxr-xr-x root/root 0 2011-03-12 08:33 ./usr/
-drwxr-xr-x root/root 0 2011-03-12 08:34 ./usr/bin/
--rwxr-xr-x root/root 202576 2011-03-12 08:34 ./usr/bin/bwa
-drwxr-xr-x root/root 0 2011-03-12 08:33 ./usr/share/
-drwxr-xr-x root/root 0 2011-03-12 08:33 ./usr/share/bwa/
--rwxr-xr-x root/root 3176 2011-01-25 00:00 ./usr/share/bwa/solid2fastq.pl
--rwxr-xr-x root/root 616 2011-01-25 00:00 ./usr/share/bwa/qualfa2fq.pl
-drwxr-xr-x root/root 0 2011-03-12 08:33 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-03-12 08:34 ./usr/share/doc/bwa/
--rw-r--r-- root/root 5857 2011-01-25 00:00 ./usr/share/doc/bwa/NEWS.gz
--rw-r--r-- root/root 634 2011-01-25 00:00 ./usr/share/doc/bwa/README
--rw-r--r-- root/root 2676 2011-02-08 07:09 ./usr/share/doc/bwa/copyright
--rw-r--r-- root/root 17912 2011-01-25 00:00 ./usr/share/doc/bwa/changelog.gz
--rw-r--r-- root/root 17912 2011-01-25 00:00 ./usr/share/doc/bwa/ChangeLog.gz
--rw-r--r-- root/root 957 2011-03-11 21:54 ./usr/share/doc/bwa/changelog.Debian.gz
-drwxr-xr-x root/root 0 2011-03-12 08:33 ./usr/share/man/
-drwxr-xr-x root/root 0 2011-03-12 08:34 ./usr/share/man/man1/
--rw-r--r-- root/root 7554 2011-03-12 08:33 ./usr/share/man/man1/bwa.1.gz
+drwxr-xr-x root/root 0 2011-11-14 04:46 ./
+drwxr-xr-x root/root 0 2011-11-14 04:45 ./usr/
+drwxr-xr-x root/root 0 2011-11-14 04:46 ./usr/bin/
+-rwxr-xr-x root/root 223108 2011-11-14 04:46 ./usr/bin/bwa
+drwxr-xr-x root/root 0 2011-11-14 04:46 ./usr/share/
+drwxr-xr-x root/root 0 2011-11-14 04:45 ./usr/share/bwa/
+-rwxr-xr-x root/root 3176 2011-11-13 01:07 ./usr/share/bwa/solid2fastq.pl
+-rwxr-xr-x root/root 616 2011-11-13 01:07 ./usr/share/bwa/qualfa2fq.pl
+-rwxr-xr-x root/root 730 2011-11-13 01:07 ./usr/share/bwa/xa2multi.pl
+drwxr-xr-x root/root 0 2011-11-14 04:45 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-11-14 04:46 ./usr/share/doc/bwa/
+-rw-r--r-- root/root 634 2011-11-13 01:07 ./usr/share/doc/bwa/README
+-rw-r--r-- root/root 2740 2011-11-14 04:09 ./usr/share/doc/bwa/copyright
+-rw-r--r-- root/root 17912 2011-11-13 01:07 ./usr/share/doc/bwa/changelog.gz
+-rw-r--r-- root/root 5857 2011-11-13 01:08 ./usr/share/doc/bwa/NEWS.gz
+-rw-r--r-- root/root 1159 2011-11-14 04:16 ./usr/share/doc/bwa/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-11-14 04:46 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-11-14 04:46 ./usr/share/man/man1/
+-rw-r--r-- root/root 7554 2011-11-14 04:46 ./usr/share/man/man1/bwa.1.gz
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -332,8 +434,38 @@ drwxr-xr-x root/root 0 2011-03-12 08:34 ./usr/share/man/man1/
Built successfully
────────────────────────────────────────────────────────────────────────────────
-Purging /home/buildd/build/chroot-sid/build/buildd-bwa_0.5.9-2-hurd-i386-1stCUo
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /home/buildd/build/chroot-unstable/build/buildd-bwa_0.5.10-1-hurd-i386-kYXFNm
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 77 not upgraded.
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 77 not upgraded.
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Architecture: hurd-i386
+Build-Space: 2704
+Build-Time: 77
+Distribution: unstable
+Install-Time: 15
+Job: bwa_0.5.10-1
+Package: bwa
+Package-Time: 272
+Source-Version: 0.5.10-1
+Space: 2704
+Status: successful
+Version: 0.5.10-1
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110312-0834
-Build needed 00:02:53, 2440k disc space
+Finished at 20111114-0446
+Build needed 00:04:32, 2704k disc space
diff --git a/i386.log b/i386.log
index 311b54e..7ba390c 100644
--- a/i386.log
+++ b/i386.log
@@ -1,68 +1,68 @@
-From buildd at murphy.debian.org Sat Mar 12 07:28:37 2011
-Return-path: <buildd at murphy.debian.org>
-Received: from kokkonen.debian.org ([82.195.75.97])
+From buildd at biber.debian.org Mon Nov 14 04:39:37 2011
+Return-path: <buildd at biber.debian.org>
+Received: from kokkonen.debian.org ([2001:41b8:202:deb:1a1a:0:52c3:4b61])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
CN=kokkonen.debian.org,
EMAIL=hostmaster at kokkonen.debian.org (verified)
by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at murphy.debian.org>)
- id 1PyJFc-0000F1-Va
- for logs at buildd.debian.org; Sat, 12 Mar 2011 07:28:37 +0000
-Received: from murphy.debian.org ([70.103.162.31])
+ (Exim 4.72) (envelope-from <buildd at biber.debian.org>)
+ id 1RPoKW-0008M7-Og
+ for logs at buildd.debian.org; Mon, 14 Nov 2011 04:39:36 +0000
+Received: from biber.debian.org ([2001:648:2ffc:deb:214:22ff:feb2:1268])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
- CN=murphy.debian.org, EMAIL=hostmaster at murphy.debian.org (verified)
+ CN=biber.debian.org, EMAIL=hostmaster at biber.debian.org (verified)
by kokkonen.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at murphy.debian.org>)
- id 1PyJFb-0004JH-4c; Sat, 12 Mar 2011 07:28:35 +0000
-Received: from buildd by murphy.debian.org with local (Exim 4.69)
- (envelope-from <buildd at murphy.debian.org>)
- id 1PyJFY-00011A-Fp; Sat, 12 Mar 2011 07:28:32 +0000
-From: buildd on murphy <buildd at murphy.debian.org>
+ (Exim 4.72) (envelope-from <buildd at biber.debian.org>)
+ id 1RPoKV-0006Aa-Hs; Mon, 14 Nov 2011 04:39:35 +0000
+Received: from buildd by biber.debian.org with local (Exim 4.72)
+ (envelope-from <buildd at biber.debian.org>)
+ id 1RPoKT-0000wE-EN; Mon, 14 Nov 2011 04:39:33 +0000
+Message-Id: <E1RPoKT-0000wE-EN at biber.debian.org>
+MIME-Version: 1.0
+Content-Transfer-Encoding: binary
+X-Mailer: MIME::Lite 3.027 (F2.77; B3.08; Q3.08)
+Date: Mon, 14 Nov 2011 04:39:33 +0000
+From: buildd on biber <buildd at biber.debian.org>
To: kurt at roeckx.be,logs at buildd.debian.org
-Subject: Log for successful build of bwa_0.5.9-2 on i386 (dist=sid)
-Content-Type: text/plain; charset=UTF-8
-Content-Transfer-Encoding: 8bit
-Message-Id: <E1PyJFY-00011A-Fp at murphy.debian.org>
-Date: Sat, 12 Mar 2011 07:28:32 +0000
+Subject: Log for successful build of bwa_0.5.10-1 on i386 (dist=sid)
+Key-Id: C83D412C
Delivered-To: logs at buildd.debian.org
-sbuild (Debian sbuild) 0.60.5 (14 Nov 2010) on murphy.debian.org
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on biber.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bwa 0.5.9-2 (i386) 12 Mar 2011 07:27 ║
+║ bwa 0.5.10-1 (i386) 14 Nov 2011 04:37 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bwa
-Version: 0.5.9-2
+Version: 0.5.10-1
+Source Version: 0.5.10-1
Architecture: i386
-Chroot Build Dir: /var/lib/schroot/mount/sid-i386-sbuild-edcec140-b833-4ae2-86d5-47d88591ad60/build/buildd-bwa_0.5.9-2-i386-kZdTyK
-Start Time: 20110312-0727
-Hit http://ftp.us.debian.org sid InRelease
-Hit http://incoming.debian.org sid InRelease
+Get:1 http://ftp.gr.debian.org unstable InRelease [146 kB]
+Get:2 http://ftp.gr.debian.org unstable/main Sources [5923 kB]
+Get:3 http://ftp.gr.debian.org unstable/contrib Sources [57.2 kB]
+Get:4 http://ftp.gr.debian.org unstable/non-free Sources [103 kB]
+Get:5 http://ftp.gr.debian.org unstable/main i386 Packages [7853 kB]
+Get:6 http://incoming.debian.org unstable InRelease [146 kB]
+Get:7 http://ftp.gr.debian.org unstable/contrib i386 Packages [68.6 kB]
+Ign http://ftp.gr.debian.org unstable/contrib TranslationIndex
+Get:8 http://ftp.gr.debian.org unstable/main TranslationIndex [2045 B]
+Ign http://ftp.gr.debian.org unstable/contrib Translation-en
Ign http://incoming.debian.org InRelease
-Hit http://incoming.debian.org Release.gpg
-Hit http://ftp.us.debian.org sid/main Sources/DiffIndex
-Hit http://incoming.debian.org sid/main Sources/DiffIndex
-Hit http://incoming.debian.org sid/contrib Sources/DiffIndex
-Hit http://incoming.debian.org sid/main i386 Packages/DiffIndex
-Hit http://incoming.debian.org sid/contrib i386 Packages/DiffIndex
-Ign http://incoming.debian.org sid/contrib TranslationIndex
-Hit http://incoming.debian.org sid/main TranslationIndex
-Hit http://ftp.us.debian.org sid/contrib Sources/DiffIndex
-Hit http://ftp.us.debian.org sid/main i386 Packages/DiffIndex
-Hit http://ftp.us.debian.org sid/contrib i386 Packages/DiffIndex
-Ign http://ftp.us.debian.org sid/contrib TranslationIndex
-Hit http://ftp.us.debian.org sid/main TranslationIndex
-Hit http://incoming.debian.org Release
-Ign http://incoming.debian.org sid/main 2011-03-12-0214.38.pdiff
-Ign http://incoming.debian.org sid/main i386 2011-03-12-0214.38.pdiff
-Hit http://incoming.debian.org sid/main
-Ign http://ftp.us.debian.org sid/contrib Translation-en
-Hit http://incoming.debian.org sid/main i386
-Hit http://incoming.debian.org Sources
-Hit http://incoming.debian.org Packages
-Ign http://incoming.debian.org sid/contrib Translation-en
+Get:9 http://incoming.debian.org Release.gpg [836 B]
+Get:10 http://incoming.debian.org unstable/main Sources [5923 kB]
+Get:11 http://incoming.debian.org unstable/contrib Sources [57.2 kB]
+Get:12 http://incoming.debian.org unstable/non-free Sources [103 kB]
+Get:13 http://incoming.debian.org unstable/main i386 Packages [7853 kB]
+Get:14 http://incoming.debian.org unstable/contrib i386 Packages [68.6 kB]
+Ign http://incoming.debian.org unstable/contrib TranslationIndex
+Get:15 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
+Get:16 http://incoming.debian.org Release [1604 B]
+Get:17 http://incoming.debian.org Sources [37.6 kB]
+Get:18 http://incoming.debian.org Packages [341 kB]
+Ign http://incoming.debian.org unstable/contrib Translation-en
Ign http://incoming.debian.org Translation-en
+Fetched 28.7 MB in 25s (1147 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -82,29 +82,78 @@ Reading package lists...
Building dependency tree...
Reading state information...
NOTICE: 'bwa' packaging is maintained in the 'Git' version control system at:
-git://git.debian.org/git/debian-med/bwa.git
-Need to get 119 kB of source archives.
-Get:1 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (dsc) [1245 B]
-Get:2 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (tar) [114 kB]
-Get:3 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (diff) [3828 B]
-Fetched 119 kB in 0s (341 kB/s)
+git://git.debian.org/debian-med/bwa.git
+Need to get 126 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (dsc) [1929 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (tar) [120 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (diff) [4113 B]
+Fetched 126 kB in 1s (113 kB/s)
Download complete and in download only mode
Check arch
──────────
-** Using build dependencies supplied by package:
-Build-Depends: debhelper (>= 8), zlib1g-dev
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install build dependencies (internal resolver) │
+│ Install core build dependencies (internal resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
-Checking for already installed source dependencies...
+Build-Depends: build-essential, fakeroot
+Checking for already installed dependencies...
+build-essential: already installed (11.5)
+fakeroot: already installed (1.18.1-1)
+Checking for dependency conflicts...
+Installing positive dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 11 not upgraded.
+Removing negative dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 11 not upgraded.
+Checking correctness of dependencies...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install bwa build dependencies (internal 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), zlib1g-dev
+Checking for already installed dependencies...
+base-files: already installed (6.5)
+base-passwd: already installed (3.5.23)
+bash: already installed (4.1-3)
+coreutils: already installed (8.13-3)
+dash: already installed (0.5.7-2)
+debianutils: already installed (4.0.4)
+diffutils: already installed (1:3.2-1)
+dpkg: already installed (1.16.1.1)
+e2fsprogs: already installed (1.42~WIP-2011-10-16-1)
+findutils: already installed (4.4.2-1+b1)
+grep: already installed (2.9-2)
+gzip: already installed (1.4-1)
+hostname: already installed (3.06)
+ncurses-base: already installed (5.9-4)
+ncurses-bin: already installed (5.9-4)
+perl-base: already installed (5.12.4-6)
+sed: already installed (4.2.1-9)
+login: already installed (1:4.1.4.2+svn3283-3)
+sysvinit-utils: already installed (2.88dsf-13.13)
+sysvinit: already installed (2.88dsf-13.13)
+tar: already installed (1.26-2)
+bsdutils: already installed (1:2.19.1-5)
+mount: already installed (2.19.1-5)
+util-linux: already installed (2.19.1-5)
+libc6-dev: already installed (2.13-21)
+gcc: already installed (4:4.6.1-3 >= 4:4.4.3 is satisfied)
+g++: already installed (4:4.6.1-3 >= 4:4.4.3 is satisfied)
+make: already installed (3.81-8.1)
+dpkg-dev: already installed (1.16.1.1 >= 1.13.5 is satisfied)
debhelper: missing
-Using default version 8.1.2
+Using default version 8.9.9
zlib1g-dev: missing
-Checking for source dependency conflicts...
+Checking for dependency conflicts...
Installing positive dependencies: debhelper zlib1g-dev
Reading package lists...
Building dependency tree...
@@ -123,74 +172,97 @@ The following NEW packages will be installed:
bsdmainutils debhelper file gettext gettext-base groff-base html2text
intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1
libunistring0 libxml2 man-db po-debconf zlib1g-dev
+0 upgraded, 18 newly installed, 0 to remove and 11 not upgraded.
+Need to get 9233 kB of archives.
+After this operation, 25.6 MB of additional disk space will be used.
+Get:1 http://ftp.gr.debian.org/debian/ unstable/main libpipeline1 i386 1.2.0-5 [37.6 kB]
+Get:2 http://ftp.gr.debian.org/debian/ unstable/main libpcre3 i386 8.12-4 [223 kB]
+Get:3 http://ftp.gr.debian.org/debian/ unstable/main libglib2.0-0 i386 2.28.8-1 [1633 kB]
+Get:4 http://ftp.gr.debian.org/debian/ unstable/main libxml2 i386 2.7.8.dfsg-5 [882 kB]
+Get:5 http://ftp.gr.debian.org/debian/ unstable/main libcroco3 i386 0.6.2-2 [122 kB]
+Get:6 http://ftp.gr.debian.org/debian/ unstable/main libunistring0 i386 0.9.3-5 [442 kB]
+Get:7 http://ftp.gr.debian.org/debian/ unstable/main bsdmainutils i386 8.2.3 [203 kB]
+Get:8 http://ftp.gr.debian.org/debian/ unstable/main groff-base i386 1.21-6 [1127 kB]
+Get:9 http://ftp.gr.debian.org/debian/ unstable/main man-db i386 2.6.0.2-3 [1014 kB]
+Get:10 http://ftp.gr.debian.org/debian/ unstable/main libmagic1 i386 5.09-2 [246 kB]
+Get:11 http://ftp.gr.debian.org/debian/ unstable/main file i386 5.09-2 [51.5 kB]
+Get:12 http://ftp.gr.debian.org/debian/ unstable/main gettext-base i386 0.18.1.1-5 [133 kB]
+Get:13 http://ftp.gr.debian.org/debian/ unstable/main html2text i386 1.3.2a-15 [101 kB]
+Get:14 http://ftp.gr.debian.org/debian/ unstable/main gettext i386 0.18.1.1-5 [2025 kB]
+Get:15 http://ftp.gr.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get:16 http://ftp.gr.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get:17 http://ftp.gr.debian.org/debian/ unstable/main debhelper all 8.9.9 [552 kB]
+Get:18 http://ftp.gr.debian.org/debian/ unstable/main zlib1g-dev i386 1:1.2.3.4.dfsg-3 [186 kB]
debconf: delaying package configuration, since apt-utils is not installed
-0 upgraded, 18 newly installed, 0 to remove and 8 not upgraded.
-Need to get 0 B/8943 kB of archives.
-After this operation, 26.8 MB of additional disk space will be used.
-Selecting previously deselected package bsdmainutils.
-(Reading database ... 10377 files and directories currently installed.)
-Unpacking bsdmainutils (from .../bsdmainutils_8.2.2_i386.deb) ...
-Selecting previously deselected package groff-base.
-Unpacking groff-base (from .../groff-base_1.21-4_i386.deb) ...
-Selecting previously deselected package libpipeline1.
-Unpacking libpipeline1 (from .../libpipeline1_1.1.0-1_i386.deb) ...
-Selecting previously deselected package man-db.
-Unpacking man-db (from .../man-db_2.5.9-4_i386.deb) ...
-Selecting previously deselected package libmagic1.
-Unpacking libmagic1 (from .../libmagic1_5.04-5_i386.deb) ...
-Selecting previously deselected package file.
-Unpacking file (from .../archives/file_5.04-5_i386.deb) ...
-Selecting previously deselected package gettext-base.
-Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_i386.deb) ...
-Selecting previously deselected package libpcre3.
-Unpacking libpcre3 (from .../libpcre3_8.12-3_i386.deb) ...
-Selecting previously deselected package libxml2.
-Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_i386.deb) ...
-Selecting previously deselected package html2text.
+Fetched 9233 kB in 0s (11.2 MB/s)
+Selecting previously unselected package libpipeline1.
+(Reading database ... 10639 files and directories currently installed.)
+Unpacking libpipeline1 (from .../libpipeline1_1.2.0-5_i386.deb) ...
+Selecting previously unselected package libpcre3.
+Unpacking libpcre3 (from .../libpcre3_8.12-4_i386.deb) ...
+Selecting previously unselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.8-1_i386.deb) ...
+Selecting previously unselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-5_i386.deb) ...
+Selecting previously unselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-2_i386.deb) ...
+Selecting previously unselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-5_i386.deb) ...
+Selecting previously unselected package bsdmainutils.
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.3_i386.deb) ...
+Selecting previously unselected package groff-base.
+Unpacking groff-base (from .../groff-base_1.21-6_i386.deb) ...
+Selecting previously unselected package man-db.
+Unpacking man-db (from .../man-db_2.6.0.2-3_i386.deb) ...
+Selecting previously unselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.09-2_i386.deb) ...
+Selecting previously unselected package file.
+Unpacking file (from .../archives/file_5.09-2_i386.deb) ...
+Selecting previously unselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-5_i386.deb) ...
+Selecting previously unselected package html2text.
Unpacking html2text (from .../html2text_1.3.2a-15_i386.deb) ...
-Selecting previously deselected package libglib2.0-0.
-Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.1-1+b1_i386.deb) ...
-Selecting previously deselected package libcroco3.
-Unpacking libcroco3 (from .../libcroco3_0.6.2-1_i386.deb) ...
-Selecting previously deselected package libunistring0.
-Unpacking libunistring0 (from .../libunistring0_0.9.3-3_i386.deb) ...
-Selecting previously deselected package gettext.
-Unpacking gettext (from .../gettext_0.18.1.1-3_i386.deb) ...
-Selecting previously deselected package intltool-debian.
+Selecting previously unselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-5_i386.deb) ...
+Selecting previously unselected package intltool-debian.
Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ...
-Selecting previously deselected package po-debconf.
+Selecting previously unselected package po-debconf.
Unpacking po-debconf (from .../po-debconf_1.0.16+nmu1_all.deb) ...
-Selecting previously deselected package debhelper.
-Unpacking debhelper (from .../debhelper_8.1.2_all.deb) ...
-Selecting previously deselected package zlib1g-dev.
+Selecting previously unselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.9.9_all.deb) ...
+Selecting previously unselected package zlib1g-dev.
Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_i386.deb) ...
-Setting up bsdmainutils (8.2.2) ...
+Setting up libpipeline1 (1.2.0-5) ...
+Setting up libpcre3 (8.12-4) ...
+Setting up libglib2.0-0 (2.28.8-1) ...
+No schema files found: doing nothing.
+Setting up libxml2 (2.7.8.dfsg-5) ...
+Setting up libcroco3 (0.6.2-2) ...
+Setting up libunistring0 (0.9.3-5) ...
+Setting up bsdmainutils (8.2.3) ...
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 man-db (2.5.9-4) ...
+Setting up groff-base (1.21-6) ...
+Setting up man-db (2.6.0.2-3) ...
Building database of manual pages ...
-Setting up libmagic1 (5.04-5) ...
-Setting up file (5.04-5) ...
-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 libmagic1 (5.09-2) ...
+Setting up file (5.09-2) ...
+Setting up gettext-base (0.18.1.1-5) ...
Setting up html2text (1.3.2a-15) ...
-Setting up libglib2.0-0 (2.28.1-1+b1) ...
-No schema files found: doing nothing.
-Setting up libcroco3 (0.6.2-1) ...
-Setting up libunistring0 (0.9.3-3) ...
-Setting up gettext (0.18.1.1-3) ...
+Setting up gettext (0.18.1.1-5) ...
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 debhelper (8.9.9) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
Removing negative dependencies:
-Checking correctness of source dependencies...
-Kernel: Linux 2.6.32.32-dsa-ia32 i386 (i686)
-Toolchain package versions: libc6-dev_2.11.2-11 dpkg-dev_1.15.8.10 linux-libc-dev_2.6.37-2 gcc-4.5_4.5.2-5 g++-4.5_4.5.2-5 binutils_2.21.0.20110302-1 libstdc++6-4.5-dev_4.5.2-5 libstdc++6_4.5.2-5
-Package versions: apt_0.8.11.5 base-files_6.1 base-passwd_3.5.22 bash_4.1-3 binutils_2.21.0.20110302-1 bsdmainutils_8.2.2 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 coreutils_8.5-1 cpp_4:4.5.2-2 cpp-4.5_4.5.2-5 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++_4:4.5.2-1 g++-4.5_4.5.2-5 gcc_4:4.5.2-2 gcc-4.5_4.5.2-5 gcc-4.5-base_4.5.2-5 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_2.11.2-11 libc-dev-bin_2.11.2-11 libc6_2.11.2-11 libc6-dev_2.11.2-11 libcloog-ppl0_0.15.9-2 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_1:4.5.2-5 libgdbm3_1.8.3-9 libglib2.0-0_2.28.1-1+b1 libgmp10_2:5.0.1+dfsg-6 libgmp3c2_2:4.3.2+dfsg-1 libgmpxx4ldbl_2:5.0.1+dfsg-6 libgomp1_4.5.2-5 liblocale-gettext-perl_1.05-6 liblzma2_5.0.0-2 libmagic1_5.04-5 libmpc2_0.9-1 libmpfr4_3.0.0-7 libncurses5_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_1.1.0-1 libppl-c2_0.10.2-9 libppl7_0.10.2-9 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_4.5.2-5 libstdc++6-4.5-dev_4.5.2-5 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_5.8-1 ncurses-bin_5.8+20110307-1 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 sudo_1.7.4p6-1 sysv-rc_2.88dsf-13.1 sysvinit_2.88dsf-13.1 sysvinit-utils_2.88dsf-13.1 tar_1.25-3 tzdata_2011c-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
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 11 not upgraded.
+Checking correctness of dependencies...
+Kernel: Linux 2.6.32-5-amd64 i386 (x86_64)
+Toolchain package versions: binutils_2.21.90.20111025-1 dpkg-dev_1.16.1.1 g++-4.6_4.6.2-4 gcc-4.6_4.6.2-4 libc6-dev_2.13-21 libstdc++6_4.6.2-4 libstdc++6-4.6-dev_4.6.2-4 linux-libc-dev_3.0.0-6
+Package versions: apt_0.8.15.9 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.90.20111025-1 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 coreutils_8.13-3 cpp_4:4.6.1-3 cpp-4.6_4.6.2-4 dash_0.5.7-2 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.9 debian-archive-keyring_2010.08.28 debianutils_4.0.4 diffutils_1:3.2-1 dpkg_1.16.1.1 dpkg-dev_1.16.1.1 e2fslibs_1.42~WIP-2011-10-16-1 e2fsprogs_1.42~WIP-2011-10-16-1 fakeroot_1.18.1-1 file_5.09-2 findutils_4.4.2-1+b1 g++_4:4.6.1-3 g++-4.6_4.6.2-4 gcc_4:4.6.1-3 gcc-4.6_4.6.2-4 gcc-4.6-base_4.6.2-4 gettext_0.18.1.1-5 gettext-base_0.18.1.1-5 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.13 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-4 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbz2-1.0_1.0.5-7 libc-bin_2.13-21 libc-dev-bin_2.13-21 libc6_2.13-21 libc6-dev_2.13-21 libcomerr2_1.42~WIP-2011-10-16-1 libcroco3_0.6.2-2 libdb5.1_5.1.25-11 libdpkg-perl_1.16.1.1 libgc1c2_1:7.1-8 libgcc1_1:4.6.2-4 libgdbm3_1.8.3-10 libglib2.0-0_2.28.8-1 libgmp10_2:5.0.2+dfsg-2 libgomp1_4.6.2-4 liblzma5_5.1.1alpha+20110809-3 libmagic1_5.09-2 libmount1_2.19.1-5 libmpc2_0.9-4 libmpfr4_3.1.0-2 libncurses5_5.9-4 libpam-modules_1.1.3-5 libpam-modules-bin_1.1.3-5 libpam-runtime_1.1.3-5 libpam0g_1.1.3-5 libpcre3_8.12-4 libpipeline1_1.2.0-5 libquadmath0_4.6.2-4 libreadline6_6.2-7 libselinux1_2.1.0-4 libsepol1_2.1.0-1.1 libslang2_2.2.4-3 libss2_1.42~WIP-2011-10-16-1 libstdc++6_4.6.2-4 libstdc++6-4.6-dev_4.6.2-4 libtimedate-perl_1.2000-1 libtinfo5_5.9-4 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-5 linux-libc-dev_3.0.0-6 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-3 mawk_1.3.3-16 mount_2.19.1-5 multiarch-support_2.13-21 ncurses-base_5.9-4 ncurses-bin_5.9-4 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-6 perl-base_5.12.4-6 perl-modules_5.12.4-6 po-debconf_1.0.16+nmu1 readline-common_6.2-7 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.3p1-1 sysv-rc_2.88dsf-13.13 sysvinit_2.88dsf-13.13 sysvinit-utils_2.88dsf-13.13 tar_1.26-2 tzdata_2011n-1 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-3 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -200,14 +272,13 @@ 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: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
-gpgv: Signature made Fri Mar 11 21:59:41 2011 UTC using DSA key ID C09FD35A
+gpgv: Signature made Mon Nov 14 04:21:35 2011 UTC using RSA key ID 2295D502
gpgv: Can't check signature: public key not found
-dpkg-source: warning: failed to verify signature on ./bwa_0.5.9-2.dsc
-dpkg-source: info: extracting bwa in bwa-0.5.9
-dpkg-source: info: unpacking bwa_0.5.9.orig.tar.bz2
-dpkg-source: info: unpacking bwa_0.5.9-2.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bwa_0.5.10-1.dsc
+dpkg-source: info: extracting bwa in bwa-0.5.10
+dpkg-source: info: unpacking bwa_0.5.10.orig.tar.bz2
+dpkg-source: info: unpacking bwa_0.5.10-1.debian.tar.gz
Check disc space
────────────────
@@ -216,42 +287,43 @@ Check disc space
dpkg-buildpackage
─────────────────
-dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
-dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
-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 bwa
-dpkg-buildpackage: source version 0.5.9-2
- dpkg-source --before-build bwa-0.5.9
+dpkg-buildpackage: source version 0.5.10-1
+ dpkg-source --before-build bwa-0.5.10
dpkg-buildpackage: host architecture i386
- /usr/bin/fakeroot debian/rules clean
+ fakeroot debian/rules clean
dh clean
dh_testdir
dh_auto_clean
-make[1]: Entering directory `/build/buildd-bwa_0.5.9-2-i386-kZdTyK/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-i386-kZdTyK/bwa-0.5.9'
+make[1]: Entering directory `/build/buildd-bwa_0.5.10-1-i386-rjrhDT/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-i386-rjrhDT/bwa-0.5.10'
rm -f gmon.out *.o a.out bwa *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-i386-kZdTyK/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-i386-kZdTyK/bwa-0.5.9/bwt_gen'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-i386-rjrhDT/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-i386-rjrhDT/bwa-0.5.10/bwt_gen'
rm -f gmon.out *.o a.out *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-i386-kZdTyK/bwa-0.5.9/bwt_gen'
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9-2-i386-kZdTyK/bwa-0.5.9'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-i386-rjrhDT/bwa-0.5.10/bwt_gen'
+make[1]: Leaving directory `/build/buildd-bwa_0.5.10-1-i386-rjrhDT/bwa-0.5.10'
dh_clean
debian/rules build
dh build
dh_testdir
dh_auto_configure
dh_auto_build
-make[1]: Entering directory `/build/buildd-bwa_0.5.9-2-i386-kZdTyK/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-i386-kZdTyK/bwa-0.5.9'
+make[1]: Entering directory `/build/buildd-bwa_0.5.10-1-i386-rjrhDT/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-i386-rjrhDT/bwa-0.5.10'
make[2]: Nothing to be done for `lib'.
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-i386-kZdTyK/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-i386-kZdTyK/bwa-0.5.9/bwt_gen'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-i386-rjrhDT/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-i386-rjrhDT/bwa-0.5.10/bwt_gen'
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt_gen.c -o bwt_gen.o
+bwt_gen.c: In function 'BWTIncBuildRelativeRank':
+bwt_gen.c:824:15: warning: variable 'oldInverseSa0RelativeRank' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncMergeBwt':
+bwt_gen.c:899:15: warning: variable 'bitsInWordMinusBitPerChar' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD QSufSort.c -o QSufSort.o
-ar -cru libbwtgen.a bwt_gen.o QSufSort.o
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-i386-kZdTyK/bwa-0.5.9/bwt_gen'
+QSufSort.c: In function 'QSufSortSuffixSort':
+QSufSort.c:89:6: warning: variable 'maxNumInputSymbol' set but not used [-Wunused-but-set-variable]
+ar -scru libbwtgen.a bwt_gen.o QSufSort.o
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-i386-rjrhDT/bwa-0.5.10/bwt_gen'
gcc -c -g -Wall -O2 -DHAVE_PTHREAD utils.c -o utils.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt.c -o bwt.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtio.c -o bwtio.o
@@ -260,25 +332,37 @@ gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtgap.c -o bwtgap.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD is.c -o is.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bntseq.c -o bntseq.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtmisc.c -o bwtmisc.o
+bwtmisc.c: In function 'bwa_pac_rev_core':
+bwtmisc.c:163:20: warning: variable 'j' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtindex.c -o bwtindex.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD stdaln.c -o stdaln.o
+stdaln.c: In function 'aln_local_core':
+stdaln.c:545:25: warning: variable 'b' set but not used [-Wunused-but-set-variable]
+stdaln.c: In function 'aln_extend_core':
+stdaln.c:865:16: warning: variable 'tmp_len' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD simple_dp.c -o simple_dp.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwaseqio.c -o bwaseqio.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwase.c -o bwase.o
+bwase.c: In function 'bwa_aln2seq_core':
+bwase.c:75:15: warning: variable 'k' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_print_sam1':
+bwase.c:452:17: warning: variable 'm_is_N' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwape.c -o bwape.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD kstring.c -o kstring.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD cs2nt.c -o cs2nt.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_core.c -o bwtsw2_core.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_main.c -o bwtsw2_main.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_aux.c -o bwtsw2_aux.o
+bwtsw2_aux.c: In function 'gen_cigar':
+bwtsw2_aux.c:193:7: warning: variable 'score' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt_lite.c -o bwt_lite.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_chain.c -o bwtsw2_chain.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bamlite.c -o bamlite.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD main.c -o main.o
gcc -g -Wall -O2 -DHAVE_PTHREAD utils.o bwt.o bwtio.o bwtaln.o bwtgap.o is.o bntseq.o bwtmisc.o bwtindex.o stdaln.o simple_dp.o bwaseqio.o bwase.o bwape.o kstring.o cs2nt.o bwtsw2_core.o bwtsw2_main.o bwtsw2_aux.o bwt_lite.o bwtsw2_chain.o bamlite.o main.o -o bwa -lm -lz -lpthread -Lbwt_gen -lbwtgen
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9-2-i386-kZdTyK/bwa-0.5.9'
+make[1]: Leaving directory `/build/buildd-bwa_0.5.10-1-i386-rjrhDT/bwa-0.5.10'
dh_auto_test
- /usr/bin/fakeroot debian/rules binary-arch
+ fakeroot debian/rules binary-arch
dh binary-arch
dh_testroot -a
dh_prep -a
@@ -306,7 +390,9 @@ dh binary-arch
dh_installudev -a
dh_installwm -a
dh_installxfonts -a
+ dh_installgsettings -a
dh_bugfiles -a
+ dh_ucf -a
dh_lintian -a
dh_gconf -a
dh_icons -a
@@ -323,57 +409,61 @@ dh binary-arch
dpkg-gencontrol: warning: package bwa: unused substitution variable ${perl:Depends}
dh_md5sums -a
dh_builddeb -a
-dpkg-deb: building package `bwa' in `../bwa_0.5.9-2_i386.deb'.
- dpkg-genchanges -B -mi386 Build Daemon (murphy) <buildd_i386-murphy at buildd.debian.org> >../bwa_0.5.9-2_i386.changes
+dpkg-deb: building package `bwa' in `../bwa_0.5.10-1_i386.deb'.
+ dpkg-genchanges -B -mi386 Build Daemon <buildd_i386-biber at buildd.debian.org> >../bwa_0.5.10-1_i386.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 bwa-0.5.9
+ dpkg-source --after-build bwa-0.5.10
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110312-0728
+Build finished at 20111114-0439
-bwa_0.5.9-2_i386.changes:
+bwa_0.5.10-1_i386.changes:
Format: 1.8
-Date: Fri, 11 Mar 2011 22:49:07 +0100
+Date: Mon, 14 Nov 2011 13:12:50 +0900
Source: bwa
Binary: bwa
Architecture: i386
-Version: 0.5.9-2
+Version: 0.5.10-1
Distribution: sid
Urgency: low
-Maintainer: i386 Build Daemon (murphy) <buildd_i386-murphy at buildd.debian.org>
-Changed-By: Andreas Tille <tille at debian.org>
+Maintainer: i386 Build Daemon <buildd_i386-biber at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
Description:
bwa - Burrows-Wheeler Aligner
Changes:
- bwa (0.5.9-2) unstable; urgency=low
+ bwa (0.5.10-1) unstable; urgency=low
.
- * Watchfile should not regard rc releases.
- * Drop cdbs in favour of dh
+ [a01f6ca] New upstream release.
+ [6d7bc7f] Conforms with Debian Policy version 3.9.2.
+ [125c73d] Corrected Vcs-Git URL.
+ [37f43c9] Normalised machine-readable copyright file with config-edit.
+ [4e2e0d0] Distribute xa2multi.pl in ‘usr/share/bwa’.
+ [b106d64] Removed redundant ChangeLog file, already installed by Debhelper.
Checksums-Sha1:
- 3508c8b5c7c89031e42287c2892fdce76018d799 138784 bwa_0.5.9-2_i386.deb
+ ca051e86f15e6d733a2714230c6fa7a106a3b530 143304 bwa_0.5.10-1_i386.deb
Checksums-Sha256:
- a172dcbfdc80eb05dc041fa6c1cea574b806497774ab2a81e3ce3c53d1863a97 138784 bwa_0.5.9-2_i386.deb
+ 96170b68ae48d65eba19d9e8596b2d692526bd62f4b19455493221579b9830d6 143304 bwa_0.5.10-1_i386.deb
Files:
- e7ef8294aeda2ad987b4d1ddec9803e4 138784 science optional bwa_0.5.9-2_i386.deb
+ 446ed09e4c0d60d18d9223700989952b 143304 science optional bwa_0.5.10-1_i386.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bwa_0.5.9-2_i386.deb
-────────────────────
+bwa_0.5.10-1_i386.deb
+─────────────────────
new debian package, version 2.0.
- size 138784 bytes: control archive= 972 bytes.
- 773 bytes, 17 lines control
- 615 bytes, 10 lines md5sums
+ size 143304 bytes: control archive= 991 bytes.
+ 774 bytes, 17 lines control
+ 610 bytes, 10 lines md5sums
Package: bwa
- Version: 0.5.9-2
+ Version: 0.5.10-1
Architecture: i386
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 320
+ Installed-Size: 298
Depends: libc6 (>= 2.7), zlib1g (>= 1:1.1.4)
Suggests: samtools
Section: science
@@ -387,25 +477,25 @@ bwa_0.5.9-2_i386.deb
to around 100 kbp. Both algorithms do gapped alignment. They are usually more
accurate and faster on queries with low error rates.
-drwxr-xr-x root/root 0 2011-03-12 07:28 ./
-drwxr-xr-x root/root 0 2011-03-12 07:28 ./usr/
-drwxr-xr-x root/root 0 2011-03-12 07:28 ./usr/bin/
--rwxr-xr-x root/root 202800 2011-03-12 07:28 ./usr/bin/bwa
-drwxr-xr-x root/root 0 2011-03-12 07:28 ./usr/share/
-drwxr-xr-x root/root 0 2011-03-12 07:28 ./usr/share/man/
-drwxr-xr-x root/root 0 2011-03-12 07:28 ./usr/share/man/man1/
--rw-r--r-- root/root 7554 2011-03-12 07:28 ./usr/share/man/man1/bwa.1.gz
-drwxr-xr-x root/root 0 2011-03-12 07:28 ./usr/share/bwa/
--rwxr-xr-x root/root 3176 2011-01-25 00:00 ./usr/share/bwa/solid2fastq.pl
--rwxr-xr-x root/root 616 2011-01-25 00:00 ./usr/share/bwa/qualfa2fq.pl
-drwxr-xr-x root/root 0 2011-03-12 07:28 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-03-12 07:28 ./usr/share/doc/bwa/
--rw-r--r-- root/root 957 2011-03-11 21:54 ./usr/share/doc/bwa/changelog.Debian.gz
--rw-r--r-- root/root 2676 2011-02-08 07:09 ./usr/share/doc/bwa/copyright
--rw-r--r-- root/root 634 2011-01-25 00:00 ./usr/share/doc/bwa/README
--rw-r--r-- root/root 5857 2011-01-25 00:00 ./usr/share/doc/bwa/NEWS.gz
--rw-r--r-- root/root 17912 2011-01-25 00:00 ./usr/share/doc/bwa/changelog.gz
--rw-r--r-- root/root 17912 2011-01-25 00:00 ./usr/share/doc/bwa/ChangeLog.gz
+drwxr-xr-x root/root 0 2011-11-14 04:39 ./
+drwxr-xr-x root/root 0 2011-11-14 04:39 ./usr/
+drwxr-xr-x root/root 0 2011-11-14 04:39 ./usr/bin/
+-rwxr-xr-x root/root 223108 2011-11-14 04:39 ./usr/bin/bwa
+drwxr-xr-x root/root 0 2011-11-14 04:39 ./usr/share/
+drwxr-xr-x root/root 0 2011-11-14 04:39 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-11-14 04:39 ./usr/share/doc/bwa/
+-rw-r--r-- root/root 17912 2011-11-13 01:07 ./usr/share/doc/bwa/changelog.gz
+-rw-r--r-- root/root 5857 2011-11-13 01:08 ./usr/share/doc/bwa/NEWS.gz
+-rw-r--r-- root/root 1159 2011-11-14 04:16 ./usr/share/doc/bwa/changelog.Debian.gz
+-rw-r--r-- root/root 634 2011-11-13 01:07 ./usr/share/doc/bwa/README
+-rw-r--r-- root/root 2740 2011-11-14 04:09 ./usr/share/doc/bwa/copyright
+drwxr-xr-x root/root 0 2011-11-14 04:39 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-11-14 04:39 ./usr/share/man/man1/
+-rw-r--r-- root/root 7554 2011-11-14 04:39 ./usr/share/man/man1/bwa.1.gz
+drwxr-xr-x root/root 0 2011-11-14 04:39 ./usr/share/bwa/
+-rwxr-xr-x root/root 730 2011-11-13 01:07 ./usr/share/bwa/xa2multi.pl
+-rwxr-xr-x root/root 616 2011-11-13 01:07 ./usr/share/bwa/qualfa2fq.pl
+-rwxr-xr-x root/root 3176 2011-11-13 01:07 ./usr/share/bwa/solid2fastq.pl
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -414,38 +504,31 @@ drwxr-xr-x root/root 0 2011-03-12 07:28 ./usr/share/doc/bwa/
Built successfully
────────────────────────────────────────────────────────────────────────────────
-Purging /var/lib/schroot/mount/sid-i386-sbuild-edcec140-b833-4ae2-86d5-47d88591ad60/build/buildd-bwa_0.5.9-2-i386-kZdTyK
-(Reading database ... 11709 files and directories currently installed.)
-Removing zlib1g-dev ...
-Removing debhelper ...
-Removing po-debconf ...
-Removing man-db ...
-Purging configuration files for man-db ...
-Removing intltool-debian ...
-Removing groff-base ...
-Purging configuration files for groff-base ...
-Removing gettext ...
-Removing file ...
-Removing html2text ...
-Purging configuration files for html2text ...
-Removing gettext-base ...
-Removing libunistring0 ...
-Purging configuration files for libunistring0 ...
-Removing libcroco3 ...
-Purging configuration files for libcroco3 ...
-Removing libmagic1 ...
-Purging configuration files for libmagic1 ...
-Removing libpipeline1 ...
-Purging configuration files for libpipeline1 ...
-Removing libxml2 ...
-Purging configuration files for libxml2 ...
-Removing bsdmainutils ...
-Purging configuration files for bsdmainutils ...
-Removing libglib2.0-0 ...
-Purging configuration files for libglib2.0-0 ...
-Removing libpcre3 ...
-Purging configuration files for libpcre3 ...
-────────────────────────────────────────────────────────────────────────────────
-Finished at 20110312-0728
-Build needed 00:00:33, 2620k disc space
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /var/lib/schroot/mount/sid-i386-sbuild-de4688c0-8ef9-40ec-bc1e-d4a3f328686f/build/buildd-bwa_0.5.10-1-i386-rjrhDT
+Not cleaning session: cloned chroot in use
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Architecture: i386
+Build-Space: 2704
+Build-Time: 20
+Distribution: sid
+Install-Time: 36
+Job: bwa_0.5.10-1
+Package: bwa
+Package-Time: 94
+Source-Version: 0.5.10-1
+Space: 2704
+Status: successful
+Version: 0.5.10-1
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20111114-0439
+Build needed 00:01:34, 2704k disc space
+Signature with key 'C83D412C' requested:
diff --git a/ia64.log b/ia64.log
index f926ee9..e7ce66c 100644
--- a/ia64.log
+++ b/ia64.log
@@ -1,68 +1,67 @@
-From buildd at mundy.debian.org Sat Mar 12 07:40:48 2011
-Return-path: <buildd at mundy.debian.org>
-Received: from kokkonen.debian.org ([82.195.75.97])
+From buildd at alkman.debian.org Mon Nov 14 06:08:28 2011
+Return-path: <buildd at alkman.debian.org>
+Received: from kokkonen.debian.org ([2001:41b8:202:deb:1a1a:0:52c3:4b61])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
CN=kokkonen.debian.org,
EMAIL=hostmaster at kokkonen.debian.org (verified)
by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at mundy.debian.org>)
- id 1PyJRQ-00020g-1J
- for logs at buildd.debian.org; Sat, 12 Mar 2011 07:40:48 +0000
-Received: from mundy.debian.org ([192.25.206.62])
+ (Exim 4.72) (envelope-from <buildd at alkman.debian.org>)
+ id 1RPpiW-0006Uj-Hv
+ for logs at buildd.debian.org; Mon, 14 Nov 2011 06:08:28 +0000
+Received: from alkman.debian.org ([192.25.206.63])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
- CN=mundy.debian.org, EMAIL=hostmaster at mundy.debian.org (verified)
+ CN=alkman.debian.org, EMAIL=hostmaster at alkman.debian.org (verified)
by kokkonen.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at mundy.debian.org>)
- id 1PyJRN-0004iL-UD
- for logs at buildd.debian.org; Sat, 12 Mar 2011 07:40:46 +0000
-Received: from buildd by mundy.debian.org with local (Exim 4.69)
- (envelope-from <buildd at mundy.debian.org>)
- id 1PyJRJ-00043H-95; Sat, 12 Mar 2011 07:40:41 +0000
-From: buildd on mundy <buildd at mundy.debian.org>
-To: buildd-porters at mundy.debian.org,logs at buildd.debian.org
-Subject: Log for successful build of bwa_0.5.9-2 on ia64 (dist=sid)
+ (Exim 4.72) (envelope-from <buildd at alkman.debian.org>)
+ id 1RPpiV-0001ba-2g
+ for logs at buildd.debian.org; Mon, 14 Nov 2011 06:08:27 +0000
+Received: from buildd by alkman.debian.org with local (Exim 4.72)
+ (envelope-from <buildd at alkman.debian.org>)
+ id 1RPpiS-0004S8-8O; Mon, 14 Nov 2011 06:08:24 +0000
+Date: Mon, 14 Nov 2011 06:08:24 +0000
+Message-Id: <E1RPpiS-0004S8-8O at alkman.debian.org>
+From: buildd on alkman <buildd at alkman.debian.org>
+To: buildd-porters at alkman.debian.org,logs at buildd.debian.org
+Subject: Log for successful build of bwa_0.5.10-1 on ia64 (dist=sid)
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit
-Message-Id: <E1PyJRJ-00043H-95 at mundy.debian.org>
-Date: Sat, 12 Mar 2011 07:40:41 +0000
Delivered-To: logs at buildd.debian.org
-sbuild (Debian sbuild) 0.60.5 (14 Nov 2010) on mundy.debian.org
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on alkman.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bwa 0.5.9-2 (ia64) 12 Mar 2011 07:38 ║
+║ bwa 0.5.10-1 (ia64) 14 Nov 2011 06:04 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bwa
-Version: 0.5.9-2
+Version: 0.5.10-1
+Source Version: 0.5.10-1
Architecture: ia64
-Chroot Build Dir: /var/lib/schroot/mount/sid-ia64-sbuild-23704d2e-73ef-4e38-b692-16977a849610/build/buildd-bwa_0.5.9-2-ia64-GfsQMB
-Start Time: 20110312-0738
-Get:1 http://spohr.debian.org unstable InRelease [147 kB]
-Get:2 http://incoming.debian.org unstable InRelease [147 kB]
-Get:3 http://spohr.debian.org unstable/main Sources [4193 kB]
-Get:4 http://spohr.debian.org unstable/contrib Sources [38.7 kB]
-Get:5 http://spohr.debian.org unstable/non-free Sources [81.8 kB]
-Get:6 http://spohr.debian.org unstable/main ia64 Packages [6802 kB]
+Get:1 http://spohr.debian.org unstable InRelease [146 kB]
+Get:2 http://spohr.debian.org unstable/main Sources [5923 kB]
+Get:3 http://incoming.debian.org unstable InRelease [146 kB]
+Get:4 http://spohr.debian.org unstable/contrib Sources [57.2 kB]
+Get:5 http://spohr.debian.org unstable/non-free Sources [103 kB]
+Get:6 http://spohr.debian.org unstable/main ia64 Packages [7546 kB]
Ign http://incoming.debian.org InRelease
-Get:7 http://incoming.debian.org Release.gpg [835 B]
-Get:8 http://incoming.debian.org unstable/main Sources [4193 kB]
-Get:9 http://spohr.debian.org unstable/contrib ia64 Packages [51.8 kB]
+Get:7 http://incoming.debian.org Release.gpg [836 B]
+Get:8 http://incoming.debian.org unstable/main Sources [5923 kB]
+Get:9 http://spohr.debian.org unstable/contrib ia64 Packages [56.3 kB]
Ign http://spohr.debian.org unstable/contrib TranslationIndex
-Get:10 http://spohr.debian.org unstable/main TranslationIndex [2232 B]
+Get:10 http://spohr.debian.org unstable/main TranslationIndex [2045 B]
Ign http://spohr.debian.org unstable/contrib Translation-en
-Get:11 http://incoming.debian.org unstable/contrib Sources [38.7 kB]
-Get:12 http://incoming.debian.org unstable/non-free Sources [81.8 kB]
-Get:13 http://incoming.debian.org unstable/main ia64 Packages [6802 kB]
-Get:14 http://incoming.debian.org unstable/contrib ia64 Packages [51.8 kB]
+Get:11 http://incoming.debian.org unstable/contrib Sources [57.2 kB]
+Get:12 http://incoming.debian.org unstable/non-free Sources [103 kB]
+Get:13 http://incoming.debian.org unstable/main ia64 Packages [7546 kB]
+Get:14 http://incoming.debian.org unstable/contrib ia64 Packages [56.3 kB]
Ign http://incoming.debian.org unstable/contrib TranslationIndex
-Get:15 http://incoming.debian.org unstable/main TranslationIndex [2232 B]
+Get:15 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
Get:16 http://incoming.debian.org Release [1604 B]
-Get:17 http://incoming.debian.org Sources [36.1 kB]
-Get:18 http://incoming.debian.org Packages [524 kB]
+Get:17 http://incoming.debian.org Sources [36.5 kB]
+Get:18 http://incoming.debian.org Packages [317 kB]
Ign http://incoming.debian.org unstable/contrib Translation-en
Ign http://incoming.debian.org Translation-en
-Fetched 23.2 MB in 15s (1537 kB/s)
+Fetched 28.0 MB in 23s (1169 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -82,33 +81,91 @@ Reading package lists...
Building dependency tree...
Reading state information...
NOTICE: 'bwa' packaging is maintained in the 'Git' version control system at:
-git://git.debian.org/git/debian-med/bwa.git
-Need to get 119 kB of source archives.
-Get:1 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (dsc) [1245 B]
-Get:2 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (tar) [114 kB]
-Get:3 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (diff) [3828 B]
-Fetched 119 kB in 0s (192 kB/s)
+git://git.debian.org/debian-med/bwa.git
+Need to get 126 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (dsc) [1929 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (tar) [120 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (diff) [4113 B]
+Fetched 126 kB in 0s (203 kB/s)
Download complete and in download only mode
Check arch
──────────
-** Using build dependencies supplied by package:
-Build-Depends: debhelper (>= 8), zlib1g-dev
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install build dependencies (internal resolver) │
+│ Install core build dependencies (internal resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
-Checking for already installed source dependencies...
+Build-Depends: build-essential, fakeroot
+Checking for already installed dependencies...
+build-essential: already installed (11.5)
+fakeroot: already installed (1.18.1-1)
+Checking for dependency conflicts...
+Installing positive dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following packages were automatically installed and are no longer required:
+ libppl9 libpwl5 libppl-c4 libcloog-ppl0 libgmpxx4ldbl
+Use 'apt-get autoremove' to remove them.
+0 upgraded, 0 newly installed, 0 to remove and 53 not upgraded.
+Removing negative dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following packages were automatically installed and are no longer required:
+ libppl9 libpwl5 libppl-c4 libcloog-ppl0 libgmpxx4ldbl
+Use 'apt-get autoremove' to remove them.
+0 upgraded, 0 newly installed, 0 to remove and 53 not upgraded.
+Checking correctness of dependencies...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install bwa build dependencies (internal 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, libc6.1-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 8), zlib1g-dev
+Checking for already installed dependencies...
+base-files: already installed (6.5)
+base-passwd: already installed (3.5.23)
+bash: already installed (4.1-3)
+coreutils: already installed (8.13-3)
+dash: already installed (0.5.7-2)
+debianutils: already installed (4.0.3)
+diffutils: already installed (1:3.0-1)
+dpkg: already installed (1.16.1)
+e2fsprogs: already installed (1.42~WIP-2011-07-02-1)
+findutils: already installed (4.4.2-1+b1)
+grep: already installed (2.9-2)
+gzip: already installed (1.4-1)
+hostname: already installed (3.06)
+ncurses-base: already installed (5.9-2)
+ncurses-bin: already installed (5.9-2)
+perl-base: already installed (5.12.4-4)
+sed: already installed (4.2.1-9)
+login: already installed (1:4.1.4.2+svn3283-3)
+sysvinit-utils: already installed (2.88dsf-13.11)
+sysvinit: already installed (2.88dsf-13.11)
+tar: already installed (1.26-2)
+bsdutils: already installed (1:2.19.1-5)
+mount: already installed (2.19.1-5)
+util-linux: already installed (2.19.1-5)
+libc6.1-dev: already installed (2.13-21)
+gcc: already installed (4:4.6.1-3 >= 4:4.4.3 is satisfied)
+g++: already installed (4:4.6.1-3 >= 4:4.4.3 is satisfied)
+make: already installed (3.81-8.1)
+dpkg-dev: already installed (1.16.1 >= 1.13.5 is satisfied)
debhelper: missing
-Using default version 8.1.2
+Using default version 8.9.9
zlib1g-dev: missing
-Checking for source dependency conflicts...
+Checking for dependency conflicts...
Installing positive dependencies: debhelper zlib1g-dev
Reading package lists...
Building dependency tree...
Reading state information...
+The following packages were automatically installed and are no longer required:
+ libppl9 libpwl5 libppl-c4 libcloog-ppl0 libgmpxx4ldbl
+Use 'apt-get autoremove' to remove them.
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
@@ -123,93 +180,100 @@ The following NEW packages will be installed:
bsdmainutils debhelper file gettext gettext-base groff-base html2text
intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1
libunistring0 libxml2 man-db po-debconf zlib1g-dev
-0 upgraded, 18 newly installed, 0 to remove and 1 not upgraded.
+0 upgraded, 18 newly installed, 0 to remove and 53 not upgraded.
Need to get 11.0 MB of archives.
-After this operation, 38.1 MB of additional disk space will be used.
-Get:1 http://spohr.debian.org/debian/ unstable/main bsdmainutils ia64 8.2.2 [236 kB]
-Get:2 http://spohr.debian.org/debian/ unstable/main groff-base ia64 1.21-4 [1400 kB]
-Get:3 http://spohr.debian.org/debian/ unstable/main libpipeline1 ia64 1.1.0-1 [46.5 kB]
-Get:4 http://spohr.debian.org/debian/ unstable/main man-db ia64 2.5.9-4 [1154 kB]
-Get:5 http://spohr.debian.org/debian/ unstable/main libmagic1 ia64 5.04-5 [263 kB]
-Get:6 http://spohr.debian.org/debian/ unstable/main file ia64 5.04-5 [51.9 kB]
-Get:7 http://spohr.debian.org/debian/ unstable/main gettext-base ia64 0.18.1.1-3 [174 kB]
-Get:8 http://spohr.debian.org/debian/ unstable/main libpcre3 ia64 8.12-3 [316 kB]
-Get:9 http://spohr.debian.org/debian/ unstable/main libxml2 ia64 2.7.8.dfsg-2 [1181 kB]
-Get:10 http://spohr.debian.org/debian/ unstable/main html2text ia64 1.3.2a-15 [134 kB]
-Get:11 http://spohr.debian.org/debian/ unstable/main libglib2.0-0 ia64 2.28.1-1+b1 [1963 kB]
-Get:12 http://spohr.debian.org/debian/ unstable/main libcroco3 ia64 0.6.2-1 [155 kB]
-Get:13 http://spohr.debian.org/debian/ unstable/main libunistring0 ia64 0.9.3-3 [469 kB]
-Get:14 http://spohr.debian.org/debian/ unstable/main gettext ia64 0.18.1.1-3 [2453 kB]
-Get:15 http://spohr.debian.org/debian/ unstable/main intltool-debian ia64 0.35.0+20060710.1 [30.8 kB]
-Get:16 http://spohr.debian.org/debian/ unstable/main po-debconf ia64 1.0.16+nmu1 [223 kB]
-Get:17 http://spohr.debian.org/debian/ unstable/main debhelper ia64 8.1.2 [553 kB]
+After this operation, 35.3 MB of additional disk space will be used.
+Get:1 http://spohr.debian.org/debian/ unstable/main libpipeline1 ia64 1.2.0-5 [47.1 kB]
+Get:2 http://spohr.debian.org/debian/ unstable/main libpcre3 ia64 8.12-4 [272 kB]
+Get:3 http://spohr.debian.org/debian/ unstable/main libglib2.0-0 ia64 2.28.8-1 [1992 kB]
+Get:4 http://spohr.debian.org/debian/ unstable/main libxml2 ia64 2.7.8.dfsg-5 [1177 kB]
+Get:5 http://spohr.debian.org/debian/ unstable/main libcroco3 ia64 0.6.2-2 [147 kB]
+Get:6 http://spohr.debian.org/debian/ unstable/main libunistring0 ia64 0.9.3-5 [463 kB]
+Get:7 http://spohr.debian.org/debian/ unstable/main bsdmainutils ia64 8.2.3 [238 kB]
+Get:8 http://spohr.debian.org/debian/ unstable/main groff-base ia64 1.21-6 [1402 kB]
+Get:9 http://spohr.debian.org/debian/ unstable/main man-db ia64 2.6.0.2-3 [1119 kB]
+Get:10 http://spohr.debian.org/debian/ unstable/main libmagic1 ia64 5.09-2 [271 kB]
+Get:11 http://spohr.debian.org/debian/ unstable/main file ia64 5.09-2 [54.4 kB]
+Get:12 http://spohr.debian.org/debian/ unstable/main gettext-base ia64 0.18.1.1-5 [173 kB]
+Get:13 http://spohr.debian.org/debian/ unstable/main html2text ia64 1.3.2a-15 [134 kB]
+Get:14 http://spohr.debian.org/debian/ unstable/main gettext ia64 0.18.1.1-5 [2439 kB]
+Get:15 http://spohr.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get:16 http://spohr.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get:17 http://spohr.debian.org/debian/ unstable/main debhelper all 8.9.9 [552 kB]
Get:18 http://spohr.debian.org/debian/ unstable/main zlib1g-dev ia64 1:1.2.3.4.dfsg-3 [224 kB]
debconf: delaying package configuration, since apt-utils is not installed
-Fetched 11.0 MB in 0s (14.2 MB/s)
-Selecting previously deselected package bsdmainutils.
-(Reading database ... 10169 files and directories currently installed.)
-Unpacking bsdmainutils (from .../bsdmainutils_8.2.2_ia64.deb) ...
-Selecting previously deselected package groff-base.
-Unpacking groff-base (from .../groff-base_1.21-4_ia64.deb) ...
-Selecting previously deselected package libpipeline1.
-Unpacking libpipeline1 (from .../libpipeline1_1.1.0-1_ia64.deb) ...
-Selecting previously deselected package man-db.
-Unpacking man-db (from .../man-db_2.5.9-4_ia64.deb) ...
-Selecting previously deselected package libmagic1.
-Unpacking libmagic1 (from .../libmagic1_5.04-5_ia64.deb) ...
-Selecting previously deselected package file.
-Unpacking file (from .../archives/file_5.04-5_ia64.deb) ...
-Selecting previously deselected package gettext-base.
-Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_ia64.deb) ...
-Selecting previously deselected package libpcre3.
-Unpacking libpcre3 (from .../libpcre3_8.12-3_ia64.deb) ...
-Selecting previously deselected package libxml2.
-Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_ia64.deb) ...
-Selecting previously deselected package html2text.
+Fetched 11.0 MB in 3s (2811 kB/s)
+Selecting previously unselected package libpipeline1.
+(Reading database ... 10538 files and directories currently installed.)
+Unpacking libpipeline1 (from .../libpipeline1_1.2.0-5_ia64.deb) ...
+Selecting previously unselected package libpcre3.
+Unpacking libpcre3 (from .../libpcre3_8.12-4_ia64.deb) ...
+Selecting previously unselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.8-1_ia64.deb) ...
+Selecting previously unselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-5_ia64.deb) ...
+Selecting previously unselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-2_ia64.deb) ...
+Selecting previously unselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-5_ia64.deb) ...
+Selecting previously unselected package bsdmainutils.
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.3_ia64.deb) ...
+Selecting previously unselected package groff-base.
+Unpacking groff-base (from .../groff-base_1.21-6_ia64.deb) ...
+Selecting previously unselected package man-db.
+Unpacking man-db (from .../man-db_2.6.0.2-3_ia64.deb) ...
+Selecting previously unselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.09-2_ia64.deb) ...
+Selecting previously unselected package file.
+Unpacking file (from .../archives/file_5.09-2_ia64.deb) ...
+Selecting previously unselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-5_ia64.deb) ...
+Selecting previously unselected package html2text.
Unpacking html2text (from .../html2text_1.3.2a-15_ia64.deb) ...
-Selecting previously deselected package libglib2.0-0.
-Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.1-1+b1_ia64.deb) ...
-Selecting previously deselected package libcroco3.
-Unpacking libcroco3 (from .../libcroco3_0.6.2-1_ia64.deb) ...
-Selecting previously deselected package libunistring0.
-Unpacking libunistring0 (from .../libunistring0_0.9.3-3_ia64.deb) ...
-Selecting previously deselected package gettext.
-Unpacking gettext (from .../gettext_0.18.1.1-3_ia64.deb) ...
-Selecting previously deselected package intltool-debian.
-Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_ia64.deb) ...
-Selecting previously deselected package po-debconf.
-Unpacking po-debconf (from .../po-debconf_1.0.16+nmu1_ia64.deb) ...
-Selecting previously deselected package debhelper.
-Unpacking debhelper (from .../debhelper_8.1.2_ia64.deb) ...
-Selecting previously deselected package zlib1g-dev.
+Selecting previously unselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-5_ia64.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+nmu1_all.deb) ...
+Selecting previously unselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.9.9_all.deb) ...
+Selecting previously unselected package zlib1g-dev.
Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_ia64.deb) ...
-Setting up bsdmainutils (8.2.2) ...
+Setting up libpipeline1 (1.2.0-5) ...
+Setting up libpcre3 (8.12-4) ...
+Setting up libglib2.0-0 (2.28.8-1) ...
+No schema files found: doing nothing.
+Setting up libxml2 (2.7.8.dfsg-5) ...
+Setting up libcroco3 (0.6.2-2) ...
+Setting up libunistring0 (0.9.3-5) ...
+Setting up bsdmainutils (8.2.3) ...
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 man-db (2.5.9-4) ...
+Setting up groff-base (1.21-6) ...
+Setting up man-db (2.6.0.2-3) ...
Building database of manual pages ...
-Setting up libmagic1 (5.04-5) ...
-Setting up file (5.04-5) ...
-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 libmagic1 (5.09-2) ...
+Setting up file (5.09-2) ...
+Setting up gettext-base (0.18.1.1-5) ...
Setting up html2text (1.3.2a-15) ...
-Setting up libglib2.0-0 (2.28.1-1+b1) ...
-No schema files found: doing nothing.
-Setting up libcroco3 (0.6.2-1) ...
-Setting up libunistring0 (0.9.3-3) ...
-Setting up gettext (0.18.1.1-3) ...
+Setting up gettext (0.18.1.1-5) ...
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 debhelper (8.9.9) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
Removing negative dependencies:
-Checking correctness of source dependencies...
-Kernel: Linux 2.6.32-bpo.5-mckinley ia64 (ia64)
-Toolchain package versions: libc6.1-dev_2.11.2-13 dpkg-dev_1.15.8.10 linux-libc-dev_2.6.37-2 gcc-4.4_4.4.5-13 g++-4.4_4.4.5-13 binutils_2.21.0.20110302-1 libstdc++6-4.4-dev_4.4.5-13 libstdc++6_4.5.2-5
-Package versions: apt_0.8.12 base-files_6.1 base-passwd_3.5.22 bash_4.1-3 binutils_2.21.0.20110302-1 bsdmainutils_8.2.2 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 coreutils_8.5-1 cpp_4:4.4.5-4 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++_4:4.4.5-4 g++-4.4_4.4.5-13 gcc_4:4.4.5-4 gcc-4.4_4.4.5-13 gcc-4.4-base_4.4.5-13 gcc-4.5-base_4.5.2-5 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_3.06 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 libc6.1_2.11.2-13 libc6.1-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_1:7.1-7 libgcc1_1:4.5.2-5 libgdbm3_1.8.3-9 libglib2.0-0_2.28.1-1+b1 libgmp10_2:5.0.1+dfsg-6 libgmp3c2_2:4.3.2+dfsg-1 libgomp1_4.5.2-5 liblocale-gettext-perl_1.05-6 liblzma2_5.0.0-2 libmagic1_5.04-5 libmpfr1ldbl_2.4.2-3 libmpfr4_3.0.0-9 libncurses5_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_1.1.0-1 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_4.5.2-5 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 libunwind7_0.99-0.2 libunwind7-dev_0.99-0.2 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 lzma_4.43-14 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_5.10.1-17 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 sudo_1.7.4p6-1 sysv-rc_2.88dsf-13.1 sysvinit_2.88dsf-13.1 sysvinit-utils_2.88dsf-13.1 tar_1.25-3 tzdata_2011c-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
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following packages were automatically installed and are no longer required:
+ libppl9 libpwl5 libppl-c4 libcloog-ppl0 libgmpxx4ldbl
+Use 'apt-get autoremove' to remove them.
+0 upgraded, 0 newly installed, 0 to remove and 53 not upgraded.
+Checking correctness of dependencies...
+Kernel: Linux 2.6.32-5-mckinley ia64 (ia64)
+Toolchain package versions: binutils_2.21.53.20110922-1 dpkg-dev_1.16.1 g++-4.6_4.6.1-13 gcc-4.6_4.6.1-13 libc6.1-dev_2.13-21 libstdc++6_4.6.1-13 libstdc++6-4.6-dev_4.6.1-13 linux-libc-dev_3.0.0-4
+Package versions: apt_0.8.15.8 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.53.20110922-1 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 coreutils_8.13-3 cpp_4:4.6.1-3 cpp-4.6_4.6.1-13 dash_0.5.7-2 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.9 debian-archive-keyring_2010.08.28 debianutils_4.0.3 diffutils_1:3.0-1 dpkg_1.16.1 dpkg-dev_1.16.1 e2fslibs_1.42~WIP-2011-07-02-1 e2fsprogs_1.42~WIP-2011-07-02-1 fakeroot_1.18.1-1 file_5.09-2 findutils_4.4.2-1+b1 g++_4:4.6.1-3 g++-4.6_4.6.1-13 gcc_4:4.6.1-3 gcc-4.4-base_4.4.6-11 gcc-4.5-base_4.5.3-9 gcc-4.6_4.6.1-13 gcc-4.6-base_4.6.1-13 gettext_0.18.1.1-5 gettext-base_0.18.1.1-5 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.11 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-3 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbz2-1.0_1.0.5-7 libc-bin_2.13-21 libc-dev-bin_2.13-21 libc6.1_2.13-21 libc6.1-dev_2.13-21 libcloog-ppl0_0.15.9-3 libcomerr2_1.42~WIP-2011-07-02-1 libcroco3_0.6.2-2 libdb5.1_5.1.25-11 libdpkg-perl_1.16.1 libgc1c2_1:7.1-8 libgcc1_1:4.6.1-13 libgdbm3_1.8.3-10 libglib2.0-0_2.28.8-1 libgmp10_2:5.0.2+dfsg-1 libgmpxx4ldbl_2:5.0.2+dfsg-1 libgomp1_4.6.1-13 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.09-2 libmount1_2.19.1-5 libmpc2_0.9-3 libmpfr4_3.0.1-6 libncurses5_5.9-2 libpam-modules_1.1.3-4 libpam-modules-bin_1.1.3-4 libpam-runtime_1.1.3-4 libpam0g_1.1.3-4 libpcre3_8.12-4 libpipeline1_1.2.0-5 libppl-c4_0.11.2-4 libppl9_0.11.2-4 libpwl5_0.11.2-4 libquadmath0_4.6.1-13 libreadline6_6.2-5 libselinux1_2.1.0-1 libsepol1_2.1.0-1.1 libslang2_2.2.4-3 libss2_1.42~WIP-2011-07-02-1 libstdc++6_4.6.1-13 libstdc++6-4.6-dev_4.6.1-13 libtimedate-perl_1.2000-1 libtinfo5_5.9-2 libunistring0_0.9.3-5 libunwind7_0.99-0.3 libunwind7-dev_0.99-0.3 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-5 linux-libc-dev_3.0.0-4 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-3 mawk_1.3.3-15 mount_2.19.1-5 multiarch-support_2.13-21 ncurses-base_5.9-2 ncurses-bin_5.9-2 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-4 perl-base_5.12.4-4 perl-modules_5.12.4-4 po-debconf_1.0.16+nmu1 readline-common_6.2-5 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.2-2 sysv-rc_2.88dsf-13.11 sysvinit_2.88dsf-13.11 sysvinit-utils_2.88dsf-13.11 tar_1.26-2 tzdata_2011k-1 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -219,14 +283,13 @@ Package versions: apt_0.8.12 base-files_6.1 base-passwd_3.5.22 bash_4.1-3 binuti
Unpack source
─────────────
-dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
-gpgv: Signature made Fri Mar 11 21:59:41 2011 UTC using DSA key ID C09FD35A
+gpgv: Signature made Mon Nov 14 04:21:35 2011 UTC using RSA key ID 2295D502
gpgv: Can't check signature: public key not found
-dpkg-source: warning: failed to verify signature on ./bwa_0.5.9-2.dsc
-dpkg-source: info: extracting bwa in bwa-0.5.9
-dpkg-source: info: unpacking bwa_0.5.9.orig.tar.bz2
-dpkg-source: info: unpacking bwa_0.5.9-2.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bwa_0.5.10-1.dsc
+dpkg-source: info: extracting bwa in bwa-0.5.10
+dpkg-source: info: unpacking bwa_0.5.10.orig.tar.bz2
+dpkg-source: info: unpacking bwa_0.5.10-1.debian.tar.gz
Check disc space
────────────────
@@ -235,42 +298,48 @@ Check disc space
dpkg-buildpackage
─────────────────
-dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
-dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
-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: dpkg-buildflags (origin: vendor): CFLAGS = -g -O2 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security
+dpkg-buildpackage: dpkg-buildflags (origin: vendor): CPPFLAGS =
+dpkg-buildpackage: dpkg-buildflags (origin: vendor): CXXFLAGS = -g -O2 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security
+dpkg-buildpackage: dpkg-buildflags (origin: vendor): FFLAGS = -g -O2
+dpkg-buildpackage: dpkg-buildflags (origin: vendor): LDFLAGS =
dpkg-buildpackage: source package bwa
-dpkg-buildpackage: source version 0.5.9-2
- dpkg-source --before-build bwa-0.5.9
+dpkg-buildpackage: source version 0.5.10-1
+ dpkg-source --before-build bwa-0.5.10
dpkg-buildpackage: host architecture ia64
- /usr/bin/fakeroot debian/rules clean
+ fakeroot debian/rules clean
dh clean
dh_testdir
dh_auto_clean
-make[1]: Entering directory `/build/buildd-bwa_0.5.9-2-ia64-GfsQMB/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-ia64-GfsQMB/bwa-0.5.9'
+make[1]: Entering directory `/build/buildd-bwa_0.5.10-1-ia64-XQOwWM/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-ia64-XQOwWM/bwa-0.5.10'
rm -f gmon.out *.o a.out bwa *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-ia64-GfsQMB/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-ia64-GfsQMB/bwa-0.5.9/bwt_gen'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-ia64-XQOwWM/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-ia64-XQOwWM/bwa-0.5.10/bwt_gen'
rm -f gmon.out *.o a.out *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-ia64-GfsQMB/bwa-0.5.9/bwt_gen'
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9-2-ia64-GfsQMB/bwa-0.5.9'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-ia64-XQOwWM/bwa-0.5.10/bwt_gen'
+make[1]: Leaving directory `/build/buildd-bwa_0.5.10-1-ia64-XQOwWM/bwa-0.5.10'
dh_clean
debian/rules build
dh build
dh_testdir
dh_auto_configure
dh_auto_build
-make[1]: Entering directory `/build/buildd-bwa_0.5.9-2-ia64-GfsQMB/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-ia64-GfsQMB/bwa-0.5.9'
+make[1]: Entering directory `/build/buildd-bwa_0.5.10-1-ia64-XQOwWM/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-ia64-XQOwWM/bwa-0.5.10'
make[2]: Nothing to be done for `lib'.
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-ia64-GfsQMB/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-ia64-GfsQMB/bwa-0.5.9/bwt_gen'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-ia64-XQOwWM/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-ia64-XQOwWM/bwa-0.5.10/bwt_gen'
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt_gen.c -o bwt_gen.o
+bwt_gen.c: In function 'BWTIncBuildRelativeRank':
+bwt_gen.c:824:15: warning: variable 'oldInverseSa0RelativeRank' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncMergeBwt':
+bwt_gen.c:899:15: warning: variable 'bitsInWordMinusBitPerChar' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD QSufSort.c -o QSufSort.o
-ar -cru libbwtgen.a bwt_gen.o QSufSort.o
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-ia64-GfsQMB/bwa-0.5.9/bwt_gen'
+QSufSort.c: In function 'QSufSortSuffixSort':
+QSufSort.c:89:6: warning: variable 'maxNumInputSymbol' set but not used [-Wunused-but-set-variable]
+ar -scru libbwtgen.a bwt_gen.o QSufSort.o
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-ia64-XQOwWM/bwa-0.5.10/bwt_gen'
gcc -c -g -Wall -O2 -DHAVE_PTHREAD utils.c -o utils.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt.c -o bwt.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtio.c -o bwtio.o
@@ -279,25 +348,37 @@ gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtgap.c -o bwtgap.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD is.c -o is.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bntseq.c -o bntseq.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtmisc.c -o bwtmisc.o
+bwtmisc.c: In function 'bwa_pac_rev_core':
+bwtmisc.c:163:20: warning: variable 'j' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtindex.c -o bwtindex.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD stdaln.c -o stdaln.o
+stdaln.c: In function 'aln_local_core':
+stdaln.c:545:25: warning: variable 'b' set but not used [-Wunused-but-set-variable]
+stdaln.c: In function 'aln_extend_core':
+stdaln.c:865:16: warning: variable 'tmp_len' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD simple_dp.c -o simple_dp.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwaseqio.c -o bwaseqio.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwase.c -o bwase.o
+bwase.c: In function 'bwa_aln2seq_core':
+bwase.c:75:15: warning: variable 'k' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_print_sam1':
+bwase.c:452:17: warning: variable 'm_is_N' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwape.c -o bwape.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD kstring.c -o kstring.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD cs2nt.c -o cs2nt.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_core.c -o bwtsw2_core.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_main.c -o bwtsw2_main.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_aux.c -o bwtsw2_aux.o
+bwtsw2_aux.c: In function 'gen_cigar':
+bwtsw2_aux.c:193:7: warning: variable 'score' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt_lite.c -o bwt_lite.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_chain.c -o bwtsw2_chain.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bamlite.c -o bamlite.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD main.c -o main.o
gcc -g -Wall -O2 -DHAVE_PTHREAD utils.o bwt.o bwtio.o bwtaln.o bwtgap.o is.o bntseq.o bwtmisc.o bwtindex.o stdaln.o simple_dp.o bwaseqio.o bwase.o bwape.o kstring.o cs2nt.o bwtsw2_core.o bwtsw2_main.o bwtsw2_aux.o bwt_lite.o bwtsw2_chain.o bamlite.o main.o -o bwa -lm -lz -lpthread -Lbwt_gen -lbwtgen
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9-2-ia64-GfsQMB/bwa-0.5.9'
+make[1]: Leaving directory `/build/buildd-bwa_0.5.10-1-ia64-XQOwWM/bwa-0.5.10'
dh_auto_test
- /usr/bin/fakeroot debian/rules binary-arch
+ fakeroot debian/rules binary-arch
dh binary-arch
dh_testroot -a
dh_prep -a
@@ -325,7 +406,9 @@ dh binary-arch
dh_installudev -a
dh_installwm -a
dh_installxfonts -a
+ dh_installgsettings -a
dh_bugfiles -a
+ dh_ucf -a
dh_lintian -a
dh_gconf -a
dh_icons -a
@@ -342,57 +425,61 @@ dh binary-arch
dpkg-gencontrol: warning: package bwa: unused substitution variable ${perl:Depends}
dh_md5sums -a
dh_builddeb -a
-dpkg-deb: building package `bwa' in `../bwa_0.5.9-2_ia64.deb'.
- dpkg-genchanges -B -mia64 Build Daemon (mundy) <buildd_ia64-mundy at buildd.debian.org> >../bwa_0.5.9-2_ia64.changes
+dpkg-deb: building package `bwa' in `../bwa_0.5.10-1_ia64.deb'.
+ dpkg-genchanges -B -mia64 Build Daemon (alkman) <buildd_ia64-alkman at buildd.debian.org> >../bwa_0.5.10-1_ia64.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 bwa-0.5.9
+ dpkg-source --after-build bwa-0.5.10
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110312-0740
+Build finished at 20111114-0608
-bwa_0.5.9-2_ia64.changes:
+bwa_0.5.10-1_ia64.changes:
Format: 1.8
-Date: Fri, 11 Mar 2011 22:49:07 +0100
+Date: Mon, 14 Nov 2011 13:12:50 +0900
Source: bwa
Binary: bwa
Architecture: ia64
-Version: 0.5.9-2
+Version: 0.5.10-1
Distribution: sid
Urgency: low
-Maintainer: ia64 Build Daemon (mundy) <buildd_ia64-mundy at buildd.debian.org>
-Changed-By: Andreas Tille <tille at debian.org>
+Maintainer: ia64 Build Daemon (alkman) <buildd_ia64-alkman at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
Description:
bwa - Burrows-Wheeler Aligner
Changes:
- bwa (0.5.9-2) unstable; urgency=low
+ bwa (0.5.10-1) unstable; urgency=low
.
- * Watchfile should not regard rc releases.
- * Drop cdbs in favour of dh
+ [a01f6ca] New upstream release.
+ [6d7bc7f] Conforms with Debian Policy version 3.9.2.
+ [125c73d] Corrected Vcs-Git URL.
+ [37f43c9] Normalised machine-readable copyright file with config-edit.
+ [4e2e0d0] Distribute xa2multi.pl in ‘usr/share/bwa’.
+ [b106d64] Removed redundant ChangeLog file, already installed by Debhelper.
Checksums-Sha1:
- 5f590d66cb5fa31bb38793047efc8fccf3f71817 207460 bwa_0.5.9-2_ia64.deb
+ 4cc31d07eab3b280f19eda8081a6b36e4db33f85 210050 bwa_0.5.10-1_ia64.deb
Checksums-Sha256:
- 49d18ee4011bd7e94182545403c882e07720be08e1a133ab00b4dedb2f0e72e3 207460 bwa_0.5.9-2_ia64.deb
+ 08e182a831ea19ae65c6292366dc7d632603ba2af0f4521c7c126e250cf93e65 210050 bwa_0.5.10-1_ia64.deb
Files:
- a98c1d2f00cc37ddd6be0566a78f269b 207460 science optional bwa_0.5.9-2_ia64.deb
+ 3ff1bc53862c3168a27184c906aed428 210050 science optional bwa_0.5.10-1_ia64.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bwa_0.5.9-2_ia64.deb
-────────────────────
+bwa_0.5.10-1_ia64.deb
+─────────────────────
new debian package, version 2.0.
- size 207460 bytes: control archive= 975 bytes.
- 775 bytes, 17 lines control
- 615 bytes, 10 lines md5sums
+ size 210050 bytes: control archive= 993 bytes.
+ 776 bytes, 17 lines control
+ 610 bytes, 10 lines md5sums
Package: bwa
- Version: 0.5.9-2
+ Version: 0.5.10-1
Architecture: ia64
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 536
+ Installed-Size: 463
Depends: libc6.1 (>= 2.7), zlib1g (>= 1:1.1.4)
Suggests: samtools
Section: science
@@ -406,25 +493,25 @@ bwa_0.5.9-2_ia64.deb
to around 100 kbp. Both algorithms do gapped alignment. They are usually more
accurate and faster on queries with low error rates.
-drwxr-xr-x root/root 0 2011-03-12 07:40 ./
-drwxr-xr-x root/root 0 2011-03-12 07:40 ./usr/
-drwxr-xr-x root/root 0 2011-03-12 07:40 ./usr/share/
-drwxr-xr-x root/root 0 2011-03-12 07:40 ./usr/share/bwa/
--rwxr-xr-x root/root 3176 2011-01-25 00:00 ./usr/share/bwa/solid2fastq.pl
--rwxr-xr-x root/root 616 2011-01-25 00:00 ./usr/share/bwa/qualfa2fq.pl
-drwxr-xr-x root/root 0 2011-03-12 07:40 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-03-12 07:40 ./usr/share/doc/bwa/
--rw-r--r-- root/root 634 2011-01-25 00:00 ./usr/share/doc/bwa/README
--rw-r--r-- root/root 17912 2011-01-25 00:00 ./usr/share/doc/bwa/ChangeLog.gz
--rw-r--r-- root/root 17912 2011-01-25 00:00 ./usr/share/doc/bwa/changelog.gz
--rw-r--r-- root/root 2676 2011-02-08 07:09 ./usr/share/doc/bwa/copyright
--rw-r--r-- root/root 5857 2011-01-25 00:00 ./usr/share/doc/bwa/NEWS.gz
--rw-r--r-- root/root 957 2011-03-11 21:54 ./usr/share/doc/bwa/changelog.Debian.gz
-drwxr-xr-x root/root 0 2011-03-12 07:40 ./usr/share/man/
-drwxr-xr-x root/root 0 2011-03-12 07:40 ./usr/share/man/man1/
--rw-r--r-- root/root 7554 2011-03-12 07:40 ./usr/share/man/man1/bwa.1.gz
-drwxr-xr-x root/root 0 2011-03-12 07:40 ./usr/bin/
--rwxr-xr-x root/root 422872 2011-03-12 07:40 ./usr/bin/bwa
+drwxr-xr-x root/root 0 2011-11-14 06:08 ./
+drwxr-xr-x root/root 0 2011-11-14 06:08 ./usr/
+drwxr-xr-x root/root 0 2011-11-14 06:08 ./usr/share/
+drwxr-xr-x root/root 0 2011-11-14 06:08 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-11-14 06:08 ./usr/share/man/man1/
+-rw-r--r-- root/root 7554 2011-11-14 06:08 ./usr/share/man/man1/bwa.1.gz
+drwxr-xr-x root/root 0 2011-11-14 06:08 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-11-14 06:08 ./usr/share/doc/bwa/
+-rw-r--r-- root/root 5857 2011-11-13 01:08 ./usr/share/doc/bwa/NEWS.gz
+-rw-r--r-- root/root 1159 2011-11-14 04:16 ./usr/share/doc/bwa/changelog.Debian.gz
+-rw-r--r-- root/root 17912 2011-11-13 01:07 ./usr/share/doc/bwa/changelog.gz
+-rw-r--r-- root/root 2740 2011-11-14 04:09 ./usr/share/doc/bwa/copyright
+-rw-r--r-- root/root 634 2011-11-13 01:07 ./usr/share/doc/bwa/README
+drwxr-xr-x root/root 0 2011-11-14 06:08 ./usr/share/bwa/
+-rwxr-xr-x root/root 730 2011-11-13 01:07 ./usr/share/bwa/xa2multi.pl
+-rwxr-xr-x root/root 616 2011-11-13 01:07 ./usr/share/bwa/qualfa2fq.pl
+-rwxr-xr-x root/root 3176 2011-11-13 01:07 ./usr/share/bwa/solid2fastq.pl
+drwxr-xr-x root/root 0 2011-11-14 06:08 ./usr/bin/
+-rwxr-xr-x root/root 432352 2011-11-14 06:08 ./usr/bin/bwa
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -433,9 +520,32 @@ drwxr-xr-x root/root 0 2011-03-12 07:40 ./usr/bin/
Built successfully
────────────────────────────────────────────────────────────────────────────────
-Purging /var/lib/schroot/mount/sid-ia64-sbuild-23704d2e-73ef-4e38-b692-16977a849610/build/buildd-bwa_0.5.9-2-ia64-GfsQMB
-Not removing build depends: cloned chroot in use
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /var/lib/schroot/mount/sid-ia64-sbuild-cf34cad6-3458-4285-8519-44936c10337f/build/buildd-bwa_0.5.10-1-ia64-XQOwWM
+Not cleaning session: cloned chroot in use
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Architecture: ia64
+Build-Space: 4932
+Build-Time: 63
+Distribution: sid
+Install-Time: 96
+Job: bwa_0.5.10-1
+Package: bwa
+Package-Time: 222
+Source-Version: 0.5.10-1
+Space: 4932
+Status: successful
+Version: 0.5.10-1
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110312-0740
-Build needed 00:02:23, 3636k disc space
+Finished at 20111114-0608
+Build needed 00:03:42, 4932k disc space
+Signature with key 'FC1E8668' requested:
diff --git a/info b/info
index ee6f53f..a382f45 100644
--- a/info
+++ b/info
@@ -1,13 +1,11 @@
-powerpc~1299914910~sid~successful
-i386~1299914917~sid~successful
-kfreebsd-i386~1299915588~sid~successful
-ia64~1299915648~sid~successful
-s390~1299915720~sid~successful
-kfreebsd-amd64~1299915958~sid~successful
-alpha~1299916748~sid~successful
-mipsel~1299917420~sid~successful
-hurd-i386~1299918873~sid~successful
-sparc~1299919173~sid~successful
-armel~1299948172~sid~successful
-mips~1299979901~sid~successful
-hppa~1299989133~sid~successful
+i386~1321245583~sid~successful
+powerpc~1321245602~sid~successful
+kfreebsd-i386~1321245632~sid~successful
+s390~1321245640~sid~successful
+armel~1321245688~sid~successful
+kfreebsd-amd64~1321245709~sid~successful
+sparc~1321245731~sid~successful
+mips~1321245931~sid~successful
+mipsel~1321245956~sid~successful
+hurd-i386~1321246004~sid~successful
+ia64~1321250909~sid~successful
diff --git a/kfreebsd-amd64.log b/kfreebsd-amd64.log
index 2cce5e0..4c5624e 100644
--- a/kfreebsd-amd64.log
+++ b/kfreebsd-amd64.log
@@ -1,69 +1,82 @@
-From buildd at fano.debian.org Sat Mar 12 07:45:57 2011
+From buildd at fano.debian.org Mon Nov 14 04:41:48 2011
Return-path: <buildd at fano.debian.org>
-Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
+Received: from kokkonen.debian.org ([2001:41b8:202:deb:1a1a:0:52c3:4b61])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
- CN=merikanto.debian.org,
- EMAIL=hostmaster at merikanto.debian.org (verified)
+ CN=kokkonen.debian.org,
+ EMAIL=hostmaster at kokkonen.debian.org (verified)
by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at fano.debian.org>)
- id 1PyJWP-0002hM-E9
- for logs at buildd.debian.org; Sat, 12 Mar 2011 07:45:57 +0000
+ (Exim 4.72) (envelope-from <buildd at fano.debian.org>)
+ id 1RPoMe-0000VG-NY
+ for logs at buildd.debian.org; Mon, 14 Nov 2011 04:41:48 +0000
Received: from fano.debian.org ([206.12.19.110])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
CN=fano.debian.org, EMAIL=hostmaster at fano.debian.org (verified)
- by merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at fano.debian.org>)
- id 1PyJWL-0000H4-PR; Sat, 12 Mar 2011 07:45:54 +0000
+ by kokkonen.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at fano.debian.org>)
+ id 1RPoMd-0006N5-8f; Mon, 14 Nov 2011 04:41:47 +0000
Received: from buildd by fano.debian.org with local (Exim 4.72)
(envelope-from <buildd at fano.debian.org>)
- id 1PyJWJ-000I1X-5G; Sat, 12 Mar 2011 07:45:51 +0000
-Date: Sat, 12 Mar 2011 07:45:51 +0000
-Message-Id: <E1PyJWJ-000I1X-5G at fano.debian.org>
+ id 1RPoMa-000Ded-RW; Mon, 14 Nov 2011 04:41:44 +0000
+Message-Id: <E1RPoMa-000Ded-RW at fano.debian.org>
+MIME-Version: 1.0
+Content-Transfer-Encoding: binary
+X-Mailer: MIME::Lite 3.027 (F2.77; B3.08; Q3.08)
+Date: Mon, 14 Nov 2011 04:41:44 +0000
From: buildd on fano <buildd at fano.debian.org>
-To: logs at buildd.debian.org,aurelien at aurel32.net,kibi at debian-ports.org
-Subject: Log for successful build of bwa_0.5.9-2 on kfreebsd-amd64 (dist=sid)
-Content-Type: text/plain; charset=UTF-8
-Content-Transfer-Encoding: 8bit
+To: logs at buildd.debian.org,aurelien at aurel32.net,christoph at debian.org
+Subject: Log for successful build of bwa_0.5.10-1 on kfreebsd-amd64 (dist=sid)
+Key-Id: D33FE1D8
Delivered-To: logs at buildd.debian.org
-sbuild (Debian sbuild) 0.60.0 (23 Feb 2010) on fano.debian.org
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on fano.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bwa 0.5.9-2 (kfreebsd-amd64) 12 Mar 2011 07:44 ║
+║ bwa 0.5.10-1 (kfreebsd-amd64) 14 Nov 2011 04:39 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bwa
-Version: 0.5.9-2
+Version: 0.5.10-1
+Source Version: 0.5.10-1
Architecture: kfreebsd-amd64
-Chroot Build Dir: /var/lib/schroot/mount/sid-ka-sbuild-1299915889-68274/build/buildd-bwa_0.5.9-2-kfreebsd-amd64-IfGSc1
-Start Time: 20110312-0744
-Hit http://ftp.ca.debian.org sid InRelease
-Hit http://incoming.debian.org sid InRelease
+Get:1 http://incoming.debian.org sid InRelease [146 kB]
Ign http://incoming.debian.org InRelease
-Hit http://ftp.ca.debian.org sid/main Sources/DiffIndex
-Hit http://incoming.debian.org Release.gpg
-Hit http://incoming.debian.org sid/main Sources/DiffIndex
-Hit http://ftp.ca.debian.org sid/main kfreebsd-amd64 Packages/DiffIndex
-Hit http://ftp.ca.debian.org sid/main TranslationIndex
+Get:2 http://incoming.debian.org Release.gpg [836 B]
+Get:3 http://incoming.debian.org sid/main Sources/DiffIndex [2038 B]
Hit http://incoming.debian.org sid/contrib Sources/DiffIndex
Hit http://incoming.debian.org sid/non-free Sources/DiffIndex
-Hit http://incoming.debian.org sid/main kfreebsd-amd64 Packages/DiffIndex
+Get:4 http://incoming.debian.org sid/main kfreebsd-amd64 Packages/DiffIndex [2038 B]
Hit http://incoming.debian.org sid/contrib kfreebsd-amd64 Packages/DiffIndex
Hit http://incoming.debian.org sid/non-free kfreebsd-amd64 Packages/DiffIndex
Ign http://incoming.debian.org sid/contrib TranslationIndex
-Hit http://incoming.debian.org sid/main TranslationIndex
+Get:5 http://incoming.debian.org sid/main TranslationIndex [2045 B]
Ign http://incoming.debian.org sid/non-free TranslationIndex
-Hit http://incoming.debian.org Release
-Ign http://incoming.debian.org sid/main 2011-03-12-0214.38.pdiff
-Ign http://incoming.debian.org sid/main kfreebsd-amd64 2011-03-12-0214.38.pdiff
-Hit http://incoming.debian.org sid/non-free kfreebsd-amd64 Packages
-Hit http://incoming.debian.org sid/main
-Hit http://incoming.debian.org sid/main kfreebsd-amd64
-Hit http://incoming.debian.org Sources
-Hit http://incoming.debian.org Packages
+Get:6 http://mirror-ubc.debian.org sid InRelease [146 kB]
+Get:7 http://mirror-ubc.debian.org sid/main Sources/DiffIndex [2038 B]
+Get:8 http://incoming.debian.org Release [1604 B]
+Get:9 http://incoming.debian.org sid/main 2011-11-14-0212.51.pdiff [9020 B]
+Get:10 http://incoming.debian.org sid/main kfreebsd-amd64 2011-11-14-0212.51.pdiff [7519 B]
+Hit http://mirror-ubc.debian.org sid/contrib Sources/DiffIndex
+Hit http://mirror-ubc.debian.org sid/non-free Sources/DiffIndex
+Get:11 http://incoming.debian.org sid/main 2011-11-14-0212.51.pdiff [9020 B]
+Get:12 http://incoming.debian.org Sources [37.6 kB]
+Get:13 http://mirror-ubc.debian.org sid/main kfreebsd-amd64 Packages/DiffIndex [2038 B]
+Hit http://mirror-ubc.debian.org sid/contrib kfreebsd-amd64 Packages/DiffIndex
+Hit http://mirror-ubc.debian.org sid/non-free kfreebsd-amd64 Packages/DiffIndex
+Ign http://mirror-ubc.debian.org sid/contrib TranslationIndex
+Get:14 http://mirror-ubc.debian.org sid/main TranslationIndex [2045 B]
+Ign http://mirror-ubc.debian.org sid/non-free TranslationIndex
+Get:15 http://mirror-ubc.debian.org sid/main 2011-11-14-0212.51.pdiff [9020 B]
+Get:16 http://incoming.debian.org Packages [341 kB]
+Get:17 http://mirror-ubc.debian.org sid/main kfreebsd-amd64 2011-11-14-0212.51.pdiff [7519 B]
+Get:18 http://incoming.debian.org sid/main kfreebsd-amd64 2011-11-14-0212.51.pdiff [7519 B]
+Ign http://mirror-ubc.debian.org sid/contrib Translation-en
+Ign http://mirror-ubc.debian.org sid/non-free Translation-en
Ign http://incoming.debian.org sid/contrib Translation-en
Ign http://incoming.debian.org sid/non-free Translation-en
Ign http://incoming.debian.org Translation-en
+Get:19 http://mirror-ubc.debian.org sid/main 2011-11-14-0212.51.pdiff [9020 B]
+Get:20 http://mirror-ubc.debian.org sid/main kfreebsd-amd64 2011-11-14-0212.51.pdiff [7519 B]
+Fetched 718 kB in 9s (71.9 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -83,109 +96,155 @@ Reading package lists...
Building dependency tree...
Reading state information...
NOTICE: 'bwa' packaging is maintained in the 'Git' version control system at:
-git://git.debian.org/git/debian-med/bwa.git
-Need to get 119 kB of source archives.
-Get:1 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (dsc) [1245 B]
-Get:2 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (tar) [114 kB]
-Get:3 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (diff) [3828 B]
-Fetched 119 kB in 0s (142 kB/s)
+git://git.debian.org/debian-med/bwa.git
+Need to get 126 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (dsc) [1929 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (tar) [120 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (diff) [4113 B]
+Fetched 126 kB in 0s (171 kB/s)
Download complete and in download only mode
Check arch
──────────
-** Using build dependencies supplied by package:
-Build-Depends: debhelper (>= 8), zlib1g-dev
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install build dependencies (internal resolver) │
+│ Install core build dependencies (internal resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
-Checking for already installed source dependencies...
+Build-Depends: build-essential, fakeroot
+Checking for already installed dependencies...
+build-essential: already installed (11.5)
+fakeroot: already installed (1.18.1-1)
+Checking for dependency conflicts...
+Installing positive dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 8 not upgraded.
+Removing negative dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 8 not upgraded.
+Checking correctness of dependencies...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install bwa build dependencies (internal resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, freebsd-utils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 8), zlib1g-dev
+Checking for already installed dependencies...
+base-files: already installed (6.5)
+base-passwd: already installed (3.5.23)
+bash: already installed (4.1-3)
+coreutils: already installed (8.13-3)
+dash: already installed (0.5.7-2)
+debianutils: already installed (4.0.4)
+diffutils: already installed (1:3.2-1)
+dpkg: already installed (1.16.1.1)
+e2fsprogs: already installed (1.42~WIP-2011-10-16-1)
+findutils: already installed (4.4.2-1)
+freebsd-utils: already installed (8.2+ds2-9)
+grep: already installed (2.9-2)
+gzip: already installed (1.4-1)
+hostname: already installed (3.06)
+ncurses-base: already installed (5.9-4)
+ncurses-bin: already installed (5.9-4)
+perl-base: already installed (5.12.4-6)
+sed: already installed (4.2.1-9)
+login: already installed (1:4.1.4.2+svn3283-3)
+sysvinit-utils: already installed (2.88dsf-13.13)
+sysvinit: already installed (2.88dsf-13.13)
+tar: already installed (1.25-3)
+bsdutils: already installed (1:2.19.1-5)
+util-linux: already installed (2.19.1-5)
+libc6-dev: already installed (~*=PROVIDED=*=)
+gcc: already installed (4:4.6.1-3 >= 4:4.4.3 is satisfied)
+g++: already installed (4:4.6.1-3 >= 4:4.4.3 is satisfied)
+make: already installed (3.81-8.1)
+dpkg-dev: already installed (1.16.1.1 >= 1.13.5 is satisfied)
debhelper: missing
-Using default version 8.1.2
+Using default version 8.9.9
zlib1g-dev: missing
-Checking for source dependency conflicts...
+Checking for dependency conflicts...
Installing positive dependencies: debhelper zlib1g-dev
Reading package lists...
Building dependency tree...
Reading state information...
The following extra packages will be installed:
- file gettext gettext-base groff-base html2text intltool-debian libcroco3
- libglib2.0-0 libmagic1 libpcre3 libpipeline1 libunistring0 libxml2 man-db
- po-debconf
+ file gettext gettext-base html2text intltool-debian libcroco3 libglib2.0-0
+ libmagic1 libpipeline1 libunistring0 libxml2 man-db po-debconf
Suggested packages:
dh-make gettext-doc groff less www-browser libmail-box-perl
Recommended packages:
curl wget lynx-cur autopoint libglib2.0-data shared-mime-info xml-core
libmail-sendmail-perl
The following NEW packages will be installed:
- debhelper file gettext gettext-base groff-base html2text intltool-debian
- libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1 libunistring0 libxml2
- man-db po-debconf zlib1g-dev
+ debhelper file gettext gettext-base html2text intltool-debian libcroco3
+ libglib2.0-0 libmagic1 libpipeline1 libunistring0 libxml2 man-db po-debconf
+ zlib1g-dev
debconf: delaying package configuration, since apt-utils is not installed
-0 upgraded, 17 newly installed, 0 to remove and 8 not upgraded.
-Need to get 0 B/9105 kB of archives.
-After this operation, 25.5 MB of additional disk space will be used.
-Selecting previously deselected package groff-base.
-(Reading database ... 11934 files and directories currently installed.)
-Unpacking groff-base (from .../groff-base_1.21-4_kfreebsd-amd64.deb) ...
-Selecting previously deselected package libpipeline1.
-Unpacking libpipeline1 (from .../libpipeline1_1.1.0-1_kfreebsd-amd64.deb) ...
-Selecting previously deselected package man-db.
-Unpacking man-db (from .../man-db_2.5.9-4_kfreebsd-amd64.deb) ...
-Selecting previously deselected package libmagic1.
-Unpacking libmagic1 (from .../libmagic1_5.04-5_kfreebsd-amd64.deb) ...
-Selecting previously deselected package file.
-Unpacking file (from .../file_5.04-5_kfreebsd-amd64.deb) ...
-Selecting previously deselected package gettext-base.
-Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_kfreebsd-amd64.deb) ...
-Selecting previously deselected package libpcre3.
-Unpacking libpcre3 (from .../libpcre3_8.12-3_kfreebsd-amd64.deb) ...
-Selecting previously deselected package libxml2.
-Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_kfreebsd-amd64.deb) ...
-Selecting previously deselected package html2text.
+0 upgraded, 15 newly installed, 0 to remove and 8 not upgraded.
+Need to get 0 B/7774 kB of archives.
+After this operation, 20.0 MB of additional disk space will be used.
+Selecting previously unselected package libpipeline1.
+(Reading database ... 11669 files and directories currently installed.)
+Unpacking libpipeline1 (from .../libpipeline1_1.2.0-5_kfreebsd-amd64.deb) ...
+Selecting previously unselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.8-1_kfreebsd-amd64.deb) ...
+Selecting previously unselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-5_kfreebsd-amd64.deb) ...
+Selecting previously unselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-2_kfreebsd-amd64.deb) ...
+Selecting previously unselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-5_kfreebsd-amd64.deb) ...
+Selecting previously unselected package man-db.
+Unpacking man-db (from .../man-db_2.6.0.2-3_kfreebsd-amd64.deb) ...
+Selecting previously unselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.09-2_kfreebsd-amd64.deb) ...
+Selecting previously unselected package file.
+Unpacking file (from .../file_5.09-2_kfreebsd-amd64.deb) ...
+Selecting previously unselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-5_kfreebsd-amd64.deb) ...
+Selecting previously unselected package html2text.
Unpacking html2text (from .../html2text_1.3.2a-15_kfreebsd-amd64.deb) ...
-Selecting previously deselected package libglib2.0-0.
-Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.1-1+b1_kfreebsd-amd64.deb) ...
-Selecting previously deselected package libcroco3.
-Unpacking libcroco3 (from .../libcroco3_0.6.2-1_kfreebsd-amd64.deb) ...
-Selecting previously deselected package libunistring0.
-Unpacking libunistring0 (from .../libunistring0_0.9.3-3_kfreebsd-amd64.deb) ...
-Selecting previously deselected package gettext.
-Unpacking gettext (from .../gettext_0.18.1.1-3_kfreebsd-amd64.deb) ...
-Selecting previously deselected package intltool-debian.
+Selecting previously unselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-5_kfreebsd-amd64.deb) ...
+Selecting previously unselected package intltool-debian.
Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ...
-Selecting previously deselected package po-debconf.
+Selecting previously unselected package po-debconf.
Unpacking po-debconf (from .../po-debconf_1.0.16+nmu1_all.deb) ...
-Selecting previously deselected package debhelper.
-Unpacking debhelper (from .../debhelper_8.1.2_all.deb) ...
-Selecting previously deselected package zlib1g-dev.
+Selecting previously unselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.9.9_all.deb) ...
+Selecting previously unselected package zlib1g-dev.
Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_kfreebsd-amd64.deb) ...
-Setting up groff-base (1.21-4) ...
-Setting up libpipeline1 (1.1.0-1) ...
-Setting up man-db (2.5.9-4) ...
+Setting up libpipeline1 (1.2.0-5) ...
+Setting up libglib2.0-0 (2.28.8-1) ...
+No schema files found: doing nothing.
+Setting up libxml2 (2.7.8.dfsg-5) ...
+Setting up libcroco3 (0.6.2-2) ...
+Setting up libunistring0 (0.9.3-5) ...
+Setting up man-db (2.6.0.2-3) ...
Building database of manual pages ...
-Setting up libmagic1 (5.04-5) ...
-Setting up file (5.04-5) ...
-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 libmagic1 (5.09-2) ...
+Setting up file (5.09-2) ...
+Setting up gettext-base (0.18.1.1-5) ...
Setting up html2text (1.3.2a-15) ...
-Setting up libglib2.0-0 (2.28.1-1+b1) ...
-No schema files found: doing nothing.
-Setting up libcroco3 (0.6.2-1) ...
-Setting up libunistring0 (0.9.3-3) ...
-Setting up gettext (0.18.1.1-3) ...
+Setting up gettext (0.18.1.1-5) ...
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 debhelper (8.9.9) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
Removing negative dependencies:
-Checking correctness of source dependencies...
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 8 not upgraded.
+Checking correctness of dependencies...
Kernel: GNU/kFreeBSD 8.1-1-amd64 kfreebsd-amd64 (x86_64)
-Toolchain package versions: libc6-dev_ =*=NOT INSTALLED=*= dpkg-dev_1.15.8.10 libstdc++6_4.5.2-5 gcc-4.5_4.5.2-5 g++-4.5_4.5.2-5 binutils_2.21.0.20110302-1 libstdc++6-4.5-dev_4.5.2-5 libc0.1-dev_2.11.2-13 kfreebsd-kernel-headers_0.53
-Package versions: apt_0.8.11.5 base-files_6.1 base-passwd_3.5.22 bash_4.1-3 binutils_2.21.0.20110302-1 bsdmainutils_8.2.2 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 coreutils_8.5-1 cpio_2.11-7 cpp_4:4.5.2-2 cpp-4.5_4.5.2-5 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_1.14.5-1+b1 file_5.04-5 findutils_4.4.2-1 freebsd-utils_8.1-4+b1 g++_4:4.5.2-1 g++-4.5_4.5.2-5 gcc_4:4.5.2-2 gcc-4.2-base_4.2.4-6 gcc-4.4-base_4.4.5-13 gcc-4.5_4.5.2-5 gcc-4.5-base_4.5.2-5 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 kfreebsd-kernel-headers_0.53 libacl1_2.2.49-4 libattr1_1:2.4.44-2 libblkid1_2.17.2-9.1 libbsd0_0.2.0-1 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-13 libc-dev-bin_2.11.2-13 libc0.1_2.11.2-13 libc0.1-dev_2.11.2-13 libcam0_8.1-5 libcloog-ppl0_0.15.9-2 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 libedit2_2.11-20080614-2 libelfg0_0.8.13-1 libexpat1_2.0.1-7 libgc1c2_1:7.1-7 libgcc1_1:4.5.2-5 libgcrypt11_1.4.6-5 libgdbm3_1.8.3-9 libgeom0_8.1-5 libglib2.0-0_2.28.1-1+b1 libgmp10_2:5.0.1+dfsg-6 libgmp3c2_2:4.3.2+dfsg-1 libgmpxx4ldbl_2:5.0.1+dfsg-6 libgnutls26_2.10.5-1 libgomp1_4.5.2-5 libgpg-error0_1.10-0.3 libkiconv4_8.1-5 libkvm0_8.1-5 libldap-2.4-2_2.4.23-7 liblocale-gettext-perl_1.05-6 liblzma2_5.0.0-2 libmagic1_5.04-5 libmpc2_0.9-1 libmpfr4_3.0.0-9 libncurses5_5.8+20110307-1 libncursesw5_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_1.1.0-1 libpng12-0_1.2.44-1 libppl-c2_0.10.2-8 libppl7_0.10.2-8 libreadline6_6.1-3 libsasl2-2_2.1.23.dfsg1-7 libsbuf0_8.1-5 libslang2_2.2.2-4 libss2_1.41.12-2 libstdc++6_4.5.2-5 libstdc++6-4.5-dev_4.5.2-5 libtasn1-3_2.9-2 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 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-27 lzma_4.43-14 make_3.81-8 man-db_2.5.9-4 mawk_1.3.3-15 ncurses-base_5.7+20100313-5 ncurses-bin_5.8+20110307-1 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 procps_1:3.2.8-10 psmisc_22.13-1 readline-common_6.1-3 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.7.4p6-1 sysv-rc_2.88dsf-13.1 sysvinit_2.88dsf-13.1 sysvinit-utils_2.88dsf-13.1 tar_1.25-3 type-handling_0.2.23 tzdata_2011b-2 ufsutils_7.3-1+b1 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
+Toolchain package versions: binutils_2.21.90.20111025-1 dpkg-dev_1.16.1.1 g++-4.6_4.6.2-3 gcc-4.6_4.6.2-3 kfreebsd-kernel-headers_0.60 libc0.1-dev_2.13-21 libstdc++6_4.6.2-3 libstdc++6-4.6-dev_4.6.2-3
+Package versions: apt_0.8.15.9 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.90.20111025-1 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 coreutils_8.13-3 cpio_2.11-7 cpp_4:4.6.1-3 cpp-4.6_4.6.2-3 dash_0.5.7-2 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.9 debian-archive-keyring_2010.08.28 debianutils_4.0.4 diffutils_1:3.2-1 dpkg_1.16.1.1 dpkg-dev_1.16.1.1 e2fslibs_1.42~WIP-2011-10-16-1 e2fsprogs_1.42~WIP-2011-10-16-1 fakeroot_1.18.1-1 file_5.09-2 findutils_4.4.2-1 freebsd-utils_8.2+ds2-9 g++_4:4.6.1-3 g++-4.6_4.6.2-3 gcc_4:4.6.1-3 gcc-4.2-base_4.2.4-6 gcc-4.4-base_4.4.6-11 gcc-4.6_4.6.2-3 gcc-4.6-base_4.6.2-3 gettext_0.18.1.1-5 gettext-base_0.18.1.1-5 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.13 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 kbdcontrol_8.2+ds2-9 kfreebsd-kernel-headers_0.60 libacl1_2.2.51-4 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbsd0_0.3.0-1 libbz2-1.0_1.0.5-7 libc-bin_2.13-21 libc-dev-bin_2.13-21 libc0.1_2.13-21 libc0.1-dev_2.13-21 libcam0_8.2+ds1-4 libcomerr2_1.42~WIP-2011-10-16-1 libcroco3_0.6.2-2 libdb5.1_5.1.25-11 libdpkg-perl_1.16.1.1 libexpat1_2.0.1-7.2 libgc1c2_1:7.1-8 libgcc1_1:4.6.2-3 libgdbm3_1.8.3-10 libgeom1_8.2+ds1-4 libglib2.0-0_2.28.8-1 libgmp10_2:5.0.2+dfsg-2 libgomp1_4.6.2-3 libgssglue1_0.3-3.1 libjail1_8.2+ds1-4 libkiconv4_8.2+ds1-4 libkvm0_8.2+ds1-4 liblzma5_5.1.1alpha+20110809-3 libmagic1_5.09-2 libmpc2_0.9-4 libmpfr4_3.1.0-3 libncurses5_5.9-4 libncursesw5_5.9-4 libpam-modules_1.1.3-6 libpam-modules-bin_1.1.3-6 libpam-runtime_1.1.3-6 libpam0g_1.1.3-6 libpcre3_8.12-4 libpipeline1_1.2.0-5 libpng12-0_1.2.46-3 libquadmath0_4.6.2-3 libreadline6_6.2-7 libsbuf0_8.2+ds1-4 libslang2_2.2.4-3 libss2_1.42~WIP-2011-10-16-1 libstdc++6_4.6.2-3 libstdc++6-4.6-dev_4.6.2-3 libtimedate-perl_1.2000-1 libtinfo5_5.9-4 libtirpc1_0.2.2-5 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-5 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 lzma_4.43-14 make_3.81-8.1 man-db_2.6.0.2-3 mawk_1.3.3-16 multiarch-support_2.13-21 ncurses-base_5.9-4 ncurses-bin_5.9-4 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-6 perl-base_5.12.4-6 perl-modules_5.12.4-6 po-debconf_1.0.16+nmu1 procps_1:3.2.8-11 psmisc_22.13-1 readline-common_6.2-7 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.3p1-1 sysv-rc_2.88dsf-13.13 sysvinit_2.88dsf-13.13 sysvinit-utils_2.88dsf-13.13 tar_1.25-3 type-handling_0.2.23 tzdata_2011n-1 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-3 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -195,14 +254,13 @@ 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: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
-gpgv: Signature made Fri Mar 11 21:59:41 2011 UTC using DSA key ID C09FD35A
+gpgv: Signature made Mon Nov 14 04:21:35 2011 UTC using RSA key ID 2295D502
gpgv: Can't check signature: public key not found
-dpkg-source: warning: failed to verify signature on ./bwa_0.5.9-2.dsc
-dpkg-source: info: extracting bwa in bwa-0.5.9
-dpkg-source: info: unpacking bwa_0.5.9.orig.tar.bz2
-dpkg-source: info: unpacking bwa_0.5.9-2.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bwa_0.5.10-1.dsc
+dpkg-source: info: extracting bwa in bwa-0.5.10
+dpkg-source: info: unpacking bwa_0.5.10.orig.tar.bz2
+dpkg-source: info: unpacking bwa_0.5.10-1.debian.tar.gz
Check disc space
────────────────
@@ -211,42 +269,43 @@ Check disc space
dpkg-buildpackage
─────────────────
-dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
-dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
-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 bwa
-dpkg-buildpackage: source version 0.5.9-2
- dpkg-source --before-build bwa-0.5.9
+dpkg-buildpackage: source version 0.5.10-1
+ dpkg-source --before-build bwa-0.5.10
dpkg-buildpackage: host architecture kfreebsd-amd64
- /usr/bin/fakeroot debian/rules clean
+ fakeroot debian/rules clean
dh clean
dh_testdir
dh_auto_clean
-make[1]: Entering directory `/build/buildd-bwa_0.5.9-2-kfreebsd-amd64-IfGSc1/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-kfreebsd-amd64-IfGSc1/bwa-0.5.9'
+make[1]: Entering directory `/build/buildd-bwa_0.5.10-1-kfreebsd-amd64-0kWugi/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-kfreebsd-amd64-0kWugi/bwa-0.5.10'
rm -f gmon.out *.o a.out bwa *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-kfreebsd-amd64-IfGSc1/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-kfreebsd-amd64-IfGSc1/bwa-0.5.9/bwt_gen'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-kfreebsd-amd64-0kWugi/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-kfreebsd-amd64-0kWugi/bwa-0.5.10/bwt_gen'
rm -f gmon.out *.o a.out *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-kfreebsd-amd64-IfGSc1/bwa-0.5.9/bwt_gen'
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9-2-kfreebsd-amd64-IfGSc1/bwa-0.5.9'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-kfreebsd-amd64-0kWugi/bwa-0.5.10/bwt_gen'
+make[1]: Leaving directory `/build/buildd-bwa_0.5.10-1-kfreebsd-amd64-0kWugi/bwa-0.5.10'
dh_clean
debian/rules build
dh build
dh_testdir
dh_auto_configure
dh_auto_build
-make[1]: Entering directory `/build/buildd-bwa_0.5.9-2-kfreebsd-amd64-IfGSc1/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-kfreebsd-amd64-IfGSc1/bwa-0.5.9'
+make[1]: Entering directory `/build/buildd-bwa_0.5.10-1-kfreebsd-amd64-0kWugi/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-kfreebsd-amd64-0kWugi/bwa-0.5.10'
make[2]: Nothing to be done for `lib'.
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-kfreebsd-amd64-IfGSc1/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-kfreebsd-amd64-IfGSc1/bwa-0.5.9/bwt_gen'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-kfreebsd-amd64-0kWugi/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-kfreebsd-amd64-0kWugi/bwa-0.5.10/bwt_gen'
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt_gen.c -o bwt_gen.o
+bwt_gen.c: In function 'BWTIncBuildRelativeRank':
+bwt_gen.c:824:15: warning: variable 'oldInverseSa0RelativeRank' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncMergeBwt':
+bwt_gen.c:899:15: warning: variable 'bitsInWordMinusBitPerChar' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD QSufSort.c -o QSufSort.o
-ar -cru libbwtgen.a bwt_gen.o QSufSort.o
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-kfreebsd-amd64-IfGSc1/bwa-0.5.9/bwt_gen'
+QSufSort.c: In function 'QSufSortSuffixSort':
+QSufSort.c:89:6: warning: variable 'maxNumInputSymbol' set but not used [-Wunused-but-set-variable]
+ar -scru libbwtgen.a bwt_gen.o QSufSort.o
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-kfreebsd-amd64-0kWugi/bwa-0.5.10/bwt_gen'
gcc -c -g -Wall -O2 -DHAVE_PTHREAD utils.c -o utils.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt.c -o bwt.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtio.c -o bwtio.o
@@ -255,25 +314,37 @@ gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtgap.c -o bwtgap.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD is.c -o is.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bntseq.c -o bntseq.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtmisc.c -o bwtmisc.o
+bwtmisc.c: In function 'bwa_pac_rev_core':
+bwtmisc.c:163:20: warning: variable 'j' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtindex.c -o bwtindex.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD stdaln.c -o stdaln.o
+stdaln.c: In function 'aln_local_core':
+stdaln.c:545:25: warning: variable 'b' set but not used [-Wunused-but-set-variable]
+stdaln.c: In function 'aln_extend_core':
+stdaln.c:865:16: warning: variable 'tmp_len' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD simple_dp.c -o simple_dp.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwaseqio.c -o bwaseqio.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwase.c -o bwase.o
+bwase.c: In function 'bwa_aln2seq_core':
+bwase.c:75:15: warning: variable 'k' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_print_sam1':
+bwase.c:452:17: warning: variable 'm_is_N' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwape.c -o bwape.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD kstring.c -o kstring.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD cs2nt.c -o cs2nt.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_core.c -o bwtsw2_core.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_main.c -o bwtsw2_main.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_aux.c -o bwtsw2_aux.o
+bwtsw2_aux.c: In function 'gen_cigar':
+bwtsw2_aux.c:193:7: warning: variable 'score' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt_lite.c -o bwt_lite.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_chain.c -o bwtsw2_chain.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bamlite.c -o bamlite.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD main.c -o main.o
gcc -g -Wall -O2 -DHAVE_PTHREAD utils.o bwt.o bwtio.o bwtaln.o bwtgap.o is.o bntseq.o bwtmisc.o bwtindex.o stdaln.o simple_dp.o bwaseqio.o bwase.o bwape.o kstring.o cs2nt.o bwtsw2_core.o bwtsw2_main.o bwtsw2_aux.o bwt_lite.o bwtsw2_chain.o bamlite.o main.o -o bwa -lm -lz -lpthread -Lbwt_gen -lbwtgen
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9-2-kfreebsd-amd64-IfGSc1/bwa-0.5.9'
+make[1]: Leaving directory `/build/buildd-bwa_0.5.10-1-kfreebsd-amd64-0kWugi/bwa-0.5.10'
dh_auto_test
- /usr/bin/fakeroot debian/rules binary-arch
+ fakeroot debian/rules binary-arch
dh binary-arch
dh_testroot -a
dh_prep -a
@@ -301,7 +372,9 @@ dh binary-arch
dh_installudev -a
dh_installwm -a
dh_installxfonts -a
+ dh_installgsettings -a
dh_bugfiles -a
+ dh_ucf -a
dh_lintian -a
dh_gconf -a
dh_icons -a
@@ -318,57 +391,61 @@ dh binary-arch
dpkg-gencontrol: warning: package bwa: unused substitution variable ${perl:Depends}
dh_md5sums -a
dh_builddeb -a
-dpkg-deb: building package `bwa' in `../bwa_0.5.9-2_kfreebsd-amd64.deb'.
- dpkg-genchanges -B -mkfreebsd-amd64 Build Daemon (fano) <buildd_kfreebsd-amd64-fano at buildd.debian.org> >../bwa_0.5.9-2_kfreebsd-amd64.changes
+dpkg-deb: building package `bwa' in `../bwa_0.5.10-1_kfreebsd-amd64.deb'.
+ dpkg-genchanges -B -mkfreebsd-amd64 Build Daemon (fano) <buildd_kfreebsd-amd64-fano at buildd.debian.org> >../bwa_0.5.10-1_kfreebsd-amd64.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 bwa-0.5.9
+ dpkg-source --after-build bwa-0.5.10
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110312-0745
+Build finished at 20111114-0441
-bwa_0.5.9-2_kfreebsd-amd64.changes:
+bwa_0.5.10-1_kfreebsd-amd64.changes:
Format: 1.8
-Date: Fri, 11 Mar 2011 22:49:07 +0100
+Date: Mon, 14 Nov 2011 13:12:50 +0900
Source: bwa
Binary: bwa
Architecture: kfreebsd-amd64
-Version: 0.5.9-2
+Version: 0.5.10-1
Distribution: sid
Urgency: low
Maintainer: kfreebsd-amd64 Build Daemon (fano) <buildd_kfreebsd-amd64-fano at buildd.debian.org>
-Changed-By: Andreas Tille <tille at debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
Description:
bwa - Burrows-Wheeler Aligner
Changes:
- bwa (0.5.9-2) unstable; urgency=low
+ bwa (0.5.10-1) unstable; urgency=low
.
- * Watchfile should not regard rc releases.
- * Drop cdbs in favour of dh
+ [a01f6ca] New upstream release.
+ [6d7bc7f] Conforms with Debian Policy version 3.9.2.
+ [125c73d] Corrected Vcs-Git URL.
+ [37f43c9] Normalised machine-readable copyright file with config-edit.
+ [4e2e0d0] Distribute xa2multi.pl in ‘usr/share/bwa’.
+ [b106d64] Removed redundant ChangeLog file, already installed by Debhelper.
Checksums-Sha1:
- 499eddadd4caa774c1b7df789e988aaad6fbd018 140254 bwa_0.5.9-2_kfreebsd-amd64.deb
+ 0f0e4580316f25a586791173e6fbc9b7e3f8f088 137840 bwa_0.5.10-1_kfreebsd-amd64.deb
Checksums-Sha256:
- 3a16d542a772c3dcf9f39b822e75d13c4ccda744d221f4108b0e78732421b054 140254 bwa_0.5.9-2_kfreebsd-amd64.deb
+ c58a41579600306d5fd5ff0419720e008304b0d940cebd249fcc783d5981c1d1 137840 bwa_0.5.10-1_kfreebsd-amd64.deb
Files:
- 33aeefc2098e6c331358cb27a6c7768a 140254 science optional bwa_0.5.9-2_kfreebsd-amd64.deb
+ fa8859882847a81664fc5fdcf98b1a89 137840 science optional bwa_0.5.10-1_kfreebsd-amd64.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bwa_0.5.9-2_kfreebsd-amd64.deb
-──────────────────────────────
+bwa_0.5.10-1_kfreebsd-amd64.deb
+───────────────────────────────
new debian package, version 2.0.
- size 140254 bytes: control archive= 985 bytes.
- 785 bytes, 17 lines control
- 615 bytes, 10 lines md5sums
+ size 137840 bytes: control archive= 999 bytes.
+ 786 bytes, 17 lines control
+ 610 bytes, 10 lines md5sums
Package: bwa
- Version: 0.5.9-2
+ Version: 0.5.10-1
Architecture: kfreebsd-amd64
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 308
+ Installed-Size: 240
Depends: libc0.1 (>= 2.7), zlib1g (>= 1:1.1.4)
Suggests: samtools
Section: science
@@ -382,25 +459,25 @@ bwa_0.5.9-2_kfreebsd-amd64.deb
to around 100 kbp. Both algorithms do gapped alignment. They are usually more
accurate and faster on queries with low error rates.
-drwxr-xr-x root/root 0 2011-03-12 07:45 ./
-drwxr-xr-x root/root 0 2011-03-12 07:45 ./usr/
-drwxr-xr-x root/root 0 2011-03-12 07:45 ./usr/bin/
--rwxr-xr-x root/root 200872 2011-03-12 07:45 ./usr/bin/bwa
-drwxr-xr-x root/root 0 2011-03-12 07:45 ./usr/share/
-drwxr-xr-x root/root 0 2011-03-12 07:45 ./usr/share/bwa/
--rwxr-xr-x root/root 3176 2011-01-25 00:00 ./usr/share/bwa/solid2fastq.pl
--rwxr-xr-x root/root 616 2011-01-25 00:00 ./usr/share/bwa/qualfa2fq.pl
-drwxr-xr-x root/root 0 2011-03-12 07:45 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-03-12 07:45 ./usr/share/doc/bwa/
--rw-r--r-- root/root 5857 2011-01-25 00:00 ./usr/share/doc/bwa/NEWS.gz
--rw-r--r-- root/root 634 2011-01-25 00:00 ./usr/share/doc/bwa/README
--rw-r--r-- root/root 2676 2011-02-08 07:09 ./usr/share/doc/bwa/copyright
--rw-r--r-- root/root 17912 2011-01-25 00:00 ./usr/share/doc/bwa/changelog.gz
--rw-r--r-- root/root 17912 2011-01-25 00:00 ./usr/share/doc/bwa/ChangeLog.gz
--rw-r--r-- root/root 957 2011-03-11 21:54 ./usr/share/doc/bwa/changelog.Debian.gz
-drwxr-xr-x root/root 0 2011-03-12 07:45 ./usr/share/man/
-drwxr-xr-x root/root 0 2011-03-12 07:45 ./usr/share/man/man1/
--rw-r--r-- root/root 7554 2011-03-12 07:45 ./usr/share/man/man1/bwa.1.gz
+drwxr-xr-x root/root 0 2011-11-14 04:41 ./
+drwxr-xr-x root/root 0 2011-11-14 04:41 ./usr/
+drwxr-xr-x root/root 0 2011-11-14 04:41 ./usr/bin/
+-rwxr-xr-x root/root 199752 2011-11-14 04:41 ./usr/bin/bwa
+drwxr-xr-x root/root 0 2011-11-14 04:41 ./usr/share/
+drwxr-xr-x root/root 0 2011-11-14 04:41 ./usr/share/bwa/
+-rwxr-xr-x root/root 3176 2011-11-13 01:07 ./usr/share/bwa/solid2fastq.pl
+-rwxr-xr-x root/root 616 2011-11-13 01:07 ./usr/share/bwa/qualfa2fq.pl
+-rwxr-xr-x root/root 730 2011-11-13 01:07 ./usr/share/bwa/xa2multi.pl
+drwxr-xr-x root/root 0 2011-11-14 04:41 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-11-14 04:41 ./usr/share/doc/bwa/
+-rw-r--r-- root/root 634 2011-11-13 01:07 ./usr/share/doc/bwa/README
+-rw-r--r-- root/root 2740 2011-11-14 04:09 ./usr/share/doc/bwa/copyright
+-rw-r--r-- root/root 17912 2011-11-13 01:07 ./usr/share/doc/bwa/changelog.gz
+-rw-r--r-- root/root 5857 2011-11-13 01:08 ./usr/share/doc/bwa/NEWS.gz
+-rw-r--r-- root/root 1159 2011-11-14 04:16 ./usr/share/doc/bwa/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-11-14 04:41 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-11-14 04:41 ./usr/share/man/man1/
+-rw-r--r-- root/root 7554 2011-11-14 04:41 ./usr/share/man/man1/bwa.1.gz
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -409,36 +486,67 @@ drwxr-xr-x root/root 0 2011-03-12 07:45 ./usr/share/man/man1/
Built successfully
────────────────────────────────────────────────────────────────────────────────
-Purging /var/lib/schroot/mount/sid-ka-sbuild-1299915889-68274/build/buildd-bwa_0.5.9-2-kfreebsd-amd64-IfGSc1
-(Reading database ... 13158 files and directories currently installed.)
-Removing zlib1g-dev ...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /var/lib/schroot/mount/sid-ka-sbuild-1321245599-51310/build/buildd-bwa_0.5.10-1-kfreebsd-amd64-0kWugi
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 8 not upgraded.
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following packages will be REMOVED:
+ debhelper* file* gettext* gettext-base* html2text* intltool-debian*
+ libcroco3* libglib2.0-0* libmagic1* libpipeline1* libunistring0* libxml2*
+ man-db* po-debconf* zlib1g-dev*
+0 upgraded, 0 newly installed, 15 to remove and 8 not upgraded.
+After this operation, 20.0 MB disk space will be freed.
+(Reading database ... 12704 files and directories currently installed.)
Removing debhelper ...
+Removing file ...
Removing po-debconf ...
-Removing man-db ...
-Purging configuration files for man-db ...
Removing intltool-debian ...
-Removing groff-base ...
-Purging configuration files for groff-base ...
Removing gettext ...
-Removing file ...
+Removing gettext-base ...
Removing html2text ...
Purging configuration files for html2text ...
-Removing gettext-base ...
-Removing libunistring0 ...
-Purging configuration files for libunistring0 ...
Removing libcroco3 ...
Purging configuration files for libcroco3 ...
+Removing libglib2.0-0 ...
+Purging configuration files for libglib2.0-0 ...
Removing libmagic1 ...
Purging configuration files for libmagic1 ...
+Removing man-db ...
+Purging configuration files for man-db ...
Removing libpipeline1 ...
Purging configuration files for libpipeline1 ...
+Removing libunistring0 ...
+Purging configuration files for libunistring0 ...
Removing libxml2 ...
Purging configuration files for libxml2 ...
-Removing libglib2.0-0 ...
-Purging configuration files for libglib2.0-0 ...
-Removing libpcre3 ...
-Purging configuration files for libpcre3 ...
-────────────────────────────────────────────────────────────────────────────────
-Finished at 20110312-0745
-Build needed 00:00:53, 3014k disc space
+Removing zlib1g-dev ...
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Architecture: kfreebsd-amd64
+Build-Space: 3010
+Build-Time: 23
+Distribution: sid
+Install-Time: 32
+Job: bwa_0.5.10-1
+Package: bwa
+Package-Time: 75
+Source-Version: 0.5.10-1
+Space: 3010
+Status: successful
+Version: 0.5.10-1
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20111114-0441
+Build needed 00:01:15, 3010k disc space
+Signature with key 'D33FE1D8' requested:
diff --git a/kfreebsd-i386.log b/kfreebsd-i386.log
index 5887a35..0cd2efe 100644
--- a/kfreebsd-i386.log
+++ b/kfreebsd-i386.log
@@ -1,57 +1,46 @@
-From buildd at field.debian.org Sat Mar 12 07:39:47 2011
-Return-path: <buildd at field.debian.org>
-Received: from kokkonen.debian.org ([82.195.75.97])
+From buildd at finzi.debian.org Mon Nov 14 04:40:31 2011
+Return-path: <buildd at finzi.debian.org>
+Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
- CN=kokkonen.debian.org,
- EMAIL=hostmaster at kokkonen.debian.org (verified)
+ CN=merikanto.debian.org,
+ EMAIL=hostmaster at merikanto.debian.org (verified)
by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at field.debian.org>)
- id 1PyJQR-0001lL-1R
- for logs at buildd.debian.org; Sat, 12 Mar 2011 07:39:47 +0000
-Received: from field.debian.org ([194.177.211.210])
+ (Exim 4.72) (envelope-from <buildd at finzi.debian.org>)
+ id 1RPoLP-0000A3-Fw
+ for logs at buildd.debian.org; Mon, 14 Nov 2011 04:40:31 +0000
+Received: from finzi.debian.org ([206.12.19.111])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
- CN=field.debian.org, EMAIL=hostmaster at field.debian.org (verified)
- by kokkonen.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at field.debian.org>)
- id 1PyJQP-0004dL-DD; Sat, 12 Mar 2011 07:39:45 +0000
-Received: from buildd by field.debian.org with local (Exim 4.72)
- (envelope-from <buildd at field.debian.org>)
- id 1PyJQN-000Oe5-9n; Sat, 12 Mar 2011 07:39:43 +0000
-Date: Sat, 12 Mar 2011 07:39:43 +0000
-Message-Id: <E1PyJQN-000Oe5-9n at field.debian.org>
-From: buildd on field <buildd at field.debian.org>
-To: logs at buildd.debian.org,aurelien at aurel32.net,kibi at debian-ports.org
-Subject: Log for successful build of bwa_0.5.9-2 on kfreebsd-i386 (dist=sid)
-Content-Type: text/plain; charset=UTF-8
-Content-Transfer-Encoding: 8bit
+ CN=finzi.debian.org, EMAIL=hostmaster at finzi.debian.org (verified)
+ by merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at finzi.debian.org>)
+ id 1RPoLN-0004On-J0; Mon, 14 Nov 2011 04:40:30 +0000
+Received: from buildd by finzi.debian.org with local (Exim 4.72)
+ (envelope-from <buildd at finzi.debian.org>)
+ id 1RPoLK-0002UZ-JI; Mon, 14 Nov 2011 04:40:26 +0000
+Message-Id: <E1RPoLK-0002UZ-JI at finzi.debian.org>
+MIME-Version: 1.0
+Content-Transfer-Encoding: binary
+X-Mailer: MIME::Lite 3.027 (F2.77; B3.08; Q3.08)
+Date: Mon, 14 Nov 2011 04:40:26 +0000
+From: buildd on finzi <buildd at finzi.debian.org>
+To: logs at buildd.debian.org,aurelien at aurel32.net,christoph at debian.org
+Subject: Log for successful build of bwa_0.5.10-1 on kfreebsd-i386 (dist=sid)
+Key-Id: D859A500
Delivered-To: logs at buildd.debian.org
-sbuild (Debian sbuild) 0.60.0 (23 Feb 2010) on field.debian.org
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on finzi.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bwa 0.5.9-2 (kfreebsd-i386) 12 Mar 2011 07:37 ║
+║ bwa 0.5.10-1 (kfreebsd-i386) 14 Nov 2011 04:38 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bwa
-Version: 0.5.9-2
+Version: 0.5.10-1
+Source Version: 0.5.10-1
Architecture: kfreebsd-i386
-Chroot Build Dir: /var/lib/schroot/mount/sid-ki-sbuild-1299915477-93817/build/buildd-bwa_0.5.9-2-kfreebsd-i386-ZDb6_f
-Start Time: 20110312-0737
-Hit http://ftp.gr.debian.org sid InRelease
-Hit http://ftp.gr.debian.org sid/main Sources/DiffIndex
Hit http://incoming.debian.org sid InRelease
Ign http://incoming.debian.org InRelease
-Hit http://ftp.gr.debian.org sid/contrib Sources/DiffIndex
-Hit http://ftp.gr.debian.org sid/non-free Sources/DiffIndex
-Hit http://ftp.gr.debian.org sid/main kfreebsd-i386 Packages/DiffIndex
-Hit http://ftp.gr.debian.org sid/contrib kfreebsd-i386 Packages/DiffIndex
-Hit http://ftp.gr.debian.org sid/non-free kfreebsd-i386 Packages/DiffIndex
-Ign http://ftp.gr.debian.org sid/contrib TranslationIndex
-Hit http://ftp.gr.debian.org sid/main TranslationIndex
-Ign http://ftp.gr.debian.org sid/non-free TranslationIndex
-Hit http://incoming.debian.org Release.gpg
-Ign http://ftp.gr.debian.org sid/contrib Translation-en
-Ign http://ftp.gr.debian.org sid/non-free Translation-en
+Get:1 http://incoming.debian.org Release.gpg [836 B]
Hit http://incoming.debian.org sid/main Sources/DiffIndex
Hit http://incoming.debian.org sid/contrib Sources/DiffIndex
Hit http://incoming.debian.org sid/non-free Sources/DiffIndex
@@ -61,16 +50,31 @@ Hit http://incoming.debian.org sid/non-free kfreebsd-i386 Packages/DiffIndex
Ign http://incoming.debian.org sid/contrib TranslationIndex
Hit http://incoming.debian.org sid/main TranslationIndex
Ign http://incoming.debian.org sid/non-free TranslationIndex
-Hit http://incoming.debian.org Release
-Ign http://incoming.debian.org sid/main 2011-03-12-0214.38.pdiff
-Ign http://incoming.debian.org sid/main kfreebsd-i386 2011-03-12-0214.38.pdiff
-Hit http://incoming.debian.org sid/main
-Hit http://incoming.debian.org sid/main kfreebsd-i386
-Hit http://incoming.debian.org Sources
-Hit http://incoming.debian.org Packages
+Get:2 http://mirror-ubc.debian.org sid InRelease [146 kB]
+Get:3 http://incoming.debian.org Release [1604 B]
+Hit http://incoming.debian.org sid/non-free kfreebsd-i386 Packages
+Get:4 http://mirror-ubc.debian.org sid/main Sources/DiffIndex [2038 B]
+Hit http://mirror-ubc.debian.org sid/contrib Sources/DiffIndex
+Hit http://mirror-ubc.debian.org sid/non-free Sources/DiffIndex
+Get:5 http://mirror-ubc.debian.org sid/main kfreebsd-i386 Packages/DiffIndex [2038 B]
+Hit http://mirror-ubc.debian.org sid/contrib kfreebsd-i386 Packages/DiffIndex
+Hit http://mirror-ubc.debian.org sid/non-free kfreebsd-i386 Packages/DiffIndex
+Ign http://mirror-ubc.debian.org sid/contrib TranslationIndex
+Hit http://mirror-ubc.debian.org sid/main TranslationIndex
+Ign http://mirror-ubc.debian.org sid/non-free TranslationIndex
+Get:6 http://mirror-ubc.debian.org sid/main 2011-11-14-0212.51.pdiff [9020 B]
+Get:7 http://incoming.debian.org Sources [37.6 kB]
+Get:8 http://incoming.debian.org Packages [341 kB]
+Get:9 http://mirror-ubc.debian.org sid/main kfreebsd-i386 2011-11-14-0212.51.pdiff [7511 B]
+Get:10 http://mirror-ubc.debian.org sid/main 2011-11-14-0212.51.pdiff [9020 B]
+Get:11 http://mirror-ubc.debian.org sid/non-free kfreebsd-i386 Packages [87.9 kB]
+Ign http://mirror-ubc.debian.org sid/contrib Translation-en
+Ign http://mirror-ubc.debian.org sid/non-free Translation-en
Ign http://incoming.debian.org sid/contrib Translation-en
Ign http://incoming.debian.org sid/non-free Translation-en
Ign http://incoming.debian.org Translation-en
+Get:12 http://mirror-ubc.debian.org sid/main kfreebsd-i386 2011-11-14-0212.51.pdiff [7511 B]
+Fetched 636 kB in 7s (86.6 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -90,109 +94,155 @@ Reading package lists...
Building dependency tree...
Reading state information...
NOTICE: 'bwa' packaging is maintained in the 'Git' version control system at:
-git://git.debian.org/git/debian-med/bwa.git
-Need to get 119 kB of source archives.
-Get:1 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (dsc) [1245 B]
-Get:2 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (tar) [114 kB]
-Get:3 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (diff) [3828 B]
-Fetched 119 kB in 1s (103 kB/s)
+git://git.debian.org/debian-med/bwa.git
+Need to get 126 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (dsc) [1929 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (tar) [120 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (diff) [4113 B]
+Fetched 126 kB in 0s (181 kB/s)
Download complete and in download only mode
Check arch
──────────
-** Using build dependencies supplied by package:
-Build-Depends: debhelper (>= 8), zlib1g-dev
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install build dependencies (internal resolver) │
+│ Install core build dependencies (internal resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
-Checking for already installed source dependencies...
+Build-Depends: build-essential, fakeroot
+Checking for already installed dependencies...
+build-essential: already installed (11.5)
+fakeroot: already installed (1.18.1-1)
+Checking for dependency conflicts...
+Installing positive dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 6 not upgraded.
+Removing negative dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 6 not upgraded.
+Checking correctness of dependencies...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install bwa build dependencies (internal resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, freebsd-utils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 8), zlib1g-dev
+Checking for already installed dependencies...
+base-files: already installed (6.5)
+base-passwd: already installed (3.5.23)
+bash: already installed (4.1-3)
+coreutils: already installed (8.13-3)
+dash: already installed (0.5.7-2)
+debianutils: already installed (4.0.4)
+diffutils: already installed (1:3.2-1)
+dpkg: already installed (1.16.1.1)
+e2fsprogs: already installed (1.42~WIP-2011-10-16-1)
+findutils: already installed (4.4.2-1)
+freebsd-utils: already installed (8.2+ds2-8)
+grep: already installed (2.9-2)
+gzip: already installed (1.4-1)
+hostname: already installed (3.06)
+ncurses-base: already installed (5.9-4)
+ncurses-bin: already installed (5.9-4)
+perl-base: already installed (5.12.4-6)
+sed: already installed (4.2.1-9)
+login: already installed (1:4.1.4.2+svn3283-3)
+sysvinit-utils: already installed (2.88dsf-13.13)
+sysvinit: already installed (2.88dsf-13.13)
+tar: already installed (1.25-3)
+bsdutils: already installed (1:2.19.1-5)
+util-linux: already installed (2.19.1-5)
+libc6-dev: already installed (~*=PROVIDED=*=)
+gcc: already installed (4:4.6.1-3 >= 4:4.4.3 is satisfied)
+g++: already installed (4:4.6.1-3 >= 4:4.4.3 is satisfied)
+make: already installed (3.81-8.1)
+dpkg-dev: already installed (1.16.1.1 >= 1.13.5 is satisfied)
debhelper: missing
-Using default version 8.1.2
+Using default version 8.9.9
zlib1g-dev: missing
-Checking for source dependency conflicts...
+Checking for dependency conflicts...
Installing positive dependencies: debhelper zlib1g-dev
Reading package lists...
Building dependency tree...
Reading state information...
The following extra packages will be installed:
- file gettext gettext-base groff-base html2text intltool-debian libcroco3
- libglib2.0-0 libmagic1 libpcre3 libpipeline1 libunistring0 libxml2 man-db
- po-debconf
+ file gettext gettext-base html2text intltool-debian libcroco3 libglib2.0-0
+ libmagic1 libpipeline1 libunistring0 libxml2 man-db po-debconf
Suggested packages:
dh-make gettext-doc groff less www-browser libmail-box-perl
Recommended packages:
curl wget lynx-cur autopoint libglib2.0-data shared-mime-info xml-core
libmail-sendmail-perl
The following NEW packages will be installed:
- debhelper file gettext gettext-base groff-base html2text intltool-debian
- libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1 libunistring0 libxml2
- man-db po-debconf zlib1g-dev
+ debhelper file gettext gettext-base html2text intltool-debian libcroco3
+ libglib2.0-0 libmagic1 libpipeline1 libunistring0 libxml2 man-db po-debconf
+ zlib1g-dev
debconf: delaying package configuration, since apt-utils is not installed
-0 upgraded, 17 newly installed, 0 to remove and 7 not upgraded.
-Need to get 0 B/8672 kB of archives.
-After this operation, 24.2 MB of additional disk space will be used.
-Selecting previously deselected package groff-base.
-(Reading database ... 11911 files and directories currently installed.)
-Unpacking groff-base (from .../groff-base_1.21-4_kfreebsd-i386.deb) ...
-Selecting previously deselected package libpipeline1.
-Unpacking libpipeline1 (from .../libpipeline1_1.1.0-1_kfreebsd-i386.deb) ...
-Selecting previously deselected package man-db.
-Unpacking man-db (from .../man-db_2.5.9-4_kfreebsd-i386.deb) ...
-Selecting previously deselected package libmagic1.
-Unpacking libmagic1 (from .../libmagic1_5.04-5_kfreebsd-i386.deb) ...
-Selecting previously deselected package file.
-Unpacking file (from .../file_5.04-5_kfreebsd-i386.deb) ...
-Selecting previously deselected package gettext-base.
-Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_kfreebsd-i386.deb) ...
-Selecting previously deselected package libpcre3.
-Unpacking libpcre3 (from .../libpcre3_8.12-3_kfreebsd-i386.deb) ...
-Selecting previously deselected package libxml2.
-Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_kfreebsd-i386.deb) ...
-Selecting previously deselected package html2text.
+0 upgraded, 15 newly installed, 0 to remove and 6 not upgraded.
+Need to get 0 B/7638 kB of archives.
+After this operation, 19.5 MB of additional disk space will be used.
+Selecting previously unselected package libpipeline1.
+(Reading database ... 13417 files and directories currently installed.)
+Unpacking libpipeline1 (from .../libpipeline1_1.2.0-5_kfreebsd-i386.deb) ...
+Selecting previously unselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.8-1_kfreebsd-i386.deb) ...
+Selecting previously unselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-5_kfreebsd-i386.deb) ...
+Selecting previously unselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-2_kfreebsd-i386.deb) ...
+Selecting previously unselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-5_kfreebsd-i386.deb) ...
+Selecting previously unselected package man-db.
+Unpacking man-db (from .../man-db_2.6.0.2-3_kfreebsd-i386.deb) ...
+Selecting previously unselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.09-2_kfreebsd-i386.deb) ...
+Selecting previously unselected package file.
+Unpacking file (from .../file_5.09-2_kfreebsd-i386.deb) ...
+Selecting previously unselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-5_kfreebsd-i386.deb) ...
+Selecting previously unselected package html2text.
Unpacking html2text (from .../html2text_1.3.2a-15_kfreebsd-i386.deb) ...
-Selecting previously deselected package libglib2.0-0.
-Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.1-1+b1_kfreebsd-i386.deb) ...
-Selecting previously deselected package libcroco3.
-Unpacking libcroco3 (from .../libcroco3_0.6.2-1_kfreebsd-i386.deb) ...
-Selecting previously deselected package libunistring0.
-Unpacking libunistring0 (from .../libunistring0_0.9.3-3_kfreebsd-i386.deb) ...
-Selecting previously deselected package gettext.
-Unpacking gettext (from .../gettext_0.18.1.1-3_kfreebsd-i386.deb) ...
-Selecting previously deselected package intltool-debian.
+Selecting previously unselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-5_kfreebsd-i386.deb) ...
+Selecting previously unselected package intltool-debian.
Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ...
-Selecting previously deselected package po-debconf.
+Selecting previously unselected package po-debconf.
Unpacking po-debconf (from .../po-debconf_1.0.16+nmu1_all.deb) ...
-Selecting previously deselected package debhelper.
-Unpacking debhelper (from .../debhelper_8.1.2_all.deb) ...
-Selecting previously deselected package zlib1g-dev.
+Selecting previously unselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.9.9_all.deb) ...
+Selecting previously unselected package zlib1g-dev.
Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_kfreebsd-i386.deb) ...
-Setting up groff-base (1.21-4) ...
-Setting up libpipeline1 (1.1.0-1) ...
-Setting up man-db (2.5.9-4) ...
+Setting up libpipeline1 (1.2.0-5) ...
+Setting up libglib2.0-0 (2.28.8-1) ...
+No schema files found: doing nothing.
+Setting up libxml2 (2.7.8.dfsg-5) ...
+Setting up libcroco3 (0.6.2-2) ...
+Setting up libunistring0 (0.9.3-5) ...
+Setting up man-db (2.6.0.2-3) ...
Building database of manual pages ...
-Setting up libmagic1 (5.04-5) ...
-Setting up file (5.04-5) ...
-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 libmagic1 (5.09-2) ...
+Setting up file (5.09-2) ...
+Setting up gettext-base (0.18.1.1-5) ...
Setting up html2text (1.3.2a-15) ...
-Setting up libglib2.0-0 (2.28.1-1+b1) ...
-No schema files found: doing nothing.
-Setting up libcroco3 (0.6.2-1) ...
-Setting up libunistring0 (0.9.3-3) ...
-Setting up gettext (0.18.1.1-3) ...
+Setting up gettext (0.18.1.1-5) ...
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 debhelper (8.9.9) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
Removing negative dependencies:
-Checking correctness of source dependencies...
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 6 not upgraded.
+Checking correctness of dependencies...
Kernel: GNU/kFreeBSD 8.1-1-686-smp kfreebsd-i386 (i686)
-Toolchain package versions: libc6-dev_ =*=NOT INSTALLED=*= dpkg-dev_1.15.8.10 libstdc++6_4.5.2-5 gcc-4.5_4.5.2-5 g++-4.5_ =*=NOT INSTALLED=*= binutils_2.21.0.20110302-1 libstdc++6-4.5-dev_ =*=NOT INSTALLED=*= libc0.1-dev_2.11.2-13 kfreebsd-kernel-headers_0.53
-Package versions: apt_0.8.11.5 base-files_6.1 base-passwd_3.5.22 bash_4.1-3 binutils_2.21.0.20110302-1 bsdmainutils_8.2.2 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 coreutils_8.5-1 cpp_4:4.5.2-2 cpp-4.4_4.4.5-13 cpp-4.5_4.5.2-5 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_1.14.5-1+b1 file_5.04-5 findutils_4.4.2-1 freebsd-utils_8.1-4 g++_4:4.4.5-2 g++-4.4_4.4.5-13 gcc_4:4.5.2-2 gcc-4.4_4.4.5-13 gcc-4.4-base_4.4.5-13 gcc-4.5_4.5.2-5 gcc-4.5-base_4.5.2-5 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 kfreebsd-kernel-headers_0.53 libacl1_2.2.49-4 libattr1_1:2.4.44-2 libblkid1_2.17.2-9.1 libbsd0_0.2.0-1 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-13 libc-dev-bin_2.11.2-13 libc0.1_2.11.2-13 libc0.1-dev_2.11.2-13 libcam0_8.1-5 libcloog-ppl0_0.15.9-2 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 libedit2_2.11-20080614-2 libelfg0_0.8.13-1 libexpat1_2.0.1-7 libgc1c2_1:7.1-7 libgcc1_1:4.5.2-5 libgcrypt11_1.4.6-5 libgdbm3_1.8.3-9 libgeom0_8.1-5 libglib2.0-0_2.28.1-1+b1 libgmp10_2:5.0.1+dfsg-6 libgmp3c2_2:4.3.2+dfsg-1 libgmpxx4ldbl_2:5.0.1+dfsg-6 libgnutls26_2.10.5-1 libgomp1_4.5.2-5 libgpg-error0_1.10-0.3 libkiconv4_8.1-5 libkvm0_8.1-5 libldap-2.4-2_2.4.23-7 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 libncursesw5_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_1.1.0-1 libpng12-0_1.2.44-1 libppl-c2_0.10.2-9 libppl7_0.10.2-9 libreadline6_6.1-3 libsasl2-2_2.1.23.dfsg1-7 libsbuf0_8.1-5 libslang2_2.2.2-4 libss2_1.41.12-2 libstdc++6_4.5.2-5 libstdc++6-4.4-dev_4.4.5-13 libtasn1-3_2.9-2 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 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-27 lzma_4.43-14 make_3.81-8 man-db_2.5.9-4 mawk_1.3.3-15 ncurses-base_5.7+20100313-5 ncurses-bin_5.8+20110307-1 netbase_4.45 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 procps_1:3.2.8-10 psmisc_22.13-1 readline-common_6.1-3 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.7.4p6-1 sysv-rc_2.88dsf-13.1 sysvinit_2.88dsf-13.1 sysvinit-utils_2.88dsf-13.1 tar_1.25-3 type-handling_0.2.23 tzdata_2011b-2 ufsutils_7.3-1+b1 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
+Toolchain package versions: binutils_2.21.90.20111025-1 dpkg-dev_1.16.1.1 g++-4.6_4.6.2-4 gcc-4.6_4.6.2-4 kfreebsd-kernel-headers_0.60 libc0.1-dev_2.13-21 libstdc++6_4.6.2-4 libstdc++6-4.6-dev_4.6.2-4
+Package versions: apt_0.8.15.9 autotools-dev_20110511.1 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.90.20111025-1 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 coreutils_8.13-3 cpio_2.11-7 cpp_4:4.6.1-3 cpp-4.6_4.6.2-4 dash_0.5.7-2 debconf_1.5.41 debconf-english_1.5.38 debfoster_2.7-1.1 debhelper_8.9.9 debian-archive-keyring_2010.08.28 debianutils_4.0.4 diffutils_1:3.2-1 dpkg_1.16.1.1 dpkg-dev_1.16.1.1 e2fslibs_1.42~WIP-2011-10-16-1 e2fsprogs_1.42~WIP-2011-10-16-1 fakeroot_1.18.1-1 file_5.09-2 findutils_4.4.2-1 freebsd-utils_8.2+ds2-8 g++_4:4.6.1-3 g++-4.6_4.6.2-4 gcc_4:4.6.1-3 gcc-4.2-base_4.2.4-6 gcc-4.4-base_4.4.6-11 gcc-4.5-base_4.5.3-9 gcc-4.6_4.6.2-4 gcc-4.6-base_4.6.2-4 gettext_0.18.1.1-5 gettext-base_0.18.1.1-5 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.13 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 kbdcontrol_8.2+ds2-8 kfreebsd-kernel-headers_0.60 libacl1_2.2.51-4 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbsd0_0.3.0-1 libbz2-1.0_1.0.5-7 libc-bin_2.13-21 libc-dev-bin_2.13-21 libc0.1_2.13-21 libc0.1-dev_2.13-21 libcam0_8.2+ds1-4 libcomerr2_1.42~WIP-2011-10-16-1 libcroco3_0.6.2-2 libdb5.1_5.1.25-11 libdpkg-perl_1.16.1.1 libexpat1_2.0.1-7.2 libgc1c2_1:7.1-8 libgcc1_1:4.6.2-4 libgcrypt11_1.5.0-3 libgdbm3_1.8.3-10 libgeom1_8.2+ds1-4 libglib2.0-0_2.28.8-1 libgmp10_2:5.0.2+dfsg-2 libgnutls26_2.12.12-1 libgomp1_4.6.2-4 libgpg-error0_1.10-1 libgssglue1_0.3-3.1 libjail1_8.2+ds1-4 libkiconv4_8.2+ds1-4 libkvm0_8.2+ds1-4 libldap-2.4-2_2.4.25-4 liblzma2_5.1.1alpha+20110809-2 liblzma5_5.1.1alpha+20110809-3 libmagic1_5.09-2 libmpc2_0.9-4 libmpfr4_3.1.0-3 libncurses5_5.9-4 libncursesw5_5.9-4 libp11-kit0_0.8-2 libpam-modules_1.1.3-6 libpam-modules-bin_1.1.3-6 libpam-runtime_1.1.3-6 libpam0g_1.1.3-6 libpcre3_8.12-4 libpipeline1_1.2.0-5 libpng12-0_1.2.46-3 libquadmath0_4.6.2-4 libreadline6_6.2-7 libsasl2-2_2.1.25.dfsg1-2 libsbuf0_8.2+ds1-4 libslang2_2.2.4-3 libss2_1.42~WIP-2011-10-16-1 libstdc++6_4.6.2-4 libstdc++6-4.6-dev_4.6.2-4 libtasn1-3_2.10-1 libtext-charwidth-perl_0.04-7 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libtinfo5_5.9-4 libtirpc1_0.2.2-5 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-5 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 lzma_4.43-14 make_3.81-8.1 man-db_2.6.0.2-3 mawk_1.3.3-16 multiarch-support_2.13-21 ncurses-base_5.9-4 ncurses-bin_5.9-4 netbase_4.47 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-6 perl-base_5.12.4-6 perl-modules_5.12.4-6 po-debconf_1.0.16+nmu1 procps_1:3.2.8-11 psmisc_22.13-1 readline-common_6.2-7 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.3p1-1 sysv-rc_2.88dsf-13.13 sysvinit_2.88dsf-13.13 sysvinit-utils_2.88dsf-13.13 tar_1.25-3 tzdata_2011n-1 util-linux_2.19.1-5 vim_2:7.3.346-1 vim-common_2:7.3.346-1 vim-runtime_2:7.3.346-1 xz-utils_5.1.1alpha+20110809-3 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -202,14 +252,13 @@ 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: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
-gpgv: Signature made Fri Mar 11 21:59:41 2011 UTC using DSA key ID C09FD35A
+gpgv: Signature made Mon Nov 14 04:21:35 2011 UTC using RSA key ID 2295D502
gpgv: Can't check signature: public key not found
-dpkg-source: warning: failed to verify signature on ./bwa_0.5.9-2.dsc
-dpkg-source: info: extracting bwa in bwa-0.5.9
-dpkg-source: info: unpacking bwa_0.5.9.orig.tar.bz2
-dpkg-source: info: unpacking bwa_0.5.9-2.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bwa_0.5.10-1.dsc
+dpkg-source: info: extracting bwa in bwa-0.5.10
+dpkg-source: info: unpacking bwa_0.5.10.orig.tar.bz2
+dpkg-source: info: unpacking bwa_0.5.10-1.debian.tar.gz
Check disc space
────────────────
@@ -218,42 +267,43 @@ Check disc space
dpkg-buildpackage
─────────────────
-dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
-dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
-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 bwa
-dpkg-buildpackage: source version 0.5.9-2
- dpkg-source --before-build bwa-0.5.9
+dpkg-buildpackage: source version 0.5.10-1
+ dpkg-source --before-build bwa-0.5.10
dpkg-buildpackage: host architecture kfreebsd-i386
- /usr/bin/fakeroot debian/rules clean
+ fakeroot debian/rules clean
dh clean
dh_testdir
dh_auto_clean
-make[1]: Entering directory `/build/buildd-bwa_0.5.9-2-kfreebsd-i386-ZDb6_f/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-kfreebsd-i386-ZDb6_f/bwa-0.5.9'
+make[1]: Entering directory `/build/buildd-bwa_0.5.10-1-kfreebsd-i386-d6O4Q4/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-kfreebsd-i386-d6O4Q4/bwa-0.5.10'
rm -f gmon.out *.o a.out bwa *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-kfreebsd-i386-ZDb6_f/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-kfreebsd-i386-ZDb6_f/bwa-0.5.9/bwt_gen'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-kfreebsd-i386-d6O4Q4/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-kfreebsd-i386-d6O4Q4/bwa-0.5.10/bwt_gen'
rm -f gmon.out *.o a.out *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-kfreebsd-i386-ZDb6_f/bwa-0.5.9/bwt_gen'
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9-2-kfreebsd-i386-ZDb6_f/bwa-0.5.9'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-kfreebsd-i386-d6O4Q4/bwa-0.5.10/bwt_gen'
+make[1]: Leaving directory `/build/buildd-bwa_0.5.10-1-kfreebsd-i386-d6O4Q4/bwa-0.5.10'
dh_clean
debian/rules build
dh build
dh_testdir
dh_auto_configure
dh_auto_build
-make[1]: Entering directory `/build/buildd-bwa_0.5.9-2-kfreebsd-i386-ZDb6_f/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-kfreebsd-i386-ZDb6_f/bwa-0.5.9'
+make[1]: Entering directory `/build/buildd-bwa_0.5.10-1-kfreebsd-i386-d6O4Q4/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-kfreebsd-i386-d6O4Q4/bwa-0.5.10'
make[2]: Nothing to be done for `lib'.
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-kfreebsd-i386-ZDb6_f/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-kfreebsd-i386-ZDb6_f/bwa-0.5.9/bwt_gen'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-kfreebsd-i386-d6O4Q4/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-kfreebsd-i386-d6O4Q4/bwa-0.5.10/bwt_gen'
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt_gen.c -o bwt_gen.o
+bwt_gen.c: In function 'BWTIncBuildRelativeRank':
+bwt_gen.c:824:15: warning: variable 'oldInverseSa0RelativeRank' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncMergeBwt':
+bwt_gen.c:899:15: warning: variable 'bitsInWordMinusBitPerChar' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD QSufSort.c -o QSufSort.o
-ar -cru libbwtgen.a bwt_gen.o QSufSort.o
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-kfreebsd-i386-ZDb6_f/bwa-0.5.9/bwt_gen'
+QSufSort.c: In function 'QSufSortSuffixSort':
+QSufSort.c:89:6: warning: variable 'maxNumInputSymbol' set but not used [-Wunused-but-set-variable]
+ar -scru libbwtgen.a bwt_gen.o QSufSort.o
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-kfreebsd-i386-d6O4Q4/bwa-0.5.10/bwt_gen'
gcc -c -g -Wall -O2 -DHAVE_PTHREAD utils.c -o utils.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt.c -o bwt.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtio.c -o bwtio.o
@@ -262,25 +312,37 @@ gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtgap.c -o bwtgap.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD is.c -o is.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bntseq.c -o bntseq.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtmisc.c -o bwtmisc.o
+bwtmisc.c: In function 'bwa_pac_rev_core':
+bwtmisc.c:163:20: warning: variable 'j' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtindex.c -o bwtindex.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD stdaln.c -o stdaln.o
+stdaln.c: In function 'aln_local_core':
+stdaln.c:545:25: warning: variable 'b' set but not used [-Wunused-but-set-variable]
+stdaln.c: In function 'aln_extend_core':
+stdaln.c:865:16: warning: variable 'tmp_len' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD simple_dp.c -o simple_dp.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwaseqio.c -o bwaseqio.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwase.c -o bwase.o
+bwase.c: In function 'bwa_aln2seq_core':
+bwase.c:75:15: warning: variable 'k' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_print_sam1':
+bwase.c:452:17: warning: variable 'm_is_N' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwape.c -o bwape.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD kstring.c -o kstring.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD cs2nt.c -o cs2nt.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_core.c -o bwtsw2_core.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_main.c -o bwtsw2_main.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_aux.c -o bwtsw2_aux.o
+bwtsw2_aux.c: In function 'gen_cigar':
+bwtsw2_aux.c:193:7: warning: variable 'score' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt_lite.c -o bwt_lite.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_chain.c -o bwtsw2_chain.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bamlite.c -o bamlite.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD main.c -o main.o
gcc -g -Wall -O2 -DHAVE_PTHREAD utils.o bwt.o bwtio.o bwtaln.o bwtgap.o is.o bntseq.o bwtmisc.o bwtindex.o stdaln.o simple_dp.o bwaseqio.o bwase.o bwape.o kstring.o cs2nt.o bwtsw2_core.o bwtsw2_main.o bwtsw2_aux.o bwt_lite.o bwtsw2_chain.o bamlite.o main.o -o bwa -lm -lz -lpthread -Lbwt_gen -lbwtgen
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9-2-kfreebsd-i386-ZDb6_f/bwa-0.5.9'
+make[1]: Leaving directory `/build/buildd-bwa_0.5.10-1-kfreebsd-i386-d6O4Q4/bwa-0.5.10'
dh_auto_test
- /usr/bin/fakeroot debian/rules binary-arch
+ fakeroot debian/rules binary-arch
dh binary-arch
dh_testroot -a
dh_prep -a
@@ -308,7 +370,9 @@ dh binary-arch
dh_installudev -a
dh_installwm -a
dh_installxfonts -a
+ dh_installgsettings -a
dh_bugfiles -a
+ dh_ucf -a
dh_lintian -a
dh_gconf -a
dh_icons -a
@@ -325,57 +389,61 @@ dh binary-arch
dpkg-gencontrol: warning: package bwa: unused substitution variable ${perl:Depends}
dh_md5sums -a
dh_builddeb -a
-dpkg-deb: building package `bwa' in `../bwa_0.5.9-2_kfreebsd-i386.deb'.
- dpkg-genchanges -B -mkfreebsd-i386 Build Daemon (field) <buildd_kfreebsd-i386-field at buildd.debian.org> >../bwa_0.5.9-2_kfreebsd-i386.changes
+dpkg-deb: building package `bwa' in `../bwa_0.5.10-1_kfreebsd-i386.deb'.
+ dpkg-genchanges -B -mkfreebsd-i386 Build Daemon (finzi) <buildd_kfreebsd-i386-finzi at buildd.debian.org> >../bwa_0.5.10-1_kfreebsd-i386.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 bwa-0.5.9
+ dpkg-source --after-build bwa-0.5.10
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110312-0739
+Build finished at 20111114-0440
-bwa_0.5.9-2_kfreebsd-i386.changes:
+bwa_0.5.10-1_kfreebsd-i386.changes:
Format: 1.8
-Date: Fri, 11 Mar 2011 22:49:07 +0100
+Date: Mon, 14 Nov 2011 13:12:50 +0900
Source: bwa
Binary: bwa
Architecture: kfreebsd-i386
-Version: 0.5.9-2
+Version: 0.5.10-1
Distribution: sid
Urgency: low
-Maintainer: kfreebsd-i386 Build Daemon (field) <buildd_kfreebsd-i386-field at buildd.debian.org>
-Changed-By: Andreas Tille <tille at debian.org>
+Maintainer: kfreebsd-i386 Build Daemon (finzi) <buildd_kfreebsd-i386-finzi at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
Description:
bwa - Burrows-Wheeler Aligner
Changes:
- bwa (0.5.9-2) unstable; urgency=low
+ bwa (0.5.10-1) unstable; urgency=low
.
- * Watchfile should not regard rc releases.
- * Drop cdbs in favour of dh
+ [a01f6ca] New upstream release.
+ [6d7bc7f] Conforms with Debian Policy version 3.9.2.
+ [125c73d] Corrected Vcs-Git URL.
+ [37f43c9] Normalised machine-readable copyright file with config-edit.
+ [4e2e0d0] Distribute xa2multi.pl in ‘usr/share/bwa’.
+ [b106d64] Removed redundant ChangeLog file, already installed by Debhelper.
Checksums-Sha1:
- e120aca88dd8638072100f41b989fd737587e737 138384 bwa_0.5.9-2_kfreebsd-i386.deb
+ 9587807d9d257e3a262d1c702831527badd9c337 142604 bwa_0.5.10-1_kfreebsd-i386.deb
Checksums-Sha256:
- d13d8a99a6f2910bf58e25bf0b84fe562cff763052534a75e92a18d0204eb94c 138384 bwa_0.5.9-2_kfreebsd-i386.deb
+ b85602978d5c6ebc5bcf16fb997843dc5e6849d90805fef2301d0700b30897b3 142604 bwa_0.5.10-1_kfreebsd-i386.deb
Files:
- f361f70e43f7b023f25250a42a0bc785 138384 science optional bwa_0.5.9-2_kfreebsd-i386.deb
+ 54d95ed06964e1c64effde3328e39cd1 142604 science optional bwa_0.5.10-1_kfreebsd-i386.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bwa_0.5.9-2_kfreebsd-i386.deb
-─────────────────────────────
+bwa_0.5.10-1_kfreebsd-i386.deb
+──────────────────────────────
new debian package, version 2.0.
- size 138384 bytes: control archive= 985 bytes.
- 784 bytes, 17 lines control
- 615 bytes, 10 lines md5sums
+ size 142604 bytes: control archive= 1001 bytes.
+ 785 bytes, 17 lines control
+ 610 bytes, 10 lines md5sums
Package: bwa
- Version: 0.5.9-2
+ Version: 0.5.10-1
Architecture: kfreebsd-i386
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 308
+ Installed-Size: 263
Depends: libc0.1 (>= 2.7), zlib1g (>= 1:1.1.4)
Suggests: samtools
Section: science
@@ -389,25 +457,25 @@ bwa_0.5.9-2_kfreebsd-i386.deb
to around 100 kbp. Both algorithms do gapped alignment. They are usually more
accurate and faster on queries with low error rates.
-drwxr-xr-x root/root 0 2011-03-12 07:39 ./
-drwxr-xr-x root/root 0 2011-03-12 07:39 ./usr/
-drwxr-xr-x root/root 0 2011-03-12 07:39 ./usr/bin/
--rwxr-xr-x root/root 202832 2011-03-12 07:39 ./usr/bin/bwa
-drwxr-xr-x root/root 0 2011-03-12 07:39 ./usr/share/
-drwxr-xr-x root/root 0 2011-03-12 07:39 ./usr/share/bwa/
--rwxr-xr-x root/root 3176 2011-01-25 00:00 ./usr/share/bwa/solid2fastq.pl
--rwxr-xr-x root/root 616 2011-01-25 00:00 ./usr/share/bwa/qualfa2fq.pl
-drwxr-xr-x root/root 0 2011-03-12 07:39 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-03-12 07:39 ./usr/share/doc/bwa/
--rw-r--r-- root/root 5857 2011-01-25 00:00 ./usr/share/doc/bwa/NEWS.gz
--rw-r--r-- root/root 634 2011-01-25 00:00 ./usr/share/doc/bwa/README
--rw-r--r-- root/root 2676 2011-02-08 07:09 ./usr/share/doc/bwa/copyright
--rw-r--r-- root/root 17912 2011-01-25 00:00 ./usr/share/doc/bwa/changelog.gz
--rw-r--r-- root/root 17912 2011-01-25 00:00 ./usr/share/doc/bwa/ChangeLog.gz
--rw-r--r-- root/root 957 2011-03-11 21:54 ./usr/share/doc/bwa/changelog.Debian.gz
-drwxr-xr-x root/root 0 2011-03-12 07:39 ./usr/share/man/
-drwxr-xr-x root/root 0 2011-03-12 07:39 ./usr/share/man/man1/
--rw-r--r-- root/root 7554 2011-03-12 07:39 ./usr/share/man/man1/bwa.1.gz
+drwxr-xr-x root/root 0 2011-11-14 04:39 ./
+drwxr-xr-x root/root 0 2011-11-14 04:39 ./usr/
+drwxr-xr-x root/root 0 2011-11-14 04:40 ./usr/bin/
+-rwxr-xr-x root/root 223108 2011-11-14 04:40 ./usr/bin/bwa
+drwxr-xr-x root/root 0 2011-11-14 04:39 ./usr/share/
+drwxr-xr-x root/root 0 2011-11-14 04:39 ./usr/share/bwa/
+-rwxr-xr-x root/root 3176 2011-11-13 01:07 ./usr/share/bwa/solid2fastq.pl
+-rwxr-xr-x root/root 616 2011-11-13 01:07 ./usr/share/bwa/qualfa2fq.pl
+-rwxr-xr-x root/root 730 2011-11-13 01:07 ./usr/share/bwa/xa2multi.pl
+drwxr-xr-x root/root 0 2011-11-14 04:39 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-11-14 04:40 ./usr/share/doc/bwa/
+-rw-r--r-- root/root 634 2011-11-13 01:07 ./usr/share/doc/bwa/README
+-rw-r--r-- root/root 2740 2011-11-14 04:09 ./usr/share/doc/bwa/copyright
+-rw-r--r-- root/root 17912 2011-11-13 01:07 ./usr/share/doc/bwa/changelog.gz
+-rw-r--r-- root/root 5857 2011-11-13 01:08 ./usr/share/doc/bwa/NEWS.gz
+-rw-r--r-- root/root 1159 2011-11-14 04:16 ./usr/share/doc/bwa/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-11-14 04:39 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-11-14 04:40 ./usr/share/man/man1/
+-rw-r--r-- root/root 7554 2011-11-14 04:39 ./usr/share/man/man1/bwa.1.gz
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -416,36 +484,67 @@ drwxr-xr-x root/root 0 2011-03-12 07:39 ./usr/share/man/man1/
Built successfully
────────────────────────────────────────────────────────────────────────────────
-Purging /var/lib/schroot/mount/sid-ki-sbuild-1299915477-93817/build/buildd-bwa_0.5.9-2-kfreebsd-i386-ZDb6_f
-(Reading database ... 13135 files and directories currently installed.)
-Removing zlib1g-dev ...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /var/lib/schroot/mount/sid-ki-sbuild-1321245533-8321/build/buildd-bwa_0.5.10-1-kfreebsd-i386-d6O4Q4
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 6 not upgraded.
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following packages will be REMOVED:
+ debhelper* file* gettext* gettext-base* html2text* intltool-debian*
+ libcroco3* libglib2.0-0* libmagic1* libpipeline1* libunistring0* libxml2*
+ man-db* po-debconf* zlib1g-dev*
+0 upgraded, 0 newly installed, 15 to remove and 6 not upgraded.
+After this operation, 19.5 MB disk space will be freed.
+(Reading database ... 14450 files and directories currently installed.)
Removing debhelper ...
+Removing file ...
Removing po-debconf ...
-Removing man-db ...
-Purging configuration files for man-db ...
Removing intltool-debian ...
-Removing groff-base ...
-Purging configuration files for groff-base ...
Removing gettext ...
-Removing file ...
+Removing gettext-base ...
Removing html2text ...
Purging configuration files for html2text ...
-Removing gettext-base ...
-Removing libunistring0 ...
-Purging configuration files for libunistring0 ...
Removing libcroco3 ...
Purging configuration files for libcroco3 ...
+Removing libglib2.0-0 ...
+Purging configuration files for libglib2.0-0 ...
Removing libmagic1 ...
Purging configuration files for libmagic1 ...
+Removing man-db ...
+Purging configuration files for man-db ...
Removing libpipeline1 ...
Purging configuration files for libpipeline1 ...
+Removing libunistring0 ...
+Purging configuration files for libunistring0 ...
Removing libxml2 ...
Purging configuration files for libxml2 ...
-Removing libglib2.0-0 ...
-Purging configuration files for libglib2.0-0 ...
-Removing libpcre3 ...
-Purging configuration files for libpcre3 ...
-────────────────────────────────────────────────────────────────────────────────
-Finished at 20110312-0739
-Build needed 00:01:20, 2470k disc space
+Removing zlib1g-dev ...
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Architecture: kfreebsd-i386
+Build-Space: 2540
+Build-Time: 25
+Distribution: sid
+Install-Time: 30
+Job: bwa_0.5.10-1
+Package: bwa
+Package-Time: 73
+Source-Version: 0.5.10-1
+Space: 2540
+Status: successful
+Version: 0.5.10-1
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20111114-0440
+Build needed 00:01:13, 2540k disc space
+Signature with key 'D859A500' requested:
diff --git a/mips.log b/mips.log
index a7dc687..4c5de68 100644
--- a/mips.log
+++ b/mips.log
@@ -1,67 +1,67 @@
-From buildd at corelli.debian.org Sun Mar 13 01:31:41 2011
+From buildd at corelli.debian.org Mon Nov 14 04:45:30 2011
Return-path: <buildd at corelli.debian.org>
Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
CN=merikanto.debian.org,
EMAIL=hostmaster at merikanto.debian.org (verified)
by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at corelli.debian.org>)
- id 1Pya9k-0002Sb-CC
- for logs at buildd.debian.org; Sun, 13 Mar 2011 01:31:41 +0000
+ (Exim 4.72) (envelope-from <buildd at corelli.debian.org>)
+ id 1RPoQE-0000zH-8k
+ for logs at buildd.debian.org; Mon, 14 Nov 2011 04:45:30 +0000
Received: from corelli.debian.org ([2607:f8f0:610:4000:2e0:98ff:fe00:4489])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
CN=corelli.debian.org, EMAIL=hostmaster at corelli.debian.org (verified)
by merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at corelli.debian.org>)
- id 1Pya9g-0000MC-G3; Sun, 13 Mar 2011 01:31:37 +0000
+ (Exim 4.72) (envelope-from <buildd at corelli.debian.org>)
+ id 1RPoQC-0004gz-Gs
+ for logs at buildd.debian.org; Mon, 14 Nov 2011 04:45:29 +0000
Received: from buildd by corelli.debian.org with local (Exim 4.69)
- (envelope-from <buildd at corelli.debian.org>)
- id 1Pya9c-0002uV-Sd; Sun, 13 Mar 2011 01:31:32 +0000
+ (envelope-from <buildd at corelli.debian.org>) id 1RPoQA-0000Fm-0X
+ for logs at buildd.debian.org; Mon, 14 Nov 2011 04:45:26 +0000
From: buildd on corelli <buildd at corelli.debian.org>
-To: aba at debian.org,logs at buildd.debian.org
-Subject: Log for successful build of bwa_0.5.9-2 on mips (dist=sid)
+To: logs at buildd.debian.org
+Subject: Log for successful build of bwa_0.5.10-1 on mips (dist=sid)
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit
-Message-Id: <E1Pya9c-0002uV-Sd at corelli.debian.org>
-Date: Sun, 13 Mar 2011 01:31:32 +0000
+Message-Id: <E1RPoQA-0000Fm-0X at corelli.debian.org>
+Date: Mon, 14 Nov 2011 04:45:26 +0000
Delivered-To: logs at buildd.debian.org
-sbuild (Debian sbuild) 0.60.5 (14 Nov 2010) on corelli.debian.org
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on corelli.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bwa 0.5.9-2 (mips) 13 Mar 2011 01:25 ║
+║ bwa 0.5.10-1 (mips) 14 Nov 2011 04:38 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bwa
-Version: 0.5.9-2
+Version: 0.5.10-1
+Source Version: 0.5.10-1
Architecture: mips
-Chroot Build Dir: /var/lib/schroot/mount/sid-mips-sbuild-9183f974-7126-491d-a73a-ea69eab80945/build/buildd-bwa_0.5.9-2-mips-1NiyPb
-Start Time: 20110313-0125
-Get:1 http://mirror-ubc.debian.org unstable InRelease [147 kB]
-Get:2 http://incoming.debian.org unstable InRelease [147 kB]
-Get:3 http://mirror-ubc.debian.org unstable/main Sources [4195 kB]
+Get:1 http://incoming.debian.org unstable InRelease [146 kB]
+Get:2 http://mirror-ubc.debian.org unstable InRelease [146 kB]
+Get:3 http://mirror-ubc.debian.org unstable/main Sources [5923 kB]
Ign http://incoming.debian.org InRelease
-Get:4 http://incoming.debian.org Release.gpg [835 B]
-Get:5 http://incoming.debian.org unstable/main Sources [4195 kB]
-Get:6 http://mirror-ubc.debian.org unstable/contrib Sources [38.7 kB]
-Get:7 http://mirror-ubc.debian.org unstable/non-free Sources [81.8 kB]
-Get:8 http://mirror-ubc.debian.org unstable/main mips Packages [6823 kB]
-Get:9 http://mirror-ubc.debian.org unstable/contrib mips Packages [51.9 kB]
+Get:4 http://incoming.debian.org Release.gpg [836 B]
+Get:5 http://incoming.debian.org unstable/main Sources [5923 kB]
+Get:6 http://mirror-ubc.debian.org unstable/contrib Sources [57.2 kB]
+Get:7 http://mirror-ubc.debian.org unstable/non-free Sources [103 kB]
+Get:8 http://mirror-ubc.debian.org unstable/main mips Packages [7626 kB]
+Get:9 http://incoming.debian.org unstable/contrib Sources [57.2 kB]
+Get:10 http://incoming.debian.org unstable/non-free Sources [103 kB]
+Get:11 http://incoming.debian.org unstable/main mips Packages [7626 kB]
+Get:12 http://mirror-ubc.debian.org unstable/contrib mips Packages [56.2 kB]
Ign http://mirror-ubc.debian.org unstable/contrib TranslationIndex
-Get:10 http://mirror-ubc.debian.org unstable/main TranslationIndex [2232 B]
+Get:13 http://mirror-ubc.debian.org unstable/main TranslationIndex [2045 B]
Ign http://mirror-ubc.debian.org unstable/contrib Translation-en
-Get:11 http://incoming.debian.org unstable/contrib Sources [38.7 kB]
-Get:12 http://incoming.debian.org unstable/non-free Sources [81.8 kB]
-Get:13 http://incoming.debian.org unstable/main mips Packages [6823 kB]
-Get:14 http://incoming.debian.org unstable/contrib mips Packages [51.9 kB]
+Get:14 http://incoming.debian.org unstable/contrib mips Packages [56.2 kB]
Ign http://incoming.debian.org unstable/contrib TranslationIndex
-Get:15 http://incoming.debian.org unstable/main TranslationIndex [2232 B]
+Get:15 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
Get:16 http://incoming.debian.org Release [1604 B]
-Get:17 http://incoming.debian.org Sources [27.5 kB]
-Get:18 http://incoming.debian.org Packages [367 kB]
+Get:17 http://incoming.debian.org Sources [37.6 kB]
+Get:18 http://incoming.debian.org Packages [341 kB]
Ign http://incoming.debian.org unstable/contrib Translation-en
Ign http://incoming.debian.org Translation-en
-Fetched 23.1 MB in 49s (471 kB/s)
+Fetched 28.2 MB in 1min 20s (351 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -81,29 +81,78 @@ Reading package lists...
Building dependency tree...
Reading state information...
NOTICE: 'bwa' packaging is maintained in the 'Git' version control system at:
-git://git.debian.org/git/debian-med/bwa.git
-Need to get 119 kB of source archives.
-Get:1 http://mirror-ubc.debian.org/debian/ unstable/main bwa 0.5.9-2 (dsc) [1245 B]
-Get:2 http://mirror-ubc.debian.org/debian/ unstable/main bwa 0.5.9-2 (tar) [114 kB]
-Get:3 http://mirror-ubc.debian.org/debian/ unstable/main bwa 0.5.9-2 (diff) [3828 B]
-Fetched 119 kB in 0s (1608 kB/s)
+git://git.debian.org/debian-med/bwa.git
+Need to get 126 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (dsc) [1929 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (tar) [120 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (diff) [4113 B]
+Fetched 126 kB in 0s (217 kB/s)
Download complete and in download only mode
Check arch
──────────
-** Using build dependencies supplied by package:
-Build-Depends: debhelper (>= 8), zlib1g-dev
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install build dependencies (internal resolver) │
+│ Install core build dependencies (internal resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
-Checking for already installed source dependencies...
+Build-Depends: build-essential, fakeroot
+Checking for already installed dependencies...
+build-essential: already installed (11.5)
+fakeroot: already installed (1.18.1-1)
+Checking for dependency conflicts...
+Installing positive dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 45 not upgraded.
+Removing negative dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 45 not upgraded.
+Checking correctness of dependencies...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install bwa build dependencies (internal 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), zlib1g-dev
+Checking for already installed dependencies...
+base-files: already installed (6.5)
+base-passwd: already installed (3.5.23)
+bash: already installed (4.1-3)
+coreutils: already installed (8.13-3)
+dash: already installed (0.5.7-2)
+debianutils: already installed (4.0.4)
+diffutils: already installed (1:3.0-1)
+dpkg: already installed (1.16.1)
+e2fsprogs: already installed (1.42~WIP-2011-10-09-1)
+findutils: already installed (4.4.2-1+b1)
+grep: already installed (2.9-2)
+gzip: already installed (1.4-1)
+hostname: already installed (3.06)
+ncurses-base: already installed (5.9-2)
+ncurses-bin: already installed (5.9-2)
+perl-base: already installed (5.12.4-6)
+sed: already installed (4.2.1-9)
+login: already installed (1:4.1.4.2+svn3283-3)
+sysvinit-utils: already installed (2.88dsf-13.11)
+sysvinit: already installed (2.88dsf-13.11)
+tar: already installed (1.26-2)
+bsdutils: already installed (1:2.19.1-5)
+mount: already installed (2.19.1-5)
+util-linux: already installed (2.19.1-5)
+libc6-dev: already installed (2.13-21)
+gcc: already installed (4:4.6.1-3 >= 4:4.4.3 is satisfied)
+g++: already installed (4:4.6.1-3 >= 4:4.4.3 is satisfied)
+make: already installed (3.81-8.1)
+dpkg-dev: already installed (1.16.1 >= 1.13.5 is satisfied)
debhelper: missing
-Using default version 8.1.2
+Using default version 8.9.9
zlib1g-dev: missing
-Checking for source dependency conflicts...
+Checking for dependency conflicts...
Installing positive dependencies: debhelper zlib1g-dev
Reading package lists...
Building dependency tree...
@@ -122,93 +171,97 @@ The following NEW packages will be installed:
bsdmainutils debhelper file gettext gettext-base groff-base html2text
intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1
libunistring0 libxml2 man-db po-debconf zlib1g-dev
-0 upgraded, 18 newly installed, 0 to remove and 1 not upgraded.
-Need to get 9149 kB of archives.
-After this operation, 29.3 MB of additional disk space will be used.
-Get:1 http://mirror-ubc.debian.org/debian/ unstable/main bsdmainutils mips 8.2.2 [210 kB]
-Get:2 http://mirror-ubc.debian.org/debian/ unstable/main groff-base mips 1.21-4 [1203 kB]
-Get:3 http://mirror-ubc.debian.org/debian/ unstable/main libpipeline1 mips 1.1.0-1 [35.1 kB]
-Get:4 http://mirror-ubc.debian.org/debian/ unstable/main man-db mips 2.5.9-4 [997 kB]
-Get:5 http://mirror-ubc.debian.org/debian/ unstable/main libmagic1 mips 5.04-5 [239 kB]
-Get:6 http://mirror-ubc.debian.org/debian/ unstable/main file mips 5.04-5 [49.7 kB]
-Get:7 http://mirror-ubc.debian.org/debian/ unstable/main gettext-base mips 0.18.1.1-3 [153 kB]
-Get:8 http://mirror-ubc.debian.org/debian/ unstable/main libpcre3 mips 8.12-3 [262 kB]
-Get:9 http://mirror-ubc.debian.org/debian/ unstable/main libxml2 mips 2.7.8.dfsg-2 [837 kB]
-Get:10 http://mirror-ubc.debian.org/debian/ unstable/main html2text mips 1.3.2a-15 [103 kB]
-Get:11 http://mirror-ubc.debian.org/debian/ unstable/main libglib2.0-0 mips 2.28.2-1 [1501 kB]
-Get:12 http://mirror-ubc.debian.org/debian/ unstable/main libcroco3 mips 0.6.2-1 [110 kB]
-Get:13 http://mirror-ubc.debian.org/debian/ unstable/main libunistring0 mips 0.9.3-3 [415 kB]
-Get:14 http://mirror-ubc.debian.org/debian/ unstable/main gettext mips 0.18.1.1-3 [2037 kB]
-Get:15 http://mirror-ubc.debian.org/debian/ unstable/main intltool-debian mips 0.35.0+20060710.1 [30.8 kB]
-Get:16 http://mirror-ubc.debian.org/debian/ unstable/main po-debconf mips 1.0.16+nmu1 [223 kB]
-Get:17 http://mirror-ubc.debian.org/debian/ unstable/main debhelper mips 8.1.2 [553 kB]
+0 upgraded, 18 newly installed, 0 to remove and 45 not upgraded.
+Need to get 9112 kB of archives.
+After this operation, 26.5 MB of additional disk space will be used.
+Get:1 http://mirror-ubc.debian.org/debian/ unstable/main libpipeline1 mips 1.2.0-5 [35.4 kB]
+Get:2 http://mirror-ubc.debian.org/debian/ unstable/main libpcre3 mips 8.12-4 [227 kB]
+Get:3 http://mirror-ubc.debian.org/debian/ unstable/main libglib2.0-0 mips 2.28.8-1 [1565 kB]
+Get:4 http://mirror-ubc.debian.org/debian/ unstable/main libxml2 mips 2.7.8.dfsg-5 [858 kB]
+Get:5 http://mirror-ubc.debian.org/debian/ unstable/main libcroco3 mips 0.6.2-2 [104 kB]
+Get:6 http://mirror-ubc.debian.org/debian/ unstable/main libunistring0 mips 0.9.3-5 [411 kB]
+Get:7 http://mirror-ubc.debian.org/debian/ unstable/main bsdmainutils mips 8.2.3 [206 kB]
+Get:8 http://mirror-ubc.debian.org/debian/ unstable/main groff-base mips 1.21-6 [1152 kB]
+Get:9 http://mirror-ubc.debian.org/debian/ unstable/main man-db mips 2.6.0.2-3 [984 kB]
+Get:10 http://mirror-ubc.debian.org/debian/ unstable/main libmagic1 mips 5.09-2 [249 kB]
+Get:11 http://mirror-ubc.debian.org/debian/ unstable/main file mips 5.09-2 [51.8 kB]
+Get:12 http://mirror-ubc.debian.org/debian/ unstable/main gettext-base mips 0.18.1.1-5 [136 kB]
+Get:13 http://mirror-ubc.debian.org/debian/ unstable/main html2text mips 1.3.2a-15 [103 kB]
+Get:14 http://mirror-ubc.debian.org/debian/ unstable/main gettext mips 0.18.1.1-5 [2032 kB]
+Get:15 http://mirror-ubc.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get:16 http://mirror-ubc.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get:17 http://mirror-ubc.debian.org/debian/ unstable/main debhelper all 8.9.9 [552 kB]
Get:18 http://mirror-ubc.debian.org/debian/ unstable/main zlib1g-dev mips 1:1.2.3.4.dfsg-3 [191 kB]
debconf: delaying package configuration, since apt-utils is not installed
-Fetched 9149 kB in 1s (5325 kB/s)
-Selecting previously deselected package bsdmainutils.
-(Reading database ... 10228 files and directories currently installed.)
-Unpacking bsdmainutils (from .../bsdmainutils_8.2.2_mips.deb) ...
-Selecting previously deselected package groff-base.
-Unpacking groff-base (from .../groff-base_1.21-4_mips.deb) ...
-Selecting previously deselected package libpipeline1.
-Unpacking libpipeline1 (from .../libpipeline1_1.1.0-1_mips.deb) ...
-Selecting previously deselected package man-db.
-Unpacking man-db (from .../man-db_2.5.9-4_mips.deb) ...
-Selecting previously deselected package libmagic1.
-Unpacking libmagic1 (from .../libmagic1_5.04-5_mips.deb) ...
-Selecting previously deselected package file.
-Unpacking file (from .../archives/file_5.04-5_mips.deb) ...
-Selecting previously deselected package gettext-base.
-Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_mips.deb) ...
-Selecting previously deselected package libpcre3.
-Unpacking libpcre3 (from .../libpcre3_8.12-3_mips.deb) ...
-Selecting previously deselected package libxml2.
-Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_mips.deb) ...
-Selecting previously deselected package html2text.
+Fetched 9112 kB in 4s (2198 kB/s)
+Selecting previously unselected package libpipeline1.
+(Reading database ... 10552 files and directories currently installed.)
+Unpacking libpipeline1 (from .../libpipeline1_1.2.0-5_mips.deb) ...
+Selecting previously unselected package libpcre3.
+Unpacking libpcre3 (from .../libpcre3_8.12-4_mips.deb) ...
+Selecting previously unselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.8-1_mips.deb) ...
+Selecting previously unselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-5_mips.deb) ...
+Selecting previously unselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-2_mips.deb) ...
+Selecting previously unselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-5_mips.deb) ...
+Selecting previously unselected package bsdmainutils.
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.3_mips.deb) ...
+Selecting previously unselected package groff-base.
+Unpacking groff-base (from .../groff-base_1.21-6_mips.deb) ...
+Selecting previously unselected package man-db.
+Unpacking man-db (from .../man-db_2.6.0.2-3_mips.deb) ...
+Selecting previously unselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.09-2_mips.deb) ...
+Selecting previously unselected package file.
+Unpacking file (from .../archives/file_5.09-2_mips.deb) ...
+Selecting previously unselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-5_mips.deb) ...
+Selecting previously unselected package html2text.
Unpacking html2text (from .../html2text_1.3.2a-15_mips.deb) ...
-Selecting previously deselected package libglib2.0-0.
-Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.2-1_mips.deb) ...
-Selecting previously deselected package libcroco3.
-Unpacking libcroco3 (from .../libcroco3_0.6.2-1_mips.deb) ...
-Selecting previously deselected package libunistring0.
-Unpacking libunistring0 (from .../libunistring0_0.9.3-3_mips.deb) ...
-Selecting previously deselected package gettext.
-Unpacking gettext (from .../gettext_0.18.1.1-3_mips.deb) ...
-Selecting previously deselected package intltool-debian.
-Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_mips.deb) ...
-Selecting previously deselected package po-debconf.
-Unpacking po-debconf (from .../po-debconf_1.0.16+nmu1_mips.deb) ...
-Selecting previously deselected package debhelper.
-Unpacking debhelper (from .../debhelper_8.1.2_mips.deb) ...
-Selecting previously deselected package zlib1g-dev.
+Selecting previously unselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-5_mips.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+nmu1_all.deb) ...
+Selecting previously unselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.9.9_all.deb) ...
+Selecting previously unselected package zlib1g-dev.
Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_mips.deb) ...
-Setting up bsdmainutils (8.2.2) ...
+Setting up libpipeline1 (1.2.0-5) ...
+Setting up libpcre3 (8.12-4) ...
+Setting up libglib2.0-0 (2.28.8-1) ...
+No schema files found: doing nothing.
+Setting up libxml2 (2.7.8.dfsg-5) ...
+Setting up libcroco3 (0.6.2-2) ...
+Setting up libunistring0 (0.9.3-5) ...
+Setting up bsdmainutils (8.2.3) ...
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 man-db (2.5.9-4) ...
+Setting up groff-base (1.21-6) ...
+Setting up man-db (2.6.0.2-3) ...
Building database of manual pages ...
-Setting up libmagic1 (5.04-5) ...
-Setting up file (5.04-5) ...
-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 libmagic1 (5.09-2) ...
+Setting up file (5.09-2) ...
+Setting up gettext-base (0.18.1.1-5) ...
Setting up html2text (1.3.2a-15) ...
-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) ...
-Setting up gettext (0.18.1.1-3) ...
+Setting up gettext (0.18.1.1-5) ...
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 debhelper (8.9.9) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
Removing negative dependencies:
-Checking correctness of source dependencies...
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 45 not upgraded.
+Checking correctness of dependencies...
Kernel: Linux 2.6.35.4-dsa-octeon mips (mips64)
-Toolchain package versions: libc6-dev_2.11.2-11 dpkg-dev_1.15.8.10 linux-libc-dev_2.6.37-2 gcc-4.4_4.4.5-13 g++-4.4_4.4.5-13 binutils_2.21.0.20110302-1 libstdc++6-4.4-dev_4.4.5-13 libstdc++6_4.5.2-5
-Package versions: apt_0.8.12 base-files_6.1 base-passwd_3.5.22 bash_4.1-3 binutils_2.21.0.20110302-1 bsdmainutils_8.2.2 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 coreutils_8.5-1 cpp_4:4.4.5-4 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++_4:4.4.5-4 g++-4.4_4.4.5-13 gcc_4:4.4.5-4 gcc-4.4_4.4.5-13 gcc-4.4-base_4.4.5-13 gcc-4.5-base_4.5.2-5 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_3.06 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_2.11.2-11 libc-dev-bin_2.11.2-11 libc6_2.11.2-11 libc6-dev_2.11.2-11 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_1:7.1-7 libgcc1_1:4.5.2-5 libgdbm3_1.8.3-9 libglib2.0-0_2.28.2-1 libgmp10_2:5.0.1+dfsg-6 libgmp3c2_2:4.3.2+dfsg-1 libgomp1_4.5.2-5 liblocale-gettext-perl_1.05-6 liblzma2_5.0.0-2 libmagic1_5.04-5 libmpfr1ldbl_2.4.2-3 libmpfr4_3.0.0-9 libncurses5_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_1.1.0-1 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_4.5.2-5 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_5.8+20110307-1 ncurses-bin_5.8+20110307-1 netbase_4.45 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 sudo_1.7.4p6-1 sysv-rc_2.88dsf-13.1 sysvinit_2.88dsf-13.1 sysvinit-utils_2.88dsf-13.1 tar_1.25-3 tzdata_2011c-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
+Toolchain package versions: binutils_2.21.90.20111004-2 dpkg-dev_1.16.1 g++-4.6_4.6.1-15 gcc-4.6_4.6.1-15 libc6-dev_2.13-21 libstdc++6_4.6.1-15 libstdc++6-4.6-dev_4.6.1-15 linux-libc-dev_3.0.0-5
+Package versions: apt_0.8.15.8 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.90.20111004-2 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 coreutils_8.13-3 cpp_4:4.6.1-3 cpp-4.6_4.6.1-15 dash_0.5.7-2 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.9 debian-archive-keyring_2010.08.28 debianutils_4.0.4 diffutils_1:3.0-1 dpkg_1.16.1 dpkg-dev_1.16.1 e2fslibs_1.42~WIP-2011-10-09-1 e2fsprogs_1.42~WIP-2011-10-09-1 fakeroot_1.18.1-1 file_5.09-2 findutils_4.4.2-1+b1 g++_4:4.6.1-3 g++-4.6_4.6.1-15 gcc_4:4.6.1-3 gcc-4.6_4.6.1-15 gcc-4.6-base_4.6.1-15 gettext_0.18.1.1-5 gettext-base_0.18.1.1-5 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.11 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-3 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbz2-1.0_1.0.5-7 libc-bin_2.13-21 libc-dev-bin_2.13-21 libc6_2.13-21 libc6-dev_2.13-21 libcomerr2_1.42~WIP-2011-10-09-1 libcroco3_0.6.2-2 libdb5.1_5.1.25-11 libdpkg-perl_1.16.1 libgc1c2_1:7.1-8 libgcc1_1:4.6.1-15 libgdbm3_1.8.3-10 libglib2.0-0_2.28.8-1 libgmp10_2:5.0.2+dfsg-1 libgomp1_4.6.1-15 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.09-2 libmount1_2.19.1-5 libmpc2_0.9-4 libmpfr4_3.1.0-2 libncurses5_5.9-2 libpam-modules_1.1.3-4 libpam-modules-bin_1.1.3-4 libpam-runtime_1.1.3-4 libpam0g_1.1.3-4 libpcre3_8.12-4 libpipeline1_1.2.0-5 libreadline6_6.2-7 libselinux1_2.1.0-1 libsepol1_2.1.0-1.1 libslang2_2.2.4-3 libss2_1.42~WIP-2011-10-09-1 libstdc++6_4.6.1-15 libstdc++6-4.6-dev_4.6.1-15 libtimedate-perl_1.2000-1 libtinfo5_5.9-2 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-5 linux-libc-dev_3.0.0-5 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-3 mawk_1.3.3-15 mount_2.19.1-5 multiarch-support_2.13-21 ncurses-base_5.9-2 ncurses-bin_5.9-2 netbase_4.46 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-6 perl-base_5.12.4-6 perl-modules_5.12.4-6 po-debconf_1.0.16+nmu1 readline-common_6.2-7 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.2-2 sysv-rc_2.88dsf-13.11 sysvinit_2.88dsf-13.11 sysvinit-utils_2.88dsf-13.11 tar_1.26-2 tzdata_2011l-1 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -218,14 +271,13 @@ Package versions: apt_0.8.12 base-files_6.1 base-passwd_3.5.22 bash_4.1-3 binuti
Unpack source
─────────────
-dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
-gpgv: Signature made Fri Mar 11 21:59:41 2011 UTC using DSA key ID C09FD35A
+gpgv: Signature made Mon Nov 14 04:21:35 2011 UTC using RSA key ID 2295D502
gpgv: Can't check signature: public key not found
-dpkg-source: warning: failed to verify signature on ./bwa_0.5.9-2.dsc
-dpkg-source: info: extracting bwa in bwa-0.5.9
-dpkg-source: info: unpacking bwa_0.5.9.orig.tar.bz2
-dpkg-source: info: unpacking bwa_0.5.9-2.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bwa_0.5.10-1.dsc
+dpkg-source: info: extracting bwa in bwa-0.5.10
+dpkg-source: info: unpacking bwa_0.5.10.orig.tar.bz2
+dpkg-source: info: unpacking bwa_0.5.10-1.debian.tar.gz
Check disc space
────────────────
@@ -234,42 +286,48 @@ Check disc space
dpkg-buildpackage
─────────────────
-dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
-dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
-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: dpkg-buildflags (origin: vendor): CFLAGS = -g -O2 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security
+dpkg-buildpackage: dpkg-buildflags (origin: vendor): CPPFLAGS =
+dpkg-buildpackage: dpkg-buildflags (origin: vendor): CXXFLAGS = -g -O2 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security
+dpkg-buildpackage: dpkg-buildflags (origin: vendor): FFLAGS = -g -O2
+dpkg-buildpackage: dpkg-buildflags (origin: vendor): LDFLAGS = -Wl,-z,relro
dpkg-buildpackage: source package bwa
-dpkg-buildpackage: source version 0.5.9-2
- dpkg-source --before-build bwa-0.5.9
+dpkg-buildpackage: source version 0.5.10-1
+ dpkg-source --before-build bwa-0.5.10
dpkg-buildpackage: host architecture mips
- /usr/bin/fakeroot debian/rules clean
+ fakeroot debian/rules clean
dh clean
dh_testdir
dh_auto_clean
-make[1]: Entering directory `/build/buildd-bwa_0.5.9-2-mips-1NiyPb/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-mips-1NiyPb/bwa-0.5.9'
+make[1]: Entering directory `/build/buildd-bwa_0.5.10-1-mips-phQ91R/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-mips-phQ91R/bwa-0.5.10'
rm -f gmon.out *.o a.out bwa *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-mips-1NiyPb/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-mips-1NiyPb/bwa-0.5.9/bwt_gen'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-mips-phQ91R/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-mips-phQ91R/bwa-0.5.10/bwt_gen'
rm -f gmon.out *.o a.out *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-mips-1NiyPb/bwa-0.5.9/bwt_gen'
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9-2-mips-1NiyPb/bwa-0.5.9'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-mips-phQ91R/bwa-0.5.10/bwt_gen'
+make[1]: Leaving directory `/build/buildd-bwa_0.5.10-1-mips-phQ91R/bwa-0.5.10'
dh_clean
debian/rules build
dh build
dh_testdir
dh_auto_configure
dh_auto_build
-make[1]: Entering directory `/build/buildd-bwa_0.5.9-2-mips-1NiyPb/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-mips-1NiyPb/bwa-0.5.9'
+make[1]: Entering directory `/build/buildd-bwa_0.5.10-1-mips-phQ91R/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-mips-phQ91R/bwa-0.5.10'
make[2]: Nothing to be done for `lib'.
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-mips-1NiyPb/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-mips-1NiyPb/bwa-0.5.9/bwt_gen'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-mips-phQ91R/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-mips-phQ91R/bwa-0.5.10/bwt_gen'
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt_gen.c -o bwt_gen.o
+bwt_gen.c: In function 'BWTIncBuildRelativeRank':
+bwt_gen.c:824:15: warning: variable 'oldInverseSa0RelativeRank' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncMergeBwt':
+bwt_gen.c:899:15: warning: variable 'bitsInWordMinusBitPerChar' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD QSufSort.c -o QSufSort.o
-ar -cru libbwtgen.a bwt_gen.o QSufSort.o
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-mips-1NiyPb/bwa-0.5.9/bwt_gen'
+QSufSort.c: In function 'QSufSortSuffixSort':
+QSufSort.c:89:6: warning: variable 'maxNumInputSymbol' set but not used [-Wunused-but-set-variable]
+ar -scru libbwtgen.a bwt_gen.o QSufSort.o
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-mips-phQ91R/bwa-0.5.10/bwt_gen'
gcc -c -g -Wall -O2 -DHAVE_PTHREAD utils.c -o utils.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt.c -o bwt.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtio.c -o bwtio.o
@@ -278,25 +336,37 @@ gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtgap.c -o bwtgap.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD is.c -o is.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bntseq.c -o bntseq.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtmisc.c -o bwtmisc.o
+bwtmisc.c: In function 'bwa_pac_rev_core':
+bwtmisc.c:163:20: warning: variable 'j' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtindex.c -o bwtindex.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD stdaln.c -o stdaln.o
+stdaln.c: In function 'aln_local_core':
+stdaln.c:545:25: warning: variable 'b' set but not used [-Wunused-but-set-variable]
+stdaln.c: In function 'aln_extend_core':
+stdaln.c:865:16: warning: variable 'tmp_len' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD simple_dp.c -o simple_dp.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwaseqio.c -o bwaseqio.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwase.c -o bwase.o
+bwase.c: In function 'bwa_aln2seq_core':
+bwase.c:75:15: warning: variable 'k' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_print_sam1':
+bwase.c:452:17: warning: variable 'm_is_N' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwape.c -o bwape.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD kstring.c -o kstring.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD cs2nt.c -o cs2nt.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_core.c -o bwtsw2_core.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_main.c -o bwtsw2_main.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_aux.c -o bwtsw2_aux.o
+bwtsw2_aux.c: In function 'gen_cigar':
+bwtsw2_aux.c:193:7: warning: variable 'score' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt_lite.c -o bwt_lite.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_chain.c -o bwtsw2_chain.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bamlite.c -o bamlite.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD main.c -o main.o
gcc -g -Wall -O2 -DHAVE_PTHREAD utils.o bwt.o bwtio.o bwtaln.o bwtgap.o is.o bntseq.o bwtmisc.o bwtindex.o stdaln.o simple_dp.o bwaseqio.o bwase.o bwape.o kstring.o cs2nt.o bwtsw2_core.o bwtsw2_main.o bwtsw2_aux.o bwt_lite.o bwtsw2_chain.o bamlite.o main.o -o bwa -lm -lz -lpthread -Lbwt_gen -lbwtgen
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9-2-mips-1NiyPb/bwa-0.5.9'
+make[1]: Leaving directory `/build/buildd-bwa_0.5.10-1-mips-phQ91R/bwa-0.5.10'
dh_auto_test
- /usr/bin/fakeroot debian/rules binary-arch
+ fakeroot debian/rules binary-arch
dh binary-arch
dh_testroot -a
dh_prep -a
@@ -324,7 +394,9 @@ dh binary-arch
dh_installudev -a
dh_installwm -a
dh_installxfonts -a
+ dh_installgsettings -a
dh_bugfiles -a
+ dh_ucf -a
dh_lintian -a
dh_gconf -a
dh_icons -a
@@ -341,57 +413,61 @@ dh binary-arch
dpkg-gencontrol: warning: package bwa: unused substitution variable ${perl:Depends}
dh_md5sums -a
dh_builddeb -a
-dpkg-deb: building package `bwa' in `../bwa_0.5.9-2_mips.deb'.
- dpkg-genchanges -B -mmips Build Daemon (corelli) <buildd_mips-corelli at buildd.debian.org> >../bwa_0.5.9-2_mips.changes
+dpkg-deb: building package `bwa' in `../bwa_0.5.10-1_mips.deb'.
+ dpkg-genchanges -B -mmips Build Daemon (corelli) <buildd_mips-corelli at buildd.debian.org> >../bwa_0.5.10-1_mips.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 bwa-0.5.9
+ dpkg-source --after-build bwa-0.5.10
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110313-0131
+Build finished at 20111114-0445
-bwa_0.5.9-2_mips.changes:
+bwa_0.5.10-1_mips.changes:
Format: 1.8
-Date: Fri, 11 Mar 2011 22:49:07 +0100
+Date: Mon, 14 Nov 2011 13:12:50 +0900
Source: bwa
Binary: bwa
Architecture: mips
-Version: 0.5.9-2
+Version: 0.5.10-1
Distribution: sid
Urgency: low
Maintainer: mips Build Daemon (corelli) <buildd_mips-corelli at buildd.debian.org>
-Changed-By: Andreas Tille <tille at debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
Description:
bwa - Burrows-Wheeler Aligner
Changes:
- bwa (0.5.9-2) unstable; urgency=low
+ bwa (0.5.10-1) unstable; urgency=low
.
- * Watchfile should not regard rc releases.
- * Drop cdbs in favour of dh
+ [a01f6ca] New upstream release.
+ [6d7bc7f] Conforms with Debian Policy version 3.9.2.
+ [125c73d] Corrected Vcs-Git URL.
+ [37f43c9] Normalised machine-readable copyright file with config-edit.
+ [4e2e0d0] Distribute xa2multi.pl in ‘usr/share/bwa’.
+ [b106d64] Removed redundant ChangeLog file, already installed by Debhelper.
Checksums-Sha1:
- c5437041d22b5e1fe49983448ea8711a949251b2 156412 bwa_0.5.9-2_mips.deb
+ 623b58ac029847066175ea91f01d34162bc3ca38 148484 bwa_0.5.10-1_mips.deb
Checksums-Sha256:
- a391ed4a1f572d4f6e06debccd45df03ed031aa915be4da5770be607662caf54 156412 bwa_0.5.9-2_mips.deb
+ 7cbc14f400a1987857565fb3acf82eaf212be882c16514538880dd44d00ede5e 148484 bwa_0.5.10-1_mips.deb
Files:
- a2f48120c41a8dcd663df7bd319cbf2f 156412 science optional bwa_0.5.9-2_mips.deb
+ aad9aa6083107eee9e65cef78f41417d 148484 science optional bwa_0.5.10-1_mips.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bwa_0.5.9-2_mips.deb
-────────────────────
+bwa_0.5.10-1_mips.deb
+─────────────────────
new debian package, version 2.0.
- size 156412 bytes: control archive= 976 bytes.
- 773 bytes, 17 lines control
- 615 bytes, 10 lines md5sums
+ size 148484 bytes: control archive= 995 bytes.
+ 774 bytes, 17 lines control
+ 610 bytes, 10 lines md5sums
Package: bwa
- Version: 0.5.9-2
+ Version: 0.5.10-1
Architecture: mips
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 372
+ Installed-Size: 297
Depends: libc6 (>= 2.7), zlib1g (>= 1:1.1.4)
Suggests: samtools
Section: science
@@ -405,25 +481,25 @@ bwa_0.5.9-2_mips.deb
to around 100 kbp. Both algorithms do gapped alignment. They are usually more
accurate and faster on queries with low error rates.
-drwxr-xr-x root/root 0 2011-03-13 01:30 ./
-drwxr-xr-x root/root 0 2011-03-13 01:30 ./usr/
-drwxr-xr-x root/root 0 2011-03-13 01:30 ./usr/share/
-drwxr-xr-x root/root 0 2011-03-13 01:30 ./usr/share/bwa/
--rwxr-xr-x root/root 616 2011-01-25 00:00 ./usr/share/bwa/qualfa2fq.pl
--rwxr-xr-x root/root 3176 2011-01-25 00:00 ./usr/share/bwa/solid2fastq.pl
-drwxr-xr-x root/root 0 2011-03-13 01:30 ./usr/share/man/
-drwxr-xr-x root/root 0 2011-03-13 01:30 ./usr/share/man/man1/
--rw-r--r-- root/root 7554 2011-03-13 01:30 ./usr/share/man/man1/bwa.1.gz
-drwxr-xr-x root/root 0 2011-03-13 01:30 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-03-13 01:30 ./usr/share/doc/bwa/
--rw-r--r-- root/root 17912 2011-01-25 00:00 ./usr/share/doc/bwa/ChangeLog.gz
--rw-r--r-- root/root 17912 2011-01-25 00:00 ./usr/share/doc/bwa/changelog.gz
--rw-r--r-- root/root 957 2011-03-11 21:54 ./usr/share/doc/bwa/changelog.Debian.gz
--rw-r--r-- root/root 634 2011-01-25 00:00 ./usr/share/doc/bwa/README
--rw-r--r-- root/root 2676 2011-02-08 07:09 ./usr/share/doc/bwa/copyright
--rw-r--r-- root/root 5857 2011-01-25 00:00 ./usr/share/doc/bwa/NEWS.gz
-drwxr-xr-x root/root 0 2011-03-13 01:30 ./usr/bin/
--rwxr-xr-x root/root 254656 2011-03-13 01:30 ./usr/bin/bwa
+drwxr-xr-x root/root 0 2011-11-14 04:44 ./
+drwxr-xr-x root/root 0 2011-11-14 04:44 ./usr/
+drwxr-xr-x root/root 0 2011-11-14 04:44 ./usr/share/
+drwxr-xr-x root/root 0 2011-11-14 04:44 ./usr/share/bwa/
+-rwxr-xr-x root/root 730 2011-11-13 01:07 ./usr/share/bwa/xa2multi.pl
+-rwxr-xr-x root/root 616 2011-11-13 01:07 ./usr/share/bwa/qualfa2fq.pl
+-rwxr-xr-x root/root 3176 2011-11-13 01:07 ./usr/share/bwa/solid2fastq.pl
+drwxr-xr-x root/root 0 2011-11-14 04:44 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-11-14 04:44 ./usr/share/man/man1/
+-rw-r--r-- root/root 7554 2011-11-14 04:44 ./usr/share/man/man1/bwa.1.gz
+drwxr-xr-x root/root 0 2011-11-14 04:44 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-11-14 04:44 ./usr/share/doc/bwa/
+-rw-r--r-- root/root 17912 2011-11-13 01:07 ./usr/share/doc/bwa/changelog.gz
+-rw-r--r-- root/root 1159 2011-11-14 04:16 ./usr/share/doc/bwa/changelog.Debian.gz
+-rw-r--r-- root/root 634 2011-11-13 01:07 ./usr/share/doc/bwa/README
+-rw-r--r-- root/root 2740 2011-11-14 04:09 ./usr/share/doc/bwa/copyright
+-rw-r--r-- root/root 5857 2011-11-13 01:08 ./usr/share/doc/bwa/NEWS.gz
+drwxr-xr-x root/root 0 2011-11-14 04:44 ./usr/bin/
+-rwxr-xr-x root/root 221876 2011-11-14 04:44 ./usr/bin/bwa
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -432,74 +508,97 @@ drwxr-xr-x root/root 0 2011-03-13 01:30 ./usr/bin/
Built successfully
────────────────────────────────────────────────────────────────────────────────
-Purging /var/lib/schroot/mount/sid-mips-sbuild-9183f974-7126-491d-a73a-ea69eab80945/build/buildd-bwa_0.5.9-2-mips-1NiyPb
-Not removing build depends: cloned chroot in use
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /var/lib/schroot/mount/sid-mips-sbuild-7073cbec-f22b-4241-8c61-209a2aac7101/build/buildd-bwa_0.5.10-1-mips-phQ91R
+Not cleaning session: cloned chroot in use
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Architecture: mips
+Build-Space: 2784
+Build-Time: 224
+Distribution: sid
+Install-Time: 71
+Job: bwa_0.5.10-1
+Package: bwa
+Package-Time: 419
+Source-Version: 0.5.10-1
+Space: 2784
+Status: successful
+Version: 0.5.10-1
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110313-0131
-Build needed 00:06:00, 2712k disc space
+Finished at 20111114-0445
+Build needed 00:06:59, 2784k disc space
+Signature with key '102A90D8' requested:
-From buildd at mayer.debian.org Sat Mar 12 08:10:20 2011
+From buildd at mayer.debian.org Mon Nov 14 04:45:56 2011
Return-path: <buildd at mayer.debian.org>
-Received: from kokkonen.debian.org ([2001:41b8:202:deb:216:35ff:fec4:6340])
+Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
- CN=kokkonen.debian.org,
- EMAIL=hostmaster at kokkonen.debian.org (verified)
+ CN=merikanto.debian.org,
+ EMAIL=hostmaster at merikanto.debian.org (verified)
by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at mayer.debian.org>)
- id 1PyJu0-00063I-4F
- for logs at buildd.debian.org; Sat, 12 Mar 2011 08:10:20 +0000
+ (Exim 4.72) (envelope-from <buildd at mayer.debian.org>)
+ id 1RPoQd-00016I-Tk
+ for logs at buildd.debian.org; Mon, 14 Nov 2011 04:45:56 +0000
Received: from mayer.debian.org ([140.211.166.78])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
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- by kokkonen.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at mayer.debian.org>)
- id 1PyJty-0005kU-9T
- for logs at buildd.debian.org; Sat, 12 Mar 2011 08:10:18 +0000
+ by merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at mayer.debian.org>)
+ id 1RPoQc-0004ka-Iz
+ for logs at buildd.debian.org; Mon, 14 Nov 2011 04:45:55 +0000
Received: from buildd by mayer.debian.org with local (Exim 4.69)
- (envelope-from <buildd at mayer.debian.org>)
- id 1PyJtv-0007El-0z; Sat, 12 Mar 2011 08:10:15 +0000
+ (envelope-from <buildd at mayer.debian.org>) id 1RPoQV-0004vi-Gr
+ for logs at buildd.debian.org; Mon, 14 Nov 2011 04:45:47 +0000
From: buildd on mayer <buildd at mayer.debian.org>
-To: buildd-porters at mayer.debian.org,logs at buildd.debian.org
-Subject: Log for successful build of bwa_0.5.9-2 on mipsel (dist=sid)
+To: logs at buildd.debian.org
+Subject: Log for successful build of bwa_0.5.10-1 on mipsel (dist=sid)
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit
-Message-Id: <E1PyJtv-0007El-0z at mayer.debian.org>
-Date: Sat, 12 Mar 2011 08:10:15 +0000
+Message-Id: <E1RPoQV-0004vi-Gr at mayer.debian.org>
+Date: Mon, 14 Nov 2011 04:45:47 +0000
Delivered-To: logs at buildd.debian.org
-sbuild (Debian sbuild) 0.60.5 (14 Nov 2010) on mayer.debian.org
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on mayer.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bwa 0.5.9-2 (mipsel) 12 Mar 2011 08:08 ║
+║ bwa 0.5.10-1 (mipsel) 14 Nov 2011 04:40 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bwa
-Version: 0.5.9-2
+Version: 0.5.10-1
+Source Version: 0.5.10-1
Architecture: mipsel
-Chroot Build Dir: /var/lib/schroot/mount/sid-mipsel-sbuild-9a01b7d6-45b0-4c77-98ec-f57807330914/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn
-Start Time: 20110312-0808
-Hit http://debian.oregonstate.edu sid InRelease
-Hit http://debian.oregonstate.edu sid/main Sources
-Hit http://debian.oregonstate.edu sid/contrib Sources
-Hit http://debian.oregonstate.edu sid/main mipsel Packages
-Hit http://debian.oregonstate.edu sid/contrib mipsel Packages
+Get:1 http://debian.oregonstate.edu sid InRelease [146 kB]
+Get:2 http://incoming.debian.org sid InRelease [146 kB]
+Get:3 http://debian.oregonstate.edu sid/main Sources [5923 kB]
+Ign http://incoming.debian.org InRelease
+Get:4 http://incoming.debian.org Release.gpg [836 B]
+Get:5 http://incoming.debian.org sid/main Sources [5923 kB]
+Get:6 http://debian.oregonstate.edu sid/contrib Sources [57.2 kB]
+Get:7 http://debian.oregonstate.edu sid/main mipsel Packages [7645 kB]
+Get:8 http://debian.oregonstate.edu sid/contrib mipsel Packages [56.5 kB]
Ign http://debian.oregonstate.edu sid/contrib TranslationIndex
-Hit http://debian.oregonstate.edu sid/main TranslationIndex
+Get:9 http://debian.oregonstate.edu sid/main TranslationIndex [2045 B]
Ign http://debian.oregonstate.edu sid/contrib Translation-en
-Hit http://incoming.debian.org sid InRelease
-Ign http://incoming.debian.org InRelease
-Hit http://incoming.debian.org Release.gpg
-Hit http://incoming.debian.org sid/main Sources
-Hit http://incoming.debian.org sid/contrib Sources
-Hit http://incoming.debian.org sid/main mipsel Packages
-Hit http://incoming.debian.org sid/contrib mipsel Packages
+Get:10 http://incoming.debian.org sid/contrib Sources [57.2 kB]
+Get:11 http://incoming.debian.org sid/main mipsel Packages [7645 kB]
+Get:12 http://incoming.debian.org sid/contrib mipsel Packages [56.5 kB]
Ign http://incoming.debian.org sid/contrib TranslationIndex
-Hit http://incoming.debian.org sid/main TranslationIndex
-Hit http://incoming.debian.org Release
-Hit http://incoming.debian.org Sources
-Hit http://incoming.debian.org Packages
+Get:13 http://incoming.debian.org sid/main TranslationIndex [2045 B]
+Get:14 http://incoming.debian.org Release [1604 B]
+Get:15 http://incoming.debian.org Sources [37.6 kB]
+Get:16 http://incoming.debian.org Packages [341 kB]
Ign http://incoming.debian.org sid/contrib Translation-en
Ign http://incoming.debian.org Translation-en
+Fetched 28.0 MB in 1min 6s (423 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -519,34 +618,160 @@ Reading package lists...
Building dependency tree...
Reading state information...
NOTICE: 'bwa' packaging is maintained in the 'Git' version control system at:
-git://git.debian.org/git/debian-med/bwa.git
-Need to get 119 kB of source archives.
-Get:1 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (dsc) [1245 B]
-Get:2 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (tar) [114 kB]
-Get:3 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (diff) [3828 B]
-Fetched 119 kB in 0s (204 kB/s)
+git://git.debian.org/debian-med/bwa.git
+Need to get 126 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (dsc) [1929 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (tar) [120 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (diff) [4113 B]
+Fetched 126 kB in 0s (190 kB/s)
Download complete and in download only mode
Check arch
──────────
-** Using build dependencies supplied by package:
-Build-Depends: debhelper (>= 8), zlib1g-dev
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install build dependencies (internal resolver) │
+│ Install core build dependencies (internal resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
-Checking for already installed source dependencies...
-debhelper: already installed (8.1.2 >= 8 is satisfied)
-zlib1g-dev: already installed (1:1.2.3.4.dfsg-3)
-Checking for source dependency conflicts...
+Build-Depends: build-essential, fakeroot
+Checking for already installed dependencies...
+build-essential: already installed (11.5)
+fakeroot: already installed (1.18.1-1)
+Checking for dependency conflicts...
Installing positive dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following packages were automatically installed and are no longer required:
+ libpopt0 groff-base libpipeline1 man-db libssl1.0.0
+Use 'apt-get autoremove' to remove them.
+0 upgraded, 0 newly installed, 0 to remove and 21 not upgraded.
Removing negative dependencies:
-Checking correctness of source dependencies...
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following packages were automatically installed and are no longer required:
+ libpopt0 groff-base libpipeline1 man-db libssl1.0.0
+Use 'apt-get autoremove' to remove them.
+0 upgraded, 0 newly installed, 0 to remove and 21 not upgraded.
+Checking correctness of dependencies...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install bwa build dependencies (internal 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), zlib1g-dev
+Checking for already installed dependencies...
+base-files: already installed (6.5)
+base-passwd: already installed (3.5.23)
+bash: already installed (4.1-3)
+coreutils: already installed (8.13-3)
+dash: already installed (0.5.7-2)
+debianutils: already installed (4.0.4)
+diffutils: already installed (1:3.0-1)
+dpkg: already installed (1.16.1.1)
+e2fsprogs: already installed (1.42~WIP-2011-10-16-1)
+findutils: already installed (4.4.2-1+b1)
+grep: already installed (2.9-2)
+gzip: already installed (1.4-1)
+hostname: already installed (3.06)
+ncurses-base: already installed (5.9-2)
+ncurses-bin: already installed (5.9-4)
+perl-base: already installed (5.12.4-6)
+sed: already installed (4.2.1-9)
+login: already installed (1:4.1.4.2+svn3283-3)
+sysvinit-utils: already installed (2.88dsf-13.12)
+sysvinit: already installed (2.88dsf-13.12)
+tar: already installed (1.26-2)
+bsdutils: already installed (1:2.19.1-5)
+mount: already installed (2.19.1-5)
+util-linux: already installed (2.19.1-5)
+libc6-dev: already installed (2.13-21)
+gcc: already installed (4:4.6.1-3 >= 4:4.4.3 is satisfied)
+g++: already installed (4:4.6.1-3 >= 4:4.4.3 is satisfied)
+make: already installed (3.81-8.1)
+dpkg-dev: already installed (1.16.1.1 >= 1.13.5 is satisfied)
+debhelper: missing
+Using default version 8.9.9
+zlib1g-dev: missing
+Checking for dependency conflicts...
+Installing positive dependencies: debhelper zlib1g-dev
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following packages were automatically installed and are no longer required:
+ libpopt0 libssl1.0.0
+Use 'apt-get autoremove' to remove them.
+The following extra packages will be installed:
+ file gettext gettext-base html2text intltool-debian libcroco3 libglib2.0-0
+ libmagic1 libunistring0 libxml2 po-debconf
+Suggested packages:
+ dh-make gettext-doc libmail-box-perl
+Recommended packages:
+ curl wget lynx-cur autopoint libglib2.0-data shared-mime-info xml-core
+ libmail-sendmail-perl
+The following NEW packages will be installed:
+ debhelper file gettext gettext-base html2text intltool-debian libcroco3
+ libglib2.0-0 libmagic1 libunistring0 libxml2 po-debconf zlib1g-dev
+debconf: delaying package configuration, since apt-utils is not installed
+0 upgraded, 13 newly installed, 0 to remove and 21 not upgraded.
+Need to get 0 B/6470 kB of archives.
+After this operation, 19.5 MB of additional disk space will be used.
+Selecting previously unselected package libglib2.0-0.
+(Reading database ... 11452 files and directories currently installed.)
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.8-1_mipsel.deb) ...
+Selecting previously unselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-5_mipsel.deb) ...
+Selecting previously unselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-2_mipsel.deb) ...
+Selecting previously unselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-5_mipsel.deb) ...
+Selecting previously unselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.09-2_mipsel.deb) ...
+Selecting previously unselected package file.
+Unpacking file (from .../file_5.09-2_mipsel.deb) ...
+Selecting previously unselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-5_mipsel.deb) ...
+Selecting previously unselected package html2text.
+Unpacking html2text (from .../html2text_1.3.2a-15_mipsel.deb) ...
+Selecting previously unselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-5_mipsel.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+nmu1_all.deb) ...
+Selecting previously unselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.9.9_all.deb) ...
+Selecting previously unselected package zlib1g-dev.
+Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_mipsel.deb) ...
+Processing triggers for man-db ...
+Setting up libglib2.0-0 (2.28.8-1) ...
+No schema files found: doing nothing.
+Setting up libxml2 (2.7.8.dfsg-5) ...
+Setting up libcroco3 (0.6.2-2) ...
+Setting up libunistring0 (0.9.3-5) ...
+Setting up libmagic1 (5.09-2) ...
+Setting up file (5.09-2) ...
+Setting up gettext-base (0.18.1.1-5) ...
+Setting up html2text (1.3.2a-15) ...
+Setting up gettext (0.18.1.1-5) ...
+Setting up intltool-debian (0.35.0+20060710.1) ...
+Setting up po-debconf (1.0.16+nmu1) ...
+Setting up debhelper (8.9.9) ...
+Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
+Removing negative dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following packages were automatically installed and are no longer required:
+ libpopt0 libssl1.0.0
+Use 'apt-get autoremove' to remove them.
+0 upgraded, 0 newly installed, 0 to remove and 21 not upgraded.
+Checking correctness of dependencies...
Kernel: Linux 2.6.32-5-sb1-bcm91250a mipsel (mips64)
-Toolchain package versions: libc6-dev_2.11.2-11 dpkg-dev_1.15.8.10 linux-libc-dev_2.6.37-2 gcc-4.4_4.4.5-13 g++-4.4_4.4.5-13 binutils_2.21.0.20110302-1 libstdc++6-4.4-dev_4.4.5-13 libstdc++6_4.5.2-4
-Package versions: apt_0.8.12 base-files_6.1 base-passwd_3.5.22 bash_4.1-3 binutils_2.21.0.20110302-1 bsdmainutils_8.2.2 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 coreutils_8.5-1 cpio_2.11-7 cpp_4:4.4.5-4 cpp-4.4_4.4.5-13 dash_0.5.5.1-7.4 debconf_1.5.38 debconf-i18n_1.5.38 debhelper_8.1.2 debian-archive-keyring_2010.08.28 debianutils_3.4.4 diffutils_1:3.0-1 dmsetup_2:1.02.63-2 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++_4:4.4.5-4 g++-4.4_4.4.5-13 gcc_4:4.4.5-4 gcc-4.3-base_4.3.5-4 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_3.06 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_2.11.2-11 libc-dev-bin_2.11.2-11 libc6_2.11.2-11 libc6-dev_2.11.2-11 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libdb4.7_4.7.25-12 libdb4.8_4.8.30-5 libdevmapper1.02.1_2:1.02.63-2 libdpkg-perl_1.15.8.10 libgcc1_1:4.5.2-4 libgdbm3_1.8.3-9 libglib2.0-0_2.28.1-1+b1 libgmp10_2:5.0.1+dfsg-6 libgmp3c2_2:4.3.2+dfsg-1 libgomp1_4.5.2-4 liblocale-gettext-perl_1.05-6 liblzma1_4.999.9beta+20091116-1 liblzma2_5.0.0-2 libmagic1_5.04-5 libmpfr1ldbl_2.4.2-3 libmpfr4_3.0.0-9 libncurses5_5.8+20110307-1 libncursesw5_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_1.1.0-1 libpopt0_1.16-1 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 libudev0_166-1 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 lzma_4.43-14 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_5.10.1-17 perl-base_5.10.1-17 perl-modules_5.10.1-17 pkg-config_0.25-1.1 po-debconf_1.0.16+nmu1 procps_1:3.2.8-10 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_2011c-1 udev_166-1 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
+Toolchain package versions: binutils_2.21.90.20111025-1 dpkg-dev_1.16.1.1 g++-4.6_4.6.2-4 gcc-4.6_4.6.2-4 libc6-dev_2.13-21 libstdc++6_4.6.2-4 libstdc++6-4.6-dev_4.6.2-4 linux-libc-dev_3.0.0-5
+Package versions: apt_0.8.15.9 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.90.20111025-1 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 coreutils_8.13-3 cpio_2.11-7 cpp_4:4.6.1-3 cpp-4.6_4.6.2-4 dash_0.5.7-2 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.9 debian-archive-keyring_2010.08.28 debianutils_4.0.4 diffutils_1:3.0-1 dmsetup_2:1.02.67-1 dpkg_1.16.1.1 dpkg-dev_1.16.1.1 e2fslibs_1.42~WIP-2011-10-16-1 e2fsprogs_1.42~WIP-2011-10-16-1 fakeroot_1.18.1-1 file_5.09-2 findutils_4.4.2-1+b1 g++_4:4.6.1-3 g++-4.6_4.6.2-4 gcc_4:4.6.1-3 gcc-4.4-base_4.4.6-11 gcc-4.5-base_4.5.3-9 gcc-4.6_4.6.2-4 gcc-4.6-base_4.6.2-4 gettext_0.18.1.1-5 gettext-base_0.18.1.1-5 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.12 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-4 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbz2-1.0_1.0.5-7 libc-bin_2.13-21 libc-dev-bin_2.13-21 libc6_2.13-21 libc6-dev_2.13-21 libcomerr2_1.42~WIP-2011-10-16-1 libcroco3_0.6.2-2 libdb5.1_5.1.25-11 libdevmapper1.02.1_2:1.02.67-1 libdpkg-perl_1.16.1.1 libgc1c2_1:7.1-8 libgcc1_1:4.6.2-4 libgdbm3_1.8.3-10 libglib2.0-0_2.28.8-1 libgmp10_2:5.0.2+dfsg-2 libgomp1_4.6.2-4 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.09-2 libmount1_2.19.1-5 libmpc2_0.9-4 libmpfr4_3.1.0-2 libncurses5_5.9-4 libncursesw5_5.9-4 libpam-modules_1.1.3-4 libpam-modules-bin_1.1.3-4 libpam-runtime_1.1.3-4 libpam0g_1.1.3-6 libpcre3_8.12-4 libpipeline1_1.2.0-4 libpng12-0_1.2.46-3 libpopt0_1.16-1 libreadline6_6.2-7 libselinux1_2.1.0-4 libsepol1_2.1.0-1.1 libslang2_2.2.4-3 libss2_1.42~WIP-2011-10-09-1 libssl1.0.0_1.0.0e-2.1 libstdc++6_4.6.2-4 libstdc++6-4.6-dev_4.6.2-4 libtimedate-perl_1.2000-1 libtinfo5_5.9-4 libudev0_172-1 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-5 linux-libc-dev_3.0.0-5 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-15 module-init-tools_3.16-1 mount_2.19.1-5 multiarch-support_2.13-21 ncurses-base_5.9-2 ncurses-bin_5.9-4 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-6 perl-base_5.12.4-6 perl-modules_5.12.4-6 po-debconf_1.0.16+nmu1 procps_1:3.2.8-11 readline-common_6.2-7 sed_4.2.1-9 sensible-utils_0.0.6 sysv-rc_2.88dsf-13.12 sysvinit_2.88dsf-13.12 sysvinit-utils_2.88dsf-13.12 tar_1.26-2 tzdata_2011n-1 udev_172-1 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -556,14 +781,13 @@ Package versions: apt_0.8.12 base-files_6.1 base-passwd_3.5.22 bash_4.1-3 binuti
Unpack source
─────────────
-dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
-gpgv: Signature made Fri Mar 11 21:59:41 2011 UTC using DSA key ID C09FD35A
+gpgv: Signature made Mon Nov 14 04:21:35 2011 UTC using RSA key ID 2295D502
gpgv: Can't check signature: public key not found
-dpkg-source: warning: failed to verify signature on ./bwa_0.5.9-2.dsc
-dpkg-source: info: extracting bwa in bwa-0.5.9
-dpkg-source: info: unpacking bwa_0.5.9.orig.tar.bz2
-dpkg-source: info: unpacking bwa_0.5.9-2.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bwa_0.5.10-1.dsc
+dpkg-source: info: extracting bwa in bwa-0.5.10
+dpkg-source: info: unpacking bwa_0.5.10.orig.tar.bz2
+dpkg-source: info: unpacking bwa_0.5.10-1.debian.tar.gz
Check disc space
────────────────
@@ -572,42 +796,43 @@ Check disc space
dpkg-buildpackage
─────────────────
-dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
-dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
-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 bwa
-dpkg-buildpackage: source version 0.5.9-2
- dpkg-source --before-build bwa-0.5.9
+dpkg-buildpackage: source version 0.5.10-1
+ dpkg-source --before-build bwa-0.5.10
dpkg-buildpackage: host architecture mipsel
- /usr/bin/fakeroot debian/rules clean
+ fakeroot debian/rules clean
dh clean
dh_testdir
dh_auto_clean
-make[1]: Entering directory `/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn/bwa-0.5.9'
+make[1]: Entering directory `/build/buildd-bwa_0.5.10-1-mipsel-6ezpgw/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-mipsel-6ezpgw/bwa-0.5.10'
rm -f gmon.out *.o a.out bwa *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn/bwa-0.5.9/bwt_gen'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-mipsel-6ezpgw/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-mipsel-6ezpgw/bwa-0.5.10/bwt_gen'
rm -f gmon.out *.o a.out *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn/bwa-0.5.9/bwt_gen'
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn/bwa-0.5.9'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-mipsel-6ezpgw/bwa-0.5.10/bwt_gen'
+make[1]: Leaving directory `/build/buildd-bwa_0.5.10-1-mipsel-6ezpgw/bwa-0.5.10'
dh_clean
debian/rules build
dh build
dh_testdir
dh_auto_configure
dh_auto_build
-make[1]: Entering directory `/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn/bwa-0.5.9'
+make[1]: Entering directory `/build/buildd-bwa_0.5.10-1-mipsel-6ezpgw/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-mipsel-6ezpgw/bwa-0.5.10'
make[2]: Nothing to be done for `lib'.
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn/bwa-0.5.9/bwt_gen'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-mipsel-6ezpgw/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-mipsel-6ezpgw/bwa-0.5.10/bwt_gen'
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt_gen.c -o bwt_gen.o
+bwt_gen.c: In function 'BWTIncBuildRelativeRank':
+bwt_gen.c:824:15: warning: variable 'oldInverseSa0RelativeRank' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncMergeBwt':
+bwt_gen.c:899:15: warning: variable 'bitsInWordMinusBitPerChar' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD QSufSort.c -o QSufSort.o
-ar -cru libbwtgen.a bwt_gen.o QSufSort.o
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn/bwa-0.5.9/bwt_gen'
+QSufSort.c: In function 'QSufSortSuffixSort':
+QSufSort.c:89:6: warning: variable 'maxNumInputSymbol' set but not used [-Wunused-but-set-variable]
+ar -scru libbwtgen.a bwt_gen.o QSufSort.o
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-mipsel-6ezpgw/bwa-0.5.10/bwt_gen'
gcc -c -g -Wall -O2 -DHAVE_PTHREAD utils.c -o utils.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt.c -o bwt.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtio.c -o bwtio.o
@@ -616,25 +841,37 @@ gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtgap.c -o bwtgap.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD is.c -o is.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bntseq.c -o bntseq.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtmisc.c -o bwtmisc.o
+bwtmisc.c: In function 'bwa_pac_rev_core':
+bwtmisc.c:163:20: warning: variable 'j' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtindex.c -o bwtindex.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD stdaln.c -o stdaln.o
+stdaln.c: In function 'aln_local_core':
+stdaln.c:545:25: warning: variable 'b' set but not used [-Wunused-but-set-variable]
+stdaln.c: In function 'aln_extend_core':
+stdaln.c:865:16: warning: variable 'tmp_len' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD simple_dp.c -o simple_dp.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwaseqio.c -o bwaseqio.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwase.c -o bwase.o
+bwase.c: In function 'bwa_aln2seq_core':
+bwase.c:75:15: warning: variable 'k' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_print_sam1':
+bwase.c:452:17: warning: variable 'm_is_N' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwape.c -o bwape.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD kstring.c -o kstring.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD cs2nt.c -o cs2nt.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_core.c -o bwtsw2_core.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_main.c -o bwtsw2_main.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_aux.c -o bwtsw2_aux.o
+bwtsw2_aux.c: In function 'gen_cigar':
+bwtsw2_aux.c:193:7: warning: variable 'score' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt_lite.c -o bwt_lite.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_chain.c -o bwtsw2_chain.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bamlite.c -o bamlite.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD main.c -o main.o
gcc -g -Wall -O2 -DHAVE_PTHREAD utils.o bwt.o bwtio.o bwtaln.o bwtgap.o is.o bntseq.o bwtmisc.o bwtindex.o stdaln.o simple_dp.o bwaseqio.o bwase.o bwape.o kstring.o cs2nt.o bwtsw2_core.o bwtsw2_main.o bwtsw2_aux.o bwt_lite.o bwtsw2_chain.o bamlite.o main.o -o bwa -lm -lz -lpthread -Lbwt_gen -lbwtgen
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn/bwa-0.5.9'
+make[1]: Leaving directory `/build/buildd-bwa_0.5.10-1-mipsel-6ezpgw/bwa-0.5.10'
dh_auto_test
- /usr/bin/fakeroot debian/rules binary-arch
+ fakeroot debian/rules binary-arch
dh binary-arch
dh_testroot -a
dh_prep -a
@@ -662,7 +899,9 @@ dh binary-arch
dh_installudev -a
dh_installwm -a
dh_installxfonts -a
+ dh_installgsettings -a
dh_bugfiles -a
+ dh_ucf -a
dh_lintian -a
dh_gconf -a
dh_icons -a
@@ -679,57 +918,61 @@ dh binary-arch
dpkg-gencontrol: warning: package bwa: unused substitution variable ${perl:Depends}
dh_md5sums -a
dh_builddeb -a
-dpkg-deb: building package `bwa' in `../bwa_0.5.9-2_mipsel.deb'.
- dpkg-genchanges -B -mmipsel Build Daemon (mayer) <buildd_mips-mayer at buildd.debian.org> >../bwa_0.5.9-2_mipsel.changes
+dpkg-deb: building package `bwa' in `../bwa_0.5.10-1_mipsel.deb'.
+ dpkg-genchanges -B -mmipsel Build Daemon (mayer) <buildd_mips-mayer at buildd.debian.org> >../bwa_0.5.10-1_mipsel.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 bwa-0.5.9
+ dpkg-source --after-build bwa-0.5.10
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110312-0810
+Build finished at 20111114-0445
-bwa_0.5.9-2_mipsel.changes:
+bwa_0.5.10-1_mipsel.changes:
Format: 1.8
-Date: Fri, 11 Mar 2011 22:49:07 +0100
+Date: Mon, 14 Nov 2011 13:12:50 +0900
Source: bwa
Binary: bwa
Architecture: mipsel
-Version: 0.5.9-2
+Version: 0.5.10-1
Distribution: sid
Urgency: low
Maintainer: mipsel Build Daemon (mayer) <buildd_mips-mayer at buildd.debian.org>
-Changed-By: Andreas Tille <tille at debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
Description:
bwa - Burrows-Wheeler Aligner
Changes:
- bwa (0.5.9-2) unstable; urgency=low
+ bwa (0.5.10-1) unstable; urgency=low
.
- * Watchfile should not regard rc releases.
- * Drop cdbs in favour of dh
+ [a01f6ca] New upstream release.
+ [6d7bc7f] Conforms with Debian Policy version 3.9.2.
+ [125c73d] Corrected Vcs-Git URL.
+ [37f43c9] Normalised machine-readable copyright file with config-edit.
+ [4e2e0d0] Distribute xa2multi.pl in ‘usr/share/bwa’.
+ [b106d64] Removed redundant ChangeLog file, already installed by Debhelper.
Checksums-Sha1:
- 9d2436a366d1b0917a710177f92dcd94653062d0 157254 bwa_0.5.9-2_mipsel.deb
+ 2f155edfa33ef066e9f2d40164e1ffdf553b19a6 149306 bwa_0.5.10-1_mipsel.deb
Checksums-Sha256:
- 29afbb425133000aee5e8386937d3cd60a3a32b2598f1f05947ae8304c2c9d5c 157254 bwa_0.5.9-2_mipsel.deb
+ 2a36f4702952e52326389db275bb78953ede7b4ab061b83644b926d87b14a1f2 149306 bwa_0.5.10-1_mipsel.deb
Files:
- ba069260a458dd8bfd3ccbe0d8cab0bc 157254 science optional bwa_0.5.9-2_mipsel.deb
+ b8730fa64e8e1945bb6d28f8f289c369 149306 science optional bwa_0.5.10-1_mipsel.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bwa_0.5.9-2_mipsel.deb
-──────────────────────
+bwa_0.5.10-1_mipsel.deb
+───────────────────────
new debian package, version 2.0.
- size 157254 bytes: control archive= 974 bytes.
- 775 bytes, 17 lines control
- 615 bytes, 10 lines md5sums
+ size 149306 bytes: control archive= 992 bytes.
+ 776 bytes, 17 lines control
+ 610 bytes, 10 lines md5sums
Package: bwa
- Version: 0.5.9-2
+ Version: 0.5.10-1
Architecture: mipsel
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 372
+ Installed-Size: 298
Depends: libc6 (>= 2.7), zlib1g (>= 1:1.1.4)
Suggests: samtools
Section: science
@@ -743,25 +986,25 @@ bwa_0.5.9-2_mipsel.deb
to around 100 kbp. Both algorithms do gapped alignment. They are usually more
accurate and faster on queries with low error rates.
-drwxr-xr-x root/root 0 2011-03-12 08:09 ./
-drwxr-xr-x root/root 0 2011-03-12 08:09 ./usr/
-drwxr-xr-x root/root 0 2011-03-12 08:10 ./usr/bin/
--rwxr-xr-x root/root 254656 2011-03-12 08:10 ./usr/bin/bwa
-drwxr-xr-x root/root 0 2011-03-12 08:09 ./usr/share/
-drwxr-xr-x root/root 0 2011-03-12 08:09 ./usr/share/bwa/
--rwxr-xr-x root/root 3176 2011-01-25 00:00 ./usr/share/bwa/solid2fastq.pl
--rwxr-xr-x root/root 616 2011-01-25 00:00 ./usr/share/bwa/qualfa2fq.pl
-drwxr-xr-x root/root 0 2011-03-12 08:09 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-03-12 08:09 ./usr/share/doc/bwa/
--rw-r--r-- root/root 5857 2011-01-25 00:00 ./usr/share/doc/bwa/NEWS.gz
--rw-r--r-- root/root 634 2011-01-25 00:00 ./usr/share/doc/bwa/README
--rw-r--r-- root/root 2676 2011-02-08 07:09 ./usr/share/doc/bwa/copyright
--rw-r--r-- root/root 17912 2011-01-25 00:00 ./usr/share/doc/bwa/changelog.gz
--rw-r--r-- root/root 17912 2011-01-25 00:00 ./usr/share/doc/bwa/ChangeLog.gz
--rw-r--r-- root/root 957 2011-03-11 21:54 ./usr/share/doc/bwa/changelog.Debian.gz
-drwxr-xr-x root/root 0 2011-03-12 08:09 ./usr/share/man/
-drwxr-xr-x root/root 0 2011-03-12 08:09 ./usr/share/man/man1/
--rw-r--r-- root/root 7554 2011-03-12 08:09 ./usr/share/man/man1/bwa.1.gz
+drwxr-xr-x root/root 0 2011-11-14 04:45 ./
+drwxr-xr-x root/root 0 2011-11-14 04:45 ./usr/
+drwxr-xr-x root/root 0 2011-11-14 04:45 ./usr/bin/
+-rwxr-xr-x root/root 222884 2011-11-14 04:45 ./usr/bin/bwa
+drwxr-xr-x root/root 0 2011-11-14 04:45 ./usr/share/
+drwxr-xr-x root/root 0 2011-11-14 04:45 ./usr/share/bwa/
+-rwxr-xr-x root/root 3176 2011-11-13 01:07 ./usr/share/bwa/solid2fastq.pl
+-rwxr-xr-x root/root 616 2011-11-13 01:07 ./usr/share/bwa/qualfa2fq.pl
+-rwxr-xr-x root/root 730 2011-11-13 01:07 ./usr/share/bwa/xa2multi.pl
+drwxr-xr-x root/root 0 2011-11-14 04:45 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-11-14 04:45 ./usr/share/doc/bwa/
+-rw-r--r-- root/root 634 2011-11-13 01:07 ./usr/share/doc/bwa/README
+-rw-r--r-- root/root 2740 2011-11-14 04:09 ./usr/share/doc/bwa/copyright
+-rw-r--r-- root/root 17912 2011-11-13 01:07 ./usr/share/doc/bwa/changelog.gz
+-rw-r--r-- root/root 5857 2011-11-13 01:08 ./usr/share/doc/bwa/NEWS.gz
+-rw-r--r-- root/root 1159 2011-11-14 04:16 ./usr/share/doc/bwa/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-11-14 04:45 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-11-14 04:45 ./usr/share/man/man1/
+-rw-r--r-- root/root 7554 2011-11-14 04:45 ./usr/share/man/man1/bwa.1.gz
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -770,8 +1013,71 @@ drwxr-xr-x root/root 0 2011-03-12 08:09 ./usr/share/man/man1/
Built successfully
────────────────────────────────────────────────────────────────────────────────
-Purging /var/lib/schroot/mount/sid-mipsel-sbuild-9a01b7d6-45b0-4c77-98ec-f57807330914/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /var/lib/schroot/mount/sid-mipsel-sbuild-11f08e98-ab05-426b-85ba-85ca19a3688e/build/buildd-bwa_0.5.10-1-mipsel-6ezpgw
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following packages were automatically installed and are no longer required:
+ libpopt0 libssl1.0.0
+Use 'apt-get autoremove' to remove them.
+0 upgraded, 0 newly installed, 0 to remove and 21 not upgraded.
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following packages were automatically installed and are no longer required:
+ libpopt0 groff-base libpipeline1 man-db libssl1.0.0
+Use 'apt-get autoremove' to remove them.
+The following packages will be REMOVED:
+ debhelper* file* gettext* gettext-base* html2text* intltool-debian*
+ libcroco3* libglib2.0-0* libmagic1* libunistring0* libxml2* po-debconf*
+ zlib1g-dev*
+0 upgraded, 0 newly installed, 13 to remove and 21 not upgraded.
+After this operation, 19.5 MB disk space will be freed.
+(Reading database ... 12272 files and directories currently installed.)
+Removing debhelper ...
+Removing file ...
+Removing po-debconf ...
+Removing intltool-debian ...
+Removing gettext ...
+Removing gettext-base ...
+Removing html2text ...
+Purging configuration files for html2text ...
+Removing libcroco3 ...
+Purging configuration files for libcroco3 ...
+Removing libglib2.0-0 ...
+Purging configuration files for libglib2.0-0 ...
+Removing libmagic1 ...
+Purging configuration files for libmagic1 ...
+Removing libunistring0 ...
+Purging configuration files for libunistring0 ...
+Removing libxml2 ...
+Purging configuration files for libxml2 ...
+Removing zlib1g-dev ...
+Processing triggers for man-db ...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Architecture: mipsel
+Build-Space: 2784
+Build-Time: 121
+Distribution: sid
+Install-Time: 51
+Job: bwa_0.5.10-1
+Package: bwa
+Package-Time: 276
+Source-Version: 0.5.10-1
+Space: 2784
+Status: successful
+Version: 0.5.10-1
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110312-0810
-Build needed 00:02:09, 2712k disc space
+Finished at 20111114-0445
+Build needed 00:04:36, 2784k disc space
+Signature with key 'B0903E66' requested:
diff --git a/mipsel.log b/mipsel.log
index 8e3f237..8852cde 100644
--- a/mipsel.log
+++ b/mipsel.log
@@ -1,65 +1,65 @@
-From buildd at mayer.debian.org Sat Mar 12 08:10:20 2011
+From buildd at mayer.debian.org Mon Nov 14 04:45:56 2011
Return-path: <buildd at mayer.debian.org>
-Received: from kokkonen.debian.org ([2001:41b8:202:deb:216:35ff:fec4:6340])
+Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
- CN=kokkonen.debian.org,
- EMAIL=hostmaster at kokkonen.debian.org (verified)
+ CN=merikanto.debian.org,
+ EMAIL=hostmaster at merikanto.debian.org (verified)
by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at mayer.debian.org>)
- id 1PyJu0-00063I-4F
- for logs at buildd.debian.org; Sat, 12 Mar 2011 08:10:20 +0000
+ (Exim 4.72) (envelope-from <buildd at mayer.debian.org>)
+ id 1RPoQd-00016I-Tk
+ for logs at buildd.debian.org; Mon, 14 Nov 2011 04:45:56 +0000
Received: from mayer.debian.org ([140.211.166.78])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
CN=mayer.debian.org, EMAIL=hostmaster at mayer.debian.org (verified)
- by kokkonen.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at mayer.debian.org>)
- id 1PyJty-0005kU-9T
- for logs at buildd.debian.org; Sat, 12 Mar 2011 08:10:18 +0000
+ by merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at mayer.debian.org>)
+ id 1RPoQc-0004ka-Iz
+ for logs at buildd.debian.org; Mon, 14 Nov 2011 04:45:55 +0000
Received: from buildd by mayer.debian.org with local (Exim 4.69)
- (envelope-from <buildd at mayer.debian.org>)
- id 1PyJtv-0007El-0z; Sat, 12 Mar 2011 08:10:15 +0000
+ (envelope-from <buildd at mayer.debian.org>) id 1RPoQV-0004vi-Gr
+ for logs at buildd.debian.org; Mon, 14 Nov 2011 04:45:47 +0000
From: buildd on mayer <buildd at mayer.debian.org>
-To: buildd-porters at mayer.debian.org,logs at buildd.debian.org
-Subject: Log for successful build of bwa_0.5.9-2 on mipsel (dist=sid)
+To: logs at buildd.debian.org
+Subject: Log for successful build of bwa_0.5.10-1 on mipsel (dist=sid)
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit
-Message-Id: <E1PyJtv-0007El-0z at mayer.debian.org>
-Date: Sat, 12 Mar 2011 08:10:15 +0000
+Message-Id: <E1RPoQV-0004vi-Gr at mayer.debian.org>
+Date: Mon, 14 Nov 2011 04:45:47 +0000
Delivered-To: logs at buildd.debian.org
-sbuild (Debian sbuild) 0.60.5 (14 Nov 2010) on mayer.debian.org
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on mayer.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bwa 0.5.9-2 (mipsel) 12 Mar 2011 08:08 ║
+║ bwa 0.5.10-1 (mipsel) 14 Nov 2011 04:40 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bwa
-Version: 0.5.9-2
+Version: 0.5.10-1
+Source Version: 0.5.10-1
Architecture: mipsel
-Chroot Build Dir: /var/lib/schroot/mount/sid-mipsel-sbuild-9a01b7d6-45b0-4c77-98ec-f57807330914/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn
-Start Time: 20110312-0808
-Hit http://debian.oregonstate.edu sid InRelease
-Hit http://debian.oregonstate.edu sid/main Sources
-Hit http://debian.oregonstate.edu sid/contrib Sources
-Hit http://debian.oregonstate.edu sid/main mipsel Packages
-Hit http://debian.oregonstate.edu sid/contrib mipsel Packages
+Get:1 http://debian.oregonstate.edu sid InRelease [146 kB]
+Get:2 http://incoming.debian.org sid InRelease [146 kB]
+Get:3 http://debian.oregonstate.edu sid/main Sources [5923 kB]
+Ign http://incoming.debian.org InRelease
+Get:4 http://incoming.debian.org Release.gpg [836 B]
+Get:5 http://incoming.debian.org sid/main Sources [5923 kB]
+Get:6 http://debian.oregonstate.edu sid/contrib Sources [57.2 kB]
+Get:7 http://debian.oregonstate.edu sid/main mipsel Packages [7645 kB]
+Get:8 http://debian.oregonstate.edu sid/contrib mipsel Packages [56.5 kB]
Ign http://debian.oregonstate.edu sid/contrib TranslationIndex
-Hit http://debian.oregonstate.edu sid/main TranslationIndex
+Get:9 http://debian.oregonstate.edu sid/main TranslationIndex [2045 B]
Ign http://debian.oregonstate.edu sid/contrib Translation-en
-Hit http://incoming.debian.org sid InRelease
-Ign http://incoming.debian.org InRelease
-Hit http://incoming.debian.org Release.gpg
-Hit http://incoming.debian.org sid/main Sources
-Hit http://incoming.debian.org sid/contrib Sources
-Hit http://incoming.debian.org sid/main mipsel Packages
-Hit http://incoming.debian.org sid/contrib mipsel Packages
+Get:10 http://incoming.debian.org sid/contrib Sources [57.2 kB]
+Get:11 http://incoming.debian.org sid/main mipsel Packages [7645 kB]
+Get:12 http://incoming.debian.org sid/contrib mipsel Packages [56.5 kB]
Ign http://incoming.debian.org sid/contrib TranslationIndex
-Hit http://incoming.debian.org sid/main TranslationIndex
-Hit http://incoming.debian.org Release
-Hit http://incoming.debian.org Sources
-Hit http://incoming.debian.org Packages
+Get:13 http://incoming.debian.org sid/main TranslationIndex [2045 B]
+Get:14 http://incoming.debian.org Release [1604 B]
+Get:15 http://incoming.debian.org Sources [37.6 kB]
+Get:16 http://incoming.debian.org Packages [341 kB]
Ign http://incoming.debian.org sid/contrib Translation-en
Ign http://incoming.debian.org Translation-en
+Fetched 28.0 MB in 1min 6s (423 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -79,34 +79,160 @@ Reading package lists...
Building dependency tree...
Reading state information...
NOTICE: 'bwa' packaging is maintained in the 'Git' version control system at:
-git://git.debian.org/git/debian-med/bwa.git
-Need to get 119 kB of source archives.
-Get:1 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (dsc) [1245 B]
-Get:2 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (tar) [114 kB]
-Get:3 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (diff) [3828 B]
-Fetched 119 kB in 0s (204 kB/s)
+git://git.debian.org/debian-med/bwa.git
+Need to get 126 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (dsc) [1929 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (tar) [120 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (diff) [4113 B]
+Fetched 126 kB in 0s (190 kB/s)
Download complete and in download only mode
Check arch
──────────
-** Using build dependencies supplied by package:
-Build-Depends: debhelper (>= 8), zlib1g-dev
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install build dependencies (internal resolver) │
+│ Install core build dependencies (internal resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
-Checking for already installed source dependencies...
-debhelper: already installed (8.1.2 >= 8 is satisfied)
-zlib1g-dev: already installed (1:1.2.3.4.dfsg-3)
-Checking for source dependency conflicts...
+Build-Depends: build-essential, fakeroot
+Checking for already installed dependencies...
+build-essential: already installed (11.5)
+fakeroot: already installed (1.18.1-1)
+Checking for dependency conflicts...
Installing positive dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following packages were automatically installed and are no longer required:
+ libpopt0 groff-base libpipeline1 man-db libssl1.0.0
+Use 'apt-get autoremove' to remove them.
+0 upgraded, 0 newly installed, 0 to remove and 21 not upgraded.
+Removing negative dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following packages were automatically installed and are no longer required:
+ libpopt0 groff-base libpipeline1 man-db libssl1.0.0
+Use 'apt-get autoremove' to remove them.
+0 upgraded, 0 newly installed, 0 to remove and 21 not upgraded.
+Checking correctness of dependencies...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install bwa build dependencies (internal 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), zlib1g-dev
+Checking for already installed dependencies...
+base-files: already installed (6.5)
+base-passwd: already installed (3.5.23)
+bash: already installed (4.1-3)
+coreutils: already installed (8.13-3)
+dash: already installed (0.5.7-2)
+debianutils: already installed (4.0.4)
+diffutils: already installed (1:3.0-1)
+dpkg: already installed (1.16.1.1)
+e2fsprogs: already installed (1.42~WIP-2011-10-16-1)
+findutils: already installed (4.4.2-1+b1)
+grep: already installed (2.9-2)
+gzip: already installed (1.4-1)
+hostname: already installed (3.06)
+ncurses-base: already installed (5.9-2)
+ncurses-bin: already installed (5.9-4)
+perl-base: already installed (5.12.4-6)
+sed: already installed (4.2.1-9)
+login: already installed (1:4.1.4.2+svn3283-3)
+sysvinit-utils: already installed (2.88dsf-13.12)
+sysvinit: already installed (2.88dsf-13.12)
+tar: already installed (1.26-2)
+bsdutils: already installed (1:2.19.1-5)
+mount: already installed (2.19.1-5)
+util-linux: already installed (2.19.1-5)
+libc6-dev: already installed (2.13-21)
+gcc: already installed (4:4.6.1-3 >= 4:4.4.3 is satisfied)
+g++: already installed (4:4.6.1-3 >= 4:4.4.3 is satisfied)
+make: already installed (3.81-8.1)
+dpkg-dev: already installed (1.16.1.1 >= 1.13.5 is satisfied)
+debhelper: missing
+Using default version 8.9.9
+zlib1g-dev: missing
+Checking for dependency conflicts...
+Installing positive dependencies: debhelper zlib1g-dev
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following packages were automatically installed and are no longer required:
+ libpopt0 libssl1.0.0
+Use 'apt-get autoremove' to remove them.
+The following extra packages will be installed:
+ file gettext gettext-base html2text intltool-debian libcroco3 libglib2.0-0
+ libmagic1 libunistring0 libxml2 po-debconf
+Suggested packages:
+ dh-make gettext-doc libmail-box-perl
+Recommended packages:
+ curl wget lynx-cur autopoint libglib2.0-data shared-mime-info xml-core
+ libmail-sendmail-perl
+The following NEW packages will be installed:
+ debhelper file gettext gettext-base html2text intltool-debian libcroco3
+ libglib2.0-0 libmagic1 libunistring0 libxml2 po-debconf zlib1g-dev
+debconf: delaying package configuration, since apt-utils is not installed
+0 upgraded, 13 newly installed, 0 to remove and 21 not upgraded.
+Need to get 0 B/6470 kB of archives.
+After this operation, 19.5 MB of additional disk space will be used.
+Selecting previously unselected package libglib2.0-0.
+(Reading database ... 11452 files and directories currently installed.)
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.8-1_mipsel.deb) ...
+Selecting previously unselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-5_mipsel.deb) ...
+Selecting previously unselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-2_mipsel.deb) ...
+Selecting previously unselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-5_mipsel.deb) ...
+Selecting previously unselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.09-2_mipsel.deb) ...
+Selecting previously unselected package file.
+Unpacking file (from .../file_5.09-2_mipsel.deb) ...
+Selecting previously unselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-5_mipsel.deb) ...
+Selecting previously unselected package html2text.
+Unpacking html2text (from .../html2text_1.3.2a-15_mipsel.deb) ...
+Selecting previously unselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-5_mipsel.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+nmu1_all.deb) ...
+Selecting previously unselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.9.9_all.deb) ...
+Selecting previously unselected package zlib1g-dev.
+Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_mipsel.deb) ...
+Processing triggers for man-db ...
+Setting up libglib2.0-0 (2.28.8-1) ...
+No schema files found: doing nothing.
+Setting up libxml2 (2.7.8.dfsg-5) ...
+Setting up libcroco3 (0.6.2-2) ...
+Setting up libunistring0 (0.9.3-5) ...
+Setting up libmagic1 (5.09-2) ...
+Setting up file (5.09-2) ...
+Setting up gettext-base (0.18.1.1-5) ...
+Setting up html2text (1.3.2a-15) ...
+Setting up gettext (0.18.1.1-5) ...
+Setting up intltool-debian (0.35.0+20060710.1) ...
+Setting up po-debconf (1.0.16+nmu1) ...
+Setting up debhelper (8.9.9) ...
+Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
Removing negative dependencies:
-Checking correctness of source dependencies...
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following packages were automatically installed and are no longer required:
+ libpopt0 libssl1.0.0
+Use 'apt-get autoremove' to remove them.
+0 upgraded, 0 newly installed, 0 to remove and 21 not upgraded.
+Checking correctness of dependencies...
Kernel: Linux 2.6.32-5-sb1-bcm91250a mipsel (mips64)
-Toolchain package versions: libc6-dev_2.11.2-11 dpkg-dev_1.15.8.10 linux-libc-dev_2.6.37-2 gcc-4.4_4.4.5-13 g++-4.4_4.4.5-13 binutils_2.21.0.20110302-1 libstdc++6-4.4-dev_4.4.5-13 libstdc++6_4.5.2-4
-Package versions: apt_0.8.12 base-files_6.1 base-passwd_3.5.22 bash_4.1-3 binutils_2.21.0.20110302-1 bsdmainutils_8.2.2 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 coreutils_8.5-1 cpio_2.11-7 cpp_4:4.4.5-4 cpp-4.4_4.4.5-13 dash_0.5.5.1-7.4 debconf_1.5.38 debconf-i18n_1.5.38 debhelper_8.1.2 debian-archive-keyring_2010.08.28 debianutils_3.4.4 diffutils_1:3.0-1 dmsetup_2:1.02.63-2 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++_4:4.4.5-4 g++-4.4_4.4.5-13 gcc_4:4.4.5-4 gcc-4.3-base_4.3.5-4 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_3.06 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_2.11.2-11 libc-dev-bin_2.11.2-11 libc6_2.11.2-11 libc6-dev_2.11.2-11 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libdb4.7_4.7.25-12 libdb4.8_4.8.30-5 libdevmapper1.02.1_2:1.02.63-2 libdpkg-perl_1.15.8.10 libgcc1_1:4.5.2-4 libgdbm3_1.8.3-9 libglib2.0-0_2.28.1-1+b1 libgmp10_2:5.0.1+dfsg-6 libgmp3c2_2:4.3.2+dfsg-1 libgomp1_4.5.2-4 liblocale-gettext-perl_1.05-6 liblzma1_4.999.9beta+20091116-1 liblzma2_5.0.0-2 libmagic1_5.04-5 libmpfr1ldbl_2.4.2-3 libmpfr4_3.0.0-9 libncurses5_5.8+20110307-1 libncursesw5_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_1.1.0-1 libpopt0_1.16-1 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 libudev0_166-1 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 lzma_4.43-14 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_5.10.1-17 perl-base_5.10.1-17 perl-modules_5.10.1-17 pkg-config_0.25-1.1 po-debconf_1.0.16+nmu1 procps_1:3.2.8-10 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_2011c-1 udev_166-1 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
+Toolchain package versions: binutils_2.21.90.20111025-1 dpkg-dev_1.16.1.1 g++-4.6_4.6.2-4 gcc-4.6_4.6.2-4 libc6-dev_2.13-21 libstdc++6_4.6.2-4 libstdc++6-4.6-dev_4.6.2-4 linux-libc-dev_3.0.0-5
+Package versions: apt_0.8.15.9 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.90.20111025-1 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 coreutils_8.13-3 cpio_2.11-7 cpp_4:4.6.1-3 cpp-4.6_4.6.2-4 dash_0.5.7-2 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.9 debian-archive-keyring_2010.08.28 debianutils_4.0.4 diffutils_1:3.0-1 dmsetup_2:1.02.67-1 dpkg_1.16.1.1 dpkg-dev_1.16.1.1 e2fslibs_1.42~WIP-2011-10-16-1 e2fsprogs_1.42~WIP-2011-10-16-1 fakeroot_1.18.1-1 file_5.09-2 findutils_4.4.2-1+b1 g++_4:4.6.1-3 g++-4.6_4.6.2-4 gcc_4:4.6.1-3 gcc-4.4-base_4.4.6-11 gcc-4.5-base_4.5.3-9 gcc-4.6_4.6.2-4 gcc-4.6-base_4.6.2-4 gettext_0.18.1.1-5 gettext-base_0.18.1.1-5 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.12 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-4 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbz2-1.0_1.0.5-7 libc-bin_2.13-21 libc-dev-bin_2.13-21 libc6_2.13-21 libc6-dev_2.13-21 libcomerr2_1.42~WIP-2011-10-16-1 libcroco3_0.6.2-2 libdb5.1_5.1.25-11 libdevmapper1.02.1_2:1.02.67-1 libdpkg-perl_1.16.1.1 libgc1c2_1:7.1-8 libgcc1_1:4.6.2-4 libgdbm3_1.8.3-10 libglib2.0-0_2.28.8-1 libgmp10_2:5.0.2+dfsg-2 libgomp1_4.6.2-4 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.09-2 libmount1_2.19.1-5 libmpc2_0.9-4 libmpfr4_3.1.0-2 libncurses5_5.9-4 libncursesw5_5.9-4 libpam-modules_1.1.3-4 libpam-modules-bin_1.1.3-4 libpam-runtime_1.1.3-4 libpam0g_1.1.3-6 libpcre3_8.12-4 libpipeline1_1.2.0-4 libpng12-0_1.2.46-3 libpopt0_1.16-1 libreadline6_6.2-7 libselinux1_2.1.0-4 libsepol1_2.1.0-1.1 libslang2_2.2.4-3 libss2_1.42~WIP-2011-10-09-1 libssl1.0.0_1.0.0e-2.1 libstdc++6_4.6.2-4 libstdc++6-4.6-dev_4.6.2-4 libtimedate-perl_1.2000-1 libtinfo5_5.9-4 libudev0_172-1 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-5 linux-libc-dev_3.0.0-5 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-15 module-init-tools_3.16-1 mount_2.19.1-5 multiarch-support_2.13-21 ncurses-base_5.9-2 ncurses-bin_5.9-4 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-6 perl-base_5.12.4-6 perl-modules_5.12.4-6 po-debconf_1.0.16+nmu1 procps_1:3.2.8-11 readline-common_6.2-7 sed_4.2.1-9 sensible-utils_0.0.6 sysv-rc_2.88dsf-13.12 sysvinit_2.88dsf-13.12 sysvinit-utils_2.88dsf-13.12 tar_1.26-2 tzdata_2011n-1 udev_172-1 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -116,14 +242,13 @@ Package versions: apt_0.8.12 base-files_6.1 base-passwd_3.5.22 bash_4.1-3 binuti
Unpack source
─────────────
-dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
-gpgv: Signature made Fri Mar 11 21:59:41 2011 UTC using DSA key ID C09FD35A
+gpgv: Signature made Mon Nov 14 04:21:35 2011 UTC using RSA key ID 2295D502
gpgv: Can't check signature: public key not found
-dpkg-source: warning: failed to verify signature on ./bwa_0.5.9-2.dsc
-dpkg-source: info: extracting bwa in bwa-0.5.9
-dpkg-source: info: unpacking bwa_0.5.9.orig.tar.bz2
-dpkg-source: info: unpacking bwa_0.5.9-2.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bwa_0.5.10-1.dsc
+dpkg-source: info: extracting bwa in bwa-0.5.10
+dpkg-source: info: unpacking bwa_0.5.10.orig.tar.bz2
+dpkg-source: info: unpacking bwa_0.5.10-1.debian.tar.gz
Check disc space
────────────────
@@ -132,42 +257,43 @@ Check disc space
dpkg-buildpackage
─────────────────
-dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
-dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
-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 bwa
-dpkg-buildpackage: source version 0.5.9-2
- dpkg-source --before-build bwa-0.5.9
+dpkg-buildpackage: source version 0.5.10-1
+ dpkg-source --before-build bwa-0.5.10
dpkg-buildpackage: host architecture mipsel
- /usr/bin/fakeroot debian/rules clean
+ fakeroot debian/rules clean
dh clean
dh_testdir
dh_auto_clean
-make[1]: Entering directory `/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn/bwa-0.5.9'
+make[1]: Entering directory `/build/buildd-bwa_0.5.10-1-mipsel-6ezpgw/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-mipsel-6ezpgw/bwa-0.5.10'
rm -f gmon.out *.o a.out bwa *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn/bwa-0.5.9/bwt_gen'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-mipsel-6ezpgw/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-mipsel-6ezpgw/bwa-0.5.10/bwt_gen'
rm -f gmon.out *.o a.out *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn/bwa-0.5.9/bwt_gen'
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn/bwa-0.5.9'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-mipsel-6ezpgw/bwa-0.5.10/bwt_gen'
+make[1]: Leaving directory `/build/buildd-bwa_0.5.10-1-mipsel-6ezpgw/bwa-0.5.10'
dh_clean
debian/rules build
dh build
dh_testdir
dh_auto_configure
dh_auto_build
-make[1]: Entering directory `/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn/bwa-0.5.9'
+make[1]: Entering directory `/build/buildd-bwa_0.5.10-1-mipsel-6ezpgw/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-mipsel-6ezpgw/bwa-0.5.10'
make[2]: Nothing to be done for `lib'.
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn/bwa-0.5.9/bwt_gen'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-mipsel-6ezpgw/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-mipsel-6ezpgw/bwa-0.5.10/bwt_gen'
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt_gen.c -o bwt_gen.o
+bwt_gen.c: In function 'BWTIncBuildRelativeRank':
+bwt_gen.c:824:15: warning: variable 'oldInverseSa0RelativeRank' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncMergeBwt':
+bwt_gen.c:899:15: warning: variable 'bitsInWordMinusBitPerChar' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD QSufSort.c -o QSufSort.o
-ar -cru libbwtgen.a bwt_gen.o QSufSort.o
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn/bwa-0.5.9/bwt_gen'
+QSufSort.c: In function 'QSufSortSuffixSort':
+QSufSort.c:89:6: warning: variable 'maxNumInputSymbol' set but not used [-Wunused-but-set-variable]
+ar -scru libbwtgen.a bwt_gen.o QSufSort.o
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-mipsel-6ezpgw/bwa-0.5.10/bwt_gen'
gcc -c -g -Wall -O2 -DHAVE_PTHREAD utils.c -o utils.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt.c -o bwt.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtio.c -o bwtio.o
@@ -176,25 +302,37 @@ gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtgap.c -o bwtgap.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD is.c -o is.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bntseq.c -o bntseq.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtmisc.c -o bwtmisc.o
+bwtmisc.c: In function 'bwa_pac_rev_core':
+bwtmisc.c:163:20: warning: variable 'j' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtindex.c -o bwtindex.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD stdaln.c -o stdaln.o
+stdaln.c: In function 'aln_local_core':
+stdaln.c:545:25: warning: variable 'b' set but not used [-Wunused-but-set-variable]
+stdaln.c: In function 'aln_extend_core':
+stdaln.c:865:16: warning: variable 'tmp_len' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD simple_dp.c -o simple_dp.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwaseqio.c -o bwaseqio.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwase.c -o bwase.o
+bwase.c: In function 'bwa_aln2seq_core':
+bwase.c:75:15: warning: variable 'k' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_print_sam1':
+bwase.c:452:17: warning: variable 'm_is_N' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwape.c -o bwape.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD kstring.c -o kstring.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD cs2nt.c -o cs2nt.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_core.c -o bwtsw2_core.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_main.c -o bwtsw2_main.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_aux.c -o bwtsw2_aux.o
+bwtsw2_aux.c: In function 'gen_cigar':
+bwtsw2_aux.c:193:7: warning: variable 'score' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt_lite.c -o bwt_lite.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_chain.c -o bwtsw2_chain.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bamlite.c -o bamlite.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD main.c -o main.o
gcc -g -Wall -O2 -DHAVE_PTHREAD utils.o bwt.o bwtio.o bwtaln.o bwtgap.o is.o bntseq.o bwtmisc.o bwtindex.o stdaln.o simple_dp.o bwaseqio.o bwase.o bwape.o kstring.o cs2nt.o bwtsw2_core.o bwtsw2_main.o bwtsw2_aux.o bwt_lite.o bwtsw2_chain.o bamlite.o main.o -o bwa -lm -lz -lpthread -Lbwt_gen -lbwtgen
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn/bwa-0.5.9'
+make[1]: Leaving directory `/build/buildd-bwa_0.5.10-1-mipsel-6ezpgw/bwa-0.5.10'
dh_auto_test
- /usr/bin/fakeroot debian/rules binary-arch
+ fakeroot debian/rules binary-arch
dh binary-arch
dh_testroot -a
dh_prep -a
@@ -222,7 +360,9 @@ dh binary-arch
dh_installudev -a
dh_installwm -a
dh_installxfonts -a
+ dh_installgsettings -a
dh_bugfiles -a
+ dh_ucf -a
dh_lintian -a
dh_gconf -a
dh_icons -a
@@ -239,57 +379,61 @@ dh binary-arch
dpkg-gencontrol: warning: package bwa: unused substitution variable ${perl:Depends}
dh_md5sums -a
dh_builddeb -a
-dpkg-deb: building package `bwa' in `../bwa_0.5.9-2_mipsel.deb'.
- dpkg-genchanges -B -mmipsel Build Daemon (mayer) <buildd_mips-mayer at buildd.debian.org> >../bwa_0.5.9-2_mipsel.changes
+dpkg-deb: building package `bwa' in `../bwa_0.5.10-1_mipsel.deb'.
+ dpkg-genchanges -B -mmipsel Build Daemon (mayer) <buildd_mips-mayer at buildd.debian.org> >../bwa_0.5.10-1_mipsel.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 bwa-0.5.9
+ dpkg-source --after-build bwa-0.5.10
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110312-0810
+Build finished at 20111114-0445
-bwa_0.5.9-2_mipsel.changes:
+bwa_0.5.10-1_mipsel.changes:
Format: 1.8
-Date: Fri, 11 Mar 2011 22:49:07 +0100
+Date: Mon, 14 Nov 2011 13:12:50 +0900
Source: bwa
Binary: bwa
Architecture: mipsel
-Version: 0.5.9-2
+Version: 0.5.10-1
Distribution: sid
Urgency: low
Maintainer: mipsel Build Daemon (mayer) <buildd_mips-mayer at buildd.debian.org>
-Changed-By: Andreas Tille <tille at debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
Description:
bwa - Burrows-Wheeler Aligner
Changes:
- bwa (0.5.9-2) unstable; urgency=low
+ bwa (0.5.10-1) unstable; urgency=low
.
- * Watchfile should not regard rc releases.
- * Drop cdbs in favour of dh
+ [a01f6ca] New upstream release.
+ [6d7bc7f] Conforms with Debian Policy version 3.9.2.
+ [125c73d] Corrected Vcs-Git URL.
+ [37f43c9] Normalised machine-readable copyright file with config-edit.
+ [4e2e0d0] Distribute xa2multi.pl in ‘usr/share/bwa’.
+ [b106d64] Removed redundant ChangeLog file, already installed by Debhelper.
Checksums-Sha1:
- 9d2436a366d1b0917a710177f92dcd94653062d0 157254 bwa_0.5.9-2_mipsel.deb
+ 2f155edfa33ef066e9f2d40164e1ffdf553b19a6 149306 bwa_0.5.10-1_mipsel.deb
Checksums-Sha256:
- 29afbb425133000aee5e8386937d3cd60a3a32b2598f1f05947ae8304c2c9d5c 157254 bwa_0.5.9-2_mipsel.deb
+ 2a36f4702952e52326389db275bb78953ede7b4ab061b83644b926d87b14a1f2 149306 bwa_0.5.10-1_mipsel.deb
Files:
- ba069260a458dd8bfd3ccbe0d8cab0bc 157254 science optional bwa_0.5.9-2_mipsel.deb
+ b8730fa64e8e1945bb6d28f8f289c369 149306 science optional bwa_0.5.10-1_mipsel.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bwa_0.5.9-2_mipsel.deb
-──────────────────────
+bwa_0.5.10-1_mipsel.deb
+───────────────────────
new debian package, version 2.0.
- size 157254 bytes: control archive= 974 bytes.
- 775 bytes, 17 lines control
- 615 bytes, 10 lines md5sums
+ size 149306 bytes: control archive= 992 bytes.
+ 776 bytes, 17 lines control
+ 610 bytes, 10 lines md5sums
Package: bwa
- Version: 0.5.9-2
+ Version: 0.5.10-1
Architecture: mipsel
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 372
+ Installed-Size: 298
Depends: libc6 (>= 2.7), zlib1g (>= 1:1.1.4)
Suggests: samtools
Section: science
@@ -303,25 +447,25 @@ bwa_0.5.9-2_mipsel.deb
to around 100 kbp. Both algorithms do gapped alignment. They are usually more
accurate and faster on queries with low error rates.
-drwxr-xr-x root/root 0 2011-03-12 08:09 ./
-drwxr-xr-x root/root 0 2011-03-12 08:09 ./usr/
-drwxr-xr-x root/root 0 2011-03-12 08:10 ./usr/bin/
--rwxr-xr-x root/root 254656 2011-03-12 08:10 ./usr/bin/bwa
-drwxr-xr-x root/root 0 2011-03-12 08:09 ./usr/share/
-drwxr-xr-x root/root 0 2011-03-12 08:09 ./usr/share/bwa/
--rwxr-xr-x root/root 3176 2011-01-25 00:00 ./usr/share/bwa/solid2fastq.pl
--rwxr-xr-x root/root 616 2011-01-25 00:00 ./usr/share/bwa/qualfa2fq.pl
-drwxr-xr-x root/root 0 2011-03-12 08:09 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-03-12 08:09 ./usr/share/doc/bwa/
--rw-r--r-- root/root 5857 2011-01-25 00:00 ./usr/share/doc/bwa/NEWS.gz
--rw-r--r-- root/root 634 2011-01-25 00:00 ./usr/share/doc/bwa/README
--rw-r--r-- root/root 2676 2011-02-08 07:09 ./usr/share/doc/bwa/copyright
--rw-r--r-- root/root 17912 2011-01-25 00:00 ./usr/share/doc/bwa/changelog.gz
--rw-r--r-- root/root 17912 2011-01-25 00:00 ./usr/share/doc/bwa/ChangeLog.gz
--rw-r--r-- root/root 957 2011-03-11 21:54 ./usr/share/doc/bwa/changelog.Debian.gz
-drwxr-xr-x root/root 0 2011-03-12 08:09 ./usr/share/man/
-drwxr-xr-x root/root 0 2011-03-12 08:09 ./usr/share/man/man1/
--rw-r--r-- root/root 7554 2011-03-12 08:09 ./usr/share/man/man1/bwa.1.gz
+drwxr-xr-x root/root 0 2011-11-14 04:45 ./
+drwxr-xr-x root/root 0 2011-11-14 04:45 ./usr/
+drwxr-xr-x root/root 0 2011-11-14 04:45 ./usr/bin/
+-rwxr-xr-x root/root 222884 2011-11-14 04:45 ./usr/bin/bwa
+drwxr-xr-x root/root 0 2011-11-14 04:45 ./usr/share/
+drwxr-xr-x root/root 0 2011-11-14 04:45 ./usr/share/bwa/
+-rwxr-xr-x root/root 3176 2011-11-13 01:07 ./usr/share/bwa/solid2fastq.pl
+-rwxr-xr-x root/root 616 2011-11-13 01:07 ./usr/share/bwa/qualfa2fq.pl
+-rwxr-xr-x root/root 730 2011-11-13 01:07 ./usr/share/bwa/xa2multi.pl
+drwxr-xr-x root/root 0 2011-11-14 04:45 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-11-14 04:45 ./usr/share/doc/bwa/
+-rw-r--r-- root/root 634 2011-11-13 01:07 ./usr/share/doc/bwa/README
+-rw-r--r-- root/root 2740 2011-11-14 04:09 ./usr/share/doc/bwa/copyright
+-rw-r--r-- root/root 17912 2011-11-13 01:07 ./usr/share/doc/bwa/changelog.gz
+-rw-r--r-- root/root 5857 2011-11-13 01:08 ./usr/share/doc/bwa/NEWS.gz
+-rw-r--r-- root/root 1159 2011-11-14 04:16 ./usr/share/doc/bwa/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-11-14 04:45 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-11-14 04:45 ./usr/share/man/man1/
+-rw-r--r-- root/root 7554 2011-11-14 04:45 ./usr/share/man/man1/bwa.1.gz
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -330,8 +474,71 @@ drwxr-xr-x root/root 0 2011-03-12 08:09 ./usr/share/man/man1/
Built successfully
────────────────────────────────────────────────────────────────────────────────
-Purging /var/lib/schroot/mount/sid-mipsel-sbuild-9a01b7d6-45b0-4c77-98ec-f57807330914/build/buildd-bwa_0.5.9-2-mipsel-OgcXgn
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /var/lib/schroot/mount/sid-mipsel-sbuild-11f08e98-ab05-426b-85ba-85ca19a3688e/build/buildd-bwa_0.5.10-1-mipsel-6ezpgw
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following packages were automatically installed and are no longer required:
+ libpopt0 libssl1.0.0
+Use 'apt-get autoremove' to remove them.
+0 upgraded, 0 newly installed, 0 to remove and 21 not upgraded.
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following packages were automatically installed and are no longer required:
+ libpopt0 groff-base libpipeline1 man-db libssl1.0.0
+Use 'apt-get autoremove' to remove them.
+The following packages will be REMOVED:
+ debhelper* file* gettext* gettext-base* html2text* intltool-debian*
+ libcroco3* libglib2.0-0* libmagic1* libunistring0* libxml2* po-debconf*
+ zlib1g-dev*
+0 upgraded, 0 newly installed, 13 to remove and 21 not upgraded.
+After this operation, 19.5 MB disk space will be freed.
+(Reading database ... 12272 files and directories currently installed.)
+Removing debhelper ...
+Removing file ...
+Removing po-debconf ...
+Removing intltool-debian ...
+Removing gettext ...
+Removing gettext-base ...
+Removing html2text ...
+Purging configuration files for html2text ...
+Removing libcroco3 ...
+Purging configuration files for libcroco3 ...
+Removing libglib2.0-0 ...
+Purging configuration files for libglib2.0-0 ...
+Removing libmagic1 ...
+Purging configuration files for libmagic1 ...
+Removing libunistring0 ...
+Purging configuration files for libunistring0 ...
+Removing libxml2 ...
+Purging configuration files for libxml2 ...
+Removing zlib1g-dev ...
+Processing triggers for man-db ...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Architecture: mipsel
+Build-Space: 2784
+Build-Time: 121
+Distribution: sid
+Install-Time: 51
+Job: bwa_0.5.10-1
+Package: bwa
+Package-Time: 276
+Source-Version: 0.5.10-1
+Space: 2784
+Status: successful
+Version: 0.5.10-1
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110312-0810
-Build needed 00:02:09, 2712k disc space
+Finished at 20111114-0445
+Build needed 00:04:36, 2784k disc space
+Signature with key 'B0903E66' requested:
diff --git a/powerpc.log b/powerpc.log
index 6c3dd12..a966605 100644
--- a/powerpc.log
+++ b/powerpc.log
@@ -1,69 +1,69 @@
-From buildd at praetorius.debian.org Sat Mar 12 07:28:30 2011
-Return-path: <buildd at praetorius.debian.org>
-Received: from kokkonen.debian.org ([82.195.75.97])
+From buildd at porpora.debian.org Mon Nov 14 04:40:00 2011
+Return-path: <buildd at porpora.debian.org>
+Received: from kokkonen.debian.org ([2001:41b8:202:deb:1a1a:0:52c3:4b61])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
CN=kokkonen.debian.org,
EMAIL=hostmaster at kokkonen.debian.org (verified)
by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at praetorius.debian.org>)
- id 1PyJFV-0000Dt-MD
- for logs at buildd.debian.org; Sat, 12 Mar 2011 07:28:30 +0000
-Received: from [2001:6b0:e:2a18:204:acff:fede:459f]
- (helo=praetorius.debian.org)
+ (Exim 4.72) (envelope-from <buildd at porpora.debian.org>)
+ id 1RPoKt-0008R2-UO
+ for logs at buildd.debian.org; Mon, 14 Nov 2011 04:40:00 +0000
+Received: from porpora.ynic.york.ac.uk ([144.32.168.78]
+ helo=porpora.debian.org)
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
- CN=praetorius.debian.org,
- EMAIL=hostmaster at praetorius.debian.org (verified)
+ CN=porpora.debian.org, EMAIL=hostmaster at porpora.debian.org (verified)
by kokkonen.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at praetorius.debian.org>)
- id 1PyJFU-0004In-3r; Sat, 12 Mar 2011 07:28:28 +0000
-Received: from buildd by praetorius.debian.org with local (Exim 4.69)
- (envelope-from <buildd at praetorius.debian.org>)
- id 1PyJFS-0005Dv-A7; Sat, 12 Mar 2011 07:28:26 +0000
-From: buildd on praetorius <buildd at praetorius.debian.org>
-To: wouter+buildd at grep.be,logs at buildd.debian.org
-Subject: Log for successful build of bwa_0.5.9-2 on powerpc (dist=sid)
-Content-Type: text/plain; charset=UTF-8
-Content-Transfer-Encoding: 8bit
-Message-Id: <E1PyJFS-0005Dv-A7 at praetorius.debian.org>
-Date: Sat, 12 Mar 2011 07:28:26 +0000
+ (Exim 4.72) (envelope-from <buildd at porpora.debian.org>)
+ id 1RPoKt-0006Cy-3T; Mon, 14 Nov 2011 04:39:59 +0000
+Received: from buildd by porpora.debian.org with local (Exim 4.72)
+ (envelope-from <buildd at porpora.debian.org>)
+ id 1RPoKs-0008Bi-D1; Mon, 14 Nov 2011 04:39:58 +0000
+Message-Id: <E1RPoKs-0008Bi-D1 at porpora.debian.org>
+MIME-Version: 1.0
+Content-Transfer-Encoding: binary
+X-Mailer: MIME::Lite 3.027 (F2.77; B3.08; Q3.08)
+Date: Mon, 14 Nov 2011 04:39:58 +0000
+From: buildd on porpora <buildd at porpora.debian.org>
+To: phil+buildd at philkern.de,logs at buildd.debian.org
+Subject: Log for successful build of bwa_0.5.10-1 on powerpc (dist=sid)
+Key-Id: 8CE75D05
Delivered-To: logs at buildd.debian.org
-sbuild (Debian sbuild) 0.60.5 (14 Nov 2010) on praetorius.debian.org
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on porpora.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bwa 0.5.9-2 (powerpc) 12 Mar 2011 07:26 ║
+║ bwa 0.5.10-1 (powerpc) 14 Nov 2011 04:37 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bwa
-Version: 0.5.9-2
+Version: 0.5.10-1
+Source Version: 0.5.10-1
Architecture: powerpc
-Chroot Build Dir: /var/lib/schroot/mount/sid-powerpc-sbuild-2e6ed642-9c26-42ce-8b7b-835e7b3b23a0/build/buildd-bwa_0.5.9-2-powerpc-jKvOaA
-Start Time: 20110312-0726
-Get:1 http://ftp.se.debian.org unstable InRelease [147 kB]
-Get:2 http://ftp.se.debian.org unstable/main Sources [4196 kB]
-Get:3 http://incoming.debian.org unstable InRelease [147 kB]
-Get:4 http://ftp.se.debian.org unstable/contrib Sources [38.7 kB]
-Get:5 http://ftp.se.debian.org unstable/non-free Sources [81.8 kB]
-Get:6 http://ftp.se.debian.org unstable/main powerpc Packages [6921 kB]
-Get:7 http://ftp.se.debian.org unstable/contrib powerpc Packages [51.6 kB]
-Ign http://ftp.se.debian.org unstable/contrib TranslationIndex
-Get:8 http://ftp.se.debian.org unstable/main TranslationIndex [2232 B]
-Ign http://ftp.se.debian.org unstable/contrib Translation-en
+Get:1 http://ftp.uk.debian.org unstable InRelease [146 kB]
+Get:2 http://incoming.debian.org unstable InRelease [146 kB]
+Get:3 http://ftp.uk.debian.org unstable/main Sources [5923 kB]
Ign http://incoming.debian.org InRelease
-Get:9 http://incoming.debian.org Release.gpg [835 B]
-Get:10 http://incoming.debian.org unstable/main Sources [4193 kB]
-Get:11 http://incoming.debian.org unstable/contrib Sources [38.7 kB]
-Get:12 http://incoming.debian.org unstable/non-free Sources [81.8 kB]
-Get:13 http://incoming.debian.org unstable/main powerpc Packages [6918 kB]
-Get:14 http://incoming.debian.org unstable/contrib powerpc Packages [51.6 kB]
+Get:4 http://incoming.debian.org Release.gpg [836 B]
+Get:5 http://ftp.uk.debian.org unstable/contrib Sources [57.2 kB]
+Get:6 http://ftp.uk.debian.org unstable/non-free Sources [103 kB]
+Get:7 http://incoming.debian.org unstable/main Sources [5923 kB]
+Get:8 http://ftp.uk.debian.org unstable/main powerpc Packages [7719 kB]
+Get:9 http://ftp.uk.debian.org unstable/contrib powerpc Packages [55.8 kB]
+Ign http://ftp.uk.debian.org unstable/contrib TranslationIndex
+Get:10 http://ftp.uk.debian.org unstable/main TranslationIndex [2045 B]
+Ign http://ftp.uk.debian.org unstable/contrib Translation-en
+Get:11 http://incoming.debian.org unstable/contrib Sources [57.2 kB]
+Get:12 http://incoming.debian.org unstable/non-free Sources [103 kB]
+Get:13 http://incoming.debian.org unstable/main powerpc Packages [7719 kB]
+Get:14 http://incoming.debian.org unstable/contrib powerpc Packages [55.8 kB]
Ign http://incoming.debian.org unstable/contrib TranslationIndex
-Get:15 http://incoming.debian.org unstable/main TranslationIndex [2232 B]
+Get:15 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
Get:16 http://incoming.debian.org Release [1604 B]
-Get:17 http://incoming.debian.org Sources [36.1 kB]
-Get:18 http://incoming.debian.org Packages [524 kB]
+Get:17 http://incoming.debian.org Sources [37.6 kB]
+Get:18 http://incoming.debian.org Packages [341 kB]
Ign http://incoming.debian.org unstable/contrib Translation-en
Ign http://incoming.debian.org Translation-en
-Fetched 23.4 MB in 23s (979 kB/s)
+Fetched 28.4 MB in 25s (1101 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -83,50 +83,187 @@ Reading package lists...
Building dependency tree...
Reading state information...
NOTICE: 'bwa' packaging is maintained in the 'Git' version control system at:
-git://git.debian.org/git/debian-med/bwa.git
-Need to get 119 kB of source archives.
-Get:1 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (dsc) [1245 B]
-Get:2 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (tar) [114 kB]
-Get:3 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (diff) [3828 B]
-Fetched 119 kB in 0s (145 kB/s)
+git://git.debian.org/debian-med/bwa.git
+Need to get 126 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (dsc) [1929 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (tar) [120 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (diff) [4113 B]
+Fetched 126 kB in 0s (129 kB/s)
Download complete and in download only mode
Check arch
──────────
-** Using build dependencies supplied by package:
-Build-Depends: debhelper (>= 8), zlib1g-dev
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install build dependencies (internal resolver) │
+│ Install core build dependencies (internal resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
-Checking for already installed source dependencies...
-debhelper: already installed (8.1.1 >= 8 is satisfied)
+Build-Depends: build-essential, fakeroot
+Checking for already installed dependencies...
+build-essential: already installed (11.5)
+fakeroot: already installed (1.18.1-1)
+Checking for dependency conflicts...
+Installing positive dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 28 not upgraded.
+Removing negative dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 28 not upgraded.
+Checking correctness of dependencies...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install bwa build dependencies (internal 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), zlib1g-dev
+Checking for already installed dependencies...
+base-files: already installed (6.5)
+base-passwd: already installed (3.5.23)
+bash: already installed (4.1-3)
+coreutils: already installed (8.13-3)
+dash: already installed (0.5.7-2)
+debianutils: already installed (4.0.4)
+diffutils: already installed (1:3.2-1)
+dpkg: already installed (1.16.1.1)
+e2fsprogs: already installed (1.42~WIP-2011-10-16-1)
+findutils: already installed (4.4.2-1+b1)
+grep: already installed (2.9-2)
+gzip: already installed (1.4-1)
+hostname: already installed (3.06)
+ncurses-base: already installed (5.9-2)
+ncurses-bin: already installed (5.9-2)
+perl-base: already installed (5.12.4-6)
+sed: already installed (4.2.1-9)
+login: already installed (1:4.1.4.2+svn3283-3)
+sysvinit-utils: already installed (2.88dsf-13.12)
+sysvinit: already installed (2.88dsf-13.12)
+tar: already installed (1.26-2)
+bsdutils: already installed (1:2.19.1-5)
+mount: already installed (2.19.1-5)
+util-linux: already installed (2.19.1-5)
+libc6-dev: already installed (2.13-21)
+gcc: already installed (4:4.6.1-3 >= 4:4.4.3 is satisfied)
+g++: already installed (4:4.6.1-3 >= 4:4.4.3 is satisfied)
+make: already installed (3.81-8.1)
+dpkg-dev: already installed (1.16.1.1 >= 1.13.5 is satisfied)
+debhelper: missing
+Using default version 8.9.9
zlib1g-dev: missing
-Checking for source dependency conflicts...
-Installing positive dependencies: zlib1g-dev
+Checking for dependency conflicts...
+Installing positive dependencies: debhelper zlib1g-dev
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
+Suggested packages:
+ wamerican wordlist whois vacation dh-make gettext-doc groff less www-browser
+ libmail-box-perl
+Recommended packages:
+ curl wget lynx-cur autopoint libglib2.0-data shared-mime-info xml-core
+ libmail-sendmail-perl
The following NEW packages will be installed:
- zlib1g-dev
-0 upgraded, 1 newly installed, 0 to remove and 36 not upgraded.
-Need to get 190 kB of archives.
-After this operation, 426 kB of additional disk space will be used.
-Get:1 http://ftp.se.debian.org/debian/ unstable/main zlib1g-dev powerpc 1:1.2.3.4.dfsg-3 [190 kB]
+ bsdmainutils debhelper file gettext gettext-base groff-base html2text
+ intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1
+ libunistring0 libxml2 man-db po-debconf zlib1g-dev
+0 upgraded, 18 newly installed, 0 to remove and 28 not upgraded.
+Need to get 9215 kB of archives.
+After this operation, 26.1 MB of additional disk space will be used.
+Get:1 http://ftp.uk.debian.org/debian/ unstable/main libpipeline1 powerpc 1.2.0-5 [37.6 kB]
+Get:2 http://ftp.uk.debian.org/debian/ unstable/main libpcre3 powerpc 8.12-4 [222 kB]
+Get:3 http://ftp.uk.debian.org/debian/ unstable/main libglib2.0-0 powerpc 2.28.8-1 [1609 kB]
+Get:4 http://ftp.uk.debian.org/debian/ unstable/main libxml2 powerpc 2.7.8.dfsg-5 [837 kB]
+Get:5 http://ftp.uk.debian.org/debian/ unstable/main libcroco3 powerpc 0.6.2-2 [114 kB]
+Get:6 http://ftp.uk.debian.org/debian/ unstable/main libunistring0 powerpc 0.9.3-5 [421 kB]
+Get:7 http://ftp.uk.debian.org/debian/ unstable/main bsdmainutils powerpc 8.2.3 [207 kB]
+Get:8 http://ftp.uk.debian.org/debian/ unstable/main groff-base powerpc 1.21-6 [1179 kB]
+Get:9 http://ftp.uk.debian.org/debian/ unstable/main man-db powerpc 2.6.0.2-3 [1014 kB]
+Get:10 http://ftp.uk.debian.org/debian/ unstable/main libmagic1 powerpc 5.09-2 [253 kB]
+Get:11 http://ftp.uk.debian.org/debian/ unstable/main file powerpc 5.09-2 [52.0 kB]
+Get:12 http://ftp.uk.debian.org/debian/ unstable/main gettext-base powerpc 0.18.1.1-5 [132 kB]
+Get:13 http://ftp.uk.debian.org/debian/ unstable/main html2text powerpc 1.3.2a-15 [105 kB]
+Get:14 http://ftp.uk.debian.org/debian/ unstable/main gettext powerpc 0.18.1.1-5 [2036 kB]
+Get:15 http://ftp.uk.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get:16 http://ftp.uk.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get:17 http://ftp.uk.debian.org/debian/ unstable/main debhelper all 8.9.9 [552 kB]
+Get:18 http://ftp.uk.debian.org/debian/ unstable/main zlib1g-dev powerpc 1:1.2.3.4.dfsg-3 [190 kB]
debconf: delaying package configuration, since apt-utils is not installed
-Fetched 190 kB in 0s (3835 kB/s)
-Selecting previously deselected package zlib1g-dev.
-(Reading database ... 11479 files and directories currently installed.)
+Fetched 9215 kB in 5s (1600 kB/s)
+Selecting previously unselected package libpipeline1.
+(Reading database ... 10725 files and directories currently installed.)
+Unpacking libpipeline1 (from .../libpipeline1_1.2.0-5_powerpc.deb) ...
+Selecting previously unselected package libpcre3.
+Unpacking libpcre3 (from .../libpcre3_8.12-4_powerpc.deb) ...
+Selecting previously unselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.8-1_powerpc.deb) ...
+Selecting previously unselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-5_powerpc.deb) ...
+Selecting previously unselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-2_powerpc.deb) ...
+Selecting previously unselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-5_powerpc.deb) ...
+Selecting previously unselected package bsdmainutils.
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.3_powerpc.deb) ...
+Selecting previously unselected package groff-base.
+Unpacking groff-base (from .../groff-base_1.21-6_powerpc.deb) ...
+Selecting previously unselected package man-db.
+Unpacking man-db (from .../man-db_2.6.0.2-3_powerpc.deb) ...
+Selecting previously unselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.09-2_powerpc.deb) ...
+Selecting previously unselected package file.
+Unpacking file (from .../file_5.09-2_powerpc.deb) ...
+Selecting previously unselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-5_powerpc.deb) ...
+Selecting previously unselected package html2text.
+Unpacking html2text (from .../html2text_1.3.2a-15_powerpc.deb) ...
+Selecting previously unselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-5_powerpc.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+nmu1_all.deb) ...
+Selecting previously unselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.9.9_all.deb) ...
+Selecting previously unselected package zlib1g-dev.
Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_powerpc.deb) ...
-Processing triggers for man-db ...
+Setting up libpipeline1 (1.2.0-5) ...
+Setting up libpcre3 (8.12-4) ...
+Setting up libglib2.0-0 (2.28.8-1) ...
+No schema files found: doing nothing.
+Setting up libxml2 (2.7.8.dfsg-5) ...
+Setting up libcroco3 (0.6.2-2) ...
+Setting up libunistring0 (0.9.3-5) ...
+Setting up bsdmainutils (8.2.3) ...
+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 (1.21-6) ...
+Setting up man-db (2.6.0.2-3) ...
+Building database of manual pages ...
+Setting up libmagic1 (5.09-2) ...
+Setting up file (5.09-2) ...
+Setting up gettext-base (0.18.1.1-5) ...
+Setting up html2text (1.3.2a-15) ...
+Setting up gettext (0.18.1.1-5) ...
+Setting up intltool-debian (0.35.0+20060710.1) ...
+Setting up po-debconf (1.0.16+nmu1) ...
+Setting up debhelper (8.9.9) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
Removing negative dependencies:
-Checking correctness of source dependencies...
-Kernel: Linux 2.6.26-2-powerpc64 powerpc (ppc64)
-Toolchain package versions: libc6-dev_2.11.2-11 dpkg-dev_1.15.8.10 linux-libc-dev_2.6.32-30 gcc-4.5_ =*=NOT INSTALLED=*= g++-4.5_ =*=NOT INSTALLED=*= binutils_2.20.1-16 libstdc++6-4.5-dev_ =*=NOT INSTALLED=*= libstdc++6_4.4.5-10
-Package versions: apt_0.8.11.1 base-files_6.1 base-passwd_3.5.22 bash_4.1-3 binutils_2.20.1-16 bsdmainutils_8.2.2 bsdutils_1:2.17.2-9 build-essential_11.5 bzip2_1.0.5-6 coreutils_8.5-1 cpp_4:4.4.5-2 cpp-4.4_4.4.5-10 dash_0.5.5.1-7.4 debconf_1.5.38 debconf-i18n_1.5.38 debfoster_2.7-1.1 debhelper_8.1.1 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_4.4.5-10 gcc_4:4.4.5-2 gcc-4.4_4.4.5-10 gcc-4.4-base_4.4.5-10 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.10-4 gpgv_1.4.10-4 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 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-11 libc-dev-bin_2.11.2-11 libc6_2.11.2-11 libc6-dev_2.11.2-11 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_1:6.8-1.2 libgcc1_1:4.4.5-10 libgdbm3_1.8.3-9 libglib2.0-0_2.28.0-1 libgmp3c2_2:4.3.2+dfsg-1 libgomp1_4.4.5-10 liblocale-gettext-perl_1.05-6 liblzma2_5.0.0-2 libmagic1_5.04-5 libmpfr4_3.0.0-2 libncurses5_5.7+20100313-5 libpam-modules_1.1.1-6.1 libpam-runtime_1.1.1-6.1 libpam0g_1.1.1-6.1 libpcre3_8.12-2 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_4.4.5-10 libstdc++6-4.4-dev_4.4.5-10 libtext-charwidth-perl_0.04-6+b1 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 libxml2_2.7.8.dfsg-2 linux-libc-dev_2.6.32-30 login_1:4.1.4.2+svn3283-2 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 ncurses-base_5.7+20100313-5 ncurses-bin_5.7+20100313-5 passwd_1:4.1.4.2+svn3283-2 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 sudo_1.7.4p6-1 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 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 28 not upgraded.
+Checking correctness of dependencies...
+Kernel: Linux 2.6.32-5-powerpc64 powerpc (ppc64)
+Toolchain package versions: binutils_2.21.90.20111025-1 dpkg-dev_1.16.1.1 g++-4.6_4.6.2-3 gcc-4.6_4.6.2-3 libc6-dev_2.13-21 libstdc++6_4.6.2-3 libstdc++6-4.6-dev_4.6.2-3 linux-libc-dev_3.0.0-5
+Package versions: apt_0.8.15.9 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.90.20111025-1 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 coreutils_8.13-3 cpp_4:4.6.1-3 cpp-4.6_4.6.2-3 dash_0.5.7-2 debconf_1.5.41 debconf-i18n_1.5.41 debfoster_2.7-1.1 debhelper_8.9.9 debian-archive-keyring_2010.08.28 debianutils_4.0.4 diffutils_1:3.2-1 dpkg_1.16.1.1 dpkg-dev_1.16.1.1 e2fslibs_1.42~WIP-2011-10-16-1 e2fsprogs_1.42~WIP-2011-10-16-1 fakeroot_1.18.1-1 file_5.09-2 findutils_4.4.2-1+b1 g++_4:4.6.1-3 g++-4.6_4.6.2-3 gcc_4:4.6.1-3 gcc-4.4-base_4.4.6-11 gcc-4.5-base_4.5.3-9 gcc-4.6_4.6.2-3 gcc-4.6-base_4.6.2-3 gettext_0.18.1.1-5 gettext-base_0.18.1.1-5 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.12 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-3 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbz2-1.0_1.0.5-7 libc-bin_2.13-21 libc-dev-bin_2.13-21 libc6_2.13-21 libc6-dev_2.13-21 libcomerr2_1.42~WIP-2011-10-16-1 libcroco3_0.6.2-2 libdb5.1_5.1.25-11 libdpkg-perl_1.16.1.1 libgc1c2_1:7.1-8 libgcc1_1:4.6.2-3 libgdbm3_1.8.3-10 libglib2.0-0_2.28.8-1 libgmp10_2:5.0.2+dfsg-2 libgomp1_4.6.2-3 liblocale-gettext-perl_1.05-7 liblzma2_5.1.1alpha+20110809-2 liblzma5_5.1.1alpha+20110809-3 libmagic1_5.09-2 libmount1_2.19.1-5 libmpc2_0.9-4 libmpfr4_3.1.0-2 libncurses5_5.9-2 libpam-modules_1.1.3-5 libpam-modules-bin_1.1.3-5 libpam-runtime_1.1.3-5 libpam0g_1.1.3-5 libpcre3_8.12-4 libpipeline1_1.2.0-5 libreadline6_6.2-7 libselinux1_2.1.0-4 libsepol1_2.1.0-1.1 libslang2_2.2.4-3 libss2_1.42~WIP-2011-10-16-1 libstdc++6_4.6.2-3 libstdc++6-4.6-dev_4.6.2-3 libtext-charwidth-perl_0.04-7 libtext-iconv-perl_1.7-4 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libtinfo5_5.9-2 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-5 linux-libc-dev_3.0.0-5 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-3 mawk_1.3.3-16 mount_2.19.1-5 multiarch-support_2.13-21 ncurses-base_5.9-2 ncurses-bin_5.9-2 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-6 perl-base_5.12.4-6 perl-modules_5.12.4-6 po-debconf_1.0.16+nmu1 readline-common_6.2-7 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.3p1-1 sysv-rc_2.88dsf-13.12 sysvinit_2.88dsf-13.12 sysvinit-utils_2.88dsf-13.12 tar_1.26-2 tzdata_2011n-1 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-3 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -136,14 +273,13 @@ Package versions: apt_0.8.11.1 base-files_6.1 base-passwd_3.5.22 bash_4.1-3 binu
Unpack source
─────────────
-dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
-gpgv: Signature made Fri Mar 11 21:59:41 2011 UTC using DSA key ID C09FD35A
+gpgv: Signature made Mon Nov 14 04:21:35 2011 UTC using RSA key ID 2295D502
gpgv: Can't check signature: public key not found
-dpkg-source: warning: failed to verify signature on ./bwa_0.5.9-2.dsc
-dpkg-source: info: extracting bwa in bwa-0.5.9
-dpkg-source: info: unpacking bwa_0.5.9.orig.tar.bz2
-dpkg-source: info: unpacking bwa_0.5.9-2.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bwa_0.5.10-1.dsc
+dpkg-source: info: extracting bwa in bwa-0.5.10
+dpkg-source: info: unpacking bwa_0.5.10.orig.tar.bz2
+dpkg-source: info: unpacking bwa_0.5.10-1.debian.tar.gz
Check disc space
────────────────
@@ -152,42 +288,43 @@ Check disc space
dpkg-buildpackage
─────────────────
-dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
-dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
-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 bwa
-dpkg-buildpackage: source version 0.5.9-2
- dpkg-source --before-build bwa-0.5.9
+dpkg-buildpackage: source version 0.5.10-1
+ dpkg-source --before-build bwa-0.5.10
dpkg-buildpackage: host architecture powerpc
- /usr/bin/fakeroot debian/rules clean
+ fakeroot debian/rules clean
dh clean
dh_testdir
dh_auto_clean
-make[1]: Entering directory `/build/buildd-bwa_0.5.9-2-powerpc-jKvOaA/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-powerpc-jKvOaA/bwa-0.5.9'
+make[1]: Entering directory `/build/buildd-bwa_0.5.10-1-powerpc-nMIqLx/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-powerpc-nMIqLx/bwa-0.5.10'
rm -f gmon.out *.o a.out bwa *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-powerpc-jKvOaA/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-powerpc-jKvOaA/bwa-0.5.9/bwt_gen'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-powerpc-nMIqLx/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-powerpc-nMIqLx/bwa-0.5.10/bwt_gen'
rm -f gmon.out *.o a.out *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-powerpc-jKvOaA/bwa-0.5.9/bwt_gen'
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9-2-powerpc-jKvOaA/bwa-0.5.9'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-powerpc-nMIqLx/bwa-0.5.10/bwt_gen'
+make[1]: Leaving directory `/build/buildd-bwa_0.5.10-1-powerpc-nMIqLx/bwa-0.5.10'
dh_clean
debian/rules build
dh build
dh_testdir
dh_auto_configure
dh_auto_build
-make[1]: Entering directory `/build/buildd-bwa_0.5.9-2-powerpc-jKvOaA/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-powerpc-jKvOaA/bwa-0.5.9'
+make[1]: Entering directory `/build/buildd-bwa_0.5.10-1-powerpc-nMIqLx/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-powerpc-nMIqLx/bwa-0.5.10'
make[2]: Nothing to be done for `lib'.
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-powerpc-jKvOaA/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-powerpc-jKvOaA/bwa-0.5.9/bwt_gen'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-powerpc-nMIqLx/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-powerpc-nMIqLx/bwa-0.5.10/bwt_gen'
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt_gen.c -o bwt_gen.o
+bwt_gen.c: In function 'BWTIncBuildRelativeRank':
+bwt_gen.c:824:15: warning: variable 'oldInverseSa0RelativeRank' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncMergeBwt':
+bwt_gen.c:899:15: warning: variable 'bitsInWordMinusBitPerChar' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD QSufSort.c -o QSufSort.o
-ar -cru libbwtgen.a bwt_gen.o QSufSort.o
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-powerpc-jKvOaA/bwa-0.5.9/bwt_gen'
+QSufSort.c: In function 'QSufSortSuffixSort':
+QSufSort.c:89:6: warning: variable 'maxNumInputSymbol' set but not used [-Wunused-but-set-variable]
+ar -scru libbwtgen.a bwt_gen.o QSufSort.o
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-powerpc-nMIqLx/bwa-0.5.10/bwt_gen'
gcc -c -g -Wall -O2 -DHAVE_PTHREAD utils.c -o utils.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt.c -o bwt.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtio.c -o bwtio.o
@@ -196,25 +333,37 @@ gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtgap.c -o bwtgap.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD is.c -o is.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bntseq.c -o bntseq.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtmisc.c -o bwtmisc.o
+bwtmisc.c: In function 'bwa_pac_rev_core':
+bwtmisc.c:163:20: warning: variable 'j' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtindex.c -o bwtindex.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD stdaln.c -o stdaln.o
+stdaln.c: In function 'aln_local_core':
+stdaln.c:545:25: warning: variable 'b' set but not used [-Wunused-but-set-variable]
+stdaln.c: In function 'aln_extend_core':
+stdaln.c:865:16: warning: variable 'tmp_len' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD simple_dp.c -o simple_dp.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwaseqio.c -o bwaseqio.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwase.c -o bwase.o
+bwase.c: In function 'bwa_aln2seq_core':
+bwase.c:75:15: warning: variable 'k' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_print_sam1':
+bwase.c:452:17: warning: variable 'm_is_N' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwape.c -o bwape.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD kstring.c -o kstring.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD cs2nt.c -o cs2nt.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_core.c -o bwtsw2_core.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_main.c -o bwtsw2_main.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_aux.c -o bwtsw2_aux.o
+bwtsw2_aux.c: In function 'gen_cigar':
+bwtsw2_aux.c:193:7: warning: variable 'score' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt_lite.c -o bwt_lite.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_chain.c -o bwtsw2_chain.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bamlite.c -o bamlite.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD main.c -o main.o
gcc -g -Wall -O2 -DHAVE_PTHREAD utils.o bwt.o bwtio.o bwtaln.o bwtgap.o is.o bntseq.o bwtmisc.o bwtindex.o stdaln.o simple_dp.o bwaseqio.o bwase.o bwape.o kstring.o cs2nt.o bwtsw2_core.o bwtsw2_main.o bwtsw2_aux.o bwt_lite.o bwtsw2_chain.o bamlite.o main.o -o bwa -lm -lz -lpthread -Lbwt_gen -lbwtgen
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9-2-powerpc-jKvOaA/bwa-0.5.9'
+make[1]: Leaving directory `/build/buildd-bwa_0.5.10-1-powerpc-nMIqLx/bwa-0.5.10'
dh_auto_test
- /usr/bin/fakeroot debian/rules binary-arch
+ fakeroot debian/rules binary-arch
dh binary-arch
dh_testroot -a
dh_prep -a
@@ -242,7 +391,9 @@ dh binary-arch
dh_installudev -a
dh_installwm -a
dh_installxfonts -a
+ dh_installgsettings -a
dh_bugfiles -a
+ dh_ucf -a
dh_lintian -a
dh_gconf -a
dh_icons -a
@@ -259,57 +410,61 @@ dh binary-arch
dpkg-gencontrol: warning: package bwa: unused substitution variable ${perl:Depends}
dh_md5sums -a
dh_builddeb -a
-dpkg-deb: building package `bwa' in `../bwa_0.5.9-2_powerpc.deb'.
- dpkg-genchanges -B -mpowerpc Build Daemon (praetorius) <buildd_powerpc-praetorius at buildd.debian.org> >../bwa_0.5.9-2_powerpc.changes
+dpkg-deb: building package `bwa' in `../bwa_0.5.10-1_powerpc.deb'.
+ dpkg-genchanges -B -mpowerpc Build Daemon (porpora) <buildd_powerpc-porpora at buildd.debian.org> >../bwa_0.5.10-1_powerpc.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 bwa-0.5.9
+ dpkg-source --after-build bwa-0.5.10
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110312-0728
+Build finished at 20111114-0439
-bwa_0.5.9-2_powerpc.changes:
+bwa_0.5.10-1_powerpc.changes:
Format: 1.8
-Date: Fri, 11 Mar 2011 22:49:07 +0100
+Date: Mon, 14 Nov 2011 13:12:50 +0900
Source: bwa
Binary: bwa
Architecture: powerpc
-Version: 0.5.9-2
+Version: 0.5.10-1
Distribution: sid
Urgency: low
-Maintainer: powerpc Build Daemon (praetorius) <buildd_powerpc-praetorius at buildd.debian.org>
-Changed-By: Andreas Tille <tille at debian.org>
+Maintainer: powerpc Build Daemon (porpora) <buildd_powerpc-porpora at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
Description:
bwa - Burrows-Wheeler Aligner
Changes:
- bwa (0.5.9-2) unstable; urgency=low
+ bwa (0.5.10-1) unstable; urgency=low
.
- * Watchfile should not regard rc releases.
- * Drop cdbs in favour of dh
+ [a01f6ca] New upstream release.
+ [6d7bc7f] Conforms with Debian Policy version 3.9.2.
+ [125c73d] Corrected Vcs-Git URL.
+ [37f43c9] Normalised machine-readable copyright file with config-edit.
+ [4e2e0d0] Distribute xa2multi.pl in ‘usr/share/bwa’.
+ [b106d64] Removed redundant ChangeLog file, already installed by Debhelper.
Checksums-Sha1:
- 9d00ec430567e9aa4c78c760986ee2b099de88ee 152000 bwa_0.5.9-2_powerpc.deb
+ 9db6218e639f5b2551622181b3ccb2590915cb3c 148980 bwa_0.5.10-1_powerpc.deb
Checksums-Sha256:
- 52176df37e3a97a44c1925567063396f407e2486e4e28098b848f96927825a33 152000 bwa_0.5.9-2_powerpc.deb
+ 6923fce6ff233465b4b35ee04d65affb7ff54cb0ff02290e03b062aa0c085882 148980 bwa_0.5.10-1_powerpc.deb
Files:
- 3f1b9a0591c9a9ee5ccb6a8b579dd9c6 152000 science optional bwa_0.5.9-2_powerpc.deb
+ 274428365168e60415bee64ebad77368 148980 science optional bwa_0.5.10-1_powerpc.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bwa_0.5.9-2_powerpc.deb
-───────────────────────
+bwa_0.5.10-1_powerpc.deb
+────────────────────────
new debian package, version 2.0.
- size 152000 bytes: control archive= 976 bytes.
- 776 bytes, 17 lines control
- 615 bytes, 10 lines md5sums
+ size 148980 bytes: control archive= 994 bytes.
+ 777 bytes, 17 lines control
+ 610 bytes, 10 lines md5sums
Package: bwa
- Version: 0.5.9-2
+ Version: 0.5.10-1
Architecture: powerpc
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 344
+ Installed-Size: 286
Depends: libc6 (>= 2.7), zlib1g (>= 1:1.1.4)
Suggests: samtools
Section: science
@@ -323,25 +478,25 @@ bwa_0.5.9-2_powerpc.deb
to around 100 kbp. Both algorithms do gapped alignment. They are usually more
accurate and faster on queries with low error rates.
-drwxr-xr-x root/root 0 2011-03-12 07:28 ./
-drwxr-xr-x root/root 0 2011-03-12 07:28 ./usr/
-drwxr-xr-x root/root 0 2011-03-12 07:28 ./usr/bin/
--rwxr-xr-x root/root 227172 2011-03-12 07:28 ./usr/bin/bwa
-drwxr-xr-x root/root 0 2011-03-12 07:28 ./usr/share/
-drwxr-xr-x root/root 0 2011-03-12 07:28 ./usr/share/bwa/
--rwxr-xr-x root/root 3176 2011-01-25 00:00 ./usr/share/bwa/solid2fastq.pl
--rwxr-xr-x root/root 616 2011-01-25 00:00 ./usr/share/bwa/qualfa2fq.pl
-drwxr-xr-x root/root 0 2011-03-12 07:28 ./usr/share/man/
-drwxr-xr-x root/root 0 2011-03-12 07:28 ./usr/share/man/man1/
--rw-r--r-- root/root 7554 2011-03-12 07:28 ./usr/share/man/man1/bwa.1.gz
-drwxr-xr-x root/root 0 2011-03-12 07:28 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-03-12 07:28 ./usr/share/doc/bwa/
--rw-r--r-- root/root 957 2011-03-11 21:54 ./usr/share/doc/bwa/changelog.Debian.gz
--rw-r--r-- root/root 2676 2011-02-08 07:09 ./usr/share/doc/bwa/copyright
--rw-r--r-- root/root 5857 2011-01-25 00:00 ./usr/share/doc/bwa/NEWS.gz
--rw-r--r-- root/root 17912 2011-01-25 00:00 ./usr/share/doc/bwa/ChangeLog.gz
--rw-r--r-- root/root 634 2011-01-25 00:00 ./usr/share/doc/bwa/README
--rw-r--r-- root/root 17912 2011-01-25 00:00 ./usr/share/doc/bwa/changelog.gz
+drwxr-xr-x root/root 0 2011-11-14 04:39 ./
+drwxr-xr-x root/root 0 2011-11-14 04:39 ./usr/
+drwxr-xr-x root/root 0 2011-11-14 04:39 ./usr/bin/
+-rwxr-xr-x root/root 211432 2011-11-14 04:39 ./usr/bin/bwa
+drwxr-xr-x root/root 0 2011-11-14 04:39 ./usr/share/
+drwxr-xr-x root/root 0 2011-11-14 04:39 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-11-14 04:39 ./usr/share/man/man1/
+-rw-r--r-- root/root 7554 2011-11-14 04:39 ./usr/share/man/man1/bwa.1.gz
+drwxr-xr-x root/root 0 2011-11-14 04:39 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-11-14 04:39 ./usr/share/doc/bwa/
+-rw-r--r-- root/root 17912 2011-11-13 01:07 ./usr/share/doc/bwa/changelog.gz
+-rw-r--r-- root/root 2740 2011-11-14 04:09 ./usr/share/doc/bwa/copyright
+-rw-r--r-- root/root 634 2011-11-13 01:07 ./usr/share/doc/bwa/README
+-rw-r--r-- root/root 5857 2011-11-13 01:08 ./usr/share/doc/bwa/NEWS.gz
+-rw-r--r-- root/root 1159 2011-11-14 04:16 ./usr/share/doc/bwa/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-11-14 04:39 ./usr/share/bwa/
+-rwxr-xr-x root/root 730 2011-11-13 01:07 ./usr/share/bwa/xa2multi.pl
+-rwxr-xr-x root/root 3176 2011-11-13 01:07 ./usr/share/bwa/solid2fastq.pl
+-rwxr-xr-x root/root 616 2011-11-13 01:07 ./usr/share/bwa/qualfa2fq.pl
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -350,9 +505,31 @@ drwxr-xr-x root/root 0 2011-03-12 07:28 ./usr/share/doc/bwa/
Built successfully
────────────────────────────────────────────────────────────────────────────────
-Purging /var/lib/schroot/mount/sid-powerpc-sbuild-2e6ed642-9c26-42ce-8b7b-835e7b3b23a0/build/buildd-bwa_0.5.9-2-powerpc-jKvOaA
-Not removing build depends: cloned chroot in use
-────────────────────────────────────────────────────────────────────────────────
-Finished at 20110312-0728
-Build needed 00:01:31, 2656k disc space
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /var/lib/schroot/mount/sid-powerpc-sbuild-8a27c5e1-a918-4d0b-b751-8613df03829f/build/buildd-bwa_0.5.10-1-powerpc-nMIqLx
+Not cleaning session: cloned chroot in use
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Architecture: powerpc
+Build-Space: 2784
+Build-Time: 36
+Distribution: sid
+Install-Time: 43
+Job: bwa_0.5.10-1
+Package: bwa
+Package-Time: 120
+Source-Version: 0.5.10-1
+Space: 2784
+Status: successful
+Version: 0.5.10-1
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20111114-0439
+Build needed 00:02:00, 2784k disc space
+Signature with key '8CE75D05' requested:
diff --git a/s390.log b/s390.log
index 75450a4..7ec39a8 100644
--- a/s390.log
+++ b/s390.log
@@ -1,68 +1,69 @@
-From buildd at zandonai.debian.org Sat Mar 12 07:41:59 2011
+From buildd at zandonai.debian.org Mon Nov 14 04:40:39 2011
Return-path: <buildd at zandonai.debian.org>
-Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
+Received: from kokkonen.debian.org ([2001:41b8:202:deb:1a1a:0:52c3:4b61])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
- CN=merikanto.debian.org,
- EMAIL=hostmaster at merikanto.debian.org (verified)
+ CN=kokkonen.debian.org,
+ EMAIL=hostmaster at kokkonen.debian.org (verified)
by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at zandonai.debian.org>)
- id 1PyJSZ-0002B4-Ed
- for logs at buildd.debian.org; Sat, 12 Mar 2011 07:41:59 +0000
+ (Exim 4.72) (envelope-from <buildd at zandonai.debian.org>)
+ id 1RPoLX-0000C9-9H
+ for logs at buildd.debian.org; Mon, 14 Nov 2011 04:40:39 +0000
Received: from zandonai.debian.org ([80.245.147.46])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
CN=zandonai.debian.org,
EMAIL=hostmaster at zandonai.debian.org (verified)
- by merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at zandonai.debian.org>)
- id 1PyJSW-00009B-AK; Sat, 12 Mar 2011 07:41:56 +0000
-Received: from buildd by zandonai.debian.org with local (Exim 4.69)
+ by kokkonen.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at zandonai.debian.org>)
+ id 1RPoLR-0006Ge-Im; Mon, 14 Nov 2011 04:40:33 +0000
+Received: from buildd by zandonai.debian.org with local (Exim 4.72)
(envelope-from <buildd at zandonai.debian.org>)
- id 1PyJSV-0007QH-Eq; Sat, 12 Mar 2011 07:41:55 +0000
+ id 1RPoLR-0003kH-5C; Mon, 14 Nov 2011 04:40:33 +0000
+Message-Id: <E1RPoLR-0003kH-5C at zandonai.debian.org>
+MIME-Version: 1.0
+Content-Transfer-Encoding: binary
+X-Mailer: MIME::Lite 3.027 (F2.77; B3.08; Q3.08)
+Date: Mon, 14 Nov 2011 04:40:33 +0000
From: buildd on zandonai <buildd at zandonai.debian.org>
To: phil+buildd at philkern.de,logs at buildd.debian.org
-Subject: Log for successful build of bwa_0.5.9-2 on s390 (dist=sid)
-Content-Type: text/plain; charset=UTF-8
-Content-Transfer-Encoding: 8bit
-Message-Id: <E1PyJSV-0007QH-Eq at zandonai.debian.org>
-Date: Sat, 12 Mar 2011 07:41:55 +0000
+Subject: Log for successful build of bwa_0.5.10-1 on s390 (dist=sid)
+Key-Id: 772711F7
Delivered-To: logs at buildd.debian.org
-sbuild (Debian sbuild) 0.60.5 (14 Nov 2010) on zandonai.debian.org
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on zandonai.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bwa 0.5.9-2 (s390) 12 Mar 2011 07:40 ║
+║ bwa 0.5.10-1 (s390) 14 Nov 2011 04:39 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bwa
-Version: 0.5.9-2
+Version: 0.5.10-1
+Source Version: 0.5.10-1
Architecture: s390
-Chroot Build Dir: /var/lib/schroot/mount/sid-s390-sbuild-6d03f0a3-1e13-41ae-8975-2021916e11a4/build/buildd-bwa_0.5.9-2-s390-1n28HK
-Start Time: 20110312-0740
-Get:1 http://ftp.de.debian.org unstable InRelease [147 kB]
-Get:2 http://ftp.de.debian.org unstable/main Sources [4196 kB]
-Get:3 http://incoming.debian.org unstable InRelease [147 kB]
+Get:1 http://ftp.de.debian.org unstable InRelease [146 kB]
+Get:2 http://ftp.de.debian.org unstable/main Sources [5923 kB]
+Get:3 http://incoming.debian.org unstable InRelease [146 kB]
Ign http://incoming.debian.org InRelease
-Get:4 http://incoming.debian.org Release.gpg [835 B]
-Get:5 http://incoming.debian.org unstable/main Sources [4193 kB]
-Get:6 http://ftp.de.debian.org unstable/contrib Sources [38.7 kB]
-Get:7 http://ftp.de.debian.org unstable/non-free Sources [81.8 kB]
-Get:8 http://ftp.de.debian.org unstable/main s390 Packages [6829 kB]
-Get:9 http://ftp.de.debian.org unstable/contrib s390 Packages [50.3 kB]
+Get:4 http://incoming.debian.org Release.gpg [836 B]
+Get:5 http://incoming.debian.org unstable/main Sources [5923 kB]
+Get:6 http://ftp.de.debian.org unstable/contrib Sources [57.2 kB]
+Get:7 http://ftp.de.debian.org unstable/non-free Sources [103 kB]
+Get:8 http://ftp.de.debian.org unstable/main s390 Packages [7631 kB]
+Get:9 http://ftp.de.debian.org unstable/contrib s390 Packages [54.9 kB]
Ign http://ftp.de.debian.org unstable/contrib TranslationIndex
-Get:10 http://ftp.de.debian.org unstable/main TranslationIndex [2232 B]
+Get:10 http://ftp.de.debian.org unstable/main TranslationIndex [2045 B]
Ign http://ftp.de.debian.org unstable/contrib Translation-en
-Get:11 http://incoming.debian.org unstable/contrib Sources [38.7 kB]
-Get:12 http://incoming.debian.org unstable/non-free Sources [81.8 kB]
-Get:13 http://incoming.debian.org unstable/main s390 Packages [6829 kB]
-Get:14 http://incoming.debian.org unstable/contrib s390 Packages [50.3 kB]
+Get:11 http://incoming.debian.org unstable/contrib Sources [57.2 kB]
+Get:12 http://incoming.debian.org unstable/non-free Sources [103 kB]
+Get:13 http://incoming.debian.org unstable/main s390 Packages [7631 kB]
+Get:14 http://incoming.debian.org unstable/contrib s390 Packages [54.9 kB]
Ign http://incoming.debian.org unstable/contrib TranslationIndex
-Get:15 http://incoming.debian.org unstable/main TranslationIndex [2232 B]
+Get:15 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
Get:16 http://incoming.debian.org Release [1604 B]
-Get:17 http://incoming.debian.org Sources [36.1 kB]
-Get:18 http://incoming.debian.org Packages [524 kB]
+Get:17 http://incoming.debian.org Sources [37.6 kB]
+Get:18 http://incoming.debian.org Packages [341 kB]
Ign http://incoming.debian.org unstable/contrib Translation-en
Ign http://incoming.debian.org Translation-en
-Fetched 23.3 MB in 23s (984 kB/s)
+Fetched 28.2 MB in 27s (1035 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -82,29 +83,78 @@ Reading package lists...
Building dependency tree...
Reading state information...
NOTICE: 'bwa' packaging is maintained in the 'Git' version control system at:
-git://git.debian.org/git/debian-med/bwa.git
-Need to get 119 kB of source archives.
-Get:1 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (dsc) [1245 B]
-Get:2 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (tar) [114 kB]
-Get:3 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (diff) [3828 B]
-Fetched 119 kB in 0s (154 kB/s)
+git://git.debian.org/debian-med/bwa.git
+Need to get 126 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (dsc) [1929 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (tar) [120 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (diff) [4113 B]
+Fetched 126 kB in 0s (146 kB/s)
Download complete and in download only mode
Check arch
──────────
-** Using build dependencies supplied by package:
-Build-Depends: debhelper (>= 8), zlib1g-dev
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install build dependencies (internal resolver) │
+│ Install core build dependencies (internal resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
-Checking for already installed source dependencies...
+Build-Depends: build-essential, fakeroot
+Checking for already installed dependencies...
+build-essential: already installed (11.5)
+fakeroot: already installed (1.18.1-1)
+Checking for dependency conflicts...
+Installing positive 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:
+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 bwa build dependencies (internal 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), zlib1g-dev
+Checking for already installed dependencies...
+base-files: already installed (6.5)
+base-passwd: already installed (3.5.23)
+bash: already installed (4.1-3)
+coreutils: already installed (8.13-3)
+dash: already installed (0.5.7-2)
+debianutils: already installed (4.0.4)
+diffutils: already installed (1:3.2-1)
+dpkg: already installed (1.16.1.1)
+e2fsprogs: already installed (1.42~WIP-2011-10-16-1)
+findutils: already installed (4.4.2-1+b1)
+grep: already installed (2.9-2)
+gzip: already installed (1.4-2)
+hostname: already installed (3.06)
+ncurses-base: already installed (5.9-4)
+ncurses-bin: already installed (5.9-4)
+perl-base: already installed (5.14.2-3)
+sed: already installed (4.2.1-9)
+login: already installed (1:4.1.4.2+svn3283-3)
+sysvinit-utils: already installed (2.88dsf-13.13)
+sysvinit: already installed (2.88dsf-13.13)
+tar: already installed (1.26-3)
+bsdutils: already installed (1:2.19.1-5)
+mount: already installed (2.19.1-5)
+util-linux: already installed (2.19.1-5)
+libc6-dev: already installed (2.13-21)
+gcc: already installed (4:4.6.1-3 >= 4:4.4.3 is satisfied)
+g++: already installed (4:4.6.1-3 >= 4:4.4.3 is satisfied)
+make: already installed (3.81-8.1)
+dpkg-dev: already installed (1.16.1.1 >= 1.13.5 is satisfied)
debhelper: missing
-Using default version 8.1.2
+Using default version 8.9.9
zlib1g-dev: missing
-Checking for source dependency conflicts...
+Checking for dependency conflicts...
Installing positive dependencies: debhelper zlib1g-dev
Reading package lists...
Building dependency tree...
@@ -123,93 +173,97 @@ The following NEW packages will be installed:
bsdmainutils debhelper file gettext gettext-base groff-base html2text
intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1
libunistring0 libxml2 man-db po-debconf zlib1g-dev
-0 upgraded, 18 newly installed, 0 to remove and 16 not upgraded.
-Need to get 9346 kB of archives.
-After this operation, 28.0 MB of additional disk space will be used.
-Get:1 http://ftp.de.debian.org/debian/ unstable/main bsdmainutils s390 8.2.2 [208 kB]
-Get:2 http://ftp.de.debian.org/debian/ unstable/main groff-base s390 1.21-4 [1158 kB]
-Get:3 http://ftp.de.debian.org/debian/ unstable/main libpipeline1 s390 1.1.0-1 [38.0 kB]
-Get:4 http://ftp.de.debian.org/debian/ unstable/main man-db s390 2.5.9-4 [1015 kB]
-Get:5 http://ftp.de.debian.org/debian/ unstable/main libmagic1 s390 5.04-5 [243 kB]
-Get:6 http://ftp.de.debian.org/debian/ unstable/main file s390 5.04-5 [50.0 kB]
-Get:7 http://ftp.de.debian.org/debian/ unstable/main gettext-base s390 0.18.1.1-3 [142 kB]
-Get:8 http://ftp.de.debian.org/debian/ unstable/main libpcre3 s390 8.12-3 [262 kB]
-Get:9 http://ftp.de.debian.org/debian/ unstable/main libxml2 s390 2.7.8.dfsg-2 [873 kB]
-Get:10 http://ftp.de.debian.org/debian/ unstable/main html2text s390 1.3.2a-15 [101 kB]
-Get:11 http://ftp.de.debian.org/debian/ unstable/main libglib2.0-0 s390 2.28.1-1+b1 [1629 kB]
-Get:12 http://ftp.de.debian.org/debian/ unstable/main libcroco3 s390 0.6.2-1 [128 kB]
-Get:13 http://ftp.de.debian.org/debian/ unstable/main libunistring0 s390 0.9.3-3 [431 kB]
-Get:14 http://ftp.de.debian.org/debian/ unstable/main gettext s390 0.18.1.1-3 [2068 kB]
+0 upgraded, 18 newly installed, 0 to remove and 0 not upgraded.
+Need to get 9401 kB of archives.
+After this operation, 26.3 MB of additional disk space will be used.
+Get:1 http://ftp.de.debian.org/debian/ unstable/main libpipeline1 s390 1.2.0-5 [39.0 kB]
+Get:2 http://ftp.de.debian.org/debian/ unstable/main libpcre3 s390 8.12-4 [228 kB]
+Get:3 http://ftp.de.debian.org/debian/ unstable/main libglib2.0-0 s390 2.28.8-1 [1681 kB]
+Get:4 http://ftp.de.debian.org/debian/ unstable/main libxml2 s390 2.7.8.dfsg-5 [879 kB]
+Get:5 http://ftp.de.debian.org/debian/ unstable/main libcroco3 s390 0.6.2-2 [122 kB]
+Get:6 http://ftp.de.debian.org/debian/ unstable/main libunistring0 s390 0.9.3-5 [433 kB]
+Get:7 http://ftp.de.debian.org/debian/ unstable/main bsdmainutils s390 8.2.3 [209 kB]
+Get:8 http://ftp.de.debian.org/debian/ unstable/main groff-base s390 1.21-6 [1156 kB]
+Get:9 http://ftp.de.debian.org/debian/ unstable/main man-db s390 2.6.0.2-3 [1029 kB]
+Get:10 http://ftp.de.debian.org/debian/ unstable/main libmagic1 s390 5.09-2 [257 kB]
+Get:11 http://ftp.de.debian.org/debian/ unstable/main file s390 5.09-2 [52.6 kB]
+Get:12 http://ftp.de.debian.org/debian/ unstable/main gettext-base s390 0.18.1.1-5 [143 kB]
+Get:13 http://ftp.de.debian.org/debian/ unstable/main html2text s390 1.3.2a-15 [101 kB]
+Get:14 http://ftp.de.debian.org/debian/ unstable/main gettext s390 0.18.1.1-5 [2073 kB]
Get:15 http://ftp.de.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
Get:16 http://ftp.de.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
-Get:17 http://ftp.de.debian.org/debian/ unstable/main debhelper all 8.1.2 [553 kB]
+Get:17 http://ftp.de.debian.org/debian/ unstable/main debhelper all 8.9.9 [552 kB]
Get:18 http://ftp.de.debian.org/debian/ unstable/main zlib1g-dev s390 1:1.2.3.4.dfsg-3 [193 kB]
debconf: delaying package configuration, since apt-utils is not installed
-Fetched 9346 kB in 2s (3621 kB/s)
-Selecting previously deselected package bsdmainutils.
-(Reading database ... 10125 files and directories currently installed.)
-Unpacking bsdmainutils (from .../bsdmainutils_8.2.2_s390.deb) ...
-Selecting previously deselected package groff-base.
-Unpacking groff-base (from .../groff-base_1.21-4_s390.deb) ...
-Selecting previously deselected package libpipeline1.
-Unpacking libpipeline1 (from .../libpipeline1_1.1.0-1_s390.deb) ...
-Selecting previously deselected package man-db.
-Unpacking man-db (from .../man-db_2.5.9-4_s390.deb) ...
-Selecting previously deselected package libmagic1.
-Unpacking libmagic1 (from .../libmagic1_5.04-5_s390.deb) ...
-Selecting previously deselected package file.
-Unpacking file (from .../archives/file_5.04-5_s390.deb) ...
-Selecting previously deselected package gettext-base.
-Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_s390.deb) ...
-Selecting previously deselected package libpcre3.
-Unpacking libpcre3 (from .../libpcre3_8.12-3_s390.deb) ...
-Selecting previously deselected package libxml2.
-Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_s390.deb) ...
-Selecting previously deselected package html2text.
+Fetched 9401 kB in 2s (3530 kB/s)
+Selecting previously unselected package libpipeline1.
+(Reading database ... 10599 files and directories currently installed.)
+Unpacking libpipeline1 (from .../libpipeline1_1.2.0-5_s390.deb) ...
+Selecting previously unselected package libpcre3.
+Unpacking libpcre3 (from .../libpcre3_8.12-4_s390.deb) ...
+Selecting previously unselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.8-1_s390.deb) ...
+Selecting previously unselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-5_s390.deb) ...
+Selecting previously unselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-2_s390.deb) ...
+Selecting previously unselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-5_s390.deb) ...
+Selecting previously unselected package bsdmainutils.
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.3_s390.deb) ...
+Selecting previously unselected package groff-base.
+Unpacking groff-base (from .../groff-base_1.21-6_s390.deb) ...
+Selecting previously unselected package man-db.
+Unpacking man-db (from .../man-db_2.6.0.2-3_s390.deb) ...
+Selecting previously unselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.09-2_s390.deb) ...
+Selecting previously unselected package file.
+Unpacking file (from .../archives/file_5.09-2_s390.deb) ...
+Selecting previously unselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-5_s390.deb) ...
+Selecting previously unselected package html2text.
Unpacking html2text (from .../html2text_1.3.2a-15_s390.deb) ...
-Selecting previously deselected package libglib2.0-0.
-Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.1-1+b1_s390.deb) ...
-Selecting previously deselected package libcroco3.
-Unpacking libcroco3 (from .../libcroco3_0.6.2-1_s390.deb) ...
-Selecting previously deselected package libunistring0.
-Unpacking libunistring0 (from .../libunistring0_0.9.3-3_s390.deb) ...
-Selecting previously deselected package gettext.
-Unpacking gettext (from .../gettext_0.18.1.1-3_s390.deb) ...
-Selecting previously deselected package intltool-debian.
+Selecting previously unselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-5_s390.deb) ...
+Selecting previously unselected package intltool-debian.
Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ...
-Selecting previously deselected package po-debconf.
+Selecting previously unselected package po-debconf.
Unpacking po-debconf (from .../po-debconf_1.0.16+nmu1_all.deb) ...
-Selecting previously deselected package debhelper.
-Unpacking debhelper (from .../debhelper_8.1.2_all.deb) ...
-Selecting previously deselected package zlib1g-dev.
+Selecting previously unselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.9.9_all.deb) ...
+Selecting previously unselected package zlib1g-dev.
Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_s390.deb) ...
-Setting up bsdmainutils (8.2.2) ...
+Setting up libpipeline1 (1.2.0-5) ...
+Setting up libpcre3 (8.12-4) ...
+Setting up libglib2.0-0 (2.28.8-1) ...
+No schema files found: doing nothing.
+Setting up libxml2 (2.7.8.dfsg-5) ...
+Setting up libcroco3 (0.6.2-2) ...
+Setting up libunistring0 (0.9.3-5) ...
+Setting up bsdmainutils (8.2.3) ...
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 man-db (2.5.9-4) ...
+Setting up groff-base (1.21-6) ...
+Setting up man-db (2.6.0.2-3) ...
Building database of manual pages ...
-Setting up libmagic1 (5.04-5) ...
-Setting up file (5.04-5) ...
-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 libmagic1 (5.09-2) ...
+Setting up file (5.09-2) ...
+Setting up gettext-base (0.18.1.1-5) ...
Setting up html2text (1.3.2a-15) ...
-Setting up libglib2.0-0 (2.28.1-1+b1) ...
-No schema files found: doing nothing.
-Setting up libcroco3 (0.6.2-1) ...
-Setting up libunistring0 (0.9.3-3) ...
-Setting up gettext (0.18.1.1-3) ...
+Setting up gettext (0.18.1.1-5) ...
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 debhelper (8.9.9) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
Removing negative dependencies:
-Checking correctness of source dependencies...
-Kernel: Linux 2.6.32-bpo.5-s390x s390 (s390x)
-Toolchain package versions: libc6-dev_2.11.2-11 dpkg-dev_1.15.8.10 linux-libc-dev_2.6.37-2 gcc-4.4_4.4.5-13 g++-4.4_4.4.5-13 binutils_2.21.0.20110216-2 libstdc++6-4.4-dev_4.4.5-13 libstdc++6_4.5.2-4
-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 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_2.11.2-11 libc-dev-bin_2.11.2-11 libc6_2.11.2-11 libc6-dev_2.11.2-11 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 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 sudo_1.7.4p6-1 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
+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-s390x s390 (s390x)
+Toolchain package versions: binutils_2.21.90.20111025-1 dpkg-dev_1.16.1.1 g++-4.6_4.6.2-4 gcc-4.6_4.6.2-4 libc6-dev_2.13-21 libstdc++6_4.6.2-4 libstdc++6-4.6-dev_4.6.2-4 linux-libc-dev_3.0.0-6
+Package versions: apt_0.8.15.9 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.90.20111025-1 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 coreutils_8.13-3 cpp_4:4.6.1-3 cpp-4.6_4.6.2-4 dash_0.5.7-2 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.9 debian-archive-keyring_2010.08.28 debianutils_4.0.4 diffutils_1:3.2-1 dpkg_1.16.1.1 dpkg-dev_1.16.1.1 e2fslibs_1.42~WIP-2011-10-16-1 e2fsprogs_1.42~WIP-2011-10-16-1 fakeroot_1.18.1-1 file_5.09-2 findutils_4.4.2-1+b1 g++_4:4.6.1-3 g++-4.6_4.6.2-4 gcc_4:4.6.1-3 gcc-4.4-base_4.4.6-11 gcc-4.5-base_4.5.3-9 gcc-4.6_4.6.2-4 gcc-4.6-base_4.6.2-4 gettext_0.18.1.1-5 gettext-base_0.18.1.1-5 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-2 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.13 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-4 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbz2-1.0_1.0.5-7 libc-bin_2.13-21 libc-dev-bin_2.13-21 libc6_2.13-21 libc6-dev_2.13-21 libclass-isa-perl_0.36-2 libcomerr2_1.42~WIP-2011-10-16-1 libcroco3_0.6.2-2 libdb5.1_5.1.25-11 libdpkg-perl_1.16.1.1 libgc1c2_1:7.1-8 libgcc1_1:4.6.2-4 libgdbm3_1.8.3-10 libglib2.0-0_2.28.8-1 libgmp10_2:5.0.2+dfsg-2 libgomp1_4.6.2-4 liblzma2_5.1.1alpha+20110809-2 liblzma5_5.1.1alpha+20110809-3 libmagic1_5.09-2 libmount1_2.19.1-5 libmpc2_0.9-4 libmpfr4_3.1.0-3 libncurses5_5.9-4 libpam-modules_1.1.3-6 libpam-modules-bin_1.1.3-6 libpam-runtime_1.1.3-6 libpam0g_1.1.3-6 libpcre3_8.12-4 libpipeline1_1.2.0-5 libreadline6_6.2-7 libselinux1_2.1.0-4 libsepol1_2.1.0-1.1 libslang2_2.2.4-3 libss2_1.42~WIP-2011-10-16-1 libstdc++6_4.6.2-4 libstdc++6-4.6-dev_4.6.2-4 libswitch-perl_2.16-2 libtimedate-perl_1.2000-1 libtinfo5_5.9-4 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-5 linux-libc-dev_3.0.0-6 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-3 mawk_1.3.3-16 mount_2.19.1-5 multiarch-support_2.13-21 ncurses-base_5.9-4 ncurses-bin_5.9-4 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.14.2-3 perl-base_5.14.2-3 perl-modules_5.14.2-3 po-debconf_1.0.16+nmu1 readline-common_6.2-7 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.3p1-2 sysv-rc_2.88dsf-13.13 sysvinit_2.88dsf-13.13 sysvinit-utils_2.88dsf-13.13 tar_1.26-3 tzdata_2011n-1 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-3 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -219,14 +273,13 @@ 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: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
-gpgv: Signature made Fri Mar 11 21:59:41 2011 UTC using DSA key ID C09FD35A
+gpgv: Signature made Mon Nov 14 04:21:35 2011 UTC using RSA key ID 2295D502
gpgv: Can't check signature: public key not found
-dpkg-source: warning: failed to verify signature on ./bwa_0.5.9-2.dsc
-dpkg-source: info: extracting bwa in bwa-0.5.9
-dpkg-source: info: unpacking bwa_0.5.9.orig.tar.bz2
-dpkg-source: info: unpacking bwa_0.5.9-2.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bwa_0.5.10-1.dsc
+dpkg-source: info: extracting bwa in bwa-0.5.10
+dpkg-source: info: unpacking bwa_0.5.10.orig.tar.bz2
+dpkg-source: info: unpacking bwa_0.5.10-1.debian.tar.gz
Check disc space
────────────────
@@ -235,42 +288,43 @@ Check disc space
dpkg-buildpackage
─────────────────
-dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
-dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
-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 bwa
-dpkg-buildpackage: source version 0.5.9-2
- dpkg-source --before-build bwa-0.5.9
+dpkg-buildpackage: source version 0.5.10-1
+ dpkg-source --before-build bwa-0.5.10
dpkg-buildpackage: host architecture s390
- /usr/bin/fakeroot debian/rules clean
+ fakeroot debian/rules clean
dh clean
dh_testdir
dh_auto_clean
-make[1]: Entering directory `/build/buildd-bwa_0.5.9-2-s390-1n28HK/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-s390-1n28HK/bwa-0.5.9'
+make[1]: Entering directory `/build/buildd-bwa_0.5.10-1-s390-y6DgGz/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-s390-y6DgGz/bwa-0.5.10'
rm -f gmon.out *.o a.out bwa *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-s390-1n28HK/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-s390-1n28HK/bwa-0.5.9/bwt_gen'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-s390-y6DgGz/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-s390-y6DgGz/bwa-0.5.10/bwt_gen'
rm -f gmon.out *.o a.out *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-s390-1n28HK/bwa-0.5.9/bwt_gen'
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9-2-s390-1n28HK/bwa-0.5.9'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-s390-y6DgGz/bwa-0.5.10/bwt_gen'
+make[1]: Leaving directory `/build/buildd-bwa_0.5.10-1-s390-y6DgGz/bwa-0.5.10'
dh_clean
debian/rules build
dh build
dh_testdir
dh_auto_configure
dh_auto_build
-make[1]: Entering directory `/build/buildd-bwa_0.5.9-2-s390-1n28HK/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-s390-1n28HK/bwa-0.5.9'
+make[1]: Entering directory `/build/buildd-bwa_0.5.10-1-s390-y6DgGz/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-s390-y6DgGz/bwa-0.5.10'
make[2]: Nothing to be done for `lib'.
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-s390-1n28HK/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-s390-1n28HK/bwa-0.5.9/bwt_gen'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-s390-y6DgGz/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-s390-y6DgGz/bwa-0.5.10/bwt_gen'
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt_gen.c -o bwt_gen.o
+bwt_gen.c: In function 'BWTIncBuildRelativeRank':
+bwt_gen.c:824:15: warning: variable 'oldInverseSa0RelativeRank' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncMergeBwt':
+bwt_gen.c:899:15: warning: variable 'bitsInWordMinusBitPerChar' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD QSufSort.c -o QSufSort.o
-ar -cru libbwtgen.a bwt_gen.o QSufSort.o
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-s390-1n28HK/bwa-0.5.9/bwt_gen'
+QSufSort.c: In function 'QSufSortSuffixSort':
+QSufSort.c:89:6: warning: variable 'maxNumInputSymbol' set but not used [-Wunused-but-set-variable]
+ar -scru libbwtgen.a bwt_gen.o QSufSort.o
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-s390-y6DgGz/bwa-0.5.10/bwt_gen'
gcc -c -g -Wall -O2 -DHAVE_PTHREAD utils.c -o utils.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt.c -o bwt.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtio.c -o bwtio.o
@@ -279,25 +333,37 @@ gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtgap.c -o bwtgap.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD is.c -o is.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bntseq.c -o bntseq.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtmisc.c -o bwtmisc.o
+bwtmisc.c: In function 'bwa_pac_rev_core':
+bwtmisc.c:163:20: warning: variable 'j' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtindex.c -o bwtindex.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD stdaln.c -o stdaln.o
+stdaln.c: In function 'aln_local_core':
+stdaln.c:545:25: warning: variable 'b' set but not used [-Wunused-but-set-variable]
+stdaln.c: In function 'aln_extend_core':
+stdaln.c:865:16: warning: variable 'tmp_len' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD simple_dp.c -o simple_dp.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwaseqio.c -o bwaseqio.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwase.c -o bwase.o
+bwase.c: In function 'bwa_aln2seq_core':
+bwase.c:75:15: warning: variable 'k' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_print_sam1':
+bwase.c:452:17: warning: variable 'm_is_N' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwape.c -o bwape.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD kstring.c -o kstring.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD cs2nt.c -o cs2nt.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_core.c -o bwtsw2_core.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_main.c -o bwtsw2_main.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_aux.c -o bwtsw2_aux.o
+bwtsw2_aux.c: In function 'gen_cigar':
+bwtsw2_aux.c:193:7: warning: variable 'score' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt_lite.c -o bwt_lite.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_chain.c -o bwtsw2_chain.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bamlite.c -o bamlite.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD main.c -o main.o
gcc -g -Wall -O2 -DHAVE_PTHREAD utils.o bwt.o bwtio.o bwtaln.o bwtgap.o is.o bntseq.o bwtmisc.o bwtindex.o stdaln.o simple_dp.o bwaseqio.o bwase.o bwape.o kstring.o cs2nt.o bwtsw2_core.o bwtsw2_main.o bwtsw2_aux.o bwt_lite.o bwtsw2_chain.o bamlite.o main.o -o bwa -lm -lz -lpthread -Lbwt_gen -lbwtgen
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9-2-s390-1n28HK/bwa-0.5.9'
+make[1]: Leaving directory `/build/buildd-bwa_0.5.10-1-s390-y6DgGz/bwa-0.5.10'
dh_auto_test
- /usr/bin/fakeroot debian/rules binary-arch
+ fakeroot debian/rules binary-arch
dh binary-arch
dh_testroot -a
dh_prep -a
@@ -325,7 +391,9 @@ dh binary-arch
dh_installudev -a
dh_installwm -a
dh_installxfonts -a
+ dh_installgsettings -a
dh_bugfiles -a
+ dh_ucf -a
dh_lintian -a
dh_gconf -a
dh_icons -a
@@ -342,57 +410,61 @@ dh binary-arch
dpkg-gencontrol: warning: package bwa: unused substitution variable ${perl:Depends}
dh_md5sums -a
dh_builddeb -a
-dpkg-deb: building package `bwa' in `../bwa_0.5.9-2_s390.deb'.
- dpkg-genchanges -B -ms390 Build Daemon (zandonai) <buildd_s390-zandonai at buildd.debian.org> >../bwa_0.5.9-2_s390.changes
+dpkg-deb: building package `bwa' in `../bwa_0.5.10-1_s390.deb'.
+ dpkg-genchanges -B -ms390 Build Daemon (zandonai) <buildd_s390-zandonai at buildd.debian.org> >../bwa_0.5.10-1_s390.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 bwa-0.5.9
+ dpkg-source --after-build bwa-0.5.10
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110312-0741
+Build finished at 20111114-0440
-bwa_0.5.9-2_s390.changes:
+bwa_0.5.10-1_s390.changes:
Format: 1.8
-Date: Fri, 11 Mar 2011 22:49:07 +0100
+Date: Mon, 14 Nov 2011 13:12:50 +0900
Source: bwa
Binary: bwa
Architecture: s390
-Version: 0.5.9-2
+Version: 0.5.10-1
Distribution: sid
Urgency: low
Maintainer: s390 Build Daemon (zandonai) <buildd_s390-zandonai at buildd.debian.org>
-Changed-By: Andreas Tille <tille at debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
Description:
bwa - Burrows-Wheeler Aligner
Changes:
- bwa (0.5.9-2) unstable; urgency=low
+ bwa (0.5.10-1) unstable; urgency=low
.
- * Watchfile should not regard rc releases.
- * Drop cdbs in favour of dh
+ [a01f6ca] New upstream release.
+ [6d7bc7f] Conforms with Debian Policy version 3.9.2.
+ [125c73d] Corrected Vcs-Git URL.
+ [37f43c9] Normalised machine-readable copyright file with config-edit.
+ [4e2e0d0] Distribute xa2multi.pl in ‘usr/share/bwa’.
+ [b106d64] Removed redundant ChangeLog file, already installed by Debhelper.
Checksums-Sha1:
- 2c83f77f687216c296e4f76215cdc7e5f7b1c4f3 140604 bwa_0.5.9-2_s390.deb
+ edfdfa4e68784b14fd11bb64d5a397849344201a 142218 bwa_0.5.10-1_s390.deb
Checksums-Sha256:
- ecd58a0b77868fc2aab02c2124f227681ac7b952a024323528a4d89986c48c1f 140604 bwa_0.5.9-2_s390.deb
+ 1179e3dc80b5165d8eb3f7a87ca4f40abd681a8cb26dae8033e3e13923ff2a85 142218 bwa_0.5.10-1_s390.deb
Files:
- 238ea265f79d3502be7f2eb53151ef0a 140604 science optional bwa_0.5.9-2_s390.deb
+ 7c12ca0944d19e2247bed4112c672444 142218 science optional bwa_0.5.10-1_s390.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bwa_0.5.9-2_s390.deb
-────────────────────
+bwa_0.5.10-1_s390.deb
+─────────────────────
new debian package, version 2.0.
- size 140604 bytes: control archive= 973 bytes.
- 773 bytes, 17 lines control
- 615 bytes, 10 lines md5sums
+ size 142218 bytes: control archive= 989 bytes.
+ 774 bytes, 17 lines control
+ 610 bytes, 10 lines md5sums
Package: bwa
- Version: 0.5.9-2
+ Version: 0.5.10-1
Architecture: s390
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 324
+ Installed-Size: 286
Depends: libc6 (>= 2.7), zlib1g (>= 1:1.1.4)
Suggests: samtools
Section: science
@@ -406,25 +478,25 @@ bwa_0.5.9-2_s390.deb
to around 100 kbp. Both algorithms do gapped alignment. They are usually more
accurate and faster on queries with low error rates.
-drwxr-xr-x root/root 0 2011-03-12 07:41 ./
-drwxr-xr-x root/root 0 2011-03-12 07:41 ./usr/
-drwxr-xr-x root/root 0 2011-03-12 07:41 ./usr/bin/
--rwxr-xr-x root/root 206392 2011-03-12 07:41 ./usr/bin/bwa
-drwxr-xr-x root/root 0 2011-03-12 07:41 ./usr/share/
-drwxr-xr-x root/root 0 2011-03-12 07:41 ./usr/share/bwa/
--rwxr-xr-x root/root 3176 2011-01-25 00:00 ./usr/share/bwa/solid2fastq.pl
--rwxr-xr-x root/root 616 2011-01-25 00:00 ./usr/share/bwa/qualfa2fq.pl
-drwxr-xr-x root/root 0 2011-03-12 07:41 ./usr/share/man/
-drwxr-xr-x root/root 0 2011-03-12 07:41 ./usr/share/man/man1/
--rw-r--r-- root/root 7554 2011-03-12 07:41 ./usr/share/man/man1/bwa.1.gz
-drwxr-xr-x root/root 0 2011-03-12 07:41 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-03-12 07:41 ./usr/share/doc/bwa/
--rw-r--r-- root/root 5857 2011-01-25 00:00 ./usr/share/doc/bwa/NEWS.gz
--rw-r--r-- root/root 17912 2011-01-25 00:00 ./usr/share/doc/bwa/ChangeLog.gz
--rw-r--r-- root/root 634 2011-01-25 00:00 ./usr/share/doc/bwa/README
--rw-r--r-- root/root 17912 2011-01-25 00:00 ./usr/share/doc/bwa/changelog.gz
--rw-r--r-- root/root 957 2011-03-11 21:54 ./usr/share/doc/bwa/changelog.Debian.gz
--rw-r--r-- root/root 2676 2011-02-08 07:09 ./usr/share/doc/bwa/copyright
+drwxr-xr-x root/root 0 2011-11-14 04:40 ./
+drwxr-xr-x root/root 0 2011-11-14 04:40 ./usr/
+drwxr-xr-x root/root 0 2011-11-14 04:40 ./usr/bin/
+-rwxr-xr-x root/root 211336 2011-11-14 04:40 ./usr/bin/bwa
+drwxr-xr-x root/root 0 2011-11-14 04:40 ./usr/share/
+drwxr-xr-x root/root 0 2011-11-14 04:40 ./usr/share/bwa/
+-rwxr-xr-x root/root 3176 2011-11-13 01:07 ./usr/share/bwa/solid2fastq.pl
+-rwxr-xr-x root/root 616 2011-11-13 01:07 ./usr/share/bwa/qualfa2fq.pl
+-rwxr-xr-x root/root 730 2011-11-13 01:07 ./usr/share/bwa/xa2multi.pl
+drwxr-xr-x root/root 0 2011-11-14 04:40 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-11-14 04:40 ./usr/share/man/man1/
+-rw-r--r-- root/root 7554 2011-11-14 04:40 ./usr/share/man/man1/bwa.1.gz
+drwxr-xr-x root/root 0 2011-11-14 04:40 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-11-14 04:40 ./usr/share/doc/bwa/
+-rw-r--r-- root/root 5857 2011-11-13 01:08 ./usr/share/doc/bwa/NEWS.gz
+-rw-r--r-- root/root 634 2011-11-13 01:07 ./usr/share/doc/bwa/README
+-rw-r--r-- root/root 17912 2011-11-13 01:07 ./usr/share/doc/bwa/changelog.gz
+-rw-r--r-- root/root 1159 2011-11-14 04:16 ./usr/share/doc/bwa/changelog.Debian.gz
+-rw-r--r-- root/root 2740 2011-11-14 04:09 ./usr/share/doc/bwa/copyright
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -433,9 +505,31 @@ drwxr-xr-x root/root 0 2011-03-12 07:41 ./usr/share/doc/bwa/
Built successfully
────────────────────────────────────────────────────────────────────────────────
-Purging /var/lib/schroot/mount/sid-s390-sbuild-6d03f0a3-1e13-41ae-8975-2021916e11a4/build/buildd-bwa_0.5.9-2-s390-1n28HK
-Not removing build depends: cloned chroot in use
-────────────────────────────────────────────────────────────────────────────────
-Finished at 20110312-0741
-Build needed 00:00:58, 2624k disc space
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /var/lib/schroot/mount/sid-s390-sbuild-25cc7e9e-b6a5-4ff6-bb8b-19219e938783/build/buildd-bwa_0.5.10-1-s390-y6DgGz
+Not cleaning session: cloned chroot in use
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Architecture: s390
+Build-Space: 2836
+Build-Time: 18
+Distribution: sid
+Install-Time: 10
+Job: bwa_0.5.10-1
+Package: bwa
+Package-Time: 69
+Source-Version: 0.5.10-1
+Space: 2836
+Status: successful
+Version: 0.5.10-1
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20111114-0440
+Build needed 00:01:09, 2836k disc space
+Signature with key '772711F7' requested:
diff --git a/sparc.log b/sparc.log
index f8ec8f6..68568bf 100644
--- a/sparc.log
+++ b/sparc.log
@@ -1,68 +1,70 @@
-From buildd at lebrun.debian.org Sat Mar 12 08:39:32 2011
-Return-path: <buildd at lebrun.debian.org>
-Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
+From buildd at schroeder.debian.org Mon Nov 14 04:42:11 2011
+Return-path: <buildd at schroeder.debian.org>
+Received: from kokkonen.debian.org ([2001:41b8:202:deb:1a1a:0:52c3:4b61])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
- CN=merikanto.debian.org,
- EMAIL=hostmaster at merikanto.debian.org (verified)
+ CN=kokkonen.debian.org,
+ EMAIL=hostmaster at kokkonen.debian.org (verified)
by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at lebrun.debian.org>)
- id 1PyKMG-0001dm-0v
- for logs at buildd.debian.org; Sat, 12 Mar 2011 08:39:32 +0000
-Received: from lebrun.debian.org ([193.198.184.10])
+ (Exim 4.72) (envelope-from <buildd at schroeder.debian.org>)
+ id 1RPoN1-0000XJ-8h
+ for logs at buildd.debian.org; Mon, 14 Nov 2011 04:42:11 +0000
+Received: from schroeder.debian.org ([193.198.184.11])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
- CN=lebrun.debian.org, EMAIL=hostmaster at lebrun.debian.org (verified)
- by merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at lebrun.debian.org>)
- id 1PyKMC-0001Pz-AV
- for logs at buildd.debian.org; Sat, 12 Mar 2011 08:39:29 +0000
-Received: from buildd by lebrun.debian.org with local (Exim 4.69)
- (envelope-from <buildd at lebrun.debian.org>)
- id 1PyKMB-0003Mf-B6; Sat, 12 Mar 2011 08:39:27 +0000
-From: buildd on lebrun <buildd at lebrun.debian.org>
-To: logs at buildd.debian.org,buildd-admin at lebrun.debian.org
-Subject: Log for successful build of bwa_0.5.9-2 on sparc (dist=sid)
-Content-Type: text/plain; charset=UTF-8
-Content-Transfer-Encoding: 8bit
-Message-Id: <E1PyKMB-0003Mf-B6 at lebrun.debian.org>
-Date: Sat, 12 Mar 2011 08:39:27 +0000
+ CN=schroeder.debian.org,
+ EMAIL=hostmaster at schroeder.debian.org (verified)
+ by kokkonen.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at schroeder.debian.org>)
+ id 1RPoN0-0006NA-Bg
+ for logs at buildd.debian.org; Mon, 14 Nov 2011 04:42:10 +0000
+Received: from buildd by schroeder.debian.org with local (Exim 4.72)
+ (envelope-from <buildd at schroeder.debian.org>)
+ id 1RPoMy-00046N-7Q; Mon, 14 Nov 2011 04:42:08 +0000
+Message-Id: <E1RPoMy-00046N-7Q at schroeder.debian.org>
+MIME-Version: 1.0
+Content-Transfer-Encoding: binary
+X-Mailer: MIME::Lite 3.027 (F2.77; B3.08; Q3.08)
+Date: Mon, 14 Nov 2011 04:42:07 +0000
+From: buildd on schroeder <buildd at schroeder.debian.org>
+To: logs at buildd.debian.org,buildd-admin at schroeder.debian.org
+Subject: Log for successful build of bwa_0.5.10-1 on sparc (dist=sid)
+Key-Id: 2BF501AB
Delivered-To: logs at buildd.debian.org
-sbuild (Debian sbuild) 0.60.5 (14 Nov 2010) on lebrun.debian.org
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on schroeder.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bwa 0.5.9-2 (sparc) 12 Mar 2011 08:36 ║
+║ bwa 0.5.10-1 (sparc) 14 Nov 2011 04:39 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bwa
-Version: 0.5.9-2
+Version: 0.5.10-1
+Source Version: 0.5.10-1
Architecture: sparc
-Chroot Build Dir: /var/lib/schroot/mount/sid-sparc-sbuild-efe7e6ae-cf48-40bd-b789-1fc0f159c3ed/build/buildd-bwa_0.5.9-2-sparc-0heD8g
-Start Time: 20110312-0836
-Get:1 http://debian.carnet.hr unstable InRelease [147 kB]
-Get:2 http://incoming.debian.org unstable InRelease [147 kB]
-Get:3 http://debian.carnet.hr unstable/main Sources [4196 kB]
-Get:4 http://debian.carnet.hr unstable/contrib Sources [38.7 kB]
+Get:1 http://ftp.hr.debian.org unstable InRelease [146 kB]
+Get:2 http://incoming.debian.org unstable InRelease [146 kB]
+Get:3 http://ftp.hr.debian.org unstable/main Sources [5923 kB]
+Get:4 http://ftp.hr.debian.org unstable/contrib Sources [57.2 kB]
+Get:5 http://ftp.hr.debian.org unstable/non-free Sources [103 kB]
Ign http://incoming.debian.org InRelease
-Get:5 http://incoming.debian.org Release.gpg [835 B]
-Get:6 http://incoming.debian.org unstable/main Sources [4193 kB]
-Get:7 http://debian.carnet.hr unstable/non-free Sources [81.8 kB]
-Get:8 http://debian.carnet.hr unstable/main sparc Packages [6869 kB]
-Get:9 http://debian.carnet.hr unstable/contrib sparc Packages [51.6 kB]
-Ign http://debian.carnet.hr unstable/contrib TranslationIndex
-Get:10 http://debian.carnet.hr unstable/main TranslationIndex [2232 B]
-Get:11 http://incoming.debian.org unstable/contrib Sources [38.7 kB]
-Get:12 http://incoming.debian.org unstable/non-free Sources [81.8 kB]
-Get:13 http://incoming.debian.org unstable/main sparc Packages [6870 kB]
-Ign http://debian.carnet.hr unstable/contrib Translation-en
-Get:14 http://incoming.debian.org unstable/contrib sparc Packages [51.6 kB]
+Get:6 http://incoming.debian.org Release.gpg [836 B]
+Get:7 http://ftp.hr.debian.org unstable/main sparc Packages [7670 kB]
+Get:8 http://incoming.debian.org unstable/main Sources [5923 kB]
+Get:9 http://ftp.hr.debian.org unstable/contrib sparc Packages [55.8 kB]
+Ign http://ftp.hr.debian.org unstable/contrib TranslationIndex
+Get:10 http://ftp.hr.debian.org unstable/main TranslationIndex [2045 B]
+Ign http://ftp.hr.debian.org unstable/contrib Translation-en
+Get:11 http://incoming.debian.org unstable/contrib Sources [57.2 kB]
+Get:12 http://incoming.debian.org unstable/non-free Sources [103 kB]
+Get:13 http://incoming.debian.org unstable/main sparc Packages [7670 kB]
+Get:14 http://incoming.debian.org unstable/contrib sparc Packages [55.8 kB]
Ign http://incoming.debian.org unstable/contrib TranslationIndex
-Get:15 http://incoming.debian.org unstable/main TranslationIndex [2232 B]
+Get:15 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
Get:16 http://incoming.debian.org Release [1604 B]
-Get:17 http://incoming.debian.org Sources [36.1 kB]
-Get:18 http://incoming.debian.org Packages [486 kB]
+Get:17 http://incoming.debian.org Sources [37.6 kB]
+Get:18 http://incoming.debian.org Packages [341 kB]
Ign http://incoming.debian.org unstable/contrib Translation-en
Ign http://incoming.debian.org Translation-en
-Fetched 23.3 MB in 24s (946 kB/s)
+Fetched 28.3 MB in 29s (973 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -82,29 +84,79 @@ Reading package lists...
Building dependency tree...
Reading state information...
NOTICE: 'bwa' packaging is maintained in the 'Git' version control system at:
-git://git.debian.org/git/debian-med/bwa.git
-Need to get 119 kB of source archives.
-Get:1 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (dsc) [1245 B]
-Get:2 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (tar) [114 kB]
-Get:3 http://incoming.debian.org/buildd-unstable/ bwa 0.5.9-2 (diff) [3828 B]
-Fetched 119 kB in 0s (122 kB/s)
+git://git.debian.org/debian-med/bwa.git
+Need to get 126 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (dsc) [1929 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (tar) [120 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bwa 0.5.10-1 (diff) [4113 B]
+Fetched 126 kB in 1s (91.9 kB/s)
Download complete and in download only mode
Check arch
──────────
-** Using build dependencies supplied by package:
-Build-Depends: debhelper (>= 8), zlib1g-dev
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install build dependencies (internal resolver) │
+│ Install core build dependencies (internal resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
-Checking for already installed source dependencies...
+Build-Depends: build-essential, fakeroot
+Checking for already installed dependencies...
+build-essential: already installed (11.5)
+fakeroot: already installed (1.18.1-1)
+Checking for dependency conflicts...
+Installing positive dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 11 not upgraded.
+Removing negative dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 11 not upgraded.
+Checking correctness of dependencies...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install bwa build dependencies (internal 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, libc6-dev-sparc64, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 8), zlib1g-dev
+Checking for already installed dependencies...
+base-files: already installed (6.5)
+base-passwd: already installed (3.5.23)
+bash: already installed (4.1-3)
+coreutils: already installed (8.13-3)
+dash: already installed (0.5.7-2)
+debianutils: already installed (4.0.4)
+diffutils: already installed (1:3.2-1)
+dpkg: already installed (1.16.1.1)
+e2fsprogs: already installed (1.42~WIP-2011-10-16-1)
+findutils: already installed (4.4.2-1+b2)
+grep: already installed (2.9-2)
+gzip: already installed (1.4-1)
+hostname: already installed (3.06)
+ncurses-base: already installed (5.9-4)
+ncurses-bin: already installed (5.9-4)
+perl-base: already installed (5.12.4-6)
+sed: already installed (4.2.1-9)
+login: already installed (1:4.1.4.2+svn3283-3)
+sysvinit-utils: already installed (2.88dsf-13.13)
+sysvinit: already installed (2.88dsf-13.13)
+tar: already installed (1.26-2)
+bsdutils: already installed (1:2.19.1-5)
+mount: already installed (2.19.1-5)
+util-linux: already installed (2.19.1-5)
+libc6-dev: already installed (2.13-21)
+libc6-dev-sparc64: already installed (2.13-21)
+gcc: already installed (4:4.6.1-3 >= 4:4.4.3 is satisfied)
+g++: already installed (4:4.6.1-3 >= 4:4.4.3 is satisfied)
+make: already installed (3.81-8.1)
+dpkg-dev: already installed (1.16.1.1 >= 1.13.5 is satisfied)
debhelper: missing
-Using default version 8.1.2
+Using default version 8.9.9
zlib1g-dev: missing
-Checking for source dependency conflicts...
+Checking for dependency conflicts...
Installing positive dependencies: debhelper zlib1g-dev
Reading package lists...
Building dependency tree...
@@ -123,93 +175,97 @@ The following NEW packages will be installed:
bsdmainutils debhelper file gettext gettext-base groff-base html2text
intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1
libunistring0 libxml2 man-db po-debconf zlib1g-dev
-0 upgraded, 18 newly installed, 0 to remove and 12 not upgraded.
-Need to get 9127 kB of archives.
-After this operation, 27.8 MB of additional disk space will be used.
-Get:1 http://debian.carnet.hr/debian/ unstable/main bsdmainutils sparc 8.2.2 [205 kB]
-Get:2 http://debian.carnet.hr/debian/ unstable/main groff-base sparc 1.21-4 [1155 kB]
-Get:3 http://debian.carnet.hr/debian/ unstable/main libpipeline1 sparc 1.1.0-1 [35.0 kB]
-Get:4 http://debian.carnet.hr/debian/ unstable/main man-db sparc 2.5.9-4 [1007 kB]
-Get:5 http://debian.carnet.hr/debian/ unstable/main libmagic1 sparc 5.04-5 [239 kB]
-Get:6 http://debian.carnet.hr/debian/ unstable/main file sparc 5.04-5 [49.5 kB]
-Get:7 http://debian.carnet.hr/debian/ unstable/main gettext-base sparc 0.18.1.1-3 [140 kB]
-Get:8 http://debian.carnet.hr/debian/ unstable/main libpcre3 sparc 8.12-3 [265 kB]
-Get:9 http://debian.carnet.hr/debian/ unstable/main libxml2 sparc 2.7.8.dfsg-2 [840 kB]
-Get:10 http://debian.carnet.hr/debian/ unstable/main html2text sparc 1.3.2a-15 [100 kB]
-Get:11 http://debian.carnet.hr/debian/ unstable/main libglib2.0-0 sparc 2.28.1-1+b1 [1546 kB]
-Get:12 http://debian.carnet.hr/debian/ unstable/main libcroco3 sparc 0.6.2-1 [119 kB]
-Get:13 http://debian.carnet.hr/debian/ unstable/main libunistring0 sparc 0.9.3-3 [424 kB]
-Get:14 http://debian.carnet.hr/debian/ unstable/main gettext sparc 0.18.1.1-3 [2006 kB]
-Get:15 http://debian.carnet.hr/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
-Get:16 http://debian.carnet.hr/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
-Get:17 http://debian.carnet.hr/debian/ unstable/main debhelper all 8.1.2 [553 kB]
-Get:18 http://debian.carnet.hr/debian/ unstable/main zlib1g-dev sparc 1:1.2.3.4.dfsg-3 [189 kB]
+0 upgraded, 18 newly installed, 0 to remove and 11 not upgraded.
+Need to get 8985 kB of archives.
+After this operation, 25.5 MB of additional disk space will be used.
+Get:1 http://ftp.hr.debian.org/debian/ unstable/main libpipeline1 sparc 1.2.0-5 [35.0 kB]
+Get:2 http://ftp.hr.debian.org/debian/ unstable/main libpcre3 sparc 8.12-4 [231 kB]
+Get:3 http://ftp.hr.debian.org/debian/ unstable/main libglib2.0-0 sparc 2.28.8-1 [1508 kB]
+Get:4 http://ftp.hr.debian.org/debian/ unstable/main libxml2 sparc 2.7.8.dfsg-5 [816 kB]
+Get:5 http://ftp.hr.debian.org/debian/ unstable/main libcroco3 sparc 0.6.2-2 [106 kB]
+Get:6 http://ftp.hr.debian.org/debian/ unstable/main libunistring0 sparc 0.9.3-5 [416 kB]
+Get:7 http://ftp.hr.debian.org/debian/ unstable/main bsdmainutils sparc 8.2.3 [206 kB]
+Get:8 http://ftp.hr.debian.org/debian/ unstable/main groff-base sparc 1.21-6 [1155 kB]
+Get:9 http://ftp.hr.debian.org/debian/ unstable/main man-db sparc 2.6.0.2-3 [997 kB]
+Get:10 http://ftp.hr.debian.org/debian/ unstable/main libmagic1 sparc 5.09-2 [245 kB]
+Get:11 http://ftp.hr.debian.org/debian/ unstable/main file sparc 5.09-2 [51.5 kB]
+Get:12 http://ftp.hr.debian.org/debian/ unstable/main gettext-base sparc 0.18.1.1-5 [140 kB]
+Get:13 http://ftp.hr.debian.org/debian/ unstable/main html2text sparc 1.3.2a-15 [100 kB]
+Get:14 http://ftp.hr.debian.org/debian/ unstable/main gettext sparc 0.18.1.1-5 [1983 kB]
+Get:15 http://ftp.hr.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get:16 http://ftp.hr.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get:17 http://ftp.hr.debian.org/debian/ unstable/main debhelper all 8.9.9 [552 kB]
+Get:18 http://ftp.hr.debian.org/debian/ unstable/main zlib1g-dev sparc 1:1.2.3.4.dfsg-3 [189 kB]
debconf: delaying package configuration, since apt-utils is not installed
-Fetched 9127 kB in 7s (1267 kB/s)
-Selecting previously deselected package bsdmainutils.
-(Reading database ... 10479 files and directories currently installed.)
-Unpacking bsdmainutils (from .../bsdmainutils_8.2.2_sparc.deb) ...
-Selecting previously deselected package groff-base.
-Unpacking groff-base (from .../groff-base_1.21-4_sparc.deb) ...
-Selecting previously deselected package libpipeline1.
-Unpacking libpipeline1 (from .../libpipeline1_1.1.0-1_sparc.deb) ...
-Selecting previously deselected package man-db.
-Unpacking man-db (from .../man-db_2.5.9-4_sparc.deb) ...
-Selecting previously deselected package libmagic1.
-Unpacking libmagic1 (from .../libmagic1_5.04-5_sparc.deb) ...
-Selecting previously deselected package file.
-Unpacking file (from .../archives/file_5.04-5_sparc.deb) ...
-Selecting previously deselected package gettext-base.
-Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_sparc.deb) ...
-Selecting previously deselected package libpcre3.
-Unpacking libpcre3 (from .../libpcre3_8.12-3_sparc.deb) ...
-Selecting previously deselected package libxml2.
-Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_sparc.deb) ...
-Selecting previously deselected package html2text.
+Fetched 8985 kB in 7s (1232 kB/s)
+Selecting previously unselected package libpipeline1.
+(Reading database ... 10914 files and directories currently installed.)
+Unpacking libpipeline1 (from .../libpipeline1_1.2.0-5_sparc.deb) ...
+Selecting previously unselected package libpcre3.
+Unpacking libpcre3 (from .../libpcre3_8.12-4_sparc.deb) ...
+Selecting previously unselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.8-1_sparc.deb) ...
+Selecting previously unselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-5_sparc.deb) ...
+Selecting previously unselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-2_sparc.deb) ...
+Selecting previously unselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-5_sparc.deb) ...
+Selecting previously unselected package bsdmainutils.
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.3_sparc.deb) ...
+Selecting previously unselected package groff-base.
+Unpacking groff-base (from .../groff-base_1.21-6_sparc.deb) ...
+Selecting previously unselected package man-db.
+Unpacking man-db (from .../man-db_2.6.0.2-3_sparc.deb) ...
+Selecting previously unselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.09-2_sparc.deb) ...
+Selecting previously unselected package file.
+Unpacking file (from .../archives/file_5.09-2_sparc.deb) ...
+Selecting previously unselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-5_sparc.deb) ...
+Selecting previously unselected package html2text.
Unpacking html2text (from .../html2text_1.3.2a-15_sparc.deb) ...
-Selecting previously deselected package libglib2.0-0.
-Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.1-1+b1_sparc.deb) ...
-Selecting previously deselected package libcroco3.
-Unpacking libcroco3 (from .../libcroco3_0.6.2-1_sparc.deb) ...
-Selecting previously deselected package libunistring0.
-Unpacking libunistring0 (from .../libunistring0_0.9.3-3_sparc.deb) ...
-Selecting previously deselected package gettext.
-Unpacking gettext (from .../gettext_0.18.1.1-3_sparc.deb) ...
-Selecting previously deselected package intltool-debian.
+Selecting previously unselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-5_sparc.deb) ...
+Selecting previously unselected package intltool-debian.
Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ...
-Selecting previously deselected package po-debconf.
+Selecting previously unselected package po-debconf.
Unpacking po-debconf (from .../po-debconf_1.0.16+nmu1_all.deb) ...
-Selecting previously deselected package debhelper.
-Unpacking debhelper (from .../debhelper_8.1.2_all.deb) ...
-Selecting previously deselected package zlib1g-dev.
+Selecting previously unselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.9.9_all.deb) ...
+Selecting previously unselected package zlib1g-dev.
Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_sparc.deb) ...
-Setting up bsdmainutils (8.2.2) ...
+Setting up libpipeline1 (1.2.0-5) ...
+Setting up libpcre3 (8.12-4) ...
+Setting up libglib2.0-0 (2.28.8-1) ...
+No schema files found: doing nothing.
+Setting up libxml2 (2.7.8.dfsg-5) ...
+Setting up libcroco3 (0.6.2-2) ...
+Setting up libunistring0 (0.9.3-5) ...
+Setting up bsdmainutils (8.2.3) ...
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 man-db (2.5.9-4) ...
+Setting up groff-base (1.21-6) ...
+Setting up man-db (2.6.0.2-3) ...
Building database of manual pages ...
-Setting up libmagic1 (5.04-5) ...
-Setting up file (5.04-5) ...
-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 libmagic1 (5.09-2) ...
+Setting up file (5.09-2) ...
+Setting up gettext-base (0.18.1.1-5) ...
Setting up html2text (1.3.2a-15) ...
-Setting up libglib2.0-0 (2.28.1-1+b1) ...
-No schema files found: doing nothing.
-Setting up libcroco3 (0.6.2-1) ...
-Setting up libunistring0 (0.9.3-3) ...
-Setting up gettext (0.18.1.1-3) ...
+Setting up gettext (0.18.1.1-5) ...
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 debhelper (8.9.9) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
Removing negative dependencies:
-Checking correctness of source dependencies...
-Kernel: Linux 2.6.32-bpo.5-sparc64-smp sparc (sparc64)
-Toolchain package versions: libc6-dev_2.11.2-11 dpkg-dev_1.15.8.10 linux-libc-dev_2.6.37-2 gcc-4.4_4.4.5-13 g++-4.4_4.4.5-13 binutils_2.21.0.20110302-1 libstdc++6-4.4-dev_4.4.5-13 libstdc++6_4.5.2-4
-Package versions: apt_0.8.11.5 base-files_6.1 base-passwd_3.5.22+b1 bash_4.1-3 binutils_2.21.0.20110302-1 bsdmainutils_8.2.2 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 coreutils_8.5-1 cpp_4:4.4.5-3 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+b2 g++_4:4.4.5-3 g++-4.4_4.4.5-13 gcc_4:4.4.5-3 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_2.11.2-11 libc-dev-bin_2.11.2-11 libc6_2.11.2-11 libc6-dev_2.11.2-11 libc6-dev-sparc64_2.11.2-11 libc6-sparc64_2.11.2-11 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libdb4.7_4.7.25-12 libdb4.8_4.8.30-4 libdpkg-perl_1.15.8.10 libgc1c2_1:7.1-7 libgcc1_1:4.5.2-4 libgdbm3_1.8.3-9+b1 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+b1 liblzma2_5.0.0-2 libmagic1_5.04-5 libmpfr4_3.0.0-7 libncurses5_5.8-1 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 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+b1 libtext-iconv-perl_1.7-2+b1 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+b1 mount_2.17.2-9.1 ncurses-base_5.8-1 ncurses-bin_5.8-1 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 sudo_1.7.4p6-1 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
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 11 not upgraded.
+Checking correctness of dependencies...
+Kernel: Linux 2.6.32-5-sparc64-smp sparc (sparc64)
+Toolchain package versions: binutils_2.21.90.20111025-1 dpkg-dev_1.16.1.1 g++-4.6_4.6.2-4 gcc-4.6_4.6.2-4 libc6-dev_2.13-21 libstdc++6_4.6.2-4 libstdc++6-4.6-dev_4.6.2-4 linux-libc-dev_3.0.0-6
+Package versions: apt_0.8.15.9 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.90.20111025-1 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 coreutils_8.13-3 cpp_4:4.6.1-3 cpp-4.6_4.6.2-4 dash_0.5.7-2 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.9 debian-archive-keyring_2010.08.28 debianutils_4.0.4 diffutils_1:3.2-1 dpkg_1.16.1.1 dpkg-dev_1.16.1.1 e2fslibs_1.42~WIP-2011-10-16-1 e2fsprogs_1.42~WIP-2011-10-16-1 fakeroot_1.18.1-1 file_5.09-2 findutils_4.4.2-1+b2 g++_4:4.6.1-3 g++-4.6_4.6.2-4 gcc_4:4.6.1-3 gcc-4.6_4.6.2-4 gcc-4.6-base_4.6.2-4 gettext_0.18.1.1-5 gettext-base_0.18.1.1-5 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.13 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-4 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbz2-1.0_1.0.5-7 libc-bin_2.13-21 libc-dev-bin_2.13-21 libc6_2.13-21 libc6-dev_2.13-21 libc6-dev-sparc64_2.13-21 libc6-sparc64_2.13-21 libcomerr2_1.42~WIP-2011-10-16-1 libcroco3_0.6.2-2 libdb5.1_5.1.25-11 libdpkg-perl_1.16.1.1 libgc1c2_1:7.1-8 libgcc1_1:4.6.2-4 libgdbm3_1.8.3-10 libglib2.0-0_2.28.8-1 libgmp10_2:5.0.2+dfsg-2 libgomp1_4.6.2-4 liblzma5_5.1.1alpha+20110809-3 libmagic1_5.09-2 libmount1_2.19.1-5 libmpc2_0.9-4 libmpfr4_3.1.0-2 libncurses5_5.9-4 libpam-modules_1.1.3-5 libpam-modules-bin_1.1.3-5 libpam-runtime_1.1.3-5 libpam0g_1.1.3-5 libpcre3_8.12-4 libpipeline1_1.2.0-5 libreadline6_6.2-7 libselinux1_2.1.0-4 libsepol1_2.1.0-1.1 libss2_1.42~WIP-2011-10-16-1 libstdc++6_4.6.2-4 libstdc++6-4.6-dev_4.6.2-4 libtimedate-perl_1.2000-1 libtinfo5_5.9-4 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-5 linux-libc-dev_3.0.0-6 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-3 mawk_1.3.3-16 mount_2.19.1-5 multiarch-support_2.13-21 ncurses-base_5.9-4 ncurses-bin_5.9-4 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-6 perl-base_5.12.4-6 perl-modules_5.12.4-6 po-debconf_1.0.16+nmu1 readline-common_6.2-7 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.3p1-1 sysv-rc_2.88dsf-13.13 sysvinit_2.88dsf-13.13 sysvinit-utils_2.88dsf-13.13 tar_1.26-2 tzdata_2011n-1 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-3 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -219,14 +275,13 @@ Package versions: apt_0.8.11.5 base-files_6.1 base-passwd_3.5.22+b1 bash_4.1-3 b
Unpack source
─────────────
-dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
-gpgv: Signature made Fri Mar 11 21:59:41 2011 UTC using DSA key ID C09FD35A
+gpgv: Signature made Mon Nov 14 04:21:35 2011 UTC using RSA key ID 2295D502
gpgv: Can't check signature: public key not found
-dpkg-source: warning: failed to verify signature on ./bwa_0.5.9-2.dsc
-dpkg-source: info: extracting bwa in bwa-0.5.9
-dpkg-source: info: unpacking bwa_0.5.9.orig.tar.bz2
-dpkg-source: info: unpacking bwa_0.5.9-2.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bwa_0.5.10-1.dsc
+dpkg-source: info: extracting bwa in bwa-0.5.10
+dpkg-source: info: unpacking bwa_0.5.10.orig.tar.bz2
+dpkg-source: info: unpacking bwa_0.5.10-1.debian.tar.gz
Check disc space
────────────────
@@ -235,42 +290,43 @@ Check disc space
dpkg-buildpackage
─────────────────
-dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
-dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
-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 bwa
-dpkg-buildpackage: source version 0.5.9-2
- dpkg-source --before-build bwa-0.5.9
+dpkg-buildpackage: source version 0.5.10-1
+ dpkg-source --before-build bwa-0.5.10
dpkg-buildpackage: host architecture sparc
- /usr/bin/fakeroot debian/rules clean
+ fakeroot debian/rules clean
dh clean
dh_testdir
dh_auto_clean
-make[1]: Entering directory `/build/buildd-bwa_0.5.9-2-sparc-0heD8g/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-sparc-0heD8g/bwa-0.5.9'
+make[1]: Entering directory `/build/buildd-bwa_0.5.10-1-sparc-wsjLJ0/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-sparc-wsjLJ0/bwa-0.5.10'
rm -f gmon.out *.o a.out bwa *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-sparc-0heD8g/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-sparc-0heD8g/bwa-0.5.9/bwt_gen'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-sparc-wsjLJ0/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-sparc-wsjLJ0/bwa-0.5.10/bwt_gen'
rm -f gmon.out *.o a.out *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-sparc-0heD8g/bwa-0.5.9/bwt_gen'
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9-2-sparc-0heD8g/bwa-0.5.9'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-sparc-wsjLJ0/bwa-0.5.10/bwt_gen'
+make[1]: Leaving directory `/build/buildd-bwa_0.5.10-1-sparc-wsjLJ0/bwa-0.5.10'
dh_clean
debian/rules build
dh build
dh_testdir
dh_auto_configure
dh_auto_build
-make[1]: Entering directory `/build/buildd-bwa_0.5.9-2-sparc-0heD8g/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-sparc-0heD8g/bwa-0.5.9'
+make[1]: Entering directory `/build/buildd-bwa_0.5.10-1-sparc-wsjLJ0/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-sparc-wsjLJ0/bwa-0.5.10'
make[2]: Nothing to be done for `lib'.
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-sparc-0heD8g/bwa-0.5.9'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9-2-sparc-0heD8g/bwa-0.5.9/bwt_gen'
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-sparc-wsjLJ0/bwa-0.5.10'
+make[2]: Entering directory `/build/buildd-bwa_0.5.10-1-sparc-wsjLJ0/bwa-0.5.10/bwt_gen'
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt_gen.c -o bwt_gen.o
+bwt_gen.c: In function 'BWTIncBuildRelativeRank':
+bwt_gen.c:824:15: warning: variable 'oldInverseSa0RelativeRank' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncMergeBwt':
+bwt_gen.c:899:15: warning: variable 'bitsInWordMinusBitPerChar' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD QSufSort.c -o QSufSort.o
-ar -cru libbwtgen.a bwt_gen.o QSufSort.o
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9-2-sparc-0heD8g/bwa-0.5.9/bwt_gen'
+QSufSort.c: In function 'QSufSortSuffixSort':
+QSufSort.c:89:6: warning: variable 'maxNumInputSymbol' set but not used [-Wunused-but-set-variable]
+ar -scru libbwtgen.a bwt_gen.o QSufSort.o
+make[2]: Leaving directory `/build/buildd-bwa_0.5.10-1-sparc-wsjLJ0/bwa-0.5.10/bwt_gen'
gcc -c -g -Wall -O2 -DHAVE_PTHREAD utils.c -o utils.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt.c -o bwt.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtio.c -o bwtio.o
@@ -279,25 +335,37 @@ gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtgap.c -o bwtgap.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD is.c -o is.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bntseq.c -o bntseq.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtmisc.c -o bwtmisc.o
+bwtmisc.c: In function 'bwa_pac_rev_core':
+bwtmisc.c:163:20: warning: variable 'j' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtindex.c -o bwtindex.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD stdaln.c -o stdaln.o
+stdaln.c: In function 'aln_local_core':
+stdaln.c:545:25: warning: variable 'b' set but not used [-Wunused-but-set-variable]
+stdaln.c: In function 'aln_extend_core':
+stdaln.c:865:16: warning: variable 'tmp_len' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD simple_dp.c -o simple_dp.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwaseqio.c -o bwaseqio.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwase.c -o bwase.o
+bwase.c: In function 'bwa_aln2seq_core':
+bwase.c:75:15: warning: variable 'k' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_print_sam1':
+bwase.c:452:17: warning: variable 'm_is_N' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwape.c -o bwape.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD kstring.c -o kstring.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD cs2nt.c -o cs2nt.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_core.c -o bwtsw2_core.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_main.c -o bwtsw2_main.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_aux.c -o bwtsw2_aux.o
+bwtsw2_aux.c: In function 'gen_cigar':
+bwtsw2_aux.c:193:7: warning: variable 'score' set but not used [-Wunused-but-set-variable]
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwt_lite.c -o bwt_lite.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_chain.c -o bwtsw2_chain.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD bamlite.c -o bamlite.o
gcc -c -g -Wall -O2 -DHAVE_PTHREAD main.c -o main.o
gcc -g -Wall -O2 -DHAVE_PTHREAD utils.o bwt.o bwtio.o bwtaln.o bwtgap.o is.o bntseq.o bwtmisc.o bwtindex.o stdaln.o simple_dp.o bwaseqio.o bwase.o bwape.o kstring.o cs2nt.o bwtsw2_core.o bwtsw2_main.o bwtsw2_aux.o bwt_lite.o bwtsw2_chain.o bamlite.o main.o -o bwa -lm -lz -lpthread -Lbwt_gen -lbwtgen
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9-2-sparc-0heD8g/bwa-0.5.9'
+make[1]: Leaving directory `/build/buildd-bwa_0.5.10-1-sparc-wsjLJ0/bwa-0.5.10'
dh_auto_test
- /usr/bin/fakeroot debian/rules binary-arch
+ fakeroot debian/rules binary-arch
dh binary-arch
dh_testroot -a
dh_prep -a
@@ -325,7 +393,9 @@ dh binary-arch
dh_installudev -a
dh_installwm -a
dh_installxfonts -a
+ dh_installgsettings -a
dh_bugfiles -a
+ dh_ucf -a
dh_lintian -a
dh_gconf -a
dh_icons -a
@@ -342,57 +412,61 @@ dh binary-arch
dpkg-gencontrol: warning: package bwa: unused substitution variable ${perl:Depends}
dh_md5sums -a
dh_builddeb -a
-dpkg-deb: building package `bwa' in `../bwa_0.5.9-2_sparc.deb'.
- dpkg-genchanges -B -msparc Build Daemon (lebrun) <buildd_sparc-lebrun at buildd.debian.org> >../bwa_0.5.9-2_sparc.changes
+dpkg-deb: building package `bwa' in `../bwa_0.5.10-1_sparc.deb'.
+ dpkg-genchanges -B -msparc Build Daemon (schroeder) <buildd_sparc-schroeder at buildd.debian.org> >../bwa_0.5.10-1_sparc.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 bwa-0.5.9
+ dpkg-source --after-build bwa-0.5.10
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110312-0839
+Build finished at 20111114-0441
-bwa_0.5.9-2_sparc.changes:
+bwa_0.5.10-1_sparc.changes:
Format: 1.8
-Date: Fri, 11 Mar 2011 22:49:07 +0100
+Date: Mon, 14 Nov 2011 13:12:50 +0900
Source: bwa
Binary: bwa
Architecture: sparc
-Version: 0.5.9-2
+Version: 0.5.10-1
Distribution: sid
Urgency: low
-Maintainer: sparc Build Daemon (lebrun) <buildd_sparc-lebrun at buildd.debian.org>
-Changed-By: Andreas Tille <tille at debian.org>
+Maintainer: sparc Build Daemon (schroeder) <buildd_sparc-schroeder at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
Description:
bwa - Burrows-Wheeler Aligner
Changes:
- bwa (0.5.9-2) unstable; urgency=low
+ bwa (0.5.10-1) unstable; urgency=low
.
- * Watchfile should not regard rc releases.
- * Drop cdbs in favour of dh
+ [a01f6ca] New upstream release.
+ [6d7bc7f] Conforms with Debian Policy version 3.9.2.
+ [125c73d] Corrected Vcs-Git URL.
+ [37f43c9] Normalised machine-readable copyright file with config-edit.
+ [4e2e0d0] Distribute xa2multi.pl in ‘usr/share/bwa’.
+ [b106d64] Removed redundant ChangeLog file, already installed by Debhelper.
Checksums-Sha1:
- c66ab67d88a7bb7079115f810118e9c13b23c108 142286 bwa_0.5.9-2_sparc.deb
+ 0943630080ef37c30733df589a885e4ffb3d97bc 141136 bwa_0.5.10-1_sparc.deb
Checksums-Sha256:
- 91c3dd8d099c0502eab8a357e804e444d5ecc7cf3e420394c449548c27972f8b 142286 bwa_0.5.9-2_sparc.deb
+ af5510c28156a8e8780e30326d95ec5226f0aea16d84eb8aa51db20916f794c8 141136 bwa_0.5.10-1_sparc.deb
Files:
- 79e5e4505e4f98f29d86b0ad202a99cf 142286 science optional bwa_0.5.9-2_sparc.deb
+ f8e30a9ce31d77c9a17077c0ff97fc08 141136 science optional bwa_0.5.10-1_sparc.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bwa_0.5.9-2_sparc.deb
-─────────────────────
+bwa_0.5.10-1_sparc.deb
+──────────────────────
new debian package, version 2.0.
- size 142286 bytes: control archive= 972 bytes.
- 774 bytes, 17 lines control
- 615 bytes, 10 lines md5sums
+ size 141136 bytes: control archive= 991 bytes.
+ 775 bytes, 17 lines control
+ 610 bytes, 10 lines md5sums
Package: bwa
- Version: 0.5.9-2
+ Version: 0.5.10-1
Architecture: sparc
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 316
+ Installed-Size: 274
Depends: libc6 (>= 2.7), zlib1g (>= 1:1.1.4)
Suggests: samtools
Section: science
@@ -406,25 +480,25 @@ bwa_0.5.9-2_sparc.deb
to around 100 kbp. Both algorithms do gapped alignment. They are usually more
accurate and faster on queries with low error rates.
-drwxr-xr-x root/root 0 2011-03-12 08:39 ./
-drwxr-xr-x root/root 0 2011-03-12 08:39 ./usr/
-drwxr-xr-x root/root 0 2011-03-12 08:39 ./usr/bin/
--rwxr-xr-x root/root 198784 2011-03-12 08:39 ./usr/bin/bwa
-drwxr-xr-x root/root 0 2011-03-12 08:39 ./usr/share/
-drwxr-xr-x root/root 0 2011-03-12 08:39 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-03-12 08:39 ./usr/share/doc/bwa/
--rw-r--r-- root/root 5857 2011-01-25 00:00 ./usr/share/doc/bwa/NEWS.gz
--rw-r--r-- root/root 2676 2011-02-08 07:09 ./usr/share/doc/bwa/copyright
--rw-r--r-- root/root 17912 2011-01-25 00:00 ./usr/share/doc/bwa/ChangeLog.gz
--rw-r--r-- root/root 17912 2011-01-25 00:00 ./usr/share/doc/bwa/changelog.gz
--rw-r--r-- root/root 634 2011-01-25 00:00 ./usr/share/doc/bwa/README
--rw-r--r-- root/root 957 2011-03-11 21:54 ./usr/share/doc/bwa/changelog.Debian.gz
-drwxr-xr-x root/root 0 2011-03-12 08:39 ./usr/share/man/
-drwxr-xr-x root/root 0 2011-03-12 08:39 ./usr/share/man/man1/
--rw-r--r-- root/root 7554 2011-03-12 08:39 ./usr/share/man/man1/bwa.1.gz
-drwxr-xr-x root/root 0 2011-03-12 08:39 ./usr/share/bwa/
--rwxr-xr-x root/root 3176 2011-01-25 00:00 ./usr/share/bwa/solid2fastq.pl
--rwxr-xr-x root/root 616 2011-01-25 00:00 ./usr/share/bwa/qualfa2fq.pl
+drwxr-xr-x root/root 0 2011-11-14 04:41 ./
+drwxr-xr-x root/root 0 2011-11-14 04:41 ./usr/
+drwxr-xr-x root/root 0 2011-11-14 04:41 ./usr/bin/
+-rwxr-xr-x root/root 199156 2011-11-14 04:41 ./usr/bin/bwa
+drwxr-xr-x root/root 0 2011-11-14 04:41 ./usr/share/
+drwxr-xr-x root/root 0 2011-11-14 04:41 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-11-14 04:41 ./usr/share/man/man1/
+-rw-r--r-- root/root 7554 2011-11-14 04:41 ./usr/share/man/man1/bwa.1.gz
+drwxr-xr-x root/root 0 2011-11-14 04:41 ./usr/share/bwa/
+-rwxr-xr-x root/root 730 2011-11-13 01:07 ./usr/share/bwa/xa2multi.pl
+-rwxr-xr-x root/root 616 2011-11-13 01:07 ./usr/share/bwa/qualfa2fq.pl
+-rwxr-xr-x root/root 3176 2011-11-13 01:07 ./usr/share/bwa/solid2fastq.pl
+drwxr-xr-x root/root 0 2011-11-14 04:41 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-11-14 04:41 ./usr/share/doc/bwa/
+-rw-r--r-- root/root 17912 2011-11-13 01:07 ./usr/share/doc/bwa/changelog.gz
+-rw-r--r-- root/root 2740 2011-11-14 04:09 ./usr/share/doc/bwa/copyright
+-rw-r--r-- root/root 634 2011-11-13 01:07 ./usr/share/doc/bwa/README
+-rw-r--r-- root/root 1159 2011-11-14 04:16 ./usr/share/doc/bwa/changelog.Debian.gz
+-rw-r--r-- root/root 5857 2011-11-13 01:08 ./usr/share/doc/bwa/NEWS.gz
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -433,9 +507,31 @@ drwxr-xr-x root/root 0 2011-03-12 08:39 ./usr/share/bwa/
Built successfully
────────────────────────────────────────────────────────────────────────────────
-Purging /var/lib/schroot/mount/sid-sparc-sbuild-efe7e6ae-cf48-40bd-b789-1fc0f159c3ed/build/buildd-bwa_0.5.9-2-sparc-0heD8g
-Not removing build depends: cloned chroot in use
-────────────────────────────────────────────────────────────────────────────────
-Finished at 20110312-0839
-Build needed 00:02:40, 2480k disc space
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /var/lib/schroot/mount/sid-sparc-sbuild-9410175d-7016-4c1d-bc79-7a31899e6bab/build/buildd-bwa_0.5.10-1-sparc-wsjLJ0
+Not cleaning session: cloned chroot in use
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Architecture: sparc
+Build-Space: 2680
+Build-Time: 64
+Distribution: sid
+Install-Time: 52
+Job: bwa_0.5.10-1
+Package: bwa
+Package-Time: 165
+Source-Version: 0.5.10-1
+Space: 2680
+Status: successful
+Version: 0.5.10-1
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20111114-0441
+Build needed 00:02:45, 2680k disc space
+Signature with key '2BF501AB' requested:
--
Burrows-Wheeler Aligner
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