[med-svn] [SCM] bwa branch, experimental-meta, updated. experimental-meta/0.6.0-2-1-gf1ddd57
Charles Plessy
plessy at debian.org
Wed Nov 30 11:10:00 UTC 2011
The following commit has been merged in the experimental-meta branch:
commit f1ddd57b1b6201f0bb3b675a94920c73393e558e
Author: Charles Plessy <plessy at debian.org>
Date: Wed Nov 30 19:16:06 2011 +0900
Build logs for 0.6.0-2.
diff --git a/armel.log b/armel.log
index 9b62879..57e0715 100644
--- a/armel.log
+++ b/armel.log
@@ -1,91 +1,93 @@
-From buildd at alain.debian.org Thu Jan 20 13:16:15 2011
-Return-path: <buildd at alain.debian.org>
-Received: from kokkonen.debian.org ([2001:41b8:202:deb:216:35ff:fec4:6340])
+From buildd at alwyn.debian.org Tue Nov 22 03:24:34 2011
+Return-path: <buildd at alwyn.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 alain.debian.org>)
- id 1PfuN4-00085e-S2
- for logs at buildd.debian.org; Thu, 20 Jan 2011 13:16:15 +0000
-Received: from alain.islands.arm.com ([217.140.96.58] helo=alain.debian.org)
+ (Exim 4.72) (envelope-from <buildd at alwyn.debian.org>)
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+ for logs at buildd.debian.org; Tue, 22 Nov 2011 03:24:34 +0000
+Received: from alwyn.islands.arm.com ([217.140.96.59] helo=alwyn.debian.org)
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
- CN=alain.debian.org, EMAIL=hostmaster at alain.debian.org (verified)
+ CN=alwyn.debian.org, EMAIL=hostmaster at alwyn.debian.org (verified)
by kokkonen.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at alain.debian.org>)
- id 1PfuN3-0007zY-DM
- for logs at buildd.debian.org; Thu, 20 Jan 2011 13:16:14 +0000
-Received: from buildd by alain.debian.org with local (Exim 4.69)
- (envelope-from <buildd at alain.debian.org>)
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-From: buildd on alain <buildd at alain.debian.org>
-To: buildd-porters at alain.debian.org,logs at buildd.debian.org
-Subject: Log for successful build of bwa_0.5.9~rc-1 on armel
- (dist=experimental)
+ (Exim 4.72) (envelope-from <buildd at alwyn.debian.org>)
+ id 1RSgyH-0005gC-7e
+ for logs at buildd.debian.org; Tue, 22 Nov 2011 03:24:33 +0000
+Received: from buildd by alwyn.debian.org with local (Exim 4.72)
+ (envelope-from <buildd at alwyn.debian.org>)
+ id 1RSgyF-0002LZ-BC; Tue, 22 Nov 2011 03:24:31 +0000
+Date: Tue, 22 Nov 2011 03:24:31 +0000
+Message-Id: <E1RSgyF-0002LZ-BC at alwyn.debian.org>
+From: buildd on alwyn <buildd at alwyn.debian.org>
+To: buildd-porters at alwyn.debian.org,logs at buildd.debian.org
+Subject: Log for successful build of bwa_0.6.0-2 on armel (dist=experimental)
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit
-Message-Id: <E1PfuN1-0006Hp-JU at alain.debian.org>
-Date: Thu, 20 Jan 2011 13:16:11 +0000
Delivered-To: logs at buildd.debian.org
-sbuild (Debian sbuild) 0.60.0 (23 Feb 2010) on alain.debian.org
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on alwyn.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bwa 0.5.9~rc-1 (armel) 20 Jan 2011 13:10 ║
+║ bwa 0.6.0-2 (armel) 22 Nov 2011 03:17 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bwa
-Version: 0.5.9~rc-1
+Version: 0.6.0-2
+Source Version: 0.6.0-2
Architecture: armel
-Chroot Build Dir: /var/lib/schroot/mount/sid-experimental-armel-sbuild-917dcce5-f416-4fd6-810e-6781a2ea9dd2/build/buildd-bwa_0.5.9~rc-1-armel-Gx8312
-Start Time: 20110120-1310
-Get:1 http://ftp.uk.debian.org unstable Release.gpg [835 B]
-Ign http://ftp.uk.debian.org/debian/ unstable/contrib Translation-en
-Ign http://ftp.uk.debian.org/debian/ unstable/main Translation-en
-Get:2 http://ftp.uk.debian.org experimental Release.gpg [835 B]
-Ign http://ftp.uk.debian.org/debian/ experimental/contrib Translation-en
-Ign http://ftp.uk.debian.org/debian/ experimental/main Translation-en
-Get:3 http://ftp.uk.debian.org unstable Release [104 kB]
-Get:4 http://ftp.uk.debian.org experimental Release [102 kB]
-Get:5 http://incoming.debian.org unstable Release.gpg [835 B]
-Ign http://incoming.debian.org/debian/ unstable/contrib Translation-en
-Ign http://incoming.debian.org/debian/ unstable/main Translation-en
-Get:6 http://ftp.uk.debian.org unstable/main Sources [4072 kB]
-Get:7 http://incoming.debian.org experimental Release.gpg [835 B]
-Ign http://incoming.debian.org/debian/ experimental/contrib Translation-en
-Ign http://incoming.debian.org/debian/ experimental/main Translation-en
-Get:8 http://incoming.debian.org Release.gpg [835 B]
-Ign http://incoming.debian.org/buildd-unstable/ Translation-en
-Get:9 http://incoming.debian.org Release.gpg [835 B]
-Ign http://incoming.debian.org/buildd-experimental/ Translation-en
-Get:10 http://incoming.debian.org unstable Release [104 kB]
-Get:11 http://incoming.debian.org experimental Release [102 kB]
-Get:12 http://incoming.debian.org Release [1604 B]
-Get:13 http://incoming.debian.org Release [1625 B]
-Get:14 http://incoming.debian.org unstable/main Sources [4072 kB]
-Get:15 http://ftp.uk.debian.org unstable/contrib Sources [38.6 kB]
-Get:16 http://ftp.uk.debian.org unstable/non-free Sources [83.9 kB]
-Get:17 http://ftp.uk.debian.org unstable/main armel Packages [6784 kB]
-Get:18 http://incoming.debian.org unstable/contrib Sources [38.6 kB]
-Get:19 http://incoming.debian.org unstable/non-free Sources [83.9 kB]
-Get:20 http://incoming.debian.org unstable/main armel Packages [6784 kB]
-Get:21 http://ftp.uk.debian.org unstable/contrib armel Packages [48.8 kB]
-Get:22 http://ftp.uk.debian.org experimental/main Sources [393 kB]
-Get:23 http://ftp.uk.debian.org experimental/contrib Sources [4450 B]
-Get:24 http://ftp.uk.debian.org experimental/non-free Sources [6418 B]
-Get:25 http://ftp.uk.debian.org experimental/main armel Packages [794 kB]
-Get:26 http://ftp.uk.debian.org experimental/contrib armel Packages [5246 B]
-Get:27 http://incoming.debian.org unstable/contrib armel Packages [48.8 kB]
-Get:28 http://incoming.debian.org experimental/main Sources [393 kB]
-Get:29 http://incoming.debian.org experimental/contrib Sources [4450 B]
-Get:30 http://incoming.debian.org experimental/non-free Sources [6418 B]
-Get:31 http://incoming.debian.org experimental/main armel Packages [794 kB]
-Get:32 http://incoming.debian.org experimental/contrib armel Packages [5246 B]
-Get:33 http://incoming.debian.org Sources [11.7 kB]
-Get:34 http://incoming.debian.org Packages [103 kB]
-Get:35 http://incoming.debian.org Sources [9718 B]
-Get:36 http://incoming.debian.org Packages [89.7 kB]
-Fetched 25.1 MB in 1min 1s (410 kB/s)
+Get:1 http://ftp.uk.debian.org unstable InRelease [160 kB]
+Get:2 http://incoming.debian.org unstable InRelease [160 kB]
+Get:3 http://ftp.uk.debian.org experimental InRelease [139 kB]
+Get:4 http://ftp.uk.debian.org unstable/main Sources [5927 kB]
+Get:5 http://incoming.debian.org experimental InRelease [139 kB]
+Ign http://incoming.debian.org InRelease
+Ign http://incoming.debian.org InRelease
+Get:6 http://incoming.debian.org unstable/main Sources [5927 kB]
+Get:7 http://incoming.debian.org unstable/contrib Sources [57.2 kB]
+Get:8 http://incoming.debian.org unstable/non-free Sources [102 kB]
+Get:9 http://incoming.debian.org unstable/main armel Packages [7686 kB]
+Get:10 http://ftp.uk.debian.org unstable/contrib Sources [57.4 kB]
+Get:11 http://ftp.uk.debian.org unstable/non-free Sources [102 kB]
+Get:12 http://ftp.uk.debian.org unstable/main armel Packages [7687 kB]
+Get:13 http://incoming.debian.org unstable/contrib armel Packages [55.6 kB]
+Ign http://incoming.debian.org unstable/contrib TranslationIndex
+Get:14 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
+Get:15 http://incoming.debian.org Release.gpg [836 B]
+Get:16 http://incoming.debian.org Release.gpg [836 B]
+Get:17 http://incoming.debian.org experimental/main Sources [177 kB]
+Get:18 http://incoming.debian.org experimental/contrib Sources [1400 B]
+Get:19 http://incoming.debian.org experimental/non-free Sources [2641 B]
+Get:20 http://incoming.debian.org experimental/main armel Packages [322 kB]
+Get:21 http://incoming.debian.org experimental/contrib armel Packages [1846 B]
+Ign http://incoming.debian.org experimental/contrib TranslationIndex
+Ign http://incoming.debian.org experimental/main TranslationIndex
+Get:22 http://incoming.debian.org Release [1604 B]
+Get:23 http://incoming.debian.org Release [1626 B]
+Get:24 http://incoming.debian.org Sources [33.2 kB]
+Get:25 http://incoming.debian.org Packages [315 kB]
+Get:26 http://incoming.debian.org Sources [2999 B]
+Get:27 http://incoming.debian.org Packages [28.9 kB]
+Get:28 http://ftp.uk.debian.org unstable/contrib armel Packages [55.6 kB]
+Ign http://ftp.uk.debian.org unstable/contrib TranslationIndex
+Get:29 http://ftp.uk.debian.org unstable/main TranslationIndex [2045 B]
+Get:30 http://ftp.uk.debian.org experimental/main Sources [177 kB]
+Get:31 http://ftp.uk.debian.org experimental/contrib Sources [1400 B]
+Get:32 http://ftp.uk.debian.org experimental/non-free Sources [2641 B]
+Get:33 http://ftp.uk.debian.org experimental/main armel Packages [317 kB]
+Get:34 http://ftp.uk.debian.org experimental/contrib armel Packages [1846 B]
+Ign http://ftp.uk.debian.org experimental/contrib TranslationIndex
+Ign http://ftp.uk.debian.org experimental/main TranslationIndex
+Ign http://incoming.debian.org unstable/contrib Translation-en
+Ign http://ftp.uk.debian.org unstable/contrib Translation-en
+Ign http://ftp.uk.debian.org experimental/contrib Translation-en
+Ign http://incoming.debian.org experimental/contrib Translation-en
+Ign http://ftp.uk.debian.org experimental/main Translation-en
+Ign http://incoming.debian.org experimental/main Translation-en
+Ign http://incoming.debian.org Translation-en
+Ign http://incoming.debian.org Translation-en
+Fetched 29.6 MB in 1min 5s (454 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -105,29 +107,29 @@ 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 118 kB of source archives.
-Get:1 http://incoming.debian.org/buildd-experimental/ bwa 0.5.9~rc-1 (dsc) [1915 B]
-Get:2 http://incoming.debian.org/buildd-experimental/ bwa 0.5.9~rc-1 (tar) [113 kB]
-Get:3 http://incoming.debian.org/buildd-experimental/ bwa 0.5.9~rc-1 (diff) [3594 B]
-Fetched 118 kB in 0s (154 kB/s)
+git://git.debian.org/debian-med/bwa.git
+Need to get 171 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-experimental/ bwa 0.6.0-2 (dsc) [1681 B]
+Get:2 http://incoming.debian.org/buildd-experimental/ bwa 0.6.0-2 (tar) [169 kB]
+Fetched 171 kB in 0s (236 kB/s)
Download complete and in download only mode
Check arch
──────────
-** Using build dependencies supplied by package:
-Build-Depends: cdbs, debhelper (>= 8), zlib1g-dev
+dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/build/buildd-bwa_0.6.0-2-armel-VuV6k3/resolver-TAdzZj/apt_archive/sbuild-build-depends-core-dummy.deb'.
+OK
+Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install build dependencies (aptitude-based resolver) │
+│ Install core build dependencies (aptitude-based resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
Reading package lists...
Building dependency tree...
Reading state information...
The following extra packages will be installed:
- libboost-iostreams1.42.0 libcwidget3 libept1 libncursesw5 libsigc++-2.0-0c2a
+ libboost-iostreams1.46.1 libcwidget3 libept1 libncursesw5 libsigc++-2.0-0c2a
libsqlite3-0 libxapian22
Suggested packages:
tasksel debtags libcwidget-dev xapian-tools
@@ -135,161 +137,181 @@ Recommended packages:
aptitude-doc-en aptitude-doc apt-xapian-index libparse-debianchangelog-perl
libgpm2
The following NEW packages will be installed:
- aptitude libboost-iostreams1.42.0 libcwidget3 libept1 libncursesw5
+ aptitude libboost-iostreams1.46.1 libcwidget3 libept1 libncursesw5
libsigc++-2.0-0c2a libsqlite3-0 libxapian22
-0 upgraded, 8 newly installed, 0 to remove and 17 not upgraded.
-Need to get 6092 kB of archives.
-After this operation, 16.7 MB of additional disk space will be used.
-Get:1 http://ftp.uk.debian.org/debian/ unstable/main libboost-iostreams1.42.0 armel 1.42.0-4 [57.3 kB]
-Get:2 http://ftp.uk.debian.org/debian/ unstable/main libncursesw5 armel 5.7+20100313-5 [368 kB]
-Get:3 http://ftp.uk.debian.org/debian/ unstable/main libsigc++-2.0-0c2a armel 2.2.4.2-1 [37.9 kB]
-Get:4 http://ftp.uk.debian.org/debian/ unstable/main libcwidget3 armel 0.5.16-3 [278 kB]
-Get:5 http://ftp.uk.debian.org/debian/ unstable/main libxapian22 armel 1.2.4-1 [1130 kB]
-Get:6 http://ftp.uk.debian.org/debian/ unstable/main libept1 armel 1.0.4 [132 kB]
-Get:7 http://ftp.uk.debian.org/debian/ unstable/main libsqlite3-0 armel 3.7.4-2 [385 kB]
-Get:8 http://ftp.uk.debian.org/debian/ unstable/main aptitude armel 0.6.3-3.2 [3703 kB]
+0 upgraded, 8 newly installed, 0 to remove and 11 not upgraded.
+Need to get 6117 kB of archives.
+After this operation, 16.1 MB of additional disk space will be used.
+Get:1 http://ftp.uk.debian.org/debian/ unstable/main libncursesw5 armel 5.9-4 [303 kB]
+Get:2 http://ftp.uk.debian.org/debian/ unstable/main libboost-iostreams1.46.1 armel 1.46.1-7+b1 [53.3 kB]
+Get:3 http://ftp.uk.debian.org/debian/ unstable/main libsigc++-2.0-0c2a armel 2.2.9-1 [40.2 kB]
+Get:4 http://ftp.uk.debian.org/debian/ unstable/main libcwidget3 armel 0.5.16-3.1 [359 kB]
+Get:5 http://ftp.uk.debian.org/debian/ unstable/main libxapian22 armel 1.2.7-1 [1107 kB]
+Get:6 http://ftp.uk.debian.org/debian/ unstable/main libept1 armel 1.0.5 [140 kB]
+Get:7 http://ftp.uk.debian.org/debian/ unstable/main libsqlite3-0 armel 3.7.9-2 [395 kB]
+Get:8 http://ftp.uk.debian.org/debian/ unstable/main aptitude armel 0.6.4-1.2 [3718 kB]
debconf: delaying package configuration, since apt-utils is not installed
-Fetched 6092 kB in 2s (2277 kB/s)
-Selecting previously deselected package libboost-iostreams1.42.0.
-(Reading database ... 10042 files and directories currently installed.)
-Unpacking libboost-iostreams1.42.0 (from .../libboost-iostreams1.42.0_1.42.0-4_armel.deb) ...
-Selecting previously deselected package libncursesw5.
-Unpacking libncursesw5 (from .../libncursesw5_5.7+20100313-5_armel.deb) ...
-Selecting previously deselected package libsigc++-2.0-0c2a.
-Unpacking libsigc++-2.0-0c2a (from .../libsigc++-2.0-0c2a_2.2.4.2-1_armel.deb) ...
-Selecting previously deselected package libcwidget3.
-Unpacking libcwidget3 (from .../libcwidget3_0.5.16-3_armel.deb) ...
-Selecting previously deselected package libxapian22.
-Unpacking libxapian22 (from .../libxapian22_1.2.4-1_armel.deb) ...
-Selecting previously deselected package libept1.
-Unpacking libept1 (from .../libept1_1.0.4_armel.deb) ...
-Selecting previously deselected package libsqlite3-0.
-Unpacking libsqlite3-0 (from .../libsqlite3-0_3.7.4-2_armel.deb) ...
-Selecting previously deselected package aptitude.
-Unpacking aptitude (from .../aptitude_0.6.3-3.2_armel.deb) ...
-Setting up libboost-iostreams1.42.0 (1.42.0-4) ...
-Setting up libncursesw5 (5.7+20100313-5) ...
-Setting up libsigc++-2.0-0c2a (2.2.4.2-1) ...
-Setting up libcwidget3 (0.5.16-3) ...
-Setting up libxapian22 (1.2.4-1) ...
-Setting up libept1 (1.0.4) ...
-Setting up libsqlite3-0 (3.7.4-2) ...
-Setting up aptitude (0.6.3-3.2) ...
+Fetched 6117 kB in 2s (2399 kB/s)
+Selecting previously unselected package libncursesw5.
+(Reading database ... 10559 files and directories currently installed.)
+Unpacking libncursesw5 (from .../libncursesw5_5.9-4_armel.deb) ...
+Selecting previously unselected package libboost-iostreams1.46.1.
+Unpacking libboost-iostreams1.46.1 (from .../libboost-iostreams1.46.1_1.46.1-7+b1_armel.deb) ...
+Selecting previously unselected package libsigc++-2.0-0c2a.
+Unpacking libsigc++-2.0-0c2a (from .../libsigc++-2.0-0c2a_2.2.9-1_armel.deb) ...
+Selecting previously unselected package libcwidget3.
+Unpacking libcwidget3 (from .../libcwidget3_0.5.16-3.1_armel.deb) ...
+Selecting previously unselected package libxapian22.
+Unpacking libxapian22 (from .../libxapian22_1.2.7-1_armel.deb) ...
+Selecting previously unselected package libept1.
+Unpacking libept1 (from .../libept1_1.0.5_armel.deb) ...
+Selecting previously unselected package libsqlite3-0.
+Unpacking libsqlite3-0 (from .../libsqlite3-0_3.7.9-2_armel.deb) ...
+Selecting previously unselected package aptitude.
+Unpacking aptitude (from .../aptitude_0.6.4-1.2_armel.deb) ...
+Setting up libncursesw5 (5.9-4) ...
+Setting up libboost-iostreams1.46.1 (1.46.1-7+b1) ...
+Setting up libsigc++-2.0-0c2a (2.2.9-1) ...
+Setting up libcwidget3 (0.5.16-3.1) ...
+Setting up libxapian22 (1.2.7-1) ...
+Setting up libept1 (1.0.5) ...
+Setting up libsqlite3-0 (3.7.9-2) ...
+Setting up aptitude (0.6.4-1.2) ...
update-alternatives: using /usr/bin/aptitude-curses to provide /usr/bin/aptitude (aptitude) in auto mode.
-dpkg-deb: building package `sbuild-build-depends-bwa-dummy' in `/build/buildd-bwa_0.5.9~rc-1-armel-Gx8312/buildd-bwa-armel-g1z39k/sbuild-build-depends-bwa-dummy.deb'.
-Selecting previously deselected package sbuild-build-depends-bwa-dummy.
-(Reading database ... 10250 files and directories currently installed.)
-Unpacking sbuild-build-depends-bwa-dummy (from .../sbuild-build-depends-bwa-dummy.deb) ...
-dpkg: dependency problems prevent configuration of sbuild-build-depends-bwa-dummy:
- sbuild-build-depends-bwa-dummy depends on cdbs; however:
- Package cdbs is not installed.
- sbuild-build-depends-bwa-dummy depends on debhelper (>= 8); however:
- Package debhelper is not installed.
- sbuild-build-depends-bwa-dummy depends on zlib1g-dev; however:
- Package zlib1g-dev is not installed.
-dpkg: error processing sbuild-build-depends-bwa-dummy (--install):
- dependency problems - leaving unconfigured
-Errors were encountered while processing:
- sbuild-build-depends-bwa-dummy
-aptitude -y --without-recommends -o APT::Install-Recommends=false -o Aptitude::ProblemResolver::StepScore=100 -o Aptitude::ProblemResolver::Hints::KeepDummy=reject sbuild-build-depends-bwa-dummy :UNINST -o Aptitude::ProblemResolver::Keep-All-Tier=55000 -o Aptitude::ProblemResolver::Remove-Essential-Tier=maximum install sbuild-build-depends-bwa-dummy
+aptitude -y --without-recommends -o Dpkg::Options::=--force-confold -o Aptitude::CmdLine::Ignore-Trust-Violations=false -o Aptitude::ProblemResolver::StepScore=100 -o Aptitude::ProblemResolver::SolutionCost=safety, priority, non-default-versions -o Aptitude::ProblemResolver::Hints::KeepDummy=reject sbuild-build-depends-core-dummy :UNINST -o Aptitude::ProblemResolver::Keep-All-Level=55000 -o Aptitude::ProblemResolver::Remove-Essential-Level=maximum install sbuild-build-depends-core-dummy
Reading package lists...
Building dependency tree...
Reading state information...
Initializing package states...
Writing extended state information...
The following NEW packages will be installed:
- bsdmainutils{a} cdbs{a} debhelper{a} file{a} gettext{a} gettext-base{a}
- groff-base{a} html2text{a} intltool-debian{a} libcroco3{a}
- libglib2.0-0{a} libmagic1{a} libpcre3{a} libunistring0{a} libxml2{a}
- man-db{a} po-debconf{a} zlib1g-dev{a}
-The following partially installed packages will be configured:
- sbuild-build-depends-bwa-dummy
-0 packages upgraded, 18 newly installed, 0 to remove and 17 not upgraded.
-Need to get 9723 kB of archives. After unpacking 27.5 MB will be used.
+ sbuild-build-depends-core-dummy
+0 packages upgraded, 1 newly installed, 0 to remove and 11 not upgraded.
+Need to get 0 B/710 B of archives. After unpacking 0 B will be used.
+Writing extended state information...
+debconf: delaying package configuration, since apt-utils is not installed
+Selecting previously unselected package sbuild-build-depends-core-dummy.
+(Reading database ... 10764 files and directories currently installed.)
+Unpacking sbuild-build-depends-core-dummy (from .../sbuild-build-depends-core-dummy.deb) ...
+Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
+Reading package lists...
+Building dependency tree...
+Reading state information...
+Reading extended state information...
+Initializing package states...
+Writing extended state information...
+dpkg-deb: building package `sbuild-build-depends-bwa-dummy' in `/build/buildd-bwa_0.6.0-2-armel-VuV6k3/resolver-TAdzZj/apt_archive/sbuild-build-depends-bwa-dummy.deb'.
+OK
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install bwa build dependencies (aptitude-based resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+aptitude is already the newest version.
+0 upgraded, 0 newly installed, 0 to remove and 11 not upgraded.
+aptitude -y --without-recommends -o Dpkg::Options::=--force-confold -o Aptitude::CmdLine::Ignore-Trust-Violations=false -o Aptitude::ProblemResolver::StepScore=100 -o Aptitude::ProblemResolver::SolutionCost=safety, priority, non-default-versions -o Aptitude::ProblemResolver::Hints::KeepDummy=reject sbuild-build-depends-bwa-dummy :UNINST -o Aptitude::ProblemResolver::Keep-All-Level=55000 -o Aptitude::ProblemResolver::Remove-Essential-Level=maximum install sbuild-build-depends-bwa-dummy
+Reading package lists...
+Building dependency tree...
+Reading state information...
+Reading extended state information...
+Initializing package states...
+The following NEW packages will be installed:
+ bsdmainutils{a} debhelper{a} file{a} gettext{a} gettext-base{a}
+ groff-base{a} html2text{a} intltool-debian{a} libcroco3{a} libffi5{a}
+ libglib2.0-0{a} libmagic1{a} libpcre3{a} libpipeline1{a} libunistring0{a}
+ libxml2{a} man-db{a} po-debconf{a} sbuild-build-depends-bwa-dummy
+ zlib1g-dev{a}
+0 packages upgraded, 20 newly installed, 0 to remove and 11 not upgraded.
+Need to get 9128 kB/9129 kB of archives. After unpacking 25.0 MB will be used.
Writing extended state information...
-Get:1 http://ftp.uk.debian.org/debian/ unstable/main libmagic1 armel 5.04-5 [237 kB]
-Get:2 http://ftp.uk.debian.org/debian/ unstable/main file armel 5.04-5 [49.4 kB]
-Get:3 http://ftp.uk.debian.org/debian/ unstable/main html2text armel 1.3.2a-15 [97.0 kB]
-Get:4 http://ftp.uk.debian.org/debian/ unstable/main libpcre3 armel 8.02-1.1 [234 kB]
-Get:5 http://ftp.uk.debian.org/debian/ unstable/main libglib2.0-0 armel 2.24.2-1 [1050 kB]
-Get:6 http://ftp.uk.debian.org/debian/ unstable/main libxml2 armel 2.7.8.dfsg-2 [816 kB]
-Get:7 http://ftp.uk.debian.org/debian/ unstable/main libcroco3 armel 0.6.2-1 [113 kB]
-Get:8 http://ftp.uk.debian.org/debian/ unstable/main libunistring0 armel 0.9.3-3 [410 kB]
-Get:9 http://ftp.uk.debian.org/debian/ unstable/main gettext-base armel 0.18.1.1-3 [129 kB]
-Get:10 http://ftp.uk.debian.org/debian/ unstable/main gettext armel 0.18.1.1-3 [1981 kB]
-Get:11 http://ftp.uk.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
-Get:12 http://ftp.uk.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
-Get:13 http://ftp.uk.debian.org/debian/ unstable/main groff-base armel 1.20.1-10 [1038 kB]
-Get:14 http://ftp.uk.debian.org/debian/ unstable/main bsdmainutils armel 8.2.1 [206 kB]
-Get:15 http://ftp.uk.debian.org/debian/ unstable/main man-db armel 2.5.7-8 [1226 kB]
-Get:16 http://ftp.uk.debian.org/debian/ unstable/main debhelper all 8.0.0 [454 kB]
-Get:17 http://ftp.uk.debian.org/debian/ unstable/main cdbs all 0.4.89 [1240 kB]
-Get:18 http://ftp.uk.debian.org/debian/ unstable/main zlib1g-dev armel 1:1.2.3.4.dfsg-3 [190 kB]
+Get: 1 http://ftp.uk.debian.org/debian/ unstable/main libpipeline1 armel 1.2.0-5 [34.2 kB]
+Get: 2 http://ftp.uk.debian.org/debian/ unstable/main libpcre3 armel 8.12-4 [223 kB]
+Get: 3 http://ftp.uk.debian.org/debian/ unstable/main libffi5 armel 3.0.10-3 [22.8 kB]
+Get: 4 http://ftp.uk.debian.org/debian/ unstable/main libglib2.0-0 armel 2.30.2-4 [1742 kB]
+Get: 5 http://ftp.uk.debian.org/debian/ unstable/main libxml2 armel 2.7.8.dfsg-5 [815 kB]
+Get: 6 http://ftp.uk.debian.org/debian/ unstable/main libcroco3 armel 0.6.2-2 [110 kB]
+Get: 7 http://ftp.uk.debian.org/debian/ unstable/main libunistring0 armel 0.9.3-5 [406 kB]
+Get: 8 http://ftp.uk.debian.org/debian/ unstable/main bsdmainutils armel 8.2.3 [207 kB]
+Get: 9 http://ftp.uk.debian.org/debian/ unstable/main groff-base armel 1.21-6 [1072 kB]
+Get: 10 http://ftp.uk.debian.org/debian/ unstable/main man-db armel 2.6.0.2-3 [987 kB]
+Get: 11 http://ftp.uk.debian.org/debian/ unstable/main libmagic1 armel 5.09-2 [247 kB]
+Get: 12 http://ftp.uk.debian.org/debian/ unstable/main file armel 5.09-2 [51.8 kB]
+Get: 13 http://ftp.uk.debian.org/debian/ unstable/main gettext-base armel 0.18.1.1-5 [138 kB]
+Get: 14 http://ftp.uk.debian.org/debian/ unstable/main html2text armel 1.3.2a-15 [97.0 kB]
+Get: 15 http://ftp.uk.debian.org/debian/ unstable/main gettext armel 0.18.1.1-5 [1980 kB]
+Get: 16 http://ftp.uk.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get: 17 http://ftp.uk.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get: 18 http://ftp.uk.debian.org/debian/ unstable/main debhelper all 8.9.11 [552 kB]
+Get: 19 http://ftp.uk.debian.org/debian/ unstable/main zlib1g-dev armel 1:1.2.3.4.dfsg-3 [190 kB]
+Fetched 9128 kB in 3s (2959 kB/s)
debconf: delaying package configuration, since apt-utils is not installed
-Fetched 9723 kB in 5s (1682 kB/s)
-Selecting previously deselected package libmagic1.
-(Reading database ... 10250 files and directories currently installed.)
-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 html2text.
+Selecting previously unselected package libpipeline1.
+(Reading database ... 10764 files and directories currently installed.)
+Unpacking libpipeline1 (from .../libpipeline1_1.2.0-5_armel.deb) ...
+Selecting previously unselected package libpcre3.
+Unpacking libpcre3 (from .../libpcre3_8.12-4_armel.deb) ...
+Selecting previously unselected package libffi5.
+Unpacking libffi5 (from .../libffi5_3.0.10-3_armel.deb) ...
+Selecting previously unselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.30.2-4_armel.deb) ...
+Selecting previously unselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-5_armel.deb) ...
+Selecting previously unselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-2_armel.deb) ...
+Selecting previously unselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-5_armel.deb) ...
+Selecting previously unselected package bsdmainutils.
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.3_armel.deb) ...
+Selecting previously unselected package groff-base.
+Unpacking groff-base (from .../groff-base_1.21-6_armel.deb) ...
+Selecting previously unselected package man-db.
+Unpacking man-db (from .../man-db_2.6.0.2-3_armel.deb) ...
+Selecting previously unselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.09-2_armel.deb) ...
+Selecting previously unselected package file.
+Unpacking file (from .../archives/file_5.09-2_armel.deb) ...
+Selecting previously unselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-5_armel.deb) ...
+Selecting previously unselected package html2text.
Unpacking html2text (from .../html2text_1.3.2a-15_armel.deb) ...
-Selecting previously deselected package libpcre3.
-Unpacking libpcre3 (from .../libpcre3_8.02-1.1_armel.deb) ...
-Selecting previously deselected package libglib2.0-0.
-Unpacking libglib2.0-0 (from .../libglib2.0-0_2.24.2-1_armel.deb) ...
-Selecting previously deselected package libxml2.
-Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_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-base.
-Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_armel.deb) ...
-Selecting previously deselected package gettext.
-Unpacking gettext (from .../gettext_0.18.1.1-3_armel.deb) ...
-Selecting previously deselected package intltool-debian.
+Selecting previously unselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-5_armel.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 groff-base.
-Unpacking groff-base (from .../groff-base_1.20.1-10_armel.deb) ...
-Selecting previously deselected package bsdmainutils.
-Unpacking bsdmainutils (from .../bsdmainutils_8.2.1_armel.deb) ...
-Selecting previously deselected package man-db.
-Unpacking man-db (from .../man-db_2.5.7-8_armel.deb) ...
-Selecting previously deselected package debhelper.
-Unpacking debhelper (from .../debhelper_8.0.0_all.deb) ...
-Selecting previously deselected package cdbs.
-Unpacking cdbs (from .../archives/cdbs_0.4.89_all.deb) ...
-Selecting previously deselected package zlib1g-dev.
+Selecting previously unselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.9.11_all.deb) ...
+Selecting previously unselected package zlib1g-dev.
Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_armel.deb) ...
-Setting up libmagic1 (5.04-5) ...
-Setting up file (5.04-5) ...
-Setting up html2text (1.3.2a-15) ...
-Setting up libpcre3 (8.02-1.1) ...
-Setting up libglib2.0-0 (2.24.2-1) ...
-Setting up libxml2 (2.7.8.dfsg-2) ...
-Setting up libcroco3 (0.6.2-1) ...
-Setting up libunistring0 (0.9.3-3) ...
-Setting up gettext-base (0.18.1.1-3) ...
-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 groff-base (1.20.1-10) ...
-Setting up bsdmainutils (8.2.1) ...
+Selecting previously unselected package sbuild-build-depends-bwa-dummy.
+Unpacking sbuild-build-depends-bwa-dummy (from .../sbuild-build-depends-bwa-dummy.deb) ...
+Setting up libpipeline1 (1.2.0-5) ...
+Setting up libpcre3 (8.12-4) ...
+Setting up libffi5 (3.0.10-3) ...
+Setting up libglib2.0-0 (2.30.2-4) ...
+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 man-db (2.5.7-8) ...
-debconf: unable to initialize frontend: Dialog
-debconf: (TERM is not set, so the dialog frontend is not usable.)
-debconf: falling back to frontend: Readline
-debconf: unable to initialize frontend: Readline
-debconf: (This frontend requires a controlling tty.)
-debconf: falling back to frontend: Teletype
+Setting up groff-base (1.21-6) ...
+Setting up man-db (2.6.0.2-3) ...
Building database of manual pages ...
-Setting up debhelper (8.0.0) ...
-Setting up cdbs (0.4.89) ...
+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 (8.9.11) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
Setting up sbuild-build-depends-bwa-dummy (0.invalid.0) ...
Reading package lists...
@@ -299,8 +321,8 @@ Reading extended state information...
Initializing package states...
Writing extended state information...
Kernel: Linux 2.6.32 armel (armv5tel)
-Toolchain package versions: libc6-dev_2.11.2-7 dpkg-dev_1.15.8.8 linux-libc-dev_2.6.32-29 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_4.4.5-10
-Package versions: apt_0.8.10 aptitude_0.6.3-3.2 base-files_6.0 base-passwd_3.5.22 bash_4.1-3 binutils_2.20.1-15 bsdmainutils_8.2.1 bsdutils_1:2.17.2-6 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.89 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_1.5.37 debconf-i18n_1.5.37 debfoster_2.7-1.1 debhelper_8.0.0 debian-archive-keyring_2010.08.28 debianutils_3.4.2 diffutils_1:3.0-1 dpkg_1.15.8.8 dpkg-dev_1.15.8.8 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.14.5-1 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_1.20.1-10 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_2.17.2-6 libboost-iostreams1.42.0_1.42.0-4 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-7 libc-dev-bin_2.11.2-7 libc6_2.11.2-7 libc6-dev_2.11.2-7 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libcwidget3_0.5.16-3 libdb4.7_4.7.25-10 libdb4.8_4.8.30-3 libdpkg-perl_1.15.8.8 libept1_1.0.4 libgc1c2_1:6.8-1.2 libgcc1_1:4.4.5-10 libgdbm3_1.8.3-9 libglib2.0-0_2.24.2-1 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 libncursesw5_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_8.02-1.1 libreadline6_6.1-3 libselinux1_2.0.96-1 libsepol1_2.0.42-1 libsigc++-2.0-0c2a_2.2.4.2-1 libslang2_2.2.2-4 libsqlite3-0_3.7.4-2 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 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_2:0.1.12-16 libuuid1_2.17.2-6 libxapian22_1.2.4-1 libxml2_2.7.8.dfsg-2 linux-libc-dev_2.6.32-29 login_1:4.1.4.2+svn3283-2 lsb-base_3.2-26 make_3.81-8 man-db_2.5.7-8 mawk_1.3.3-15 mount_2.17.2-6 ncurses-base_5.7+20100313-5 ncurses-bin_5.7+20100313-5 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 po-debconf_1.0.16+nmu1 readline-common_6.1-3 sbuild-build-depends-bwa-dummy_0.invalid.0 sed_4.2.1-8 sensible-utils_0.0.6 sudo_1.7.4p4-5 sysv-rc_2.88dsf-13.1 sysvinit_2.88dsf-13.1 sysvinit-utils_2.88dsf-13.1 tar_1.25-3 tzdata_2010o-1 util-linux_2.17.2-6 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_3.0.0-6
+Package versions: apt_0.8.15.9 aptitude_0.6.4-1.2 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_8.9.11 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 libboost-iostreams1.46.1_1.46.1-7+b1 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 libcwidget3_0.5.16-3.1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.1.1 libept1_1.0.5 libffi5_3.0.10-3 libgc1c2_1:7.1-8 libgcc1_1:4.6.2-4 libgdbm3_1.8.3-10 libglib2.0-0_2.30.2-4 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 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 libreadline6_6.2-7 libselinux1_2.1.0-4 libsepol1_2.1.0-1.1 libsigc++-2.0-0c2a_2.2.9-1 libslang2_2.2.4-3 libsqlite3-0_3.7.9-2 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 libxapian22_1.2.7-1 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 sbuild-build-depends-bwa-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 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 │
@@ -310,14 +332,12 @@ Package versions: apt_0.8.10 aptitude_0.6.3-3.2 base-files_6.0 base-passwd_3.5.2
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 Thu Jan 20 12:57:54 2011 UTC using RSA key ID 2295D502
+gpgv: Signature made Tue Nov 22 02:41:12 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~rc-1.dsc
-dpkg-source: info: extracting bwa in bwa-0.5.9~rc
-dpkg-source: info: unpacking bwa_0.5.9~rc.orig.tar.bz2
-dpkg-source: info: unpacking bwa_0.5.9~rc-1.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bwa_0.6.0-2.dsc
+dpkg-source: info: extracting bwa in bwa-0.6.0
+dpkg-source: info: unpacking bwa_0.6.0-2.tar.gz
Check disc space
────────────────
@@ -326,160 +346,223 @@ 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~rc-1
- dpkg-source --before-build bwa-0.5.9~rc
+dpkg-buildpackage: source version 0.6.0-2
+ dpkg-source --before-build bwa-0.6.0
dpkg-buildpackage: host architecture armel
- /usr/bin/fakeroot debian/rules clean
-test -x debian/rules
-dh_testroot
-rm -f debian/stamp-makefile-build debian/stamp-makefile-install
-/usr/bin/make -C . CFLAGS="-g -O2 -g -Wall -O2" CXXFLAGS="-g -O2 -g -Wall -O2" CPPFLAGS="" LDFLAGS="" -k clean
-make[1]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-armel-Gx8312/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-armel-Gx8312/bwa-0.5.9~rc'
+ fakeroot debian/rules clean
+dh clean
+ dh_testdir
+ dh_auto_clean
+make[1]: Entering directory `/build/buildd-bwa_0.6.0-2-armel-VuV6k3/bwa-0.6.0'
rm -f gmon.out *.o a.out bwa *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-armel-Gx8312/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-armel-Gx8312/bwa-0.5.9~rc/bwt_gen'
-rm -f gmon.out *.o a.out *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-armel-Gx8312/bwa-0.5.9~rc/bwt_gen'
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-armel-Gx8312/bwa-0.5.9~rc'
-dh_clean
+make[1]: Leaving directory `/build/buildd-bwa_0.6.0-2-armel-VuV6k3/bwa-0.6.0'
+ dh_clean
debian/rules build
-test -x debian/rules
-mkdir -p "."
-/usr/bin/make -C . CFLAGS="-g -O2 -g -Wall -O2" CXXFLAGS="-g -O2 -g -Wall -O2" CPPFLAGS="" LDFLAGS=""
-make[1]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-armel-Gx8312/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-armel-Gx8312/bwa-0.5.9~rc'
-make[2]: Nothing to be done for `lib'.
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-armel-Gx8312/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-armel-Gx8312/bwa-0.5.9~rc/bwt_gen'
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwt_gen.c -o bwt_gen.o
-gcc -c -g -O2 -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~rc-1-armel-Gx8312/bwa-0.5.9~rc/bwt_gen'
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD utils.c -o utils.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwt.c -o bwt.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtio.c -o bwtio.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtaln.c -o bwtaln.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtgap.c -o bwtgap.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD is.c -o is.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bntseq.c -o bntseq.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtmisc.c -o bwtmisc.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtindex.c -o bwtindex.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD stdaln.c -o stdaln.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD simple_dp.c -o simple_dp.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwaseqio.c -o bwaseqio.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwase.c -o bwase.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwape.c -o bwape.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD kstring.c -o kstring.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD cs2nt.c -o cs2nt.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_core.c -o bwtsw2_core.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_main.c -o bwtsw2_main.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_aux.c -o bwtsw2_aux.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwt_lite.c -o bwt_lite.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_chain.c -o bwtsw2_chain.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bamlite.c -o bamlite.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD main.c -o main.o
-gcc -g -O2 -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~rc-1-armel-Gx8312/bwa-0.5.9~rc'
-touch debian/stamp-makefile-build
-DEB_MAKE_CHECK_TARGET unset, not running checks
- /usr/bin/fakeroot debian/rules binary-arch
-test -x debian/rules
-dh_testroot
-dh_prep
-dh_installdirs -A
-mkdir -p "."
-DEB_MAKE_CHECK_TARGET unset, not running checks
-DEB_MAKE_INSTALL_TARGET unset, skipping default makefile.mk common-install target
-Adding cdbs dependencies to debian/bwa.substvars
-dh_installdirs -pbwa
-dh_installdocs -pbwa ./NEWS
-dh_installexamples -pbwa
-dh_installman -pbwa
-dh_installinfo -pbwa
-dh_installmenu -pbwa
-dh_installcron -pbwa
-dh_installinit -pbwa
-dh_installdebconf -pbwa
-dh_installemacsen -pbwa
-dh_installcatalogs -pbwa
-dh_installpam -pbwa
-dh_installlogrotate -pbwa
-dh_installlogcheck -pbwa
-dh_installchangelogs -pbwa ./ChangeLog
-dh_installudev -pbwa
-dh_lintian -pbwa
-dh_install -pbwa
-dh_link -pbwa
-dh_installmime -pbwa
-dh_strip -pbwa
-dh_compress -pbwa
-dh_fixperms -pbwa
-dh_makeshlibs -pbwa
-dh_installdeb -pbwa
-dh_perl -pbwa
-dh_shlibdeps -pbwa
-dh_gencontrol -pbwa
+dh build
+ dh_testdir
+ dh_auto_configure
+ debian/rules override_dh_auto_build
+make[1]: Entering directory `/build/buildd-bwa_0.6.0-2-armel-VuV6k3/bwa-0.6.0'
+dh_auto_build -- CFLAGS="-Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro" DFLAGS="-DHAVE_PTHREAD -D_NO_SSE2"
+make[2]: Entering directory `/build/buildd-bwa_0.6.0-2-armel-VuV6k3/bwa-0.6.0'
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 QSufSort.c -o QSufSort.o
+QSufSort.c: In function 'QSufSortSuffixSort':
+QSufSort.c:62:10: warning: variable 'maxNumInputSymbol' set but not used [-Wunused-but-set-variable]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt_gen.c -o bwt_gen.o
+bwt_gen.c: In function 'BWTIncBuildRelativeRank':
+bwt_gen.c:873:10: warning: variable 'oldInverseSa0RelativeRank' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncMergeBwt':
+bwt_gen.c:947:15: warning: variable 'bitsInWordMinusBitPerChar' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncConstructFromPacked':
+bwt_gen.c:1452:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwt_gen.c:1468:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwt_gen.c:1483:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 utils.c -o utils.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt.c -o bwt.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtio.c -o bwtio.o
+bwtio.c: In function 'bwt_restore_bwt':
+bwtio.c:62:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:63:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:64:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c: In function 'bwt_restore_sa':
+bwtio.c:36:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:38:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:39:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:40:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:47:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtaln.c -o bwtaln.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtgap.c -o bwtgap.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 is.c -o is.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bntseq.c -o bntseq.o
+bntseq.c: In function 'bns_restore_core':
+bntseq.c:98:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:106:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:114:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:123:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:129:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtmisc.c -o bwtmisc.o
+bwtmisc.c: In function 'bwa_pac2cspac_core':
+bwtmisc.c:172:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtmisc.c: In function 'bwt_pac2bwt':
+bwtmisc.c:72:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtmisc.c: In function 'bwa_seq_len':
+bwtmisc.c:51:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtindex.c -o bwtindex.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 ksw.c -o ksw.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 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 -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 simple_dp.c -o simple_dp.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwaseqio.c -o bwaseqio.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwase.c -o bwase.o
+bwase.c: In function 'bwa_aln2seq_core':
+bwase.c:74:15: warning: variable 'k' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_print_sam1':
+bwase.c:447:17: warning: variable 'm_is_N' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_sai2sam_se_core':
+bwase.c:603:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:619:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:624:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c: In function 'bwa_refine_gapped':
+bwase.c:310:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:316:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwape.c -o bwape.o
+bwape.c: In function 'bwa_sai2sam_pe_core':
+bwape.c:683:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:686:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:697:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c: In function 'bwa_paired_sw':
+bwape.c:527:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c: In function 'bwa_cal_pac_pos_pe':
+bwape.c:312:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:316:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 kstring.c -o kstring.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 cs2nt.c -o cs2nt.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_core.c -o bwtsw2_core.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_main.c -o bwtsw2_main.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_aux.c -o bwtsw2_aux.o
+bwtsw2_aux.c: In function 'gen_cigar':
+bwtsw2_aux.c:186:7: warning: variable 'score' set but not used [-Wunused-but-set-variable]
+bwtsw2_aux.c: In function 'bsw2_aln':
+bwtsw2_aux.c:734:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt_lite.c -o bwt_lite.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_chain.c -o bwtsw2_chain.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bamlite.c -o bamlite.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 fastmap.c -o fastmap.o
+fastmap.c: In function 'main_fastmap':
+fastmap.c:54:3: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'size_t' [-Wformat]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_pair.c -o bwtsw2_pair.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 main.c -o main.o
+gcc -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 QSufSort.o bwt_gen.o utils.o bwt.o bwtio.o bwtaln.o bwtgap.o is.o bntseq.o bwtmisc.o bwtindex.o ksw.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 fastmap.o bwtsw2_pair.o main.o -o bwa -lm -lz -lpthread
+make[2]: Leaving directory `/build/buildd-bwa_0.6.0-2-armel-VuV6k3/bwa-0.6.0'
+make[1]: Leaving directory `/build/buildd-bwa_0.6.0-2-armel-VuV6k3/bwa-0.6.0'
+ dh_auto_test
+ fakeroot debian/rules binary-arch
+dh binary-arch
+ dh_testroot -a
+ dh_prep -a
+ dh_installdirs -a
+ dh_auto_install -a
+ dh_install -a
+ dh_installdocs -a
+ dh_installchangelogs -a
+ dh_installexamples -a
+ dh_installman -a
+ dh_installcatalogs -a
+ dh_installcron -a
+ dh_installdebconf -a
+ dh_installemacsen -a
+ dh_installifupdown -a
+ dh_installinfo -a
+ dh_installinit -a
+ dh_installmenu -a
+ dh_installmime -a
+ dh_installmodules -a
+ dh_installlogcheck -a
+ dh_installlogrotate -a
+ dh_installpam -a
+ dh_installppp -a
+ 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
+ dh_perl -a
+ dh_usrlocal -a
+ dh_link -a
+ dh_compress -a
+ dh_fixperms -a
+ dh_strip -a
+ dh_makeshlibs -a
+ dh_shlibdeps -a
+ dh_installdeb -a
+ dh_gencontrol -a
dpkg-gencontrol: warning: package bwa: unused substitution variable ${perl:Depends}
-dh_md5sums -pbwa
-dh_builddeb -pbwa
-dpkg-deb: building package `bwa' in `../bwa_0.5.9~rc-1_armel.deb'.
- dpkg-genchanges -B -marmel Build Daemon (alain) <buildd_armel-alain at buildd.debian.org> >../bwa_0.5.9~rc-1_armel.changes
+ dh_md5sums -a
+ dh_builddeb -a
+dpkg-deb: building package `bwa' in `../bwa_0.6.0-2_armel.deb'.
+ dpkg-genchanges -B -marmel Build Daemon (alwyn) <buildd_armel-alwyn at buildd.debian.org> >../bwa_0.6.0-2_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~rc
+ dpkg-source --after-build bwa-0.6.0
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110120-1316
+Build finished at 20111122-0324
-bwa_0.5.9~rc-1_armel.changes:
+bwa_0.6.0-2_armel.changes:
Format: 1.8
-Date: Thu, 20 Jan 2011 21:42:55 +0900
+Date: Tue, 22 Nov 2011 11:32:11 +0900
Source: bwa
Binary: bwa
Architecture: armel
-Version: 0.5.9~rc-1
+Version: 0.6.0-2
Distribution: experimental
Urgency: low
-Maintainer: armel Build Daemon (alain) <buildd_armel-alain at buildd.debian.org>
+Maintainer: armel Build Daemon (alwyn) <buildd_armel-alwyn at buildd.debian.org>
Changed-By: Charles Plessy <plessy at debian.org>
Description:
bwa - Burrows-Wheeler Aligner
+Closes: 648803
Changes:
- bwa (0.5.9~rc-1) experimental; urgency=low
+ bwa (0.6.0-2) experimental; urgency=low
.
- * New usptream release candidate.
+ [9410de3] Disable SSE2 everywhere except on amd64 (Closes: #648803).
+ [fb4c559] Reimplementation of Standard SW for when SSE2 is unavailable.
+ cherry picked from upstream commit 182cb2e.
+ This commit modifies upstream sources.
+ [9c93ccd] Use native format to bypass mandatory patch system.
Checksums-Sha1:
- 05f2f57e8621f772aea3438ccd1bda18905d0dae 138552 bwa_0.5.9~rc-1_armel.deb
+ f030e7a1f4dc22ba20d5f6dbb447e26903bee09e 163870 bwa_0.6.0-2_armel.deb
Checksums-Sha256:
- df7fbf078e3a63b03cb1cabd543d3da1f3b80214ce77fe800167a0f0495ccf3a 138552 bwa_0.5.9~rc-1_armel.deb
+ 1d638d16966baa121e577d33dacadd38e7c7d14acc5c905a2118d275569f7c90 163870 bwa_0.6.0-2_armel.deb
Files:
- 184ea0f4ce2f2f8d2f4cdded813bd43f 138552 science optional bwa_0.5.9~rc-1_armel.deb
+ f05a3f5ea70780ffd43c724686bdbd53 163870 science optional bwa_0.6.0-2_armel.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bwa_0.5.9~rc-1_armel.deb
-────────────────────────
+bwa_0.6.0-2_armel.deb
+─────────────────────
new debian package, version 2.0.
- size 138552 bytes: control archive= 949 bytes.
- 777 bytes, 17 lines control
- 556 bytes, 9 lines md5sums
+ size 163870 bytes: control archive= 1002 bytes.
+ 796 bytes, 17 lines control
+ 610 bytes, 10 lines md5sums
Package: bwa
- Version: 0.5.9~rc-1
+ Version: 0.6.0-2
Architecture: armel
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 308
- Depends: libc6 (>= 2.7), zlib1g (>= 1:1.1.4)
+ Installed-Size: 319
+ Depends: libc6 (>= 2.7), libgcc1 (>= 1:4.4.0), zlib1g (>= 1:1.1.4)
Suggests: samtools
Section: science
Priority: optional
@@ -492,24 +575,25 @@ bwa_0.5.9~rc-1_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 2011-01-20 13:15 ./
-drwxr-xr-x root/root 0 2011-01-20 13:15 ./usr/
-drwxr-xr-x root/root 0 2011-01-20 13:15 ./usr/share/
-drwxr-xr-x root/root 0 2011-01-20 13:15 ./usr/share/bwa/
--rwxr-xr-x root/root 616 2011-01-20 11:35 ./usr/share/bwa/qualfa2fq.pl
--rwxr-xr-x root/root 3176 2011-01-20 11:35 ./usr/share/bwa/solid2fastq.pl
-drwxr-xr-x root/root 0 2011-01-20 13:15 ./usr/share/man/
-drwxr-xr-x root/root 0 2011-01-20 13:15 ./usr/share/man/man1/
--rw-r--r-- root/root 7423 2011-01-20 13:15 ./usr/share/man/man1/bwa.1.gz
-drwxr-xr-x root/root 0 2011-01-20 13:15 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-01-20 13:15 ./usr/share/doc/bwa/
--rw-r--r-- root/root 805 2011-01-20 12:43 ./usr/share/doc/bwa/changelog.Debian.gz
--rw-r--r-- root/root 5606 2011-01-20 11:35 ./usr/share/doc/bwa/NEWS.gz
--rw-r--r-- root/root 2679 2011-01-20 11:52 ./usr/share/doc/bwa/copyright
--rw-r--r-- root/root 17751 2011-01-20 11:35 ./usr/share/doc/bwa/changelog.gz
--rw-r--r-- root/root 17751 2011-01-20 11:35 ./usr/share/doc/bwa/ChangeLog.gz
-drwxr-xr-x root/root 0 2011-01-20 13:15 ./usr/bin/
--rwxr-xr-x root/root 196288 2011-01-20 13:15 ./usr/bin/bwa
+drwxr-xr-x root/root 0 2011-11-22 03:23 ./
+drwxr-xr-x root/root 0 2011-11-22 03:23 ./usr/
+drwxr-xr-x root/root 0 2011-11-22 03:23 ./usr/share/
+drwxr-xr-x root/root 0 2011-11-22 03:23 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-11-22 03:24 ./usr/share/doc/bwa/
+-rw-r--r-- root/root 1471 2011-11-22 02:32 ./usr/share/doc/bwa/changelog.Debian.gz
+-rw-r--r-- root/root 634 2011-11-22 01:55 ./usr/share/doc/bwa/README
+-rw-r--r-- root/root 6680 2011-11-22 01:55 ./usr/share/doc/bwa/NEWS.gz
+-rw-r--r-- root/root 17912 2011-11-22 01:55 ./usr/share/doc/bwa/changelog.gz
+-rw-r--r-- root/root 2785 2011-11-22 01:55 ./usr/share/doc/bwa/copyright
+drwxr-xr-x root/root 0 2011-11-22 03:23 ./usr/share/bwa/
+-rwxr-xr-x root/root 730 2011-11-22 01:55 ./usr/share/bwa/xa2multi.pl
+-rwxr-xr-x root/root 616 2011-11-22 01:55 ./usr/share/bwa/qualfa2fq.pl
+-rwxr-xr-x root/root 3176 2011-11-22 01:55 ./usr/share/bwa/solid2fastq.pl
+drwxr-xr-x root/root 0 2011-11-22 03:23 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-11-22 03:24 ./usr/share/man/man1/
+-rw-r--r-- root/root 7745 2011-11-22 03:23 ./usr/share/man/man1/bwa.1.gz
+drwxr-xr-x root/root 0 2011-11-22 03:24 ./usr/bin/
+-rwxr-xr-x root/root 243160 2011-11-22 03:24 ./usr/bin/bwa
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -518,9 +602,32 @@ drwxr-xr-x root/root 0 2011-01-20 13:15 ./usr/bin/
Built successfully
────────────────────────────────────────────────────────────────────────────────
-Purging /var/lib/schroot/mount/sid-experimental-armel-sbuild-917dcce5-f416-4fd6-810e-6781a2ea9dd2/build/buildd-bwa_0.5.9~rc-1-armel-Gx8312
-Not removing build depends: cloned chroot in use
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /var/lib/schroot/mount/sid-experimental-armel-sbuild-384427d4-6856-4ef9-a361-59a4593ba0b2/build/buildd-bwa_0.6.0-2-armel-VuV6k3
+Not cleaning session: cloned chroot in use
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Architecture: armel
+Build-Space: 2884
+Build-Time: 167
+Distribution: experimental
+Install-Time: 178
+Job: bwa_0.6.0-2
+Package: bwa
+Package-Time: 444
+Source-Version: 0.6.0-2
+Space: 2884
+Status: successful
+Version: 0.6.0-2
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110120-1316
-Build needed 00:05:44, 2436k disc space
+Finished at 20111122-0324
+Build needed 00:07:24, 2884k disc space
+Signature with key 'E832C355' requested:
diff --git a/hurd-i386.log b/hurd-i386.log
index 6cf0a38..1b825f0 100644
--- a/hurd-i386.log
+++ b/hurd-i386.log
@@ -1,39 +1,79 @@
-From buildd at mozart.debian.net Sat Jan 22 05:29:18 2011
-Return-path: <buildd at mozart.debian.net>
-Received: from callisto.debian.net ([80.87.129.151])
+From buildd at rossini.debian.net Tue Nov 22 09:03:46 2011
+Return-path: <buildd at rossini.debian.net>
+Received: from io.ethz.ch ([129.132.80.17] helo=io.debian.net)
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 1PgW2H-0004BQ-Ok
- for logs at buildd.debian.org; Sat, 22 Jan 2011 05:29:18 +0000
-Received: from mozart.debian.net ([10.1.0.1])
- by callisto.debian.net with esmtp (Exim 4.69)
- (envelope-from <buildd at mozart.debian.net>)
- id 1PgW2F-00016d-Ul; Sat, 22 Jan 2011 05:29:15 +0000
-Received: from buildd by mozart.debian.net with local (Exim 4.72)
- (envelope-from <buildd at mozart.debian.net>)
- id 1PgW2G-0006tB-Vp; Sat, 22 Jan 2011 05:29:17 +0000
-Date: Sat, 22 Jan 2011 05:29:16 +0000
-Message-Id: <E1PgW2G-0006tB-Vp 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~rc-1 on hurd-i386
+ (Exim 4.72) (envelope-from <buildd at rossini.debian.net>)
+ id 1RSmGY-00075i-7O
+ for logs at buildd.debian.org; Tue, 22 Nov 2011 09:03:46 +0000
+Received: from hurd.ethz.ch ([192.33.98.55] helo=rossini.debian.net)
+ by io.debian.net with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at rossini.debian.net>)
+ id 1RSmGT-000OJc-MO; Tue, 22 Nov 2011 10:03:41 +0100
+Received: from buildd by rossini.debian.net with local (Exim 4.72)
+ (envelope-from <buildd at rossini.debian.net>)
+ id 1RSmGh-00072o-Hp; Tue, 22 Nov 2011 09:03:55 +0000
+Date: Tue, 22 Nov 2011 09:03:55 +0000
+Message-Id: <E1RSmGh-00072o-Hp at rossini.debian.net>
+From: Build Daemon <buildd at rossini.debian.net>
+To: samuel.thibault at ens-lyon.org, mbanck at gmx.net, logs at buildd.debian-ports.org,
+ logs at buildd.debian.org
+Subject: Log for successful build of bwa_0.6.0-2 on hurd-i386
(dist=experimental)
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 rossini.debian.net
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bwa 0.5.9~rc-1 (hurd-i386) 22 janv. 2011 05:24 ║
+║ bwa 0.6.0-2 (hurd-i386) 22 Nov 2011 08:56 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bwa
-Version: 0.5.9~rc-1
+Version: 0.6.0-2
+Source Version: 0.6.0-2
Architecture: hurd-i386
-Chroot Build Dir: /home/buildd/build/chroot-experimental/build/buildd-bwa_0.5.9~rc-1-hurd-i386-TIJBn8
-Start Time: 20110122-0524
+Ign file: ./ InRelease
+Ign file: ./ Release.gpg
+Ign file: ./ Release
+Ign file: ./ Translation-en
+Hit http://ftp.ch.debian.org unstable InRelease
+Hit http://ftp.ch.debian.org experimental InRelease
+Hit http://ftp.fr.debian.org unstable InRelease
+Hit http://ftp.fr.debian.org experimental InRelease
+Hit http://ftp.ch.debian.org unstable/main Sources/DiffIndex
+Ign http://ftp.debian-ports.org unreleased InRelease
+Ign http://incoming.debian.org InRelease
+Ign http://incoming.debian.org InRelease
+Hit http://ftp.ch.debian.org unstable/contrib Sources/DiffIndex
+Hit http://ftp.ch.debian.org unstable/non-free Sources/DiffIndex
+Hit http://ftp.ch.debian.org unstable/main hurd-i386 Packages/DiffIndex
+Hit http://ftp.ch.debian.org unstable/main TranslationIndex
+Hit http://ftp.ch.debian.org experimental/main Sources/DiffIndex
+Hit http://incoming.debian.org Release.gpg
+Hit http://ftp.fr.debian.org unstable/main Sources/DiffIndex
+Hit http://ftp.ch.debian.org experimental/contrib Sources/DiffIndex
+Hit http://ftp.ch.debian.org experimental/non-free Sources/DiffIndex
+Hit http://ftp.debian-ports.org unreleased Release.gpg
+Hit http://incoming.debian.org Release.gpg
+Hit http://ftp.fr.debian.org unstable/contrib Sources/DiffIndex
+Hit http://ftp.fr.debian.org unstable/non-free Sources/DiffIndex
+Hit http://ftp.fr.debian.org unstable/main hurd-i386 Packages/DiffIndex
+Hit http://ftp.debian-ports.org unreleased Release
+Hit http://ftp.fr.debian.org unstable/main TranslationIndex
+Hit http://ftp.fr.debian.org experimental/main Sources/DiffIndex
+Hit http://ftp.fr.debian.org experimental/contrib Sources/DiffIndex
+Hit http://ftp.fr.debian.org experimental/non-free Sources/DiffIndex
+Hit http://incoming.debian.org Release
+Hit http://incoming.debian.org Release
+Hit http://ftp.debian-ports.org unreleased/main hurd-i386 Packages
+Hit http://incoming.debian.org Sources
+Ign http://ftp.debian-ports.org unreleased/main TranslationIndex
+Hit http://incoming.debian.org Packages
+Hit http://incoming.debian.org Sources
+Ign http://ftp.debian-ports.org unreleased/main Translation-en
+Ign http://incoming.debian.org Translation-en
+Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Fetch source files │
@@ -52,59 +92,158 @@ 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 118 kB of source archives.
-Get:1 http://ftp.uk.debian.org/debian/ experimental/main bwa 0.5.9~rc-1 (dsc) [1915 B]
-Get:2 http://ftp.uk.debian.org/debian/ experimental/main bwa 0.5.9~rc-1 (tar) [113 kB]
-Get:3 http://ftp.uk.debian.org/debian/ experimental/main bwa 0.5.9~rc-1 (diff) [3594 B]
-Fetched 118 kB in 0s (591 kB/s)
+git://git.debian.org/debian-med/bwa.git
+Need to get 171 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-experimental/ bwa 0.6.0-2 (dsc) [1681 B]
+Get:2 http://incoming.debian.org/buildd-experimental/ bwa 0.6.0-2 (tar) [169 kB]
+Fetched 171 kB in 1s (129 kB/s)
Download complete and in download only mode
Check arch
──────────
-** Using build dependencies supplied by package:
-Build-Depends: cdbs, 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 38 not upgraded.
+Removing negative dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 38 not upgraded.
+Checking correctness of dependencies...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install bwa build dependencies (internal resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
-Checking for already installed source dependencies...
-cdbs: missing
-debhelper: already installed (8.0.0 >= 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 (>= 8.9.4~), 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+hurd.1)
+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-2011-10-16-1)
+findutils: already installed (4.4.2-1+b1)
+grep: already installed (2.9-2)
+gzip: already installed (1.3.12-9)
+hostname: already installed (3.06)
+hurd: already installed (20111106-1)
+ncurses-base: already installed (5.9-2)
+ncurses-bin: already installed (5.9-4)
+perl-base: already installed (5.14.2-4)
+sed: already installed (4.2.1-9)
+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)
+util-linux: already installed (2.19.1-5)
+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 (4:4.6.1-3 >= 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)
+hurd-dev: already installed (20111106-1)
+debhelper: missing
+Using default version 8.9.11
zlib1g-dev: missing
-Checking for source dependency conflicts...
-Installing positive dependencies: cdbs zlib1g-dev
-debconf: delaying package configuration, since apt-utils is not installed
+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 adduser 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 libexpat1
+ libffi5 libglib2.0-0 libmagic1 libunistring0 libxml2 po-debconf
Suggested packages:
- devscripts doc-base
+ dh-make gettext-doc libmail-box-perl
Recommended packages:
- autotools-dev
+ autopoint libglib2.0-data shared-mime-info xml-core libmail-sendmail-perl
The following NEW packages will be installed:
- cdbs zlib1g-dev
-0 upgraded, 2 newly installed, 0 to remove and 48 not upgraded.
-Need to get 0 B/1460 kB of archives.
-After this operation, 2187 kB of additional disk space will be used.
-Selecting previously deselected package cdbs.
-(Reading database ... 12558 files and directories currently installed.)
-Unpacking cdbs (from .../archives/cdbs_0.4.91_all.deb) ...
-Selecting previously deselected package zlib1g-dev.
-Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.5.dfsg-1_hurd-i386.deb) ...
+ debhelper file gettext gettext-base html2text intltool-debian libcroco3
+ libexpat1 libffi5 libglib2.0-0 libmagic1 libunistring0 libxml2 po-debconf
+ zlib1g-dev
+0 upgraded, 15 newly installed, 0 to remove and 38 not upgraded.
+Need to get 0 B/6939 kB of archives.
+After this operation, 19.6 MB of additional disk space will be used.
+WARNING: The following packages cannot be authenticated!
+ libffi5 libglib2.0-0 libxml2 libcroco3 libexpat1 libunistring0 libmagic1
+ file gettext-base html2text gettext intltool-debian po-debconf debhelper
+ zlib1g-dev
+Authentication warning overridden.
+Selecting previously unselected package libffi5.
+(Reading database ... 12715 files and directories currently installed.)
+Unpacking libffi5 (from .../libffi5_3.0.10-3_hurd-i386.deb) ...
+Selecting previously unselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.30.2-4_hurd-i386.deb) ...
+Selecting previously unselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-5_hurd-i386.deb) ...
+Selecting previously unselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-2_hurd-i386.deb) ...
+Selecting previously unselected package libexpat1.
+Unpacking libexpat1 (from .../libexpat1_2.0.1-7.2_hurd-i386.deb) ...
+Selecting previously unselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-5_hurd-i386.deb) ...
+Selecting previously unselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.09-2_hurd-i386.deb) ...
+Selecting previously unselected package file.
+Unpacking file (from .../file_5.09-2_hurd-i386.deb) ...
+Selecting previously unselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-5_hurd-i386.deb) ...
+Selecting previously unselected package html2text.
+Unpacking html2text (from .../html2text_1.3.2a-15+b1_hurd-i386.deb) ...
+Selecting previously unselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-5_hurd-i386.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_8.9.11_all.deb) ...
+Selecting previously unselected package zlib1g-dev.
+Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_hurd-i386.deb) ...
Processing triggers for man-db ...
-Setting up cdbs (0.4.91) ...
-Setting up zlib1g-dev (1:1.2.5.dfsg-1) ...
+Processing triggers for install-info ...
+Setting up libffi5 (3.0.10-3) ...
+Setting up libglib2.0-0 (2.30.2-4) ...
+No schema files found: doing nothing.
+Setting up libxml2 (2.7.8.dfsg-5) ...
+Setting up libcroco3 (0.6.2-2) ...
+Setting up libexpat1 (2.0.1-7.2) ...
+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+b1) ...
+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 (8.9.11) ...
+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 38 not upgraded.
+Checking correctness of dependencies...
Kernel: GNU 0.3 hurd-i386 (i686-AT386)
-Toolchain package versions: libc0.3-dev_2.11.2-6+b1 dpkg-dev_1.15.8.5 hurd-dev_20100926-1 gnumach-dev_2:1.3.99.dfsg.git20100732-1 gcc-4.4_4.4.5-7 g++-4.4_4.4.5-7 binutils_2.21-4 libstdc++6-4.4-dev_4.4.5-7 libstdc++6_4.5.2-1
-Package versions: adduser_3.112+nmu1 apt_0.8.8 base-files_5.9 base-passwd_3.5.22 bash_4.1-3 binutils_2.21-4 bsdmainutils_8.0.13 bsdutils_1:2.16.2-0 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.91 coreutils_8.5-1 cpio_2.11-4 cpp_4:4.5.1-1exp1 cpp-4.4_4.4.5-7 cpp-4.5_4.5.2-1 dash_0.5.5.1-7.2 debconf_1.5.36 debconf-english_1.5.36 debfoster_2.6-2 debhelper_8.0.0 debian-archive-keyring_2010.08.28 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_1.15.8.5 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.12.4 file_5.03-5+b1 findutils_4.4.2-1+b1 fontconfig_2.8.0-2.1 fontconfig-config_2.8.0-2.1 g++_4:4.4.5-1 g++-4.4_4.4.5-7 gawk_1:3.1.7.dfsg-5 gcc_4:4.4.5-2 gcc-4.4_4.4.5-7 gcc-4.4-base_4.4.5-7 gcc-4.5_4.5.2-1 gcc-4.5-base_4.5.2-1 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnumach_2:1.3.99.dfsg.git20100732-1 gnumach-dev_2:1.3.99.dfsg.git20100732-1 gnupg_1.4.11-1 gpgv_1.4.11-1 grep_2.6.3-3 groff-base_1.21-3 gzip_1.3.12-9 hostname_3.04 html2text_1.3.2a-15 hurd_20100926-1 hurd-dev_20100926-1 initscripts_2.88dsf-12 insserv_1.14.0-2 install-info_4.13a.dfsg.1-6 intltool-debian_0.35.0+20060710.1 libacl1_2.2.47-3 libattr1_1:2.4.44-2 libblkid1_2.16.2-0 libboost-iostreams1.42.0_1.42.0-4 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-6+b1 libc-dev-bin_2.11.2-6+b1 libc0.3_2.11.2-6+b1 libc0.3-dev_2.11.2-6+b1 libc0.3-xen_2.11.2-6+b1 libcloog-ppl0_0.15.9-2 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libdb4.7_4.7.25-9 libdb4.8_4.8.30-2 libdpkg-perl_1.15.8.5 libelfg0_0.8.13-1 libexpat1_2.0.1-7 libfontconfig1_2.8.0-2.1 libfreetype6_2.4.2-2.1 libgcc1_1:4.5.2-1 libgcrypt11_1.4.6-4 libgdbm3_1.8.3-9 libglib2.0-0_2.27.91-1 libglib2.0-data_2.24.2-1 libgmp3c2_2:4.3.2+dfsg-1 libgmpxx4ldbl_2:4.3.2+dfsg-1 libgnutls26_2.8.5-2 libgomp1_4.5.2-1 libgpg-error0_1.10-0.2 libldap-2.4-2_2.4.17-1 liblzma2_4.999.9beta+20100810-1 libmagic1_5.03-5+b1 libmpc2_0.8.2-1+b1 libmpfr4_3.0.0-5 libncurses5_5.7+20101128-1 libncursesw5_5.7+20101128-1 libpam-modules_1.1.1-6.1 libpam-runtime_1.1.1-6.1 libpam0g_1.1.1-6.1 libparted0debian1_2.3-3+hurd.1 libpcre3_8.02-1.1 libpng12-0_1.2.44-1 libpopt0_1.16-1 libppl-c2_0.10.2-9 libppl7_0.10.2-9 libpthread-stubs0_0.3-2 libpthread-stubs0-dev_0.3-2 libreadline6_6.1-3 libsasl2-2_2.1.23.dfsg1-5.1 libsasl2-modules_2.1.23.dfsg1-5.1 libslang2_2.1.4-3 libss2_1.41.12-2 libssl0.9.8_0.9.8o-4 libssl1.0.0_1.0.0c-2 libstdc++6_4.5.2-1 libstdc++6-4.4-dev_4.4.5-7 libtasn1-3_2.9-1 libtimedate-perl_1.2000-1 libunistring0_0.9.3-3 libuuid1_2.16.2-0 libxml2_2.7.8.dfsg-2 lsb-base_3.2-26 make_3.81-8 man-db_2.5.7-6 mawk_1.3.3-15 ncurses-base_5.7+20100313-4 ncurses-bin_5.7+20101128-1 netbase_4.43 netcat-traditional_1.10-38 passwd_1:4.1.4.2+svn3283-2 patch_2.6-3 perl_5.12.2-2 perl-base_5.12.2-2 perl-modules_5.12.2-2 po-debconf_1.0.16 procps_1:3.2.7-11 psmisc_22.3-1 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-bitstream-vera_1.10-8 ttf-freefont_20090104-7 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_1:1.2.5.dfsg-1 zlib1g-dev_1:1.2.5.dfsg-1
+Toolchain package versions: binutils_2.21.53.20110823-3+hurd.1 dpkg-dev_1.16.1 g++-4.5_4.5.3-9 g++-4.6_4.6.2-4+hurd.1 gcc-4.4_4.4.6-11 gcc-4.5_4.5.3-9 gcc-4.6_4.6.2-4+hurd.1 gnumach-dev_2:1.3.99.dfsg.git20111010-1 hurd-dev_20111106-1 libc0.3-dev_2.13-21 libstdc++6_4.6.2-4+hurd.1 libstdc++6-4.5-dev_4.5.3-9 libstdc++6-4.6-dev_4.6.2-4+hurd.1
+Package versions: adduser_3.113 apt_0.8.15.9 apt-utils_0.8.15.9 aptitude_0.6.4-1 base-files_6.5 base-passwd_3.5.23 bash_4.1-3+hurd.1 binutils_2.21.53.20110823-3+hurd.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-4.4_4.4.6-11 cpp-4.5_4.5.3-9 cpp-4.6_4.6.2-4+hurd.1 dash_0.5.7-2 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.11 debian-archive-keyring_2010.08.28 debian-ports-archive-keyring_2011.01.12 debianutils_4.0.4 diffutils_1:3.0-1 dpkg_1.16.1 dpkg-dev_1.16.1 e2fslibs_1.42~WIP-2011-10-16-1 e2fsprogs_1.42~WIP-2011-10-16-1 fakeroot_1.15.1-1 file_5.09-2 findutils_4.4.2-1+b1 g++_4:4.6.1-3 g++-4.5_4.5.3-9 g++-4.6_4.6.2-4+hurd.1 gawk_1:3.1.8+dfsg-0.1 gcc_4:4.6.1-3 gcc-4.2-base_4.2.4-6+b1 gcc-4.4_4.4.6-11 gcc-4.4-base_4.4.6-11 gcc-4.5_4.5.3-9 gcc-4.5-base_4.5.3-9 gcc-4.6_4.6.2-4+hurd.1 gcc-4.6-base_4.6.2-4+hurd.1 gettext_0.18.1.1-5 gettext-base_0.18.1.1-5 gfortran_4:4.6.1-3 gfortran-4.4_4.4.6-11 gfortran-4.6_4.6.2-4+hurd.1 gnumach-dev_2:1.3.99.dfsg.git20111010-1 gnupg_1.4.11-3 gobjc-4.4_4.4.6-11 gpgv_1.4.11-3 grep_2.9-2 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 ifupdown_0.6.9+hurd.1 inetutils-tools_2:1.8-3 initscripts_2.88dsf-13.11 insserv_1.14.0-2.1 install-info_4.13a.dfsg.1-8 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-4 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libboost-iostreams1.46.1_1.46.1-7 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_0.6.2-2 libcwidget3_0.5.16-3.1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.1 libelfg0_0.8.13-3 libept1_1.0.5 libexpat1_2.0.1-7.2 libffi5_3.0.10-3 libfribidi0_0.19.2-1 libgc1c2_1:7.1-8 libgcc1_1:4.6.2-4+hurd.1 libgcrypt11_1.5.0-3 libgdbm3_1.8.3-10 libgfortran3_4.6.2-4+hurd.1 libglib2.0-0_2.30.2-4 libgmp10_2:5.0.2+dfsg-2 libgmpxx4ldbl_2:5.0.2+dfsg-2 libgnutls26_2.12.14-3 libgomp1_4.6.2-4+hurd.1 libgpg-error0_1.10-1 libident_0.22-3 libidn11_1.22-3 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 libnewt0.52_0.52.11-2.1 libobjc2_4.5.3-9 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_1.1.3-6 libparted0debian1_2.3-3+hurd.1 libpcre3_8.12-4 libpipeline1_1.2.0-4 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_4.6.2-4+hurd.1 libreadline6_6.2-7 libsasl2-2_2.1.25.dfsg1-2 libsasl2-modules_2.1.25.dfsg1-2 libsigc++-2.0-0c2a_2.2.9-1 libsigsegv2_2.9-4 libslang2_2.2.4-3 libsqlite3-0_3.7.9-2 libss2_1.42~WIP-2011-10-09-1 libssl0.9.8_0.9.8o-7+b1 libssl1.0.0_1.0.0e-2.1 libstdc++6_4.6.2-4+hurd.1 libstdc++6-4.5-dev_4.5.3-9 libstdc++6-4.6-dev_4.6.2-4+hurd.1 libswitch-perl_2.16-2 libsysfs2_2.1.0+repack-1 libtasn1-3_2.10-1 libtext-iconv-perl_1.7-4+b1 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 libxapian22_1.2.7-1 libxml2_2.7.8.dfsg-5 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-15 multiarch-support_2.13-21 ncurses-base_5.9-2 ncurses-bin_5.9-4 netbase_4.46 netcat-traditional_1.10-39 original-awk_2011-08-10-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.14.2-4 perl-base_5.14.2-4 perl-modules_5.14.2-5 po-debconf_1.0.16+nmu1 procps_1:3.2.8-11 psmisc_22.3-1 readline-common_6.2-7 sed_4.2.1-9 sensible-utils_0.0.6 sysv-rc_2.88dsf-13.11 sysvinit_2.88dsf-13.11 sysvinit-utils_2.88dsf-13.11 tar_1.26-2 type-handling_0.2.23 tzdata_2011l-1 util-linux_2.19.1-5 wget_1.13-1 whiptail_0.52.11-2.1 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 │
@@ -114,14 +253,12 @@ Package versions: adduser_3.112+nmu1 apt_0.8.8 base-files_5.9 base-passwd_3.5.22
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 Thu Jan 20 12:57:54 2011 UTC using RSA key ID 2295D502
+gpgv: Signature made Tue Nov 22 02:41:12 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~rc-1.dsc
-dpkg-source: info: extracting bwa in bwa-0.5.9~rc
-dpkg-source: info: unpacking bwa_0.5.9~rc.orig.tar.bz2
-dpkg-source: info: unpacking bwa_0.5.9~rc-1.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bwa_0.6.0-2.dsc
+dpkg-source: info: extracting bwa in bwa-0.6.0
+dpkg-source: info: unpacking bwa_0.6.0-2.tar.gz
Check disc space
────────────────
@@ -130,161 +267,228 @@ 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~rc-1
- dpkg-source --before-build bwa-0.5.9~rc
+dpkg-buildpackage: source version 0.6.0-2
+ dpkg-source --before-build bwa-0.6.0
dpkg-buildpackage: host architecture hurd-i386
/usr/bin/fakeroot debian/rules clean
-test -x debian/rules
-dh_testroot
-rm -f debian/stamp-makefile-build debian/stamp-makefile-install
-/usr/bin/make -C . CFLAGS="-g -O2 -g -O2" CXXFLAGS="-g -O2 -g -O2" CPPFLAGS="" LDFLAGS="" -k clean
-make[1]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-hurd-i386-TIJBn8/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-hurd-i386-TIJBn8/bwa-0.5.9~rc'
+dh clean
+ dh_testdir
+ dh_auto_clean
+make[1]: Entering directory `/build/buildd-bwa_0.6.0-2-hurd-i386-umbQPZ/bwa-0.6.0'
rm -f gmon.out *.o a.out bwa *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-hurd-i386-TIJBn8/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-hurd-i386-TIJBn8/bwa-0.5.9~rc/bwt_gen'
-rm -f gmon.out *.o a.out *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-hurd-i386-TIJBn8/bwa-0.5.9~rc/bwt_gen'
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-hurd-i386-TIJBn8/bwa-0.5.9~rc'
-dh_clean
+make[1]: Leaving directory `/build/buildd-bwa_0.6.0-2-hurd-i386-umbQPZ/bwa-0.6.0'
+ dh_clean
debian/rules build
-test -x debian/rules
-mkdir -p "."
-/usr/bin/make -C . CFLAGS="-g -O2 -g -O2" CXXFLAGS="-g -O2 -g -O2" CPPFLAGS="" LDFLAGS=""
-make[1]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-hurd-i386-TIJBn8/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-hurd-i386-TIJBn8/bwa-0.5.9~rc'
-make[2]: Nothing to be done for `lib'.
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-hurd-i386-TIJBn8/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-hurd-i386-TIJBn8/bwa-0.5.9~rc/bwt_gen'
-gcc -c -g -O2 -g -O2 -DHAVE_PTHREAD bwt_gen.c -o bwt_gen.o
-gcc -c -g -O2 -g -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~rc-1-hurd-i386-TIJBn8/bwa-0.5.9~rc/bwt_gen'
-gcc -c -g -O2 -g -O2 -DHAVE_PTHREAD utils.c -o utils.o
-gcc -c -g -O2 -g -O2 -DHAVE_PTHREAD bwt.c -o bwt.o
-gcc -c -g -O2 -g -O2 -DHAVE_PTHREAD bwtio.c -o bwtio.o
-gcc -c -g -O2 -g -O2 -DHAVE_PTHREAD bwtaln.c -o bwtaln.o
-gcc -c -g -O2 -g -O2 -DHAVE_PTHREAD bwtgap.c -o bwtgap.o
-gcc -c -g -O2 -g -O2 -DHAVE_PTHREAD is.c -o is.o
-gcc -c -g -O2 -g -O2 -DHAVE_PTHREAD bntseq.c -o bntseq.o
-gcc -c -g -O2 -g -O2 -DHAVE_PTHREAD bwtmisc.c -o bwtmisc.o
-gcc -c -g -O2 -g -O2 -DHAVE_PTHREAD bwtindex.c -o bwtindex.o
-gcc -c -g -O2 -g -O2 -DHAVE_PTHREAD stdaln.c -o stdaln.o
-gcc -c -g -O2 -g -O2 -DHAVE_PTHREAD simple_dp.c -o simple_dp.o
-gcc -c -g -O2 -g -O2 -DHAVE_PTHREAD bwaseqio.c -o bwaseqio.o
-gcc -c -g -O2 -g -O2 -DHAVE_PTHREAD bwase.c -o bwase.o
-gcc -c -g -O2 -g -O2 -DHAVE_PTHREAD bwape.c -o bwape.o
-gcc -c -g -O2 -g -O2 -DHAVE_PTHREAD kstring.c -o kstring.o
-gcc -c -g -O2 -g -O2 -DHAVE_PTHREAD cs2nt.c -o cs2nt.o
-gcc -c -g -O2 -g -O2 -DHAVE_PTHREAD bwtsw2_core.c -o bwtsw2_core.o
-gcc -c -g -O2 -g -O2 -DHAVE_PTHREAD bwtsw2_main.c -o bwtsw2_main.o
-gcc -c -g -O2 -g -O2 -DHAVE_PTHREAD bwtsw2_aux.c -o bwtsw2_aux.o
-gcc -c -g -O2 -g -O2 -DHAVE_PTHREAD bwt_lite.c -o bwt_lite.o
-gcc -c -g -O2 -g -O2 -DHAVE_PTHREAD bwtsw2_chain.c -o bwtsw2_chain.o
-gcc -c -g -O2 -g -O2 -DHAVE_PTHREAD bamlite.c -o bamlite.o
-gcc -c -g -O2 -g -O2 -DHAVE_PTHREAD main.c -o main.o
-gcc -g -O2 -g -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~rc-1-hurd-i386-TIJBn8/bwa-0.5.9~rc'
-touch debian/stamp-makefile-build
+dh build
+ dh_testdir
+ dh_auto_configure
+ debian/rules override_dh_auto_build
+make[1]: Entering directory `/build/buildd-bwa_0.6.0-2-hurd-i386-umbQPZ/bwa-0.6.0'
+dh_auto_build -- CFLAGS="-Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro" DFLAGS="-DHAVE_PTHREAD -D_NO_SSE2"
+make[2]: Entering directory `/build/buildd-bwa_0.6.0-2-hurd-i386-umbQPZ/bwa-0.6.0'
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 QSufSort.c -o QSufSort.o
+QSufSort.c: In function 'QSufSortSuffixSort':
+QSufSort.c:62:10: warning: variable 'maxNumInputSymbol' set but not used [-Wunused-but-set-variable]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt_gen.c -o bwt_gen.o
+bwt_gen.c: In function 'BWTIncBuildRelativeRank':
+bwt_gen.c:873:10: warning: variable 'oldInverseSa0RelativeRank' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncMergeBwt':
+bwt_gen.c:947:15: warning: variable 'bitsInWordMinusBitPerChar' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncConstructFromPacked':
+bwt_gen.c:1452:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwt_gen.c:1468:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwt_gen.c:1483:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 utils.c -o utils.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt.c -o bwt.o
+bwtio.c: In function 'bwt_restore_bwt':
+bwtio.c:62:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:63:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:64:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c: In function 'bwt_restore_sa':
+bwtio.c:36:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:38:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:39:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:40:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:47:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtio.c -o bwtio.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtaln.c -o bwtaln.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtgap.c -o bwtgap.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 is.c -o is.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bntseq.c -o bntseq.o
+bntseq.c: In function 'bns_restore_core':
+bntseq.c:98:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:106:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:114:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:123:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:129:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bwtmisc.c: In function 'bwa_pac2cspac_core':
+bwtmisc.c:172:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtmisc.c: In function 'bwt_pac2bwt':
+bwtmisc.c:72:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtmisc.c: In function 'bwa_seq_len':
+bwtmisc.c:51:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtmisc.c -o bwtmisc.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 -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtindex.c -o bwtindex.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 ksw.c -o ksw.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 stdaln.c -o stdaln.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 simple_dp.c -o simple_dp.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwaseqio.c -o bwaseqio.o
+bwase.c: In function 'bwa_aln2seq_core':
+bwase.c:74:15: warning: variable 'k' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_print_sam1':
+bwase.c:447:17: warning: variable 'm_is_N' set but not used [-Wunused-but-set-variable]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwase.c -o bwase.o
+bwase.c: In function 'bwa_sai2sam_se_core':
+bwase.c:603:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:619:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:624:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c: In function 'bwa_refine_gapped':
+bwase.c:310:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:316:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwape.c -o bwape.o
+bwape.c: In function 'bwa_sai2sam_pe_core':
+bwape.c:683:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:686:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:697:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c: In function 'bwa_paired_sw':
+bwape.c:527:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c: In function 'bwa_cal_pac_pos_pe':
+bwape.c:312:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:316:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 kstring.c -o kstring.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 cs2nt.c -o cs2nt.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_core.c -o bwtsw2_core.o
+bwtsw2_aux.c: In function 'gen_cigar':
+bwtsw2_aux.c:186:7: warning: variable 'score' set but not used [-Wunused-but-set-variable]
+bwtsw2_aux.c: In function 'bsw2_aln':
+bwtsw2_aux.c:734:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_main.c -o bwtsw2_main.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_aux.c -o bwtsw2_aux.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt_lite.c -o bwt_lite.o
+fastmap.c: In function 'main_fastmap':
+fastmap.c:54:3: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'size_t' [-Wformat]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_chain.c -o bwtsw2_chain.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bamlite.c -o bamlite.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 fastmap.c -o fastmap.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_pair.c -o bwtsw2_pair.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 main.c -o main.o
+gcc -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -D_FORTIFY_SOURCE=2 -Wformat -Wformat-security -Werror=format-security -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 QSufSort.o bwt_gen.o utils.o bwt.o bwtio.o bwtaln.o bwtgap.o is.o bntseq.o bwtmisc.o bwtindex.o ksw.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 fastmap.o bwtsw2_pair.o main.o -o bwa -lm -lz -lpthread
+make[2]: Leaving directory `/build/buildd-bwa_0.6.0-2-hurd-i386-umbQPZ/bwa-0.6.0'
+make[1]: Leaving directory `/build/buildd-bwa_0.6.0-2-hurd-i386-umbQPZ/bwa-0.6.0'
+ dh_auto_test
/usr/bin/fakeroot debian/rules binary-arch
-DEB_MAKE_CHECK_TARGET unset, not running checks
-test -x debian/rules
-dh_testroot
-dh_prep
-dh_installdirs -A
-mkdir -p "."
-DEB_MAKE_CHECK_TARGET unset, not running checks
-DEB_MAKE_INSTALL_TARGET unset, skipping default makefile.mk common-install target
-Adding cdbs dependencies to debian/bwa.substvars
-dh_installdirs -pbwa
-dh_installdocs -pbwa ./NEWS
-dh_installexamples -pbwa
-dh_installman -pbwa
-dh_installinfo -pbwa
-dh_installmenu -pbwa
-dh_installcron -pbwa
-dh_installinit -pbwa
-dh_installdebconf -pbwa
-dh_installemacsen -pbwa
-dh_installcatalogs -pbwa
-dh_installpam -pbwa
-dh_installlogrotate -pbwa
-dh_installlogcheck -pbwa
-dh_installchangelogs -pbwa ./ChangeLog
-dh_installudev -pbwa
-dh_lintian -pbwa
-dh_bugfiles -pbwa
-dh_install -pbwa
-dh_link -pbwa
-dh_installmime -pbwa
-dh_strip -pbwa
-dh_compress -pbwa
-dh_fixperms -pbwa
-dh_makeshlibs -pbwa
-dh_installdeb -pbwa
-dh_perl -pbwa
-dh_shlibdeps -pbwa
-dh_gencontrol -pbwa
+dh binary-arch
+ dh_testroot -a
+ dh_prep -a
+ dh_installdirs -a
+ dh_auto_install -a
+ dh_install -a
+ dh_installdocs -a
+ dh_installchangelogs -a
+ dh_installexamples -a
+ dh_installman -a
+ dh_installcatalogs -a
+ dh_installcron -a
+ dh_installdebconf -a
+ dh_installemacsen -a
+ dh_installifupdown -a
+ dh_installinfo -a
+ dh_installinit -a
+ dh_installmenu -a
+ dh_installmime -a
+ dh_installmodules -a
+ dh_installlogcheck -a
+ dh_installlogrotate -a
+ dh_installpam -a
+ dh_installppp -a
+ 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
+ dh_perl -a
+ dh_usrlocal -a
+ dh_link -a
+ dh_compress -a
+ dh_fixperms -a
+ dh_strip -a
+ dh_makeshlibs -a
+ dh_shlibdeps -a
+ dh_installdeb -a
+ dh_gencontrol -a
dpkg-gencontrol: warning: package bwa: unused substitution variable ${perl:Depends}
-dh_md5sums -pbwa
-dh_builddeb -pbwa
-dpkg-deb: building package `bwa' in `../bwa_0.5.9~rc-1_hurd-i386.deb'.
- dpkg-genchanges -B -mDebian GNU/Hurd Build Daemon <buildd_hurd-i386-mozart at buildd.debian.org> >../bwa_0.5.9~rc-1_hurd-i386.changes
+ dh_md5sums -a
+ dh_builddeb -a
+dpkg-deb: building package `bwa' in `../bwa_0.6.0-2_hurd-i386.deb'.
+ dpkg-genchanges -B -mDebian GNU/Hurd Build Daemon <buildd_hurd-i386-rossini at buildd.debian.org> >../bwa_0.6.0-2_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~rc
+ dpkg-source --after-build bwa-0.6.0
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110122-0529
+Build finished at 20111122-0903
-bwa_0.5.9~rc-1_hurd-i386.changes:
+bwa_0.6.0-2_hurd-i386.changes:
Format: 1.8
-Date: Thu, 20 Jan 2011 21:42:55 +0900
+Date: Tue, 22 Nov 2011 11:32:11 +0900
Source: bwa
Binary: bwa
Architecture: hurd-i386
-Version: 0.5.9~rc-1
+Version: 0.6.0-2
Distribution: experimental
Urgency: low
-Maintainer: Debian GNU/Hurd Build Daemon <buildd_hurd-i386-mozart at buildd.debian.org>
+Maintainer: Debian GNU/Hurd Build Daemon <buildd_hurd-i386-rossini at buildd.debian.org>
Changed-By: Charles Plessy <plessy at debian.org>
Description:
bwa - Burrows-Wheeler Aligner
+Closes: 648803
Changes:
- bwa (0.5.9~rc-1) experimental; urgency=low
+ bwa (0.6.0-2) experimental; urgency=low
.
- * New usptream release candidate.
+ [9410de3] Disable SSE2 everywhere except on amd64 (Closes: #648803).
+ [fb4c559] Reimplementation of Standard SW for when SSE2 is unavailable.
+ cherry picked from upstream commit 182cb2e.
+ This commit modifies upstream sources.
+ [9c93ccd] Use native format to bypass mandatory patch system.
Checksums-Sha1:
- 21d2c2360382de0299c2837caea0318acf75eee3 137148 bwa_0.5.9~rc-1_hurd-i386.deb
+ 5414024b752ec4934236721918c8465a0d476a6a 171722 bwa_0.6.0-2_hurd-i386.deb
Checksums-Sha256:
- 1ca24bcccaef61b9923ab45e2a746b66896f716785ef07c1e32ed02bd1601c55 137148 bwa_0.5.9~rc-1_hurd-i386.deb
+ 19983f2099c919914d7b4981e7e8b1110ee983cbd58165b43f51b3a44f2d9f97 171722 bwa_0.6.0-2_hurd-i386.deb
Files:
- 1200fb3b90fc5b512d0dcee5da683029 137148 science optional bwa_0.5.9~rc-1_hurd-i386.deb
+ 07ccfed0f0ffc8018866297b63a10d9c 171722 science optional bwa_0.6.0-2_hurd-i386.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bwa_0.5.9~rc-1_hurd-i386.deb
-────────────────────────────
+bwa_0.6.0-2_hurd-i386.deb
+─────────────────────────
new debian package, version 2.0.
- size 137148 bytes: control archive= 953 bytes.
- 790 bytes, 17 lines control
- 556 bytes, 9 lines md5sums
+ size 171722 bytes: control archive= 1000 bytes.
+ 786 bytes, 17 lines control
+ 610 bytes, 10 lines md5sums
Package: bwa
- Version: 0.5.9~rc-1
+ Version: 0.6.0-2
Architecture: hurd-i386
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 312
- Depends: hurd, libc0.3 (>= 2.11), zlib1g (>= 1:1.1.4)
+ Installed-Size: 351
+ Depends: hurd, libc0.3 (>= 2.7), zlib1g (>= 1:1.1.4)
Suggests: samtools
Section: science
Priority: optional
@@ -297,24 +501,25 @@ bwa_0.5.9~rc-1_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 2011-01-22 05:28 ./
-drwxr-xr-x root/root 0 2011-01-22 05:28 ./usr/
-drwxr-xr-x root/root 0 2011-01-22 05:28 ./usr/share/
-drwxr-xr-x root/root 0 2011-01-22 05:28 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-01-22 05:28 ./usr/share/doc/bwa/
--rw-r--r-- root/root 5606 2011-01-20 11:35 ./usr/share/doc/bwa/NEWS.gz
--rw-r--r-- root/root 2679 2011-01-20 11:52 ./usr/share/doc/bwa/copyright
--rw-r--r-- root/root 17751 2011-01-20 11:35 ./usr/share/doc/bwa/changelog.gz
--rw-r--r-- root/root 17751 2011-01-20 11:35 ./usr/share/doc/bwa/ChangeLog.gz
--rw-r--r-- root/root 805 2011-01-20 12:43 ./usr/share/doc/bwa/changelog.Debian.gz
-drwxr-xr-x root/root 0 2011-01-22 05:28 ./usr/share/man/
-drwxr-xr-x root/root 0 2011-01-22 05:28 ./usr/share/man/man1/
--rw-r--r-- root/root 7423 2011-01-22 05:28 ./usr/share/man/man1/bwa.1.gz
-drwxr-xr-x root/root 0 2011-01-22 05:28 ./usr/share/bwa/
--rwxr-xr-x root/root 3176 2011-01-20 11:35 ./usr/share/bwa/solid2fastq.pl
--rwxr-xr-x root/root 616 2011-01-20 11:35 ./usr/share/bwa/qualfa2fq.pl
-drwxr-xr-x root/root 0 2011-01-22 05:28 ./usr/bin/
--rwxr-xr-x root/root 199536 2011-01-22 05:28 ./usr/bin/bwa
+drwxr-xr-x root/root 0 2011-11-22 09:02 ./
+drwxr-xr-x root/root 0 2011-11-22 09:02 ./usr/
+drwxr-xr-x root/root 0 2011-11-22 09:03 ./usr/bin/
+-rwxr-xr-x root/root 276100 2011-11-22 09:03 ./usr/bin/bwa
+drwxr-xr-x root/root 0 2011-11-22 09:02 ./usr/share/
+drwxr-xr-x root/root 0 2011-11-22 09:02 ./usr/share/bwa/
+-rwxr-xr-x root/root 3176 2011-11-22 01:55 ./usr/share/bwa/solid2fastq.pl
+-rwxr-xr-x root/root 616 2011-11-22 01:55 ./usr/share/bwa/qualfa2fq.pl
+-rwxr-xr-x root/root 730 2011-11-22 01:55 ./usr/share/bwa/xa2multi.pl
+drwxr-xr-x root/root 0 2011-11-22 09:02 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-11-22 09:02 ./usr/share/doc/bwa/
+-rw-r--r-- root/root 634 2011-11-22 01:55 ./usr/share/doc/bwa/README
+-rw-r--r-- root/root 2785 2011-11-22 01:55 ./usr/share/doc/bwa/copyright
+-rw-r--r-- root/root 17912 2011-11-22 01:55 ./usr/share/doc/bwa/changelog.gz
+-rw-r--r-- root/root 6680 2011-11-22 01:55 ./usr/share/doc/bwa/NEWS.gz
+-rw-r--r-- root/root 1471 2011-11-22 02:32 ./usr/share/doc/bwa/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-11-22 09:02 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-11-22 09:02 ./usr/share/man/man1/
+-rw-r--r-- root/root 7745 2011-11-22 09:02 ./usr/share/man/man1/bwa.1.gz
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -323,12 +528,69 @@ drwxr-xr-x root/root 0 2011-01-22 05:28 ./usr/bin/
Built successfully
────────────────────────────────────────────────────────────────────────────────
-Purging /home/buildd/build/chroot-experimental/build/buildd-bwa_0.5.9~rc-1-hurd-i386-TIJBn8
-(Reading database ... 12646 files and directories currently installed.)
-Removing cdbs ...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /home/buildd/build/chroot-experimental/build/buildd-bwa_0.6.0-2-hurd-i386-umbQPZ
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 38 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* libexpat1* libffi5* libglib2.0-0* libmagic1* libunistring0*
+ libxml2* po-debconf* zlib1g-dev*
+0 upgraded, 0 newly installed, 15 to remove and 38 not upgraded.
+After this operation, 19.6 MB disk space will be freed.
+(Reading database ... 13554 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 libexpat1 ...
+Purging configuration files for libexpat1 ...
+Removing libglib2.0-0 ...
+Purging configuration files for libglib2.0-0 ...
+Removing libffi5 ...
+Purging configuration files for libffi5 ...
+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 ...
+Processing triggers for install-info ...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Architecture: hurd-i386
+Build-Space: 2984
+Build-Time: 121
+Distribution: experimental
+Install-Time: 76
+Job: bwa_0.6.0-2
+Package: bwa
+Package-Time: 426
+Source-Version: 0.6.0-2
+Space: 2984
+Status: successful
+Version: 0.6.0-2
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110122-0529
-Build needed 00:04:20, 2416k disc space
+Finished at 20111122-0903
+Build needed 00:07:06, 2984k disc space
diff --git a/i386.log b/i386.log
index dd6e0cc..95ef396 100644
--- a/i386.log
+++ b/i386.log
@@ -1,89 +1,94 @@
-From buildd at biber.debian.org Thu Jan 20 13:11:30 2011
+From buildd at biber.debian.org Tue Nov 22 03:18:23 2011
Return-path: <buildd at biber.debian.org>
-Received: from kokkonen.debian.org ([2001:41b8:202:deb:216:35ff:fec4:6340])
+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 biber.debian.org>)
- id 1PfuIU-0007gK-Dz
- for logs at buildd.debian.org; Thu, 20 Jan 2011 13:11:30 +0000
+ (Exim 4.72) (envelope-from <buildd at biber.debian.org>)
+ id 1RSgsJ-0005gC-Hu
+ for logs at buildd.debian.org; Tue, 22 Nov 2011 03:18:23 +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=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 biber.debian.org>)
- id 1PfuIT-0007us-97; Thu, 20 Jan 2011 13:11:29 +0000
-Received: from buildd by biber.debian.org with local (Exim 4.69)
+ (Exim 4.72) (envelope-from <buildd at biber.debian.org>)
+ id 1RSgsH-0005TI-L3; Tue, 22 Nov 2011 03:18:21 +0000
+Received: from buildd by biber.debian.org with local (Exim 4.72)
(envelope-from <buildd at biber.debian.org>)
- id 1PfuIS-000735-9E; Thu, 20 Jan 2011 13:11:28 +0000
+ id 1RSgsG-00061U-Uw; Tue, 22 Nov 2011 03:18:20 +0000
+Message-Id: <E1RSgsG-00061U-Uw 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: Tue, 22 Nov 2011 03:18:20 +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~rc-1 on i386 (dist=experimental)
-Content-Type: text/plain; charset=UTF-8
-Content-Transfer-Encoding: 8bit
-Message-Id: <E1PfuIS-000735-9E at biber.debian.org>
-Date: Thu, 20 Jan 2011 13:11:28 +0000
+Subject: Log for successful build of bwa_0.6.0-2 on i386 (dist=experimental)
+Key-Id: C83D412C
Delivered-To: logs at buildd.debian.org
-sbuild (Debian sbuild) 0.60.0 (23 Feb 2010) on biber.debian.org
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on biber.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bwa 0.5.9~rc-1 (i386) 20 Jan 2011 13:08 ║
+║ bwa 0.6.0-2 (i386) 22 Nov 2011 03:16 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bwa
-Version: 0.5.9~rc-1
+Version: 0.6.0-2
+Source Version: 0.6.0-2
Architecture: i386
-Chroot Build Dir: /var/lib/schroot/mount/sid-experimental-i386-sbuild-d89797e7-5abc-40dc-803f-6f767d97ee87/build/buildd-bwa_0.5.9~rc-1-i386-OybdCo
-Start Time: 20110120-1308
-Get:1 http://ftp.gr.debian.org unstable Release.gpg [835 B]
-Ign http://ftp.gr.debian.org/debian/ unstable/contrib Translation-en
-Ign http://ftp.gr.debian.org/debian/ unstable/main Translation-en
-Get:2 http://ftp.gr.debian.org experimental Release.gpg [835 B]
-Ign http://ftp.gr.debian.org/debian/ experimental/contrib Translation-en
-Ign http://ftp.gr.debian.org/debian/ experimental/main Translation-en
-Get:3 http://ftp.gr.debian.org unstable Release [104 kB]
-Get:4 http://ftp.gr.debian.org experimental Release [102 kB]
-Get:5 http://ftp.gr.debian.org unstable/main Sources [4072 kB]
-Get:6 http://incoming.debian.org unstable Release.gpg [835 B]
-Ign http://incoming.debian.org/debian/ unstable/contrib Translation-en
-Ign http://incoming.debian.org/debian/ unstable/main Translation-en
-Get:7 http://incoming.debian.org experimental Release.gpg [835 B]
-Ign http://incoming.debian.org/debian/ experimental/contrib Translation-en
-Ign http://incoming.debian.org/debian/ experimental/main Translation-en
-Get:8 http://incoming.debian.org Release.gpg [835 B]
-Ign http://incoming.debian.org/buildd-unstable/ Translation-en
-Get:9 http://incoming.debian.org Release.gpg [835 B]
-Ign http://incoming.debian.org/buildd-experimental/ Translation-en
-Get:10 http://incoming.debian.org unstable Release [104 kB]
-Get:11 http://ftp.gr.debian.org unstable/contrib Sources [38.6 kB]
-Get:12 http://ftp.gr.debian.org unstable/non-free Sources [83.9 kB]
-Get:13 http://ftp.gr.debian.org unstable/main i386 Packages [6949 kB]
-Get:14 http://ftp.gr.debian.org unstable/contrib i386 Packages [60.4 kB]
-Get:15 http://ftp.gr.debian.org experimental/main Sources [393 kB]
-Get:16 http://ftp.gr.debian.org experimental/contrib Sources [4450 B]
-Get:17 http://ftp.gr.debian.org experimental/non-free Sources [6418 B]
-Get:18 http://ftp.gr.debian.org experimental/main i386 Packages [830 kB]
-Get:19 http://incoming.debian.org experimental Release [102 kB]
-Get:20 http://ftp.gr.debian.org experimental/contrib i386 Packages [6139 B]
-Get:21 http://incoming.debian.org Release [1604 B]
-Get:22 http://incoming.debian.org Release [1625 B]
-Get:23 http://incoming.debian.org unstable/main Sources [4072 kB]
-Get:24 http://incoming.debian.org unstable/contrib Sources [38.6 kB]
-Get:25 http://incoming.debian.org unstable/non-free Sources [83.9 kB]
-Get:26 http://incoming.debian.org unstable/main i386 Packages [6949 kB]
-Get:27 http://incoming.debian.org unstable/contrib i386 Packages [60.4 kB]
-Get:28 http://incoming.debian.org experimental/main Sources [393 kB]
-Get:29 http://incoming.debian.org experimental/contrib Sources [4450 B]
-Get:30 http://incoming.debian.org experimental/non-free Sources [6418 B]
-Get:31 http://incoming.debian.org experimental/main i386 Packages [830 kB]
-Get:32 http://incoming.debian.org experimental/contrib i386 Packages [6139 B]
-Get:33 http://incoming.debian.org Sources [11.7 kB]
-Get:34 http://incoming.debian.org Packages [103 kB]
-Get:35 http://incoming.debian.org Sources [9718 B]
-Get:36 http://incoming.debian.org Packages [89.7 kB]
-Fetched 25.5 MB in 20s (1216 kB/s)
+Get:1 http://ftp.gr.debian.org unstable InRelease [160 kB]
+Get:2 http://ftp.gr.debian.org experimental InRelease [139 kB]
+Get:3 http://ftp.gr.debian.org unstable/main Sources [5927 kB]
+Get:4 http://incoming.debian.org unstable InRelease [160 kB]
+Get:5 http://ftp.gr.debian.org unstable/contrib Sources [57.4 kB]
+Get:6 http://ftp.gr.debian.org unstable/non-free Sources [102 kB]
+Get:7 http://ftp.gr.debian.org unstable/main i386 Packages [7872 kB]
+Get:8 http://ftp.gr.debian.org unstable/contrib i386 Packages [68.6 kB]
+Ign http://ftp.gr.debian.org unstable/contrib TranslationIndex
+Get:9 http://ftp.gr.debian.org unstable/main TranslationIndex [2045 B]
+Get:10 http://ftp.gr.debian.org experimental/main Sources [177 kB]
+Get:11 http://ftp.gr.debian.org experimental/contrib Sources [1400 B]
+Get:12 http://ftp.gr.debian.org experimental/non-free Sources [2641 B]
+Get:13 http://ftp.gr.debian.org experimental/main i386 Packages [347 kB]
+Get:14 http://ftp.gr.debian.org experimental/contrib i386 Packages [1846 B]
+Ign http://ftp.gr.debian.org experimental/contrib TranslationIndex
+Ign http://ftp.gr.debian.org experimental/main TranslationIndex
+Ign http://ftp.gr.debian.org unstable/contrib Translation-en
+Ign http://ftp.gr.debian.org experimental/contrib Translation-en
+Ign http://ftp.gr.debian.org experimental/main Translation-en
+Get:15 http://incoming.debian.org experimental InRelease [139 kB]
+Ign http://incoming.debian.org InRelease
+Ign http://incoming.debian.org InRelease
+Get:16 http://incoming.debian.org unstable/main Sources [5927 kB]
+Get:17 http://incoming.debian.org unstable/contrib Sources [57.2 kB]
+Get:18 http://incoming.debian.org unstable/non-free Sources [102 kB]
+Get:19 http://incoming.debian.org unstable/main i386 Packages [7872 kB]
+Get:20 http://incoming.debian.org unstable/contrib i386 Packages [68.6 kB]
+Ign http://incoming.debian.org unstable/contrib TranslationIndex
+Get:21 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
+Get:22 http://incoming.debian.org Release.gpg [836 B]
+Get:23 http://incoming.debian.org Release.gpg [836 B]
+Get:24 http://incoming.debian.org experimental/main Sources [177 kB]
+Get:25 http://incoming.debian.org experimental/contrib Sources [1400 B]
+Get:26 http://incoming.debian.org experimental/non-free Sources [2641 B]
+Get:27 http://incoming.debian.org experimental/main i386 Packages [347 kB]
+Get:28 http://incoming.debian.org experimental/contrib i386 Packages [1846 B]
+Ign http://incoming.debian.org experimental/contrib TranslationIndex
+Ign http://incoming.debian.org experimental/main TranslationIndex
+Get:29 http://incoming.debian.org Release [1604 B]
+Get:30 http://incoming.debian.org Release [1626 B]
+Get:31 http://incoming.debian.org Sources [33.2 kB]
+Get:32 http://incoming.debian.org Packages [315 kB]
+Get:33 http://incoming.debian.org Sources [2999 B]
+Get:34 http://incoming.debian.org Packages [28.9 kB]
+Ign http://incoming.debian.org unstable/contrib Translation-en
+Ign http://incoming.debian.org experimental/contrib Translation-en
+Ign http://incoming.debian.org experimental/main Translation-en
+Ign http://incoming.debian.org Translation-en
+Ign http://incoming.debian.org Translation-en
+Fetched 30.1 MB in 19s (1521 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -103,29 +108,29 @@ 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 118 kB of source archives.
-Get:1 http://incoming.debian.org/buildd-experimental/ bwa 0.5.9~rc-1 (dsc) [1915 B]
-Get:2 http://incoming.debian.org/buildd-experimental/ bwa 0.5.9~rc-1 (tar) [113 kB]
-Get:3 http://incoming.debian.org/buildd-experimental/ bwa 0.5.9~rc-1 (diff) [3594 B]
-Fetched 118 kB in 1s (94.9 kB/s)
+git://git.debian.org/debian-med/bwa.git
+Need to get 171 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-experimental/ bwa 0.6.0-2 (dsc) [1681 B]
+Get:2 http://incoming.debian.org/buildd-experimental/ bwa 0.6.0-2 (tar) [169 kB]
+Fetched 171 kB in 1s (140 kB/s)
Download complete and in download only mode
Check arch
──────────
-** Using build dependencies supplied by package:
-Build-Depends: cdbs, debhelper (>= 8), zlib1g-dev
+dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/build/buildd-bwa_0.6.0-2-i386-8owrh7/resolver-w2tfhj/apt_archive/sbuild-build-depends-core-dummy.deb'.
+OK
+Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install build dependencies (aptitude-based resolver) │
+│ Install core build dependencies (aptitude-based resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
Reading package lists...
Building dependency tree...
Reading state information...
The following extra packages will be installed:
- libboost-iostreams1.42.0 libcwidget3 libept1 libncursesw5 libsigc++-2.0-0c2a
+ libboost-iostreams1.46.1 libcwidget3 libept1 libncursesw5 libsigc++-2.0-0c2a
libsqlite3-0 libxapian22
Suggested packages:
tasksel debtags libcwidget-dev xapian-tools
@@ -133,161 +138,181 @@ Recommended packages:
aptitude-doc-en aptitude-doc apt-xapian-index libparse-debianchangelog-perl
libgpm2
The following NEW packages will be installed:
- aptitude libboost-iostreams1.42.0 libcwidget3 libept1 libncursesw5
+ aptitude libboost-iostreams1.46.1 libcwidget3 libept1 libncursesw5
libsigc++-2.0-0c2a libsqlite3-0 libxapian22
-0 upgraded, 8 newly installed, 0 to remove and 31 not upgraded.
-Need to get 7205 kB of archives.
-After this operation, 19.5 MB of additional disk space will be used.
-Get:1 http://ftp.gr.debian.org/debian/ unstable/main libboost-iostreams1.42.0 i386 1.42.0-4 [59.2 kB]
-Get:2 http://ftp.gr.debian.org/debian/ unstable/main libncursesw5 i386 5.7+20100313-5 [374 kB]
-Get:3 http://ftp.gr.debian.org/debian/ unstable/main libsigc++-2.0-0c2a i386 2.2.4.2-1 [39.9 kB]
-Get:4 http://ftp.gr.debian.org/debian/ unstable/main libcwidget3 i386 0.5.16-3 [302 kB]
-Get:5 http://ftp.gr.debian.org/debian/ unstable/main libxapian22 i386 1.2.4-1 [2075 kB]
-Get:6 http://ftp.gr.debian.org/debian/ unstable/main libept1 i386 1.0.4 [148 kB]
-Get:7 http://ftp.gr.debian.org/debian/ unstable/main libsqlite3-0 i386 3.7.4-2 [394 kB]
-Get:8 http://ftp.gr.debian.org/debian/ unstable/main aptitude i386 0.6.3-3.2 [3813 kB]
+0 upgraded, 8 newly installed, 0 to remove and 10 not upgraded.
+Need to get 7376 kB of archives.
+After this operation, 19.6 MB of additional disk space will be used.
+Get:1 http://ftp.gr.debian.org/debian/ unstable/main libncursesw5 i386 5.9-4 [330 kB]
+Get:2 http://ftp.gr.debian.org/debian/ unstable/main libboost-iostreams1.46.1 i386 1.46.1-7+b1 [58.7 kB]
+Get:3 http://ftp.gr.debian.org/debian/ unstable/main libsigc++-2.0-0c2a i386 2.2.9-1 [42.1 kB]
+Get:4 http://ftp.gr.debian.org/debian/ unstable/main libcwidget3 i386 0.5.16-3.1 [405 kB]
+Get:5 http://ftp.gr.debian.org/debian/ unstable/main libxapian22 i386 1.2.7-1 [2060 kB]
+Get:6 http://ftp.gr.debian.org/debian/ unstable/main libept1 i386 1.0.5 [153 kB]
+Get:7 http://ftp.gr.debian.org/debian/ unstable/main libsqlite3-0 i386 3.7.9-2 [436 kB]
+Get:8 http://ftp.gr.debian.org/debian/ unstable/main aptitude i386 0.6.4-1.2 [3891 kB]
debconf: delaying package configuration, since apt-utils is not installed
-Fetched 7205 kB in 0s (12.2 MB/s)
-Selecting previously deselected package libboost-iostreams1.42.0.
-(Reading database ... 10192 files and directories currently installed.)
-Unpacking libboost-iostreams1.42.0 (from .../libboost-iostreams1.42.0_1.42.0-4_i386.deb) ...
-Selecting previously deselected package libncursesw5.
-Unpacking libncursesw5 (from .../libncursesw5_5.7+20100313-5_i386.deb) ...
-Selecting previously deselected package libsigc++-2.0-0c2a.
-Unpacking libsigc++-2.0-0c2a (from .../libsigc++-2.0-0c2a_2.2.4.2-1_i386.deb) ...
-Selecting previously deselected package libcwidget3.
-Unpacking libcwidget3 (from .../libcwidget3_0.5.16-3_i386.deb) ...
-Selecting previously deselected package libxapian22.
-Unpacking libxapian22 (from .../libxapian22_1.2.4-1_i386.deb) ...
-Selecting previously deselected package libept1.
-Unpacking libept1 (from .../libept1_1.0.4_i386.deb) ...
-Selecting previously deselected package libsqlite3-0.
-Unpacking libsqlite3-0 (from .../libsqlite3-0_3.7.4-2_i386.deb) ...
-Selecting previously deselected package aptitude.
-Unpacking aptitude (from .../aptitude_0.6.3-3.2_i386.deb) ...
-Setting up libboost-iostreams1.42.0 (1.42.0-4) ...
-Setting up libncursesw5 (5.7+20100313-5) ...
-Setting up libsigc++-2.0-0c2a (2.2.4.2-1) ...
-Setting up libcwidget3 (0.5.16-3) ...
-Setting up libxapian22 (1.2.4-1) ...
-Setting up libept1 (1.0.4) ...
-Setting up libsqlite3-0 (3.7.4-2) ...
-Setting up aptitude (0.6.3-3.2) ...
+Fetched 7376 kB in 0s (15.5 MB/s)
+Selecting previously unselected package libncursesw5.
+(Reading database ... 10733 files and directories currently installed.)
+Unpacking libncursesw5 (from .../libncursesw5_5.9-4_i386.deb) ...
+Selecting previously unselected package libboost-iostreams1.46.1.
+Unpacking libboost-iostreams1.46.1 (from .../libboost-iostreams1.46.1_1.46.1-7+b1_i386.deb) ...
+Selecting previously unselected package libsigc++-2.0-0c2a.
+Unpacking libsigc++-2.0-0c2a (from .../libsigc++-2.0-0c2a_2.2.9-1_i386.deb) ...
+Selecting previously unselected package libcwidget3.
+Unpacking libcwidget3 (from .../libcwidget3_0.5.16-3.1_i386.deb) ...
+Selecting previously unselected package libxapian22.
+Unpacking libxapian22 (from .../libxapian22_1.2.7-1_i386.deb) ...
+Selecting previously unselected package libept1.
+Unpacking libept1 (from .../libept1_1.0.5_i386.deb) ...
+Selecting previously unselected package libsqlite3-0.
+Unpacking libsqlite3-0 (from .../libsqlite3-0_3.7.9-2_i386.deb) ...
+Selecting previously unselected package aptitude.
+Unpacking aptitude (from .../aptitude_0.6.4-1.2_i386.deb) ...
+Setting up libncursesw5 (5.9-4) ...
+Setting up libboost-iostreams1.46.1 (1.46.1-7+b1) ...
+Setting up libsigc++-2.0-0c2a (2.2.9-1) ...
+Setting up libcwidget3 (0.5.16-3.1) ...
+Setting up libxapian22 (1.2.7-1) ...
+Setting up libept1 (1.0.5) ...
+Setting up libsqlite3-0 (3.7.9-2) ...
+Setting up aptitude (0.6.4-1.2) ...
update-alternatives: using /usr/bin/aptitude-curses to provide /usr/bin/aptitude (aptitude) in auto mode.
-dpkg-deb: building package `sbuild-build-depends-bwa-dummy' in `/build/buildd-bwa_0.5.9~rc-1-i386-OybdCo/buildd-bwa-i386-krflLQ/sbuild-build-depends-bwa-dummy.deb'.
-Selecting previously deselected package sbuild-build-depends-bwa-dummy.
-(Reading database ... 10403 files and directories currently installed.)
-Unpacking sbuild-build-depends-bwa-dummy (from .../sbuild-build-depends-bwa-dummy.deb) ...
-dpkg: dependency problems prevent configuration of sbuild-build-depends-bwa-dummy:
- sbuild-build-depends-bwa-dummy depends on cdbs; however:
- Package cdbs is not installed.
- sbuild-build-depends-bwa-dummy depends on debhelper (>= 8); however:
- Package debhelper is not installed.
- sbuild-build-depends-bwa-dummy depends on zlib1g-dev; however:
- Package zlib1g-dev is not installed.
-dpkg: error processing sbuild-build-depends-bwa-dummy (--install):
- dependency problems - leaving unconfigured
-Errors were encountered while processing:
- sbuild-build-depends-bwa-dummy
-aptitude -y --without-recommends -o APT::Install-Recommends=false -o Aptitude::ProblemResolver::StepScore=100 -o Aptitude::ProblemResolver::Hints::KeepDummy=reject sbuild-build-depends-bwa-dummy :UNINST -o Aptitude::ProblemResolver::Keep-All-Tier=55000 -o Aptitude::ProblemResolver::Remove-Essential-Tier=maximum install sbuild-build-depends-bwa-dummy
+aptitude -y --without-recommends -o Dpkg::Options::=--force-confold -o Aptitude::CmdLine::Ignore-Trust-Violations=false -o Aptitude::ProblemResolver::StepScore=100 -o Aptitude::ProblemResolver::SolutionCost=safety, priority, non-default-versions -o Aptitude::ProblemResolver::Hints::KeepDummy=reject sbuild-build-depends-core-dummy :UNINST -o Aptitude::ProblemResolver::Keep-All-Level=55000 -o Aptitude::ProblemResolver::Remove-Essential-Level=maximum install sbuild-build-depends-core-dummy
Reading package lists...
Building dependency tree...
Reading state information...
Initializing package states...
Writing extended state information...
The following NEW packages will be installed:
- bsdmainutils{a} cdbs{a} debhelper{a} file{a} gettext{a} gettext-base{a}
- groff-base{a} html2text{a} intltool-debian{a} libcroco3{a}
- libglib2.0-0{a} libmagic1{a} libpcre3{a} libunistring0{a} libxml2{a}
- man-db{a} po-debconf{a} zlib1g-dev{a}
-The following partially installed packages will be configured:
- sbuild-build-depends-bwa-dummy
-0 packages upgraded, 18 newly installed, 0 to remove and 31 not upgraded.
-Need to get 9826 kB of archives. After unpacking 27.8 MB will be used.
+ sbuild-build-depends-core-dummy
+0 packages upgraded, 1 newly installed, 0 to remove and 10 not upgraded.
+Need to get 0 B/712 B of archives. After unpacking 0 B will be used.
Writing extended state information...
-Get:1 http://ftp.gr.debian.org/debian/ unstable/main libmagic1 i386 5.04-5 [234 kB]
-Get:2 http://ftp.gr.debian.org/debian/ unstable/main file i386 5.04-5 [49.1 kB]
-Get:3 http://ftp.gr.debian.org/debian/ unstable/main html2text i386 1.3.2a-15 [101 kB]
-Get:4 http://ftp.gr.debian.org/debian/ unstable/main libpcre3 i386 8.02-1.1 [231 kB]
-Get:5 http://ftp.gr.debian.org/debian/ unstable/main libglib2.0-0 i386 2.24.2-1 [1029 kB]
-Get:6 http://ftp.gr.debian.org/debian/ unstable/main libxml2 i386 2.7.8.dfsg-2 [827 kB]
-Get:7 http://ftp.gr.debian.org/debian/ unstable/main libcroco3 i386 0.6.2-1 [116 kB]
-Get:8 http://ftp.gr.debian.org/debian/ unstable/main libunistring0 i386 0.9.3-3 [433 kB]
-Get:9 http://ftp.gr.debian.org/debian/ unstable/main gettext-base i386 0.18.1.1-3 [130 kB]
-Get:10 http://ftp.gr.debian.org/debian/ unstable/main gettext i386 0.18.1.1-3 [1973 kB]
-Get:11 http://ftp.gr.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
-Get:12 http://ftp.gr.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
-Get:13 http://ftp.gr.debian.org/debian/ unstable/main groff-base i386 1.20.1-10 [1128 kB]
-Get:14 http://ftp.gr.debian.org/debian/ unstable/main bsdmainutils i386 8.2.1 [200 kB]
-Get:15 http://ftp.gr.debian.org/debian/ unstable/main man-db i386 2.5.7-8 [1240 kB]
-Get:16 http://ftp.gr.debian.org/debian/ unstable/main debhelper all 8.0.0 [454 kB]
-Get:17 http://ftp.gr.debian.org/debian/ unstable/main cdbs all 0.4.89 [1240 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
-Fetched 9826 kB in 0s (11.0 MB/s)
-Selecting previously deselected package libmagic1.
-(Reading database ... 10403 files and directories currently installed.)
-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 html2text.
+Selecting previously unselected package sbuild-build-depends-core-dummy.
+(Reading database ... 10941 files and directories currently installed.)
+Unpacking sbuild-build-depends-core-dummy (from .../sbuild-build-depends-core-dummy.deb) ...
+Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
+Reading package lists...
+Building dependency tree...
+Reading state information...
+Reading extended state information...
+Initializing package states...
+Writing extended state information...
+dpkg-deb: building package `sbuild-build-depends-bwa-dummy' in `/build/buildd-bwa_0.6.0-2-i386-8owrh7/resolver-w2tfhj/apt_archive/sbuild-build-depends-bwa-dummy.deb'.
+OK
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install bwa build dependencies (aptitude-based resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+aptitude is already the newest version.
+0 upgraded, 0 newly installed, 0 to remove and 10 not upgraded.
+aptitude -y --without-recommends -o Dpkg::Options::=--force-confold -o Aptitude::CmdLine::Ignore-Trust-Violations=false -o Aptitude::ProblemResolver::StepScore=100 -o Aptitude::ProblemResolver::SolutionCost=safety, priority, non-default-versions -o Aptitude::ProblemResolver::Hints::KeepDummy=reject sbuild-build-depends-bwa-dummy :UNINST -o Aptitude::ProblemResolver::Keep-All-Level=55000 -o Aptitude::ProblemResolver::Remove-Essential-Level=maximum install sbuild-build-depends-bwa-dummy
+Reading package lists...
+Building dependency tree...
+Reading state information...
+Reading extended state information...
+Initializing package states...
+The following NEW packages will be installed:
+ bsdmainutils{a} debhelper{a} file{a} gettext{a} gettext-base{a}
+ groff-base{a} html2text{a} intltool-debian{a} libcroco3{a} libffi5{a}
+ libglib2.0-0{a} libmagic1{a} libpcre3{a} libpipeline1{a} libunistring0{a}
+ libxml2{a} man-db{a} po-debconf{a} sbuild-build-depends-bwa-dummy
+ zlib1g-dev{a}
+0 packages upgraded, 20 newly installed, 0 to remove and 10 not upgraded.
+Need to get 9443 kB/9444 kB of archives. After unpacking 26.0 MB will be used.
+Writing extended state information...
+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 libffi5 i386 3.0.10-3 [21.0 kB]
+Get: 4 http://ftp.gr.debian.org/debian/ unstable/main libglib2.0-0 i386 2.30.2-4 [1822 kB]
+Get: 5 http://ftp.gr.debian.org/debian/ unstable/main libxml2 i386 2.7.8.dfsg-5 [882 kB]
+Get: 6 http://ftp.gr.debian.org/debian/ unstable/main libcroco3 i386 0.6.2-2 [122 kB]
+Get: 7 http://ftp.gr.debian.org/debian/ unstable/main libunistring0 i386 0.9.3-5 [442 kB]
+Get: 8 http://ftp.gr.debian.org/debian/ unstable/main bsdmainutils i386 8.2.3 [203 kB]
+Get: 9 http://ftp.gr.debian.org/debian/ unstable/main groff-base i386 1.21-6 [1127 kB]
+Get: 10 http://ftp.gr.debian.org/debian/ unstable/main man-db i386 2.6.0.2-3 [1014 kB]
+Get: 11 http://ftp.gr.debian.org/debian/ unstable/main libmagic1 i386 5.09-2 [246 kB]
+Get: 12 http://ftp.gr.debian.org/debian/ unstable/main file i386 5.09-2 [51.5 kB]
+Get: 13 http://ftp.gr.debian.org/debian/ unstable/main gettext-base i386 0.18.1.1-5 [133 kB]
+Get: 14 http://ftp.gr.debian.org/debian/ unstable/main html2text i386 1.3.2a-15 [101 kB]
+Get: 15 http://ftp.gr.debian.org/debian/ unstable/main gettext i386 0.18.1.1-5 [2025 kB]
+Get: 16 http://ftp.gr.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get: 17 http://ftp.gr.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get: 18 http://ftp.gr.debian.org/debian/ unstable/main debhelper all 8.9.11 [552 kB]
+Get: 19 http://ftp.gr.debian.org/debian/ unstable/main zlib1g-dev i386 1:1.2.3.4.dfsg-3 [186 kB]
+Fetched 9443 kB in 0s (13.6 MB/s)
+debconf: delaying package configuration, since apt-utils is not installed
+Selecting previously unselected package libpipeline1.
+(Reading database ... 10941 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 libffi5.
+Unpacking libffi5 (from .../libffi5_3.0.10-3_i386.deb) ...
+Selecting previously unselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.30.2-4_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 libpcre3.
-Unpacking libpcre3 (from .../libpcre3_8.02-1.1_i386.deb) ...
-Selecting previously deselected package libglib2.0-0.
-Unpacking libglib2.0-0 (from .../libglib2.0-0_2.24.2-1_i386.deb) ...
-Selecting previously deselected package libxml2.
-Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_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-base.
-Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_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 groff-base.
-Unpacking groff-base (from .../groff-base_1.20.1-10_i386.deb) ...
-Selecting previously deselected package bsdmainutils.
-Unpacking bsdmainutils (from .../bsdmainutils_8.2.1_i386.deb) ...
-Selecting previously deselected package man-db.
-Unpacking man-db (from .../man-db_2.5.7-8_i386.deb) ...
-Selecting previously deselected package debhelper.
-Unpacking debhelper (from .../debhelper_8.0.0_all.deb) ...
-Selecting previously deselected package cdbs.
-Unpacking cdbs (from .../archives/cdbs_0.4.89_all.deb) ...
-Selecting previously deselected package zlib1g-dev.
+Selecting previously unselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.9.11_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 libmagic1 (5.04-5) ...
-Setting up file (5.04-5) ...
-Setting up html2text (1.3.2a-15) ...
-Setting up libpcre3 (8.02-1.1) ...
-Setting up libglib2.0-0 (2.24.2-1) ...
-Setting up libxml2 (2.7.8.dfsg-2) ...
-Setting up libcroco3 (0.6.2-1) ...
-Setting up libunistring0 (0.9.3-3) ...
-Setting up gettext-base (0.18.1.1-3) ...
-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 groff-base (1.20.1-10) ...
-Setting up bsdmainutils (8.2.1) ...
+Selecting previously unselected package sbuild-build-depends-bwa-dummy.
+Unpacking sbuild-build-depends-bwa-dummy (from .../sbuild-build-depends-bwa-dummy.deb) ...
+Setting up libpipeline1 (1.2.0-5) ...
+Setting up libpcre3 (8.12-4) ...
+Setting up libffi5 (3.0.10-3) ...
+Setting up libglib2.0-0 (2.30.2-4) ...
+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 man-db (2.5.7-8) ...
-debconf: unable to initialize frontend: Dialog
-debconf: (TERM is not set, so the dialog frontend is not usable.)
-debconf: falling back to frontend: Readline
-debconf: unable to initialize frontend: Readline
-debconf: (This frontend requires a controlling tty.)
-debconf: falling back to frontend: Teletype
+Setting up groff-base (1.21-6) ...
+Setting up man-db (2.6.0.2-3) ...
Building database of manual pages ...
-Setting up debhelper (8.0.0) ...
-Setting up cdbs (0.4.89) ...
+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 (8.9.11) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
Setting up sbuild-build-depends-bwa-dummy (0.invalid.0) ...
Reading package lists...
@@ -296,9 +321,9 @@ Reading state information...
Reading extended state information...
Initializing package states...
Writing extended state information...
-Kernel: Linux 2.6.26-2-amd64 i386 (x86_64)
-Toolchain package versions: libc6-dev_2.11.2-7 dpkg-dev_1.15.8.6 linux-libc-dev_2.6.32-29 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_4.4.5-10
-Package versions: apt_0.8.10 aptitude_0.6.3-3.2 base-files_6.0 base-passwd_3.5.22 bash_4.1-3 binutils_2.20.1-15 bsdmainutils_8.2.1 bsdutils_1:2.17.2-3.3 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.89 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_1.5.37 debconf-i18n_1.5.37 debfoster_2.7-1.1 debhelper_8.0.0 debian-archive-keyring_2010.08.28 debianutils_3.4.2 diffutils_1:3.0-1 dpkg_1.15.8.6 dpkg-dev_1.15.8.6 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.14.5-1 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_1.20.1-10 gzip_1.3.12-9 hostname_3.05 html2text_1.3.2a-15 initscripts_2.88dsf-13 insserv_1.14.0-2 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-4 libattr1_1:2.4.44-2 libblkid1_2.17.2-3.3 libboost-iostreams1.42.0_1.42.0-4 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-7 libc-dev-bin_2.11.2-7 libc6_2.11.2-7 libc6-dev_2.11.2-7 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libcwidget3_0.5.16-3 libdb4.7_4.7.25-10 libdb4.8_4.8.30-3 libdpkg-perl_1.15.8.6 libept1_1.0.4 libgc1c2_1:6.8-1.2 libgcc1_1:4.4.5-10 libgdbm3_1.8.3-9 libglib2.0-0_2.24.2-1 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+20100313-4 libncursesw5_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_8.02-1.1 libreadline6_6.1-3 libselinux1_2.0.96-1 libsepol1_2.0.41-1 libsigc++-2.0-0c2a_2.2.4.2-1 libslang2_2.2.2-4 libsqlite3-0_3.7.4-2 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 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_2:0.1.12-16 libuuid1_2.17.2-3.3 libxapian22_1.2.4-1 libxml2_2.7.8.dfsg-2 linux-libc-dev_2.6.32-29 login_1:4.1.4.2+svn3283-2 lsb-base_3.2-26 make_3.81-8 man-db_2.5.7-8 mawk_1.3.3-15 mount_2.17.2-3.3 ncurses-base_5.7+20100313-4 ncurses-bin_5.7+20100313-4 passwd_1:4.1.4.2+svn3283-2 patch_2.6-3 perl_5.10.1-16 perl-base_5.10.1-16 perl-modules_5.10.1-16 po-debconf_1.0.16+nmu1 readline-common_6.1-3 sbuild-build-depends-bwa-dummy_0.invalid.0 sed_4.2.1-8 sensible-utils_0.0.6 sudo_1.7.4p4-5 sysv-rc_2.88dsf-13 sysvinit_2.88dsf-13 sysvinit-utils_2.88dsf-13 tar_1.25-3 tzdata_2010o-1 util-linux_2.17.2-3.3 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+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_3.1.1-1
+Package versions: apt_0.8.15.9 aptitude_0.6.4-1.2 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_8.9.11 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_1.4-2 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 libboost-iostreams1.46.1_1.46.1-7+b1 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 libcwidget3_0.5.16-3.1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.1.1 libept1_1.0.5 libffi5_3.0.10-3 libgc1c2_1:7.1-8 libgcc1_1:4.6.2-4 libgdbm3_1.8.3-10 libglib2.0-0_2.30.2-4 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_3.1.0-3 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 libquadmath0_4.6.2-4 libreadline6_6.2-7 libselinux1_2.1.0-4 libsepol1_2.1.0-1.1 libsigc++-2.0-0c2a_2.2.9-1 libslang2_2.2.4-3 libsqlite3-0_3.7.9-2 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 libxapian22_1.2.7-1 libxml2_2.7.8.dfsg-5 linux-libc-dev_3.1.1-1 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_5.14.2-4 perl-base_5.14.2-4 perl-modules_5.14.2-4 po-debconf_1.0.16+nmu1 readline-common_6.2-7 sbuild-build-depends-bwa-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 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 │
@@ -308,14 +333,12 @@ Package versions: apt_0.8.10 aptitude_0.6.3-3.2 base-files_6.0 base-passwd_3.5.2
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 Thu Jan 20 12:57:54 2011 UTC using RSA key ID 2295D502
+gpgv: Signature made Tue Nov 22 02:41:12 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~rc-1.dsc
-dpkg-source: info: extracting bwa in bwa-0.5.9~rc
-dpkg-source: info: unpacking bwa_0.5.9~rc.orig.tar.bz2
-dpkg-source: info: unpacking bwa_0.5.9~rc-1.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bwa_0.6.0-2.dsc
+dpkg-source: info: extracting bwa in bwa-0.6.0
+dpkg-source: info: unpacking bwa_0.6.0-2.tar.gz
Check disc space
────────────────
@@ -324,159 +347,222 @@ 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~rc-1
- dpkg-source --before-build bwa-0.5.9~rc
+dpkg-buildpackage: source version 0.6.0-2
+ dpkg-source --before-build bwa-0.6.0
dpkg-buildpackage: host architecture i386
- /usr/bin/fakeroot debian/rules clean
-test -x debian/rules
-dh_testroot
-rm -f debian/stamp-makefile-build debian/stamp-makefile-install
-/usr/bin/make -C . CFLAGS="-g -O2 -g -Wall -O2" CXXFLAGS="-g -O2 -g -Wall -O2" CPPFLAGS="" LDFLAGS="" -k clean
-make[1]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-i386-OybdCo/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-i386-OybdCo/bwa-0.5.9~rc'
+ fakeroot debian/rules clean
+dh clean
+ dh_testdir
+ dh_auto_clean
+make[1]: Entering directory `/build/buildd-bwa_0.6.0-2-i386-8owrh7/bwa-0.6.0'
rm -f gmon.out *.o a.out bwa *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-i386-OybdCo/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-i386-OybdCo/bwa-0.5.9~rc/bwt_gen'
-rm -f gmon.out *.o a.out *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-i386-OybdCo/bwa-0.5.9~rc/bwt_gen'
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-i386-OybdCo/bwa-0.5.9~rc'
-dh_clean
+make[1]: Leaving directory `/build/buildd-bwa_0.6.0-2-i386-8owrh7/bwa-0.6.0'
+ dh_clean
debian/rules build
-test -x debian/rules
-mkdir -p "."
-/usr/bin/make -C . CFLAGS="-g -O2 -g -Wall -O2" CXXFLAGS="-g -O2 -g -Wall -O2" CPPFLAGS="" LDFLAGS=""
-make[1]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-i386-OybdCo/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-i386-OybdCo/bwa-0.5.9~rc'
-make[2]: Nothing to be done for `lib'.
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-i386-OybdCo/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-i386-OybdCo/bwa-0.5.9~rc/bwt_gen'
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwt_gen.c -o bwt_gen.o
-gcc -c -g -O2 -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~rc-1-i386-OybdCo/bwa-0.5.9~rc/bwt_gen'
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD utils.c -o utils.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwt.c -o bwt.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtio.c -o bwtio.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtaln.c -o bwtaln.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtgap.c -o bwtgap.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD is.c -o is.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bntseq.c -o bntseq.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtmisc.c -o bwtmisc.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtindex.c -o bwtindex.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD stdaln.c -o stdaln.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD simple_dp.c -o simple_dp.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwaseqio.c -o bwaseqio.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwase.c -o bwase.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwape.c -o bwape.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD kstring.c -o kstring.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD cs2nt.c -o cs2nt.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_core.c -o bwtsw2_core.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_main.c -o bwtsw2_main.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_aux.c -o bwtsw2_aux.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwt_lite.c -o bwt_lite.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_chain.c -o bwtsw2_chain.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bamlite.c -o bamlite.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD main.c -o main.o
-gcc -g -O2 -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~rc-1-i386-OybdCo/bwa-0.5.9~rc'
-touch debian/stamp-makefile-build
-DEB_MAKE_CHECK_TARGET unset, not running checks
- /usr/bin/fakeroot debian/rules binary-arch
-test -x debian/rules
-dh_testroot
-dh_prep
-dh_installdirs -A
-mkdir -p "."
-DEB_MAKE_CHECK_TARGET unset, not running checks
-DEB_MAKE_INSTALL_TARGET unset, skipping default makefile.mk common-install target
-Adding cdbs dependencies to debian/bwa.substvars
-dh_installdirs -pbwa
-dh_installdocs -pbwa ./NEWS
-dh_installexamples -pbwa
-dh_installman -pbwa
-dh_installinfo -pbwa
-dh_installmenu -pbwa
-dh_installcron -pbwa
-dh_installinit -pbwa
-dh_installdebconf -pbwa
-dh_installemacsen -pbwa
-dh_installcatalogs -pbwa
-dh_installpam -pbwa
-dh_installlogrotate -pbwa
-dh_installlogcheck -pbwa
-dh_installchangelogs -pbwa ./ChangeLog
-dh_installudev -pbwa
-dh_lintian -pbwa
-dh_install -pbwa
-dh_link -pbwa
-dh_installmime -pbwa
-dh_strip -pbwa
-dh_compress -pbwa
-dh_fixperms -pbwa
-dh_makeshlibs -pbwa
-dh_installdeb -pbwa
-dh_perl -pbwa
-dh_shlibdeps -pbwa
-dh_gencontrol -pbwa
+dh build
+ dh_testdir
+ dh_auto_configure
+ debian/rules override_dh_auto_build
+make[1]: Entering directory `/build/buildd-bwa_0.6.0-2-i386-8owrh7/bwa-0.6.0'
+dh_auto_build -- CFLAGS="-Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro" DFLAGS="-DHAVE_PTHREAD -D_NO_SSE2"
+make[2]: Entering directory `/build/buildd-bwa_0.6.0-2-i386-8owrh7/bwa-0.6.0'
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 QSufSort.c -o QSufSort.o
+QSufSort.c: In function 'QSufSortSuffixSort':
+QSufSort.c:62:10: warning: variable 'maxNumInputSymbol' set but not used [-Wunused-but-set-variable]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt_gen.c -o bwt_gen.o
+bwt_gen.c: In function 'BWTIncBuildRelativeRank':
+bwt_gen.c:873:10: warning: variable 'oldInverseSa0RelativeRank' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncMergeBwt':
+bwt_gen.c:947:15: warning: variable 'bitsInWordMinusBitPerChar' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncConstructFromPacked':
+bwt_gen.c:1452:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwt_gen.c:1468:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwt_gen.c:1483:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 utils.c -o utils.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt.c -o bwt.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtio.c -o bwtio.o
+bwtio.c: In function 'bwt_restore_bwt':
+bwtio.c:62:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:63:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:64:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c: In function 'bwt_restore_sa':
+bwtio.c:36:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:38:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:39:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:40:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:47:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtaln.c -o bwtaln.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtgap.c -o bwtgap.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 is.c -o is.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bntseq.c -o bntseq.o
+bntseq.c: In function 'bns_restore_core':
+bntseq.c:98:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:106:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:114:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:123:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:129:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtmisc.c -o bwtmisc.o
+bwtmisc.c: In function 'bwa_pac2cspac_core':
+bwtmisc.c:172:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtmisc.c: In function 'bwt_pac2bwt':
+bwtmisc.c:72:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtmisc.c: In function 'bwa_seq_len':
+bwtmisc.c:51:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtindex.c -o bwtindex.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 ksw.c -o ksw.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 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 -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 simple_dp.c -o simple_dp.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwaseqio.c -o bwaseqio.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwase.c -o bwase.o
+bwase.c: In function 'bwa_aln2seq_core':
+bwase.c:74:15: warning: variable 'k' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_print_sam1':
+bwase.c:447:17: warning: variable 'm_is_N' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_sai2sam_se_core':
+bwase.c:603:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:619:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:624:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c: In function 'bwa_refine_gapped':
+bwase.c:310:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:316:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwape.c -o bwape.o
+bwape.c: In function 'bwa_sai2sam_pe_core':
+bwape.c:683:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:686:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:697:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c: In function 'bwa_paired_sw':
+bwape.c:527:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c: In function 'bwa_cal_pac_pos_pe':
+bwape.c:312:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:316:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 kstring.c -o kstring.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 cs2nt.c -o cs2nt.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_core.c -o bwtsw2_core.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_main.c -o bwtsw2_main.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_aux.c -o bwtsw2_aux.o
+bwtsw2_aux.c: In function 'gen_cigar':
+bwtsw2_aux.c:186:7: warning: variable 'score' set but not used [-Wunused-but-set-variable]
+bwtsw2_aux.c: In function 'bsw2_aln':
+bwtsw2_aux.c:734:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt_lite.c -o bwt_lite.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_chain.c -o bwtsw2_chain.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bamlite.c -o bamlite.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 fastmap.c -o fastmap.o
+fastmap.c: In function 'main_fastmap':
+fastmap.c:54:3: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'size_t' [-Wformat]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_pair.c -o bwtsw2_pair.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 main.c -o main.o
+gcc -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 QSufSort.o bwt_gen.o utils.o bwt.o bwtio.o bwtaln.o bwtgap.o is.o bntseq.o bwtmisc.o bwtindex.o ksw.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 fastmap.o bwtsw2_pair.o main.o -o bwa -lm -lz -lpthread
+make[2]: Leaving directory `/build/buildd-bwa_0.6.0-2-i386-8owrh7/bwa-0.6.0'
+make[1]: Leaving directory `/build/buildd-bwa_0.6.0-2-i386-8owrh7/bwa-0.6.0'
+ dh_auto_test
+ fakeroot debian/rules binary-arch
+dh binary-arch
+ dh_testroot -a
+ dh_prep -a
+ dh_installdirs -a
+ dh_auto_install -a
+ dh_install -a
+ dh_installdocs -a
+ dh_installchangelogs -a
+ dh_installexamples -a
+ dh_installman -a
+ dh_installcatalogs -a
+ dh_installcron -a
+ dh_installdebconf -a
+ dh_installemacsen -a
+ dh_installifupdown -a
+ dh_installinfo -a
+ dh_installinit -a
+ dh_installmenu -a
+ dh_installmime -a
+ dh_installmodules -a
+ dh_installlogcheck -a
+ dh_installlogrotate -a
+ dh_installpam -a
+ dh_installppp -a
+ 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
+ dh_perl -a
+ dh_usrlocal -a
+ dh_link -a
+ dh_compress -a
+ dh_fixperms -a
+ dh_strip -a
+ dh_makeshlibs -a
+ dh_shlibdeps -a
+ dh_installdeb -a
+ dh_gencontrol -a
dpkg-gencontrol: warning: package bwa: unused substitution variable ${perl:Depends}
-dh_md5sums -pbwa
-dh_builddeb -pbwa
-dpkg-deb: building package `bwa' in `../bwa_0.5.9~rc-1_i386.deb'.
- dpkg-genchanges -B -mi386 Build Daemon <buildd_i386-biber at buildd.debian.org> >../bwa_0.5.9~rc-1_i386.changes
+ dh_md5sums -a
+ dh_builddeb -a
+dpkg-deb: building package `bwa' in `../bwa_0.6.0-2_i386.deb'.
+ dpkg-genchanges -B -mi386 Build Daemon <buildd_i386-biber at buildd.debian.org> >../bwa_0.6.0-2_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~rc
+ dpkg-source --after-build bwa-0.6.0
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110120-1311
+Build finished at 20111122-0318
-bwa_0.5.9~rc-1_i386.changes:
+bwa_0.6.0-2_i386.changes:
Format: 1.8
-Date: Thu, 20 Jan 2011 21:42:55 +0900
+Date: Tue, 22 Nov 2011 11:32:11 +0900
Source: bwa
Binary: bwa
Architecture: i386
-Version: 0.5.9~rc-1
+Version: 0.6.0-2
Distribution: experimental
Urgency: low
Maintainer: i386 Build Daemon <buildd_i386-biber at buildd.debian.org>
Changed-By: Charles Plessy <plessy at debian.org>
Description:
bwa - Burrows-Wheeler Aligner
+Closes: 648803
Changes:
- bwa (0.5.9~rc-1) experimental; urgency=low
+ bwa (0.6.0-2) experimental; urgency=low
.
- * New usptream release candidate.
+ [9410de3] Disable SSE2 everywhere except on amd64 (Closes: #648803).
+ [fb4c559] Reimplementation of Standard SW for when SSE2 is unavailable.
+ cherry picked from upstream commit 182cb2e.
+ This commit modifies upstream sources.
+ [9c93ccd] Use native format to bypass mandatory patch system.
Checksums-Sha1:
- 726636eeb50d91ac1410ec534572f2f938c177c4 137734 bwa_0.5.9~rc-1_i386.deb
+ e65772b1ed487e2df753545334565425ce7d5291 172272 bwa_0.6.0-2_i386.deb
Checksums-Sha256:
- 3976b72626c9b9977175496f14a0b394b385b43dacebe29497729877a2973a1a 137734 bwa_0.5.9~rc-1_i386.deb
+ cf2c05ed9683a3e0c1a374f58929f353f5150e653445618e64266cc6b23060c8 172272 bwa_0.6.0-2_i386.deb
Files:
- 3001cfb7884866179b8b57d0333fe058 137734 science optional bwa_0.5.9~rc-1_i386.deb
+ d8bf48070844c3892bdf82259d741a56 172272 science optional bwa_0.6.0-2_i386.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bwa_0.5.9~rc-1_i386.deb
-───────────────────────
+bwa_0.6.0-2_i386.deb
+────────────────────
new debian package, version 2.0.
- size 137734 bytes: control archive= 944 bytes.
- 776 bytes, 17 lines control
- 556 bytes, 9 lines md5sums
+ size 172272 bytes: control archive= 988 bytes.
+ 773 bytes, 17 lines control
+ 610 bytes, 10 lines md5sums
Package: bwa
- Version: 0.5.9~rc-1
+ Version: 0.6.0-2
Architecture: i386
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 312
+ Installed-Size: 351
Depends: libc6 (>= 2.7), zlib1g (>= 1:1.1.4)
Suggests: samtools
Section: science
@@ -490,24 +576,25 @@ bwa_0.5.9~rc-1_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 2011-01-20 13:11 ./
-drwxr-xr-x root/root 0 2011-01-20 13:11 ./usr/
-drwxr-xr-x root/root 0 2011-01-20 13:11 ./usr/bin/
--rwxr-xr-x root/root 199344 2011-01-20 13:11 ./usr/bin/bwa
-drwxr-xr-x root/root 0 2011-01-20 13:11 ./usr/share/
-drwxr-xr-x root/root 0 2011-01-20 13:11 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-01-20 13:11 ./usr/share/doc/bwa/
--rw-r--r-- root/root 17751 2011-01-20 11:35 ./usr/share/doc/bwa/changelog.gz
--rw-r--r-- root/root 17751 2011-01-20 11:35 ./usr/share/doc/bwa/ChangeLog.gz
--rw-r--r-- root/root 5606 2011-01-20 11:35 ./usr/share/doc/bwa/NEWS.gz
--rw-r--r-- root/root 805 2011-01-20 12:43 ./usr/share/doc/bwa/changelog.Debian.gz
--rw-r--r-- root/root 2679 2011-01-20 11:52 ./usr/share/doc/bwa/copyright
-drwxr-xr-x root/root 0 2011-01-20 13:11 ./usr/share/man/
-drwxr-xr-x root/root 0 2011-01-20 13:11 ./usr/share/man/man1/
--rw-r--r-- root/root 7423 2011-01-20 13:11 ./usr/share/man/man1/bwa.1.gz
-drwxr-xr-x root/root 0 2011-01-20 13:11 ./usr/share/bwa/
--rwxr-xr-x root/root 616 2011-01-20 11:35 ./usr/share/bwa/qualfa2fq.pl
--rwxr-xr-x root/root 3176 2011-01-20 11:35 ./usr/share/bwa/solid2fastq.pl
+drwxr-xr-x root/root 0 2011-11-22 03:18 ./
+drwxr-xr-x root/root 0 2011-11-22 03:18 ./usr/
+drwxr-xr-x root/root 0 2011-11-22 03:18 ./usr/bin/
+-rwxr-xr-x root/root 276100 2011-11-22 03:18 ./usr/bin/bwa
+drwxr-xr-x root/root 0 2011-11-22 03:18 ./usr/share/
+drwxr-xr-x root/root 0 2011-11-22 03:18 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-11-22 03:18 ./usr/share/doc/bwa/
+-rw-r--r-- root/root 17912 2011-11-22 01:55 ./usr/share/doc/bwa/changelog.gz
+-rw-r--r-- root/root 6680 2011-11-22 01:55 ./usr/share/doc/bwa/NEWS.gz
+-rw-r--r-- root/root 1471 2011-11-22 02:32 ./usr/share/doc/bwa/changelog.Debian.gz
+-rw-r--r-- root/root 634 2011-11-22 01:55 ./usr/share/doc/bwa/README
+-rw-r--r-- root/root 2785 2011-11-22 01:55 ./usr/share/doc/bwa/copyright
+drwxr-xr-x root/root 0 2011-11-22 03:18 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-11-22 03:18 ./usr/share/man/man1/
+-rw-r--r-- root/root 7745 2011-11-22 03:18 ./usr/share/man/man1/bwa.1.gz
+drwxr-xr-x root/root 0 2011-11-22 03:18 ./usr/share/bwa/
+-rwxr-xr-x root/root 730 2011-11-22 01:55 ./usr/share/bwa/xa2multi.pl
+-rwxr-xr-x root/root 616 2011-11-22 01:55 ./usr/share/bwa/qualfa2fq.pl
+-rwxr-xr-x root/root 3176 2011-11-22 01:55 ./usr/share/bwa/solid2fastq.pl
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -516,9 +603,31 @@ drwxr-xr-x root/root 0 2011-01-20 13:11 ./usr/share/bwa/
Built successfully
────────────────────────────────────────────────────────────────────────────────
-Purging /var/lib/schroot/mount/sid-experimental-i386-sbuild-d89797e7-5abc-40dc-803f-6f767d97ee87/build/buildd-bwa_0.5.9~rc-1-i386-OybdCo
-Not removing build depends: cloned chroot in use
-────────────────────────────────────────────────────────────────────────────────
-Finished at 20110120-1311
-Build needed 00:02:42, 2416k disc space
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /var/lib/schroot/mount/sid-experimental-i386-sbuild-e1a0156d-793b-4425-99d4-40594bdd261a/build/buildd-bwa_0.6.0-2-i386-8owrh7
+Not cleaning session: cloned chroot in use
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Architecture: i386
+Build-Space: 2988
+Build-Time: 24
+Distribution: experimental
+Install-Time: 67
+Job: bwa_0.6.0-2
+Package: bwa
+Package-Time: 124
+Source-Version: 0.6.0-2
+Space: 2988
+Status: successful
+Version: 0.6.0-2
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20111122-0318
+Build needed 00:02:04, 2988k disc space
+Signature with key 'C83D412C' requested:
diff --git a/ia64.log b/ia64.log
index dc10246..4fecb9f 100644
--- a/ia64.log
+++ b/ia64.log
@@ -1,90 +1,92 @@
-From buildd at alkman.debian.org Thu Jan 20 13:14:41 2011
-Return-path: <buildd at alkman.debian.org>
-Received: from kokkonen.debian.org ([2001:41b8:202:deb:216:35ff:fec4:6340])
+From buildd at mundy.debian.org Tue Nov 22 03:21:28 2011
+Return-path: <buildd at mundy.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 alkman.debian.org>)
- id 1PfuLZ-0007xC-GX
- for logs at buildd.debian.org; Thu, 20 Jan 2011 13:14:41 +0000
-Received: from alkman.debian.org ([192.25.206.63])
+ (Exim 4.72) (envelope-from <buildd at mundy.debian.org>)
+ id 1RSgvI-0006EM-0w
+ for logs at buildd.debian.org; Tue, 22 Nov 2011 03:21:28 +0000
+Received: from mundy.debian.org ([192.25.206.62])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
- CN=alkman.debian.org, EMAIL=hostmaster at alkman.debian.org (verified)
+ CN=mundy.debian.org, EMAIL=hostmaster at mundy.debian.org (verified)
by kokkonen.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at alkman.debian.org>)
- id 1PfuLY-0007vI-2X
- for logs at buildd.debian.org; Thu, 20 Jan 2011 13:14:40 +0000
-Received: from buildd by alkman.debian.org with local (Exim 4.69)
- (envelope-from <buildd at alkman.debian.org>)
- id 1PfuLW-0003Qt-1O; Thu, 20 Jan 2011 13:14:38 +0000
-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_0.5.9~rc-1 on ia64 (dist=experimental)
+ (Exim 4.72) (envelope-from <buildd at mundy.debian.org>)
+ id 1RSgvG-0005ds-N2; Tue, 22 Nov 2011 03:21:27 +0000
+Received: from buildd by mundy.debian.org with local (Exim 4.72)
+ (envelope-from <buildd at mundy.debian.org>)
+ id 1RSgvE-0004uF-9p; Tue, 22 Nov 2011 03:21:24 +0000
+Date: Tue, 22 Nov 2011 03:21:24 +0000
+Message-Id: <E1RSgvE-0004uF-9p at mundy.debian.org>
+From: buildd on mundy <buildd at mundy.debian.org>
+To: dannf at master.debian.org,logs at buildd.debian.org
+Subject: Log for successful build of bwa_0.6.0-2 on ia64 (dist=experimental)
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit
-Message-Id: <E1PfuLW-0003Qt-1O at alkman.debian.org>
-Date: Thu, 20 Jan 2011 13:14:38 +0000
Delivered-To: logs at buildd.debian.org
-sbuild (Debian sbuild) 0.60.0 (23 Feb 2010) on alkman.debian.org
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on mundy.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bwa 0.5.9~rc-1 (ia64) 20 Jan 2011 13:11 ║
+║ bwa 0.6.0-2 (ia64) 22 Nov 2011 03:17 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bwa
-Version: 0.5.9~rc-1
+Version: 0.6.0-2
+Source Version: 0.6.0-2
Architecture: ia64
-Chroot Build Dir: /var/lib/schroot/mount/sid-experimental-ia64-sbuild-0dc89229-cf6f-4bd0-883f-4f040d330d38/build/buildd-bwa_0.5.9~rc-1-ia64-Drx5Di
-Start Time: 20110120-1311
-Get:1 http://spohr.debian.org unstable Release.gpg [835 B]
-Ign http://spohr.debian.org/debian/ unstable/contrib Translation-en
-Ign http://spohr.debian.org/debian/ unstable/main Translation-en
-Get:2 http://spohr.debian.org experimental Release.gpg [835 B]
-Ign http://spohr.debian.org/debian/ experimental/contrib Translation-en
-Ign http://spohr.debian.org/debian/ experimental/main Translation-en
-Get:3 http://spohr.debian.org unstable Release [104 kB]
-Get:4 http://spohr.debian.org experimental Release [102 kB]
-Get:5 http://incoming.debian.org unstable Release.gpg [835 B]
-Ign http://incoming.debian.org/debian/ unstable/contrib Translation-en
-Ign http://incoming.debian.org/debian/ unstable/main Translation-en
-Get:6 http://spohr.debian.org unstable/main Sources [4072 kB]
-Get:7 http://incoming.debian.org experimental Release.gpg [835 B]
-Ign http://incoming.debian.org/debian/ experimental/contrib Translation-en
-Ign http://incoming.debian.org/debian/ experimental/main Translation-en
-Get:8 http://incoming.debian.org Release.gpg [835 B]
-Ign http://incoming.debian.org/buildd-unstable/ Translation-en
-Get:9 http://incoming.debian.org Release.gpg [835 B]
-Ign http://incoming.debian.org/buildd-experimental/ Translation-en
-Get:10 http://incoming.debian.org unstable Release [104 kB]
-Get:11 http://spohr.debian.org unstable/contrib Sources [38.6 kB]
-Get:12 http://spohr.debian.org unstable/non-free Sources [83.9 kB]
-Get:13 http://spohr.debian.org unstable/main ia64 Packages [6740 kB]
-Get:14 http://incoming.debian.org experimental Release [102 kB]
-Get:15 http://incoming.debian.org Release [1604 B]
-Get:16 http://incoming.debian.org Release [1625 B]
-Get:17 http://incoming.debian.org unstable/main Sources [4072 kB]
-Get:18 http://spohr.debian.org unstable/contrib ia64 Packages [50.6 kB]
-Get:19 http://spohr.debian.org experimental/main Sources [393 kB]
-Get:20 http://spohr.debian.org experimental/contrib Sources [4450 B]
-Get:21 http://spohr.debian.org experimental/non-free Sources [6418 B]
-Get:22 http://spohr.debian.org experimental/main ia64 Packages [796 kB]
-Get:23 http://spohr.debian.org experimental/contrib ia64 Packages [5489 B]
-Get:24 http://incoming.debian.org unstable/contrib Sources [38.6 kB]
-Get:25 http://incoming.debian.org unstable/non-free Sources [83.9 kB]
-Get:26 http://incoming.debian.org unstable/main ia64 Packages [6740 kB]
-Get:27 http://incoming.debian.org unstable/contrib ia64 Packages [50.6 kB]
-Get:28 http://incoming.debian.org experimental/main Sources [393 kB]
-Get:29 http://incoming.debian.org experimental/contrib Sources [4450 B]
-Get:30 http://incoming.debian.org experimental/non-free Sources [6418 B]
-Get:31 http://incoming.debian.org experimental/main ia64 Packages [796 kB]
-Get:32 http://incoming.debian.org experimental/contrib ia64 Packages [5489 B]
-Get:33 http://incoming.debian.org Sources [11.7 kB]
-Get:34 http://incoming.debian.org Packages [103 kB]
-Get:35 http://incoming.debian.org Sources [9718 B]
-Get:36 http://incoming.debian.org Packages [89.7 kB]
-Fetched 25.0 MB in 21s (1168 kB/s)
+Get:1 http://spohr.debian.org unstable InRelease [160 kB]
+Get:2 http://spohr.debian.org experimental InRelease [139 kB]
+Get:3 http://spohr.debian.org unstable/main Sources [5927 kB]
+Get:4 http://incoming.debian.org unstable InRelease [160 kB]
+Get:5 http://spohr.debian.org unstable/contrib Sources [57.2 kB]
+Get:6 http://spohr.debian.org unstable/non-free Sources [102 kB]
+Get:7 http://spohr.debian.org unstable/main ia64 Packages [7567 kB]
+Get:8 http://incoming.debian.org experimental InRelease [139 kB]
+Ign http://incoming.debian.org InRelease
+Ign http://incoming.debian.org InRelease
+Get:9 http://incoming.debian.org unstable/main Sources [5927 kB]
+Get:10 http://spohr.debian.org unstable/contrib ia64 Packages [56.3 kB]
+Ign http://spohr.debian.org unstable/contrib TranslationIndex
+Get:11 http://spohr.debian.org unstable/main TranslationIndex [2045 B]
+Get:12 http://spohr.debian.org experimental/main Sources [177 kB]
+Get:13 http://spohr.debian.org experimental/contrib Sources [1400 B]
+Get:14 http://spohr.debian.org experimental/non-free Sources [2641 B]
+Get:15 http://spohr.debian.org experimental/main ia64 Packages [315 kB]
+Get:16 http://spohr.debian.org experimental/contrib ia64 Packages [1846 B]
+Ign http://spohr.debian.org experimental/contrib TranslationIndex
+Ign http://spohr.debian.org experimental/main TranslationIndex
+Ign http://spohr.debian.org unstable/contrib Translation-en
+Ign http://spohr.debian.org experimental/contrib Translation-en
+Ign http://spohr.debian.org experimental/main Translation-en
+Get:17 http://incoming.debian.org unstable/contrib Sources [57.2 kB]
+Get:18 http://incoming.debian.org unstable/non-free Sources [102 kB]
+Get:19 http://incoming.debian.org unstable/main ia64 Packages [7567 kB]
+Get:20 http://incoming.debian.org unstable/contrib ia64 Packages [56.3 kB]
+Ign http://incoming.debian.org unstable/contrib TranslationIndex
+Get:21 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
+Get:22 http://incoming.debian.org Release.gpg [836 B]
+Get:23 http://incoming.debian.org Release.gpg [836 B]
+Get:24 http://incoming.debian.org experimental/main Sources [177 kB]
+Get:25 http://incoming.debian.org experimental/contrib Sources [1400 B]
+Get:26 http://incoming.debian.org experimental/non-free Sources [2641 B]
+Get:27 http://incoming.debian.org experimental/main ia64 Packages [315 kB]
+Get:28 http://incoming.debian.org experimental/contrib ia64 Packages [1846 B]
+Ign http://incoming.debian.org experimental/contrib TranslationIndex
+Ign http://incoming.debian.org experimental/main TranslationIndex
+Get:29 http://incoming.debian.org Release [1604 B]
+Get:30 http://incoming.debian.org Release [1626 B]
+Get:31 http://incoming.debian.org Sources [33.2 kB]
+Get:32 http://incoming.debian.org Packages [315 kB]
+Get:33 http://incoming.debian.org Sources [2999 B]
+Get:34 http://incoming.debian.org Packages [28.9 kB]
+Ign http://incoming.debian.org unstable/contrib Translation-en
+Ign http://incoming.debian.org experimental/contrib Translation-en
+Ign http://incoming.debian.org experimental/main Translation-en
+Ign http://incoming.debian.org Translation-en
+Ign http://incoming.debian.org Translation-en
+Fetched 29.4 MB in 22s (1331 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -104,29 +106,32 @@ 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 118 kB of source archives.
-Get:1 http://incoming.debian.org/buildd-experimental/ bwa 0.5.9~rc-1 (dsc) [1915 B]
-Get:2 http://incoming.debian.org/buildd-experimental/ bwa 0.5.9~rc-1 (tar) [113 kB]
-Get:3 http://incoming.debian.org/buildd-experimental/ bwa 0.5.9~rc-1 (diff) [3594 B]
-Fetched 118 kB in 0s (163 kB/s)
+git://git.debian.org/debian-med/bwa.git
+Need to get 171 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-experimental/ bwa 0.6.0-2 (dsc) [1681 B]
+Get:2 http://incoming.debian.org/buildd-experimental/ bwa 0.6.0-2 (tar) [169 kB]
+Fetched 171 kB in 0s (249 kB/s)
Download complete and in download only mode
Check arch
──────────
-** Using build dependencies supplied by package:
-Build-Depends: cdbs, debhelper (>= 8), zlib1g-dev
+dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/build/buildd-bwa_0.6.0-2-ia64-j5bwTg/resolver-tyxtoi/apt_archive/sbuild-build-depends-core-dummy.deb'.
+OK
+Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install build dependencies (aptitude-based resolver) │
+│ Install core build dependencies (aptitude-based resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
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:
- libboost-iostreams1.42.0 libcwidget3 libept1 libncursesw5 libsigc++-2.0-0c2a
+ libboost-iostreams1.46.1 libcwidget3 libept1 libncursesw5 libsigc++-2.0-0c2a
libsqlite3-0 libxapian22
Suggested packages:
tasksel debtags libcwidget-dev xapian-tools
@@ -134,161 +139,189 @@ Recommended packages:
aptitude-doc-en aptitude-doc apt-xapian-index libparse-debianchangelog-perl
libgpm2
The following NEW packages will be installed:
- aptitude libboost-iostreams1.42.0 libcwidget3 libept1 libncursesw5
+ aptitude libboost-iostreams1.46.1 libcwidget3 libept1 libncursesw5
libsigc++-2.0-0c2a libsqlite3-0 libxapian22
-0 upgraded, 8 newly installed, 0 to remove and 47 not upgraded.
-Need to get 7926 kB of archives.
-After this operation, 26.4 MB of additional disk space will be used.
-Get:1 http://spohr.debian.org/debian/ unstable/main libboost-iostreams1.42.0 ia64 1.42.0-4 [68.9 kB]
-Get:2 http://spohr.debian.org/debian/ unstable/main libncursesw5 ia64 5.7+20100313-5 [484 kB]
-Get:3 http://spohr.debian.org/debian/ unstable/main libsigc++-2.0-0c2a ia64 2.2.4.2-1 [41.2 kB]
-Get:4 http://spohr.debian.org/debian/ unstable/main libcwidget3 ia64 0.5.16-3 [402 kB]
-Get:5 http://spohr.debian.org/debian/ unstable/main libxapian22 ia64 1.2.4-1 [1574 kB]
-Get:6 http://spohr.debian.org/debian/ unstable/main libept1 ia64 1.0.4 [191 kB]
-Get:7 http://spohr.debian.org/debian/ unstable/main libsqlite3-0 ia64 3.7.4-2 [608 kB]
-Get:8 http://spohr.debian.org/debian/ unstable/main aptitude ia64 0.6.3-3.2 [4557 kB]
+0 upgraded, 8 newly installed, 0 to remove and 10 not upgraded.
+Need to get 7913 kB of archives.
+After this operation, 25.8 MB of additional disk space will be used.
+Get:1 http://spohr.debian.org/debian/ unstable/main libncursesw5 ia64 5.9-4 [387 kB]
+Get:2 http://spohr.debian.org/debian/ unstable/main libboost-iostreams1.46.1 ia64 1.46.1-7+b1 [63.4 kB]
+Get:3 http://spohr.debian.org/debian/ unstable/main libsigc++-2.0-0c2a ia64 2.2.9-1 [43.1 kB]
+Get:4 http://spohr.debian.org/debian/ unstable/main libcwidget3 ia64 0.5.16-3.1 [404 kB]
+Get:5 http://spohr.debian.org/debian/ unstable/main libxapian22 ia64 1.2.7-1 [1551 kB]
+Get:6 http://spohr.debian.org/debian/ unstable/main libept1 ia64 1.0.5 [195 kB]
+Get:7 http://spohr.debian.org/debian/ unstable/main libsqlite3-0 ia64 3.7.9-2 [631 kB]
+Get:8 http://spohr.debian.org/debian/ unstable/main aptitude ia64 0.6.4-1.2 [4638 kB]
debconf: delaying package configuration, since apt-utils is not installed
-Fetched 7926 kB in 0s (13.1 MB/s)
-Selecting previously deselected package libboost-iostreams1.42.0.
-(Reading database ... 10104 files and directories currently installed.)
-Unpacking libboost-iostreams1.42.0 (from .../libboost-iostreams1.42.0_1.42.0-4_ia64.deb) ...
-Selecting previously deselected package libncursesw5.
-Unpacking libncursesw5 (from .../libncursesw5_5.7+20100313-5_ia64.deb) ...
-Selecting previously deselected package libsigc++-2.0-0c2a.
-Unpacking libsigc++-2.0-0c2a (from .../libsigc++-2.0-0c2a_2.2.4.2-1_ia64.deb) ...
-Selecting previously deselected package libcwidget3.
-Unpacking libcwidget3 (from .../libcwidget3_0.5.16-3_ia64.deb) ...
-Selecting previously deselected package libxapian22.
-Unpacking libxapian22 (from .../libxapian22_1.2.4-1_ia64.deb) ...
-Selecting previously deselected package libept1.
-Unpacking libept1 (from .../libept1_1.0.4_ia64.deb) ...
-Selecting previously deselected package libsqlite3-0.
-Unpacking libsqlite3-0 (from .../libsqlite3-0_3.7.4-2_ia64.deb) ...
-Selecting previously deselected package aptitude.
-Unpacking aptitude (from .../aptitude_0.6.3-3.2_ia64.deb) ...
-Setting up libboost-iostreams1.42.0 (1.42.0-4) ...
-Setting up libncursesw5 (5.7+20100313-5) ...
-Setting up libsigc++-2.0-0c2a (2.2.4.2-1) ...
-Setting up libcwidget3 (0.5.16-3) ...
-Setting up libxapian22 (1.2.4-1) ...
-Setting up libept1 (1.0.4) ...
-Setting up libsqlite3-0 (3.7.4-2) ...
-Setting up aptitude (0.6.3-3.2) ...
+Fetched 7913 kB in 0s (13.1 MB/s)
+Selecting previously unselected package libncursesw5.
+(Reading database ... 10648 files and directories currently installed.)
+Unpacking libncursesw5 (from .../libncursesw5_5.9-4_ia64.deb) ...
+Selecting previously unselected package libboost-iostreams1.46.1.
+Unpacking libboost-iostreams1.46.1 (from .../libboost-iostreams1.46.1_1.46.1-7+b1_ia64.deb) ...
+Selecting previously unselected package libsigc++-2.0-0c2a.
+Unpacking libsigc++-2.0-0c2a (from .../libsigc++-2.0-0c2a_2.2.9-1_ia64.deb) ...
+Selecting previously unselected package libcwidget3.
+Unpacking libcwidget3 (from .../libcwidget3_0.5.16-3.1_ia64.deb) ...
+Selecting previously unselected package libxapian22.
+Unpacking libxapian22 (from .../libxapian22_1.2.7-1_ia64.deb) ...
+Selecting previously unselected package libept1.
+Unpacking libept1 (from .../libept1_1.0.5_ia64.deb) ...
+Selecting previously unselected package libsqlite3-0.
+Unpacking libsqlite3-0 (from .../libsqlite3-0_3.7.9-2_ia64.deb) ...
+Selecting previously unselected package aptitude.
+Unpacking aptitude (from .../aptitude_0.6.4-1.2_ia64.deb) ...
+Setting up libncursesw5 (5.9-4) ...
+Setting up libboost-iostreams1.46.1 (1.46.1-7+b1) ...
+Setting up libsigc++-2.0-0c2a (2.2.9-1) ...
+Setting up libcwidget3 (0.5.16-3.1) ...
+Setting up libxapian22 (1.2.7-1) ...
+Setting up libept1 (1.0.5) ...
+Setting up libsqlite3-0 (3.7.9-2) ...
+Setting up aptitude (0.6.4-1.2) ...
update-alternatives: using /usr/bin/aptitude-curses to provide /usr/bin/aptitude (aptitude) in auto mode.
-dpkg-deb: building package `sbuild-build-depends-bwa-dummy' in `/build/buildd-bwa_0.5.9~rc-1-ia64-Drx5Di/buildd-bwa-ia64-PcSzMu/sbuild-build-depends-bwa-dummy.deb'.
-Selecting previously deselected package sbuild-build-depends-bwa-dummy.
-(Reading database ... 10312 files and directories currently installed.)
-Unpacking sbuild-build-depends-bwa-dummy (from .../sbuild-build-depends-bwa-dummy.deb) ...
-dpkg: dependency problems prevent configuration of sbuild-build-depends-bwa-dummy:
- sbuild-build-depends-bwa-dummy depends on cdbs; however:
- Package cdbs is not installed.
- sbuild-build-depends-bwa-dummy depends on debhelper (>= 8); however:
- Package debhelper is not installed.
- sbuild-build-depends-bwa-dummy depends on zlib1g-dev; however:
- Package zlib1g-dev is not installed.
-dpkg: error processing sbuild-build-depends-bwa-dummy (--install):
- dependency problems - leaving unconfigured
-Errors were encountered while processing:
- sbuild-build-depends-bwa-dummy
-aptitude -y --without-recommends -o APT::Install-Recommends=false -o Aptitude::ProblemResolver::StepScore=100 -o Aptitude::ProblemResolver::Hints::KeepDummy=reject sbuild-build-depends-bwa-dummy :UNINST -o Aptitude::ProblemResolver::Keep-All-Tier=55000 -o Aptitude::ProblemResolver::Remove-Essential-Tier=maximum install sbuild-build-depends-bwa-dummy
+aptitude -y --without-recommends -o Dpkg::Options::=--force-confold -o Aptitude::CmdLine::Ignore-Trust-Violations=false -o Aptitude::ProblemResolver::StepScore=100 -o Aptitude::ProblemResolver::SolutionCost=safety, priority, non-default-versions -o Aptitude::ProblemResolver::Hints::KeepDummy=reject sbuild-build-depends-core-dummy :UNINST -o Aptitude::ProblemResolver::Keep-All-Level=55000 -o Aptitude::ProblemResolver::Remove-Essential-Level=maximum install sbuild-build-depends-core-dummy
Reading package lists...
Building dependency tree...
Reading state information...
Initializing package states...
Writing extended state information...
The following NEW packages will be installed:
- bsdmainutils{a} cdbs{a} debhelper{a} file{a} gettext{a} gettext-base{a}
- groff-base{a} html2text{a} intltool-debian{a} libcroco3{a}
- libglib2.0-0{a} libmagic1{a} libpcre3{a} libunistring0{a} libxml2{a}
- man-db{a} po-debconf{a} zlib1g-dev{a}
-The following partially installed packages will be configured:
- sbuild-build-depends-bwa-dummy
-0 packages upgraded, 18 newly installed, 0 to remove and 47 not upgraded.
-Need to get 12.3 MB of archives. After unpacking 41.5 MB will be used.
+ sbuild-build-depends-core-dummy
+The following packages will be REMOVED:
+ libcloog-ppl0{u} libgmpxx4ldbl{u} libppl-c4{u} libppl9{u} libpwl5{u}
+0 packages upgraded, 1 newly installed, 5 to remove and 10 not upgraded.
+Need to get 0 B/706 B of archives. After unpacking 11.3 MB will be freed.
+Writing extended state information...
+debconf: delaying package configuration, since apt-utils is not installed
+(Reading database ... 10853 files and directories currently installed.)
+Removing libcloog-ppl0 ...
+Removing libppl-c4 ...
+Removing libppl9 ...
+Removing libgmpxx4ldbl ...
+Removing libpwl5 ...
+Selecting previously unselected package sbuild-build-depends-core-dummy.
+(Reading database ... 10818 files and directories currently installed.)
+Unpacking sbuild-build-depends-core-dummy (from .../sbuild-build-depends-core-dummy.deb) ...
+Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
+Reading package lists...
+Building dependency tree...
+Reading state information...
+Reading extended state information...
+Initializing package states...
+Writing extended state information...
+dpkg-deb: building package `sbuild-build-depends-bwa-dummy' in `/build/buildd-bwa_0.6.0-2-ia64-j5bwTg/resolver-tyxtoi/apt_archive/sbuild-build-depends-bwa-dummy.deb'.
+OK
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install bwa build dependencies (aptitude-based resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+aptitude is already the newest version.
+0 upgraded, 0 newly installed, 0 to remove and 10 not upgraded.
+aptitude -y --without-recommends -o Dpkg::Options::=--force-confold -o Aptitude::CmdLine::Ignore-Trust-Violations=false -o Aptitude::ProblemResolver::StepScore=100 -o Aptitude::ProblemResolver::SolutionCost=safety, priority, non-default-versions -o Aptitude::ProblemResolver::Hints::KeepDummy=reject sbuild-build-depends-bwa-dummy :UNINST -o Aptitude::ProblemResolver::Keep-All-Level=55000 -o Aptitude::ProblemResolver::Remove-Essential-Level=maximum install sbuild-build-depends-bwa-dummy
+Reading package lists...
+Building dependency tree...
+Reading state information...
+Reading extended state information...
+Initializing package states...
+The following NEW packages will be installed:
+ bsdmainutils{a} debhelper{a} file{a} gettext{a} gettext-base{a}
+ groff-base{a} html2text{a} intltool-debian{a} libcroco3{a} libffi5{a}
+ libglib2.0-0{a} libmagic1{a} libpcre3{a} libpipeline1{a} libunistring0{a}
+ libxml2{a} man-db{a} po-debconf{a} sbuild-build-depends-bwa-dummy
+ zlib1g-dev{a}
+0 packages upgraded, 20 newly installed, 0 to remove and 10 not upgraded.
+Need to get 11.2 MB/11.2 MB of archives. After unpacking 35.8 MB will be used.
Writing extended state information...
-Get:1 http://spohr.debian.org/debian/ unstable/main libmagic1 ia64 5.04-5 [263 kB]
-Get:2 http://spohr.debian.org/debian/ unstable/main file ia64 5.04-5 [51.9 kB]
-Get:3 http://spohr.debian.org/debian/ unstable/main html2text ia64 1.3.2a-15 [134 kB]
-Get:4 http://spohr.debian.org/debian/ unstable/main libpcre3 ia64 8.02-1.1 [286 kB]
-Get:5 http://spohr.debian.org/debian/ unstable/main libglib2.0-0 ia64 2.24.2-1 [1395 kB]
-Get:6 http://spohr.debian.org/debian/ unstable/main libxml2 ia64 2.7.8.dfsg-2 [1181 kB]
-Get:7 http://spohr.debian.org/debian/ unstable/main libcroco3 ia64 0.6.2-1 [155 kB]
-Get:8 http://spohr.debian.org/debian/ unstable/main libunistring0 ia64 0.9.3-3 [469 kB]
-Get:9 http://spohr.debian.org/debian/ unstable/main gettext-base ia64 0.18.1.1-3 [174 kB]
-Get:10 http://spohr.debian.org/debian/ unstable/main gettext ia64 0.18.1.1-3 [2453 kB]
-Get:11 http://spohr.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
-Get:12 http://spohr.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
-Get:13 http://spohr.debian.org/debian/ unstable/main groff-base ia64 1.20.1-10 [1387 kB]
-Get:14 http://spohr.debian.org/debian/ unstable/main bsdmainutils ia64 8.2.1 [236 kB]
-Get:15 http://spohr.debian.org/debian/ unstable/main man-db ia64 2.5.7-8 [1952 kB]
-Get:16 http://spohr.debian.org/debian/ unstable/main debhelper all 8.0.0 [454 kB]
-Get:17 http://spohr.debian.org/debian/ unstable/main cdbs all 0.4.89 [1240 kB]
-Get:18 http://spohr.debian.org/debian/ unstable/main zlib1g-dev ia64 1:1.2.3.4.dfsg-3 [224 kB]
+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 libffi5 ia64 3.0.10-3 [35.5 kB]
+Get: 4 http://spohr.debian.org/debian/ unstable/main libglib2.0-0 ia64 2.30.2-4 [2198 kB]
+Get: 5 http://spohr.debian.org/debian/ unstable/main libxml2 ia64 2.7.8.dfsg-5 [1177 kB]
+Get: 6 http://spohr.debian.org/debian/ unstable/main libcroco3 ia64 0.6.2-2 [147 kB]
+Get: 7 http://spohr.debian.org/debian/ unstable/main libunistring0 ia64 0.9.3-5 [463 kB]
+Get: 8 http://spohr.debian.org/debian/ unstable/main bsdmainutils ia64 8.2.3 [238 kB]
+Get: 9 http://spohr.debian.org/debian/ unstable/main groff-base ia64 1.21-6 [1402 kB]
+Get: 10 http://spohr.debian.org/debian/ unstable/main man-db ia64 2.6.0.2-3 [1119 kB]
+Get: 11 http://spohr.debian.org/debian/ unstable/main libmagic1 ia64 5.09-2 [271 kB]
+Get: 12 http://spohr.debian.org/debian/ unstable/main file ia64 5.09-2 [54.4 kB]
+Get: 13 http://spohr.debian.org/debian/ unstable/main gettext-base ia64 0.18.1.1-5 [173 kB]
+Get: 14 http://spohr.debian.org/debian/ unstable/main html2text ia64 1.3.2a-15 [134 kB]
+Get: 15 http://spohr.debian.org/debian/ unstable/main gettext ia64 0.18.1.1-5 [2439 kB]
+Get: 16 http://spohr.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get: 17 http://spohr.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get: 18 http://spohr.debian.org/debian/ unstable/main debhelper all 8.9.11 [552 kB]
+Get: 19 http://spohr.debian.org/debian/ unstable/main zlib1g-dev ia64 1:1.2.3.4.dfsg-3 [224 kB]
+Fetched 11.2 MB in 0s (12.1 MB/s)
debconf: delaying package configuration, since apt-utils is not installed
-Fetched 12.3 MB in 0s (14.4 MB/s)
-Selecting previously deselected package libmagic1.
-(Reading database ... 10312 files and directories currently installed.)
-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 html2text.
+Selecting previously unselected package libpipeline1.
+(Reading database ... 10818 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 libffi5.
+Unpacking libffi5 (from .../libffi5_3.0.10-3_ia64.deb) ...
+Selecting previously unselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.30.2-4_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 libpcre3.
-Unpacking libpcre3 (from .../libpcre3_8.02-1.1_ia64.deb) ...
-Selecting previously deselected package libglib2.0-0.
-Unpacking libglib2.0-0 (from .../libglib2.0-0_2.24.2-1_ia64.deb) ...
-Selecting previously deselected package libxml2.
-Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_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-base.
-Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_ia64.deb) ...
-Selecting previously deselected package gettext.
-Unpacking gettext (from .../gettext_0.18.1.1-3_ia64.deb) ...
-Selecting previously deselected package intltool-debian.
+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 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 groff-base.
-Unpacking groff-base (from .../groff-base_1.20.1-10_ia64.deb) ...
-Selecting previously deselected package bsdmainutils.
-Unpacking bsdmainutils (from .../bsdmainutils_8.2.1_ia64.deb) ...
-Selecting previously deselected package man-db.
-Unpacking man-db (from .../man-db_2.5.7-8_ia64.deb) ...
-Selecting previously deselected package debhelper.
-Unpacking debhelper (from .../debhelper_8.0.0_all.deb) ...
-Selecting previously deselected package cdbs.
-Unpacking cdbs (from .../archives/cdbs_0.4.89_all.deb) ...
-Selecting previously deselected package zlib1g-dev.
+Selecting previously unselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.9.11_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 libmagic1 (5.04-5) ...
-Setting up file (5.04-5) ...
-Setting up html2text (1.3.2a-15) ...
-Setting up libpcre3 (8.02-1.1) ...
-Setting up libglib2.0-0 (2.24.2-1) ...
-Setting up libxml2 (2.7.8.dfsg-2) ...
-Setting up libcroco3 (0.6.2-1) ...
-Setting up libunistring0 (0.9.3-3) ...
-Setting up gettext-base (0.18.1.1-3) ...
-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 groff-base (1.20.1-10) ...
-Setting up bsdmainutils (8.2.1) ...
+Selecting previously unselected package sbuild-build-depends-bwa-dummy.
+Unpacking sbuild-build-depends-bwa-dummy (from .../sbuild-build-depends-bwa-dummy.deb) ...
+Setting up libpipeline1 (1.2.0-5) ...
+Setting up libpcre3 (8.12-4) ...
+Setting up libffi5 (3.0.10-3) ...
+Setting up libglib2.0-0 (2.30.2-4) ...
+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 man-db (2.5.7-8) ...
-debconf: unable to initialize frontend: Dialog
-debconf: (TERM is not set, so the dialog frontend is not usable.)
-debconf: falling back to frontend: Readline
-debconf: unable to initialize frontend: Readline
-debconf: (This frontend requires a controlling tty.)
-debconf: falling back to frontend: Teletype
+Setting up groff-base (1.21-6) ...
+Setting up man-db (2.6.0.2-3) ...
Building database of manual pages ...
-Setting up debhelper (8.0.0) ...
-Setting up cdbs (0.4.89) ...
+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 (8.9.11) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
Setting up sbuild-build-depends-bwa-dummy (0.invalid.0) ...
Reading package lists...
@@ -297,9 +330,9 @@ Reading state information...
Reading extended state information...
Initializing package states...
Writing extended state information...
-Kernel: Linux 2.6.32-bpo.5-mckinley ia64 (ia64)
-Toolchain package versions: libc6.1-dev_2.11.2-7 dpkg-dev_1.15.8.6 linux-libc-dev_2.6.32-27 gcc-4.4_4.4.5-8 g++-4.4_4.4.5-8 binutils_2.20.1-15 libstdc++6-4.4-dev_4.4.5-8 libstdc++6_4.4.5-8
-Package versions: apt_0.8.9 aptitude_0.6.3-3.2 base-files_5.10 base-passwd_3.5.22 bash_4.1-3 binutils_2.20.1-15 bsdmainutils_8.2.1 bsdutils_1:2.17.2-3.3 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.89 coreutils_8.5-1 cpp_4:4.4.5-1 cpp-4.4_4.4.5-8 dash_0.5.5.1-7.2 debconf_1.5.36 debconf-i18n_1.5.36 debfoster_2.7-1.1 debhelper_8.0.0 debian-archive-keyring_2010.08.28 debianutils_3.4.2 diffutils_1:3.0-1 dpkg_1.15.8.5 dpkg-dev_1.15.8.6 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.14.4-1 file_5.04-5 findutils_4.4.2-1+b1 g++_4:4.4.5-1 g++-4.4_4.4.5-8 gcc_4:4.4.5-1 gcc-4.4_4.4.5-8 gcc-4.4-base_4.4.5-8 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_1.20.1-10 gzip_1.3.12-9 hostname_3.05 html2text_1.3.2a-15 initscripts_2.88dsf-13 insserv_1.14.0-2 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-4 libattr1_1:2.4.44-2 libblkid1_2.17.2-3.3 libboost-iostreams1.42.0_1.42.0-4 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-7 libc-dev-bin_2.11.2-7 libc6.1_2.11.2-7 libc6.1-dev_2.11.2-7 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libcwidget3_0.5.16-3 libdb4.7_4.7.25-10 libdb4.8_4.8.30-2 libdpkg-perl_1.15.8.6 libept1_1.0.4 libgc1c2_1:6.8-1.2 libgcc1_1:4.4.5-8 libgdbm3_1.8.3-9 libglib2.0-0_2.24.2-1 libgmp3c2_2:4.3.2+dfsg-1 libgomp1_4.4.5-8 liblocale-gettext-perl_1.05-6 liblzma2_5.0.0-2 libmagic1_5.04-5 libmpfr1ldbl_2.4.2-3 libmpfr4_3.0.0-2 libncurses5_5.7+20100313-4 libncursesw5_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_8.02-1.1 libreadline6_6.1-3 libselinux1_2.0.96-1 libsepol1_2.0.41-1 libsigc++-2.0-0c2a_2.2.4.2-1 libslang2_2.2.2-4 libsqlite3-0_3.7.4-2 libss2_1.41.12-2 libstdc++6_4.4.5-8 libstdc++6-4.4-dev_4.4.5-8 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_2:0.1.12-16 libuuid1_2.17.2-3.3 libxapian22_1.2.4-1 libxml2_2.7.8.dfsg-2 linux-libc-dev_2.6.32-27 login_1:4.1.4.2+svn3283-2 lsb-base_3.2-26 lzma_4.43-14 make_3.81-8 man-db_2.5.7-8 mawk_1.3.3-15 mount_2.17.2-3.3 ncurses-base_5.7+20100313-4 ncurses-bin_5.7+20100313-4 passwd_1:4.1.4.2+svn3283-2 patch_2.6-3 perl_5.10.1-16 perl-base_5.10.1-16 perl-modules_5.10.1-16 po-debconf_1.0.16+nmu1 readline-common_6.1-3 sbuild-build-depends-bwa-dummy_0.invalid.0 sed_4.2.1-8 sensible-utils_0.0.5 sudo_1.7.4p4-4 sysv-rc_2.88dsf-13 sysvinit_2.88dsf-13 sysvinit-utils_2.88dsf-13 tar_1.25-2 tzdata_2010o-1 util-linux_2.17.2-3.3 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+Kernel: Linux 2.6.32-5-mckinley ia64 (ia64)
+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 libc6.1-dev_2.13-21 libstdc++6_4.6.2-4 libstdc++6-4.6-dev_4.6.2-4 linux-libc-dev_3.1.1-1
+Package versions: apt_0.8.15.9 aptitude_0.6.4-1.2 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_8.9.11 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 libboost-iostreams1.46.1_1.46.1-7+b1 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 libclass-isa-perl_0.36-2 libcomerr2_1.42~WIP-2011-10-16-1 libcroco3_0.6.2-2 libcwidget3_0.5.16-3.1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.1.1 libept1_1.0.5 libffi5_3.0.10-3 libgc1c2_1:7.1-8 libgcc1_1:4.6.2-4 libgdbm3_1.8.3-10 libglib2.0-0_2.30.2-4 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 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 libquadmath0_4.6.2-4 libreadline6_6.2-7 libselinux1_2.1.0-4 libsepol1_2.1.0-1.1 libsigc++-2.0-0c2a_2.2.9-1 libslang2_2.2.4-3 libsqlite3-0_3.7.9-2 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 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 libxapian22_1.2.7-1 libxml2_2.7.8.dfsg-5 linux-libc-dev_3.1.1-1 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 sbuild-build-depends-bwa-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 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 │
@@ -309,14 +342,12 @@ Package versions: apt_0.8.9 aptitude_0.6.3-3.2 base-files_5.10 base-passwd_3.5.2
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 Thu Jan 20 12:57:54 2011 UTC using RSA key ID 2295D502
+gpgv: Signature made Tue Nov 22 02:41:12 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~rc-1.dsc
-dpkg-source: info: extracting bwa in bwa-0.5.9~rc
-dpkg-source: info: unpacking bwa_0.5.9~rc.orig.tar.bz2
-dpkg-source: info: unpacking bwa_0.5.9~rc-1.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bwa_0.6.0-2.dsc
+dpkg-source: info: extracting bwa in bwa-0.6.0
+dpkg-source: info: unpacking bwa_0.6.0-2.tar.gz
Check disc space
────────────────
@@ -325,159 +356,220 @@ 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~rc-1
- dpkg-source --before-build bwa-0.5.9~rc
+dpkg-buildpackage: source version 0.6.0-2
+ dpkg-source --before-build bwa-0.6.0
dpkg-buildpackage: host architecture ia64
- /usr/bin/fakeroot debian/rules clean
-test -x debian/rules
-dh_testroot
-rm -f debian/stamp-makefile-build debian/stamp-makefile-install
-/usr/bin/make -C . CFLAGS="-g -O2 -g -Wall -O2" CXXFLAGS="-g -O2 -g -Wall -O2" CPPFLAGS="" LDFLAGS="" -k clean
-make[1]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-ia64-Drx5Di/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-ia64-Drx5Di/bwa-0.5.9~rc'
+ fakeroot debian/rules clean
+dh clean
+ dh_testdir
+ dh_auto_clean
+make[1]: Entering directory `/build/buildd-bwa_0.6.0-2-ia64-j5bwTg/bwa-0.6.0'
rm -f gmon.out *.o a.out bwa *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-ia64-Drx5Di/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-ia64-Drx5Di/bwa-0.5.9~rc/bwt_gen'
-rm -f gmon.out *.o a.out *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-ia64-Drx5Di/bwa-0.5.9~rc/bwt_gen'
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-ia64-Drx5Di/bwa-0.5.9~rc'
-dh_clean
+make[1]: Leaving directory `/build/buildd-bwa_0.6.0-2-ia64-j5bwTg/bwa-0.6.0'
+ dh_clean
debian/rules build
-test -x debian/rules
-mkdir -p "."
-/usr/bin/make -C . CFLAGS="-g -O2 -g -Wall -O2" CXXFLAGS="-g -O2 -g -Wall -O2" CPPFLAGS="" LDFLAGS=""
-make[1]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-ia64-Drx5Di/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-ia64-Drx5Di/bwa-0.5.9~rc'
-make[2]: Nothing to be done for `lib'.
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-ia64-Drx5Di/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-ia64-Drx5Di/bwa-0.5.9~rc/bwt_gen'
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwt_gen.c -o bwt_gen.o
-gcc -c -g -O2 -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~rc-1-ia64-Drx5Di/bwa-0.5.9~rc/bwt_gen'
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD utils.c -o utils.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwt.c -o bwt.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtio.c -o bwtio.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtaln.c -o bwtaln.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtgap.c -o bwtgap.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD is.c -o is.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bntseq.c -o bntseq.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtmisc.c -o bwtmisc.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtindex.c -o bwtindex.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD stdaln.c -o stdaln.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD simple_dp.c -o simple_dp.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwaseqio.c -o bwaseqio.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwase.c -o bwase.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwape.c -o bwape.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD kstring.c -o kstring.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD cs2nt.c -o cs2nt.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_core.c -o bwtsw2_core.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_main.c -o bwtsw2_main.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_aux.c -o bwtsw2_aux.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwt_lite.c -o bwt_lite.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_chain.c -o bwtsw2_chain.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bamlite.c -o bamlite.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD main.c -o main.o
-gcc -g -O2 -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~rc-1-ia64-Drx5Di/bwa-0.5.9~rc'
-touch debian/stamp-makefile-build
-DEB_MAKE_CHECK_TARGET unset, not running checks
- /usr/bin/fakeroot debian/rules binary-arch
-test -x debian/rules
-dh_testroot
-dh_prep
-dh_installdirs -A
-mkdir -p "."
-DEB_MAKE_CHECK_TARGET unset, not running checks
-DEB_MAKE_INSTALL_TARGET unset, skipping default makefile.mk common-install target
-Adding cdbs dependencies to debian/bwa.substvars
-dh_installdirs -pbwa
-dh_installdocs -pbwa ./NEWS
-dh_installexamples -pbwa
-dh_installman -pbwa
-dh_installinfo -pbwa
-dh_installmenu -pbwa
-dh_installcron -pbwa
-dh_installinit -pbwa
-dh_installdebconf -pbwa
-dh_installemacsen -pbwa
-dh_installcatalogs -pbwa
-dh_installpam -pbwa
-dh_installlogrotate -pbwa
-dh_installlogcheck -pbwa
-dh_installchangelogs -pbwa ./ChangeLog
-dh_installudev -pbwa
-dh_lintian -pbwa
-dh_install -pbwa
-dh_link -pbwa
-dh_installmime -pbwa
-dh_strip -pbwa
-dh_compress -pbwa
-dh_fixperms -pbwa
-dh_makeshlibs -pbwa
-dh_installdeb -pbwa
-dh_perl -pbwa
-dh_shlibdeps -pbwa
-dh_gencontrol -pbwa
+dh build
+ dh_testdir
+ dh_auto_configure
+ debian/rules override_dh_auto_build
+make[1]: Entering directory `/build/buildd-bwa_0.6.0-2-ia64-j5bwTg/bwa-0.6.0'
+dh_auto_build -- CFLAGS="-Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 " DFLAGS="-DHAVE_PTHREAD -D_NO_SSE2"
+make[2]: Entering directory `/build/buildd-bwa_0.6.0-2-ia64-j5bwTg/bwa-0.6.0'
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 QSufSort.c -o QSufSort.o
+QSufSort.c: In function 'QSufSortSuffixSort':
+QSufSort.c:62:10: warning: variable 'maxNumInputSymbol' set but not used [-Wunused-but-set-variable]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 bwt_gen.c -o bwt_gen.o
+bwt_gen.c: In function 'BWTIncBuildRelativeRank':
+bwt_gen.c:873:10: warning: variable 'oldInverseSa0RelativeRank' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncMergeBwt':
+bwt_gen.c:947:15: warning: variable 'bitsInWordMinusBitPerChar' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncConstructFromPacked':
+bwt_gen.c:1452:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwt_gen.c:1468:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwt_gen.c:1483:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 utils.c -o utils.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 bwt.c -o bwt.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 bwtio.c -o bwtio.o
+bwtio.c: In function 'bwt_restore_bwt':
+bwtio.c:62:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:63:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:64:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c: In function 'bwt_restore_sa':
+bwtio.c:36:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:38:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:39:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:40:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:47:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 bwtaln.c -o bwtaln.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 bwtgap.c -o bwtgap.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 is.c -o is.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 bntseq.c -o bntseq.o
+bntseq.c: In function 'bns_restore_core':
+bntseq.c:98:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:106:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:114:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:123:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:129:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 bwtmisc.c -o bwtmisc.o
+bwtmisc.c: In function 'bwa_pac2cspac_core':
+bwtmisc.c:172:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtmisc.c: In function 'bwt_pac2bwt':
+bwtmisc.c:72:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtmisc.c: In function 'bwa_seq_len':
+bwtmisc.c:51:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 bwtindex.c -o bwtindex.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 ksw.c -o ksw.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 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 -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 simple_dp.c -o simple_dp.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 bwaseqio.c -o bwaseqio.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 bwase.c -o bwase.o
+bwase.c: In function 'bwa_aln2seq_core':
+bwase.c:74:15: warning: variable 'k' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_print_sam1':
+bwase.c:447:17: warning: variable 'm_is_N' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_sai2sam_se_core':
+bwase.c:603:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:619:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:624:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c: In function 'bwa_refine_gapped':
+bwase.c:310:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:316:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 bwape.c -o bwape.o
+bwape.c: In function 'bwa_sai2sam_pe_core':
+bwape.c:683:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:686:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:697:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c: In function 'bwa_paired_sw':
+bwape.c:527:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c: In function 'bwa_cal_pac_pos_pe':
+bwape.c:312:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:316:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 kstring.c -o kstring.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 cs2nt.c -o cs2nt.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_core.c -o bwtsw2_core.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_main.c -o bwtsw2_main.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_aux.c -o bwtsw2_aux.o
+bwtsw2_aux.c: In function 'gen_cigar':
+bwtsw2_aux.c:186:7: warning: variable 'score' set but not used [-Wunused-but-set-variable]
+bwtsw2_aux.c: In function 'bsw2_aln':
+bwtsw2_aux.c:734:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 bwt_lite.c -o bwt_lite.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_chain.c -o bwtsw2_chain.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 bamlite.c -o bamlite.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 fastmap.c -o fastmap.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_pair.c -o bwtsw2_pair.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 main.c -o main.o
+gcc -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -DHAVE_PTHREAD -D_NO_SSE2 QSufSort.o bwt_gen.o utils.o bwt.o bwtio.o bwtaln.o bwtgap.o is.o bntseq.o bwtmisc.o bwtindex.o ksw.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 fastmap.o bwtsw2_pair.o main.o -o bwa -lm -lz -lpthread
+make[2]: Leaving directory `/build/buildd-bwa_0.6.0-2-ia64-j5bwTg/bwa-0.6.0'
+make[1]: Leaving directory `/build/buildd-bwa_0.6.0-2-ia64-j5bwTg/bwa-0.6.0'
+ dh_auto_test
+ fakeroot debian/rules binary-arch
+dh binary-arch
+ dh_testroot -a
+ dh_prep -a
+ dh_installdirs -a
+ dh_auto_install -a
+ dh_install -a
+ dh_installdocs -a
+ dh_installchangelogs -a
+ dh_installexamples -a
+ dh_installman -a
+ dh_installcatalogs -a
+ dh_installcron -a
+ dh_installdebconf -a
+ dh_installemacsen -a
+ dh_installifupdown -a
+ dh_installinfo -a
+ dh_installinit -a
+ dh_installmenu -a
+ dh_installmime -a
+ dh_installmodules -a
+ dh_installlogcheck -a
+ dh_installlogrotate -a
+ dh_installpam -a
+ dh_installppp -a
+ 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
+ dh_perl -a
+ dh_usrlocal -a
+ dh_link -a
+ dh_compress -a
+ dh_fixperms -a
+ dh_strip -a
+ dh_makeshlibs -a
+ dh_shlibdeps -a
+ dh_installdeb -a
+ dh_gencontrol -a
dpkg-gencontrol: warning: package bwa: unused substitution variable ${perl:Depends}
-dh_md5sums -pbwa
-dh_builddeb -pbwa
-dpkg-deb: building package `bwa' in `../bwa_0.5.9~rc-1_ia64.deb'.
- dpkg-genchanges -B -mia64 Build Daemon (alkman) <buildd_ia64-alkman at buildd.debian.org> >../bwa_0.5.9~rc-1_ia64.changes
+ dh_md5sums -a
+ dh_builddeb -a
+dpkg-deb: building package `bwa' in `../bwa_0.6.0-2_ia64.deb'.
+ dpkg-genchanges -B -mia64 Build Daemon (mundy) <buildd_ia64-mundy at buildd.debian.org> >../bwa_0.6.0-2_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~rc
+ dpkg-source --after-build bwa-0.6.0
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110120-1314
+Build finished at 20111122-0321
-bwa_0.5.9~rc-1_ia64.changes:
+bwa_0.6.0-2_ia64.changes:
Format: 1.8
-Date: Thu, 20 Jan 2011 21:42:55 +0900
+Date: Tue, 22 Nov 2011 11:32:11 +0900
Source: bwa
Binary: bwa
Architecture: ia64
-Version: 0.5.9~rc-1
+Version: 0.6.0-2
Distribution: experimental
Urgency: low
-Maintainer: ia64 Build Daemon (alkman) <buildd_ia64-alkman at buildd.debian.org>
+Maintainer: ia64 Build Daemon (mundy) <buildd_ia64-mundy at buildd.debian.org>
Changed-By: Charles Plessy <plessy at debian.org>
Description:
bwa - Burrows-Wheeler Aligner
+Closes: 648803
Changes:
- bwa (0.5.9~rc-1) experimental; urgency=low
+ bwa (0.6.0-2) experimental; urgency=low
.
- * New usptream release candidate.
+ [9410de3] Disable SSE2 everywhere except on amd64 (Closes: #648803).
+ [fb4c559] Reimplementation of Standard SW for when SSE2 is unavailable.
+ cherry picked from upstream commit 182cb2e.
+ This commit modifies upstream sources.
+ [9c93ccd] Use native format to bypass mandatory patch system.
Checksums-Sha1:
- ed972496be6dc2a3e9f65c9cd9ef606e4c2991e3 205208 bwa_0.5.9~rc-1_ia64.deb
+ 979b54a95be59699f2c6369899d7857d5b08fc4a 224578 bwa_0.6.0-2_ia64.deb
Checksums-Sha256:
- cb4ef98c81f239e146071754866b94829d8e2e874f5e065de88c385890a7e38f 205208 bwa_0.5.9~rc-1_ia64.deb
+ 83e3a073354da342b4d8f40f9e31a76a8abf4d1b6934ce6a1e3ca97f75af749e 224578 bwa_0.6.0-2_ia64.deb
Files:
- 1470b02b4485af7f5b65f5a5544db076 205208 science optional bwa_0.5.9~rc-1_ia64.deb
+ b7a15746c97334407d5cf29999681a46 224578 science optional bwa_0.6.0-2_ia64.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bwa_0.5.9~rc-1_ia64.deb
-───────────────────────
+bwa_0.6.0-2_ia64.deb
+────────────────────
new debian package, version 2.0.
- size 205208 bytes: control archive= 942 bytes.
- 778 bytes, 17 lines control
- 556 bytes, 9 lines md5sums
+ size 224578 bytes: control archive= 995 bytes.
+ 775 bytes, 17 lines control
+ 610 bytes, 10 lines md5sums
Package: bwa
- Version: 0.5.9~rc-1
+ Version: 0.6.0-2
Architecture: ia64
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 608
+ Installed-Size: 521
Depends: libc6.1 (>= 2.7), zlib1g (>= 1:1.1.4)
Suggests: samtools
Section: science
@@ -491,24 +583,25 @@ bwa_0.5.9~rc-1_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 2011-01-20 13:14 ./
-drwxr-xr-x root/root 0 2011-01-20 13:14 ./usr/
-drwxr-xr-x root/root 0 2011-01-20 13:14 ./usr/bin/
--rwxr-xr-x root/root 419904 2011-01-20 13:14 ./usr/bin/bwa
-drwxr-xr-x root/root 0 2011-01-20 13:14 ./usr/share/
-drwxr-xr-x root/root 0 2011-01-20 13:14 ./usr/share/bwa/
--rwxr-xr-x root/root 616 2011-01-20 11:35 ./usr/share/bwa/qualfa2fq.pl
--rwxr-xr-x root/root 3176 2011-01-20 11:35 ./usr/share/bwa/solid2fastq.pl
-drwxr-xr-x root/root 0 2011-01-20 13:14 ./usr/share/man/
-drwxr-xr-x root/root 0 2011-01-20 13:14 ./usr/share/man/man1/
--rw-r--r-- root/root 7423 2011-01-20 13:14 ./usr/share/man/man1/bwa.1.gz
-drwxr-xr-x root/root 0 2011-01-20 13:14 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-01-20 13:14 ./usr/share/doc/bwa/
--rw-r--r-- root/root 17751 2011-01-20 11:35 ./usr/share/doc/bwa/ChangeLog.gz
--rw-r--r-- root/root 5606 2011-01-20 11:35 ./usr/share/doc/bwa/NEWS.gz
--rw-r--r-- root/root 805 2011-01-20 12:43 ./usr/share/doc/bwa/changelog.Debian.gz
--rw-r--r-- root/root 17751 2011-01-20 11:35 ./usr/share/doc/bwa/changelog.gz
--rw-r--r-- root/root 2679 2011-01-20 11:52 ./usr/share/doc/bwa/copyright
+drwxr-xr-x root/root 0 2011-11-22 03:21 ./
+drwxr-xr-x root/root 0 2011-11-22 03:21 ./usr/
+drwxr-xr-x root/root 0 2011-11-22 03:21 ./usr/share/
+drwxr-xr-x root/root 0 2011-11-22 03:21 ./usr/share/bwa/
+-rwxr-xr-x root/root 3176 2011-11-22 01:55 ./usr/share/bwa/solid2fastq.pl
+-rwxr-xr-x root/root 616 2011-11-22 01:55 ./usr/share/bwa/qualfa2fq.pl
+-rwxr-xr-x root/root 730 2011-11-22 01:55 ./usr/share/bwa/xa2multi.pl
+drwxr-xr-x root/root 0 2011-11-22 03:21 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-11-22 03:21 ./usr/share/doc/bwa/
+-rw-r--r-- root/root 634 2011-11-22 01:55 ./usr/share/doc/bwa/README
+-rw-r--r-- root/root 17912 2011-11-22 01:55 ./usr/share/doc/bwa/changelog.gz
+-rw-r--r-- root/root 2785 2011-11-22 01:55 ./usr/share/doc/bwa/copyright
+-rw-r--r-- root/root 6680 2011-11-22 01:55 ./usr/share/doc/bwa/NEWS.gz
+-rw-r--r-- root/root 1471 2011-11-22 02:32 ./usr/share/doc/bwa/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-11-22 03:21 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-11-22 03:21 ./usr/share/man/man1/
+-rw-r--r-- root/root 7745 2011-11-22 03:21 ./usr/share/man/man1/bwa.1.gz
+drwxr-xr-x root/root 0 2011-11-22 03:21 ./usr/bin/
+-rwxr-xr-x root/root 449960 2011-11-22 03:21 ./usr/bin/bwa
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -517,9 +610,32 @@ drwxr-xr-x root/root 0 2011-01-20 13:14 ./usr/share/doc/bwa/
Built successfully
────────────────────────────────────────────────────────────────────────────────
-Purging /var/lib/schroot/mount/sid-experimental-ia64-sbuild-0dc89229-cf6f-4bd0-883f-4f040d330d38/build/buildd-bwa_0.5.9~rc-1-ia64-Drx5Di
-Not removing build depends: cloned chroot in use
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /var/lib/schroot/mount/sid-experimental-ia64-sbuild-51291ffa-8e34-43d0-97e9-2e621090fbe5/build/buildd-bwa_0.6.0-2-ia64-j5bwTg
+Not cleaning session: cloned chroot in use
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Architecture: ia64
+Build-Space: 4100
+Build-Time: 62
+Distribution: experimental
+Install-Time: 113
+Job: bwa_0.6.0-2
+Package: bwa
+Package-Time: 227
+Source-Version: 0.6.0-2
+Space: 4100
+Status: successful
+Version: 0.6.0-2
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110120-1314
-Build needed 00:03:12, 4544k disc space
+Finished at 20111122-0321
+Build needed 00:03:47, 4100k disc space
+Signature with key '66C872EA' requested:
diff --git a/info b/info
index f6e9ca4..5c74a5b 100644
--- a/info
+++ b/info
@@ -1,11 +1,11 @@
-i386~1295529091~experimental~successful
-kfreebsd-amd64~1295529099~experimental~successful
-powerpc~1295529133~experimental~successful
-ia64~1295529282~experimental~successful
-armel~1295529375~experimental~successful
-sparc~1295529411~experimental~successful
-s390~1295531602~experimental~successful
-kfreebsd-i386~1295534735~experimental~successful
-alpha~1295589267~experimental~successful
-hurd-i386~1295674158~experimental~successful
-mipsel~1295725657~experimental~successful
+i386~1321931904~experimental~successful
+kfreebsd-i386~1321932065~experimental~successful
+ia64~1321932088~experimental~successful
+kfreebsd-amd64~1321932111~experimental~successful
+powerpc~1321932119~experimental~successful
+armel~1321932274~experimental~successful
+mipsel~1321932318~experimental~successful
+s390~1321932380~experimental~successful
+mips~1321932524~experimental~successful
+hurd-i386~1321952627~experimental~successful
+sparc~1321954799~experimental~successful
diff --git a/kfreebsd-amd64.log b/kfreebsd-amd64.log
index 7496a60..66eb4d2 100644
--- a/kfreebsd-amd64.log
+++ b/kfreebsd-amd64.log
@@ -1,97 +1,122 @@
-From buildd at fano.debian.org Thu Jan 20 13:11:38 2011
+From buildd at fano.debian.org Tue Nov 22 03:21:50 2011
Return-path: <buildd at fano.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 fano.debian.org>)
- id 1PfuIc-0007i9-Bp
- for logs at buildd.debian.org; Thu, 20 Jan 2011 13:11:38 +0000
+ (Exim 4.72) (envelope-from <buildd at fano.debian.org>)
+ id 1RSgve-0006Fa-Gp
+ for logs at buildd.debian.org; Tue, 22 Nov 2011 03:21:50 +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 1PfuIa-0007iD-Gu; Thu, 20 Jan 2011 13:11:37 +0000
+ (Exim 4.72) (envelope-from <buildd at fano.debian.org>)
+ id 1RSgvd-0001YA-9b; Tue, 22 Nov 2011 03:21:50 +0000
Received: from buildd by fano.debian.org with local (Exim 4.72)
(envelope-from <buildd at fano.debian.org>)
- id 1PfuIX-000NNN-Kh; Thu, 20 Jan 2011 13:11:33 +0000
-Date: Thu, 20 Jan 2011 13:11:33 +0000
-Message-Id: <E1PfuIX-000NNN-Kh at fano.debian.org>
+ id 1RSgvX-000LeO-Bs; Tue, 22 Nov 2011 03:21:43 +0000
+Message-Id: <E1RSgvX-000LeO-Bs 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: Tue, 22 Nov 2011 03:21:43 +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~rc-1 on kfreebsd-amd64
+To: logs at buildd.debian.org,aurelien at aurel32.net,christoph at debian.org
+Subject: Log for successful build of bwa_0.6.0-2 on kfreebsd-amd64
(dist=experimental)
-Content-Type: text/plain; charset=UTF-8
-Content-Transfer-Encoding: 8bit
+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~rc-1 (kfreebsd-amd64) 20 Jan 2011 13:10 ║
+║ bwa 0.6.0-2 (kfreebsd-amd64) 22 Nov 2011 03:19 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bwa
-Version: 0.5.9~rc-1
+Version: 0.6.0-2
+Source Version: 0.6.0-2
Architecture: kfreebsd-amd64
-Chroot Build Dir: /srv/home/buildd/chroots/experimental/build/buildd-bwa_0.5.9~rc-1-kfreebsd-amd64-1PtzXZ
-Start Time: 20110120-1310
-Hit http://ftp.ca.debian.org sid Release.gpg
-Hit http://incoming.debian.org sid Release.gpg
-Ign http://incoming.debian.org/debian/ sid/contrib Translation-en
-Ign http://incoming.debian.org/debian/ sid/main Translation-en
-Ign http://ftp.ca.debian.org/debian/ sid/contrib Translation-en
-Ign http://ftp.ca.debian.org/debian/ sid/main Translation-en
-Ign http://ftp.ca.debian.org/debian/ sid/non-free Translation-en
-Hit http://ftp.ca.debian.org experimental Release.gpg
-Ign http://incoming.debian.org/debian/ sid/non-free Translation-en
-Get:1 http://incoming.debian.org Release.gpg [835 B]
-Ign http://incoming.debian.org/buildd-unstable/ Translation-en
-Hit http://incoming.debian.org experimental Release.gpg
-Ign http://incoming.debian.org/debian/ experimental/contrib Translation-en
-Ign http://ftp.ca.debian.org/debian/ experimental/contrib Translation-en
-Ign http://incoming.debian.org/debian/ experimental/main Translation-en
-Ign http://incoming.debian.org/debian/ experimental/non-free Translation-en
-Get:2 http://incoming.debian.org Release.gpg [835 B]
-Ign http://incoming.debian.org/buildd-experimental/ Translation-en
-Hit http://incoming.debian.org sid Release
-Ign http://ftp.ca.debian.org/debian/ experimental/main Translation-en
-Ign http://ftp.ca.debian.org/debian/ experimental/non-free Translation-en
-Hit http://ftp.ca.debian.org sid Release
-Get:3 http://incoming.debian.org Release [1604 B]
-Hit http://incoming.debian.org experimental Release
-Hit http://ftp.ca.debian.org experimental Release
-Get:4 http://incoming.debian.org Release [1625 B]
-Hit http://incoming.debian.org sid/main kfreebsd-amd64 Packages/DiffIndex
-Hit http://ftp.ca.debian.org sid/main kfreebsd-amd64 Packages/DiffIndex
-Hit http://ftp.ca.debian.org sid/contrib kfreebsd-amd64 Packages/DiffIndex
-Hit http://ftp.ca.debian.org sid/non-free kfreebsd-amd64 Packages/DiffIndex
+Get:1 http://incoming.debian.org sid InRelease [160 kB]
+Get:2 http://mirror-ubc.debian.org sid InRelease [160 kB]
+Get:3 http://mirror-ubc.debian.org experimental InRelease [139 kB]
+Get:4 http://mirror-ubc.debian.org sid/main kfreebsd-amd64 Packages/DiffIndex [2038 B]
+Ign http://incoming.debian.org InRelease
+Get:5 http://incoming.debian.org experimental InRelease [139 kB]
+Ign http://incoming.debian.org InRelease
+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:6 http://mirror-ubc.debian.org sid/main TranslationIndex [2045 B]
+Ign http://mirror-ubc.debian.org sid/non-free TranslationIndex
+Get:7 http://mirror-ubc.debian.org sid/main kfreebsd-amd64 2011-11-21-2017.26.pdiff [13.6 kB]
+Get:8 http://mirror-ubc.debian.org experimental/main Sources/DiffIndex [2023 B]
+Hit http://mirror-ubc.debian.org experimental/contrib Sources/DiffIndex
+Hit http://mirror-ubc.debian.org experimental/non-free Sources/DiffIndex
+Get:9 http://mirror-ubc.debian.org experimental/main kfreebsd-amd64 Packages/DiffIndex [2023 B]
+Hit http://mirror-ubc.debian.org experimental/contrib kfreebsd-amd64 Packages/DiffIndex
+Hit http://mirror-ubc.debian.org experimental/non-free kfreebsd-amd64 Packages/DiffIndex
+Ign http://mirror-ubc.debian.org experimental/contrib TranslationIndex
+Ign http://mirror-ubc.debian.org experimental/main TranslationIndex
+Ign http://mirror-ubc.debian.org experimental/non-free TranslationIndex
+Get:10 http://mirror-ubc.debian.org sid/main kfreebsd-amd64 2011-11-21-2017.26.pdiff [13.6 kB]
+Get:11 http://incoming.debian.org Release.gpg [836 B]
+Get:12 http://mirror-ubc.debian.org sid/non-free kfreebsd-amd64 Packages [84.5 kB]
+Get:13 http://mirror-ubc.debian.org experimental/main 2011-11-21-2017.26.pdiff [1146 B]
+Get:14 http://mirror-ubc.debian.org experimental/main kfreebsd-amd64 2011-11-21-2017.26.pdiff [3146 B]
+Get:15 http://mirror-ubc.debian.org experimental/non-free kfreebsd-amd64 Packages [4360 B]
+Get:16 http://incoming.debian.org Release.gpg [836 B]
+Get:17 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
-Get:5 http://incoming.debian.org Packages [103 kB]
-Hit http://incoming.debian.org experimental/main Sources/DiffIndex
+Ign http://incoming.debian.org sid/contrib TranslationIndex
+Get:18 http://incoming.debian.org sid/main TranslationIndex [2045 B]
+Ign http://incoming.debian.org sid/non-free TranslationIndex
+Get:19 http://incoming.debian.org experimental/main Sources/DiffIndex [2023 B]
Hit http://incoming.debian.org experimental/contrib Sources/DiffIndex
Hit http://incoming.debian.org experimental/non-free Sources/DiffIndex
-Hit http://incoming.debian.org experimental/main kfreebsd-amd64 Packages/DiffIndex
+Get:20 http://mirror-ubc.debian.org experimental/main 2011-11-21-2017.26.pdiff [1146 B]
+Get:21 http://mirror-ubc.debian.org sid/main kfreebsd-amd64 2011-11-22-0216.01.pdiff [11.9 kB]
+Get:22 http://mirror-ubc.debian.org experimental/main kfreebsd-amd64 2011-11-21-2017.26.pdiff [3146 B]
+Get:23 http://mirror-ubc.debian.org experimental/main 2011-11-22-0216.01.pdiff [990 B]
+Ign http://mirror-ubc.debian.org sid/contrib Translation-en
+Ign http://mirror-ubc.debian.org sid/non-free Translation-en
+Ign http://mirror-ubc.debian.org experimental/contrib Translation-en
+Ign http://mirror-ubc.debian.org experimental/main Translation-en
+Ign http://mirror-ubc.debian.org experimental/non-free Translation-en
+Get:24 http://incoming.debian.org experimental/main kfreebsd-amd64 Packages/DiffIndex [2023 B]
Hit http://incoming.debian.org experimental/contrib kfreebsd-amd64 Packages/DiffIndex
+Get:25 http://mirror-ubc.debian.org sid/main kfreebsd-amd64 2011-11-22-0216.01.pdiff [11.9 kB]
+Get:26 http://mirror-ubc.debian.org experimental/main kfreebsd-amd64 2011-11-22-0216.01.pdiff [3039 B]
Hit http://incoming.debian.org experimental/non-free kfreebsd-amd64 Packages/DiffIndex
-Get:6 http://incoming.debian.org Sources [9718 B]
-Get:7 http://incoming.debian.org Packages [89.7 kB]
-Hit http://ftp.ca.debian.org experimental/main Sources/DiffIndex
-Hit http://ftp.ca.debian.org experimental/contrib Sources/DiffIndex
-Hit http://ftp.ca.debian.org experimental/non-free Sources/DiffIndex
-Hit http://ftp.ca.debian.org experimental/main kfreebsd-amd64 Packages/DiffIndex
-Hit http://incoming.debian.org sid/non-free kfreebsd-amd64 Packages
-Hit http://incoming.debian.org experimental/contrib kfreebsd-amd64 Packages
-Hit http://incoming.debian.org experimental/non-free kfreebsd-amd64 Packages
-Hit http://ftp.ca.debian.org experimental/contrib kfreebsd-amd64 Packages/DiffIndex
-Hit http://ftp.ca.debian.org experimental/non-free kfreebsd-amd64 Packages/DiffIndex
-Hit http://ftp.ca.debian.org sid/non-free kfreebsd-amd64 Packages
-Hit http://ftp.ca.debian.org experimental/contrib kfreebsd-amd64 Packages
-Hit http://ftp.ca.debian.org experimental/non-free kfreebsd-amd64 Packages
-Fetched 207 kB in 3s (60.3 kB/s)
+Ign http://incoming.debian.org experimental/contrib TranslationIndex
+Ign http://incoming.debian.org experimental/main TranslationIndex
+Ign http://incoming.debian.org experimental/non-free TranslationIndex
+Get:27 http://incoming.debian.org Release [1604 B]
+Get:28 http://incoming.debian.org Release [1626 B]
+Get:29 http://incoming.debian.org sid/main kfreebsd-amd64 2011-11-22-0216.01.pdiff [11.9 kB]
+Get:30 http://incoming.debian.org sid/non-free kfreebsd-amd64 Packages [84.5 kB]
+Get:31 http://incoming.debian.org experimental/main 2011-11-22-0216.01.pdiff [990 B]
+Get:32 http://incoming.debian.org experimental/main kfreebsd-amd64 2011-11-22-0216.01.pdiff [3039 B]
+Get:33 http://incoming.debian.org experimental/non-free kfreebsd-amd64 Packages [4360 B]
+Get:34 http://incoming.debian.org Packages [315 kB]
+Get:35 http://incoming.debian.org Sources [2999 B]
+Get:36 http://incoming.debian.org Packages [28.9 kB]
+Get:37 http://mirror-ubc.debian.org experimental/main 2011-11-22-0216.01.pdiff [990 B]
+Get:38 http://mirror-ubc.debian.org experimental/main kfreebsd-amd64 2011-11-22-0216.01.pdiff [3039 B]
+Get:39 http://incoming.debian.org sid/main kfreebsd-amd64 2011-11-22-0216.01.pdiff [11.9 kB]
+Ign http://incoming.debian.org sid/contrib Translation-en
+Ign http://incoming.debian.org sid/non-free Translation-en
+Ign http://incoming.debian.org experimental/contrib Translation-en
+Ign http://incoming.debian.org experimental/main Translation-en
+Ign http://incoming.debian.org experimental/non-free Translation-en
+Ign http://incoming.debian.org Translation-en
+Ign http://incoming.debian.org Translation-en
+Get:40 http://incoming.debian.org experimental/main 2011-11-22-0216.01.pdiff [990 B]
+Get:41 http://incoming.debian.org experimental/main kfreebsd-amd64 2011-11-22-0216.01.pdiff [3039 B]
+Fetched 1194 kB in 9s (129 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -111,45 +136,30 @@ 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 118 kB of source archives.
-Get:1 http://incoming.debian.org/buildd-experimental/ bwa 0.5.9~rc-1 (dsc) [1915 B]
-Get:2 http://incoming.debian.org/buildd-experimental/ bwa 0.5.9~rc-1 (tar) [113 kB]
-Get:3 http://incoming.debian.org/buildd-experimental/ bwa 0.5.9~rc-1 (diff) [3594 B]
-Fetched 118 kB in 0s (143 kB/s)
+git://git.debian.org/debian-med/bwa.git
+Need to get 171 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-experimental/ bwa 0.6.0-2 (dsc) [1681 B]
+Get:2 http://incoming.debian.org/buildd-experimental/ bwa 0.6.0-2 (tar) [169 kB]
+Fetched 171 kB in 0s (234 kB/s)
Download complete and in download only mode
Check arch
──────────
-** Using build dependencies supplied by package:
-Build-Depends: cdbs, debhelper (>= 8), zlib1g-dev
+dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/build/buildd-bwa_0.6.0-2-kfreebsd-amd64-2lhsBi/resolver-xBK753/apt_archive/sbuild-build-depends-core-dummy.deb'.
+OK
+Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install build dependencies (aptitude-based resolver) │
+│ Install core build dependencies (aptitude-based resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
Reading package lists...
Building dependency tree...
Reading state information...
aptitude is already the newest version.
-0 upgraded, 0 newly installed, 0 to remove and 8 not upgraded.
-dpkg-deb: building package `sbuild-build-depends-bwa-dummy' in `/build/buildd-bwa_0.5.9~rc-1-kfreebsd-amd64-1PtzXZ/buildd-bwa-kfreebsd-amd64-nHgbnj/sbuild-build-depends-bwa-dummy.deb'.
-Selecting previously deselected package sbuild-build-depends-bwa-dummy.
-(Reading database ... 12519 files and directories currently installed.)
-Unpacking sbuild-build-depends-bwa-dummy (from .../sbuild-build-depends-bwa-dummy.deb) ...
-dpkg: dependency problems prevent configuration of sbuild-build-depends-bwa-dummy:
- sbuild-build-depends-bwa-dummy depends on cdbs; however:
- Package cdbs is not installed.
- sbuild-build-depends-bwa-dummy depends on debhelper (>= 8); however:
- Package debhelper is not installed.
- sbuild-build-depends-bwa-dummy depends on zlib1g-dev; however:
- Package zlib1g-dev is not installed.
-dpkg: error processing sbuild-build-depends-bwa-dummy (--install):
- dependency problems - leaving unconfigured
-Errors were encountered while processing:
- sbuild-build-depends-bwa-dummy
-aptitude -y --without-recommends -o APT::Install-Recommends=false -o Aptitude::ProblemResolver::StepScore=100 -o Aptitude::ProblemResolver::Hints::KeepDummy=reject sbuild-build-depends-bwa-dummy :UNINST -o Aptitude::ProblemResolver::Keep-All-Tier=55000 -o Aptitude::ProblemResolver::Remove-Essential-Tier=maximum install sbuild-build-depends-bwa-dummy
+0 upgraded, 0 newly installed, 0 to remove and 2 not upgraded.
+aptitude -y --without-recommends -o Dpkg::Options::=--force-confold -o Aptitude::CmdLine::Ignore-Trust-Violations=false -o Aptitude::ProblemResolver::StepScore=100 -o Aptitude::ProblemResolver::SolutionCost=safety, priority, non-default-versions -o Aptitude::ProblemResolver::Hints::KeepDummy=reject sbuild-build-depends-core-dummy :UNINST -o Aptitude::ProblemResolver::Keep-All-Level=55000 -o Aptitude::ProblemResolver::Remove-Essential-Level=maximum install sbuild-build-depends-core-dummy
Reading package lists...
Building dependency tree...
Reading state information...
@@ -157,67 +167,95 @@ Reading extended state information...
Initializing package states...
Writing extended state information...
The following NEW packages will be installed:
- cdbs{a} debhelper{a} file{a} gettext{a} gettext-base{a} html2text{a}
- intltool-debian{a} libcroco3{a} libglib2.0-0{a} libmagic1{a} libpcre3{a}
- libunistring0{a} libxml2{a} po-debconf{a} zlib1g-dev{a}
-The following partially installed packages will be configured:
- sbuild-build-depends-bwa-dummy
-0 packages upgraded, 15 newly installed, 0 to remove and 8 not upgraded.
-Need to get 0 B/7541 kB of archives. After unpacking 20.6 MB will be used.
+ sbuild-build-depends-core-dummy
+0 packages upgraded, 1 newly installed, 0 to remove and 2 not upgraded.
+Need to get 0 B/714 B of archives. After unpacking 0 B will be used.
+Writing extended state information...
+debconf: delaying package configuration, since apt-utils is not installed
+Selecting previously unselected package sbuild-build-depends-core-dummy.
+(Reading database ... 12474 files and directories currently installed.)
+Unpacking sbuild-build-depends-core-dummy (from .../sbuild-build-depends-core-dummy.deb) ...
+Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
+Reading package lists...
+Building dependency tree...
+Reading state information...
+Reading extended state information...
+Initializing package states...
+Writing extended state information...
+dpkg-deb: building package `sbuild-build-depends-bwa-dummy' in `/build/buildd-bwa_0.6.0-2-kfreebsd-amd64-2lhsBi/resolver-xBK753/apt_archive/sbuild-build-depends-bwa-dummy.deb'.
+OK
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install bwa build dependencies (aptitude-based resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+aptitude is already the newest version.
+0 upgraded, 0 newly installed, 0 to remove and 2 not upgraded.
+aptitude -y --without-recommends -o Dpkg::Options::=--force-confold -o Aptitude::CmdLine::Ignore-Trust-Violations=false -o Aptitude::ProblemResolver::StepScore=100 -o Aptitude::ProblemResolver::SolutionCost=safety, priority, non-default-versions -o Aptitude::ProblemResolver::Hints::KeepDummy=reject sbuild-build-depends-bwa-dummy :UNINST -o Aptitude::ProblemResolver::Keep-All-Level=55000 -o Aptitude::ProblemResolver::Remove-Essential-Level=maximum install sbuild-build-depends-bwa-dummy
+Reading package lists...
+Building dependency tree...
+Reading state information...
+Reading extended state information...
+Initializing package states...
+The following NEW packages will be installed:
+ debhelper{a} file{a} gettext{a} gettext-base{a} html2text{a}
+ intltool-debian{a} libcroco3{a} libffi5{a} libglib2.0-0{a} libmagic1{a}
+ libunistring0{a} libxml2{a} po-debconf{a} sbuild-build-depends-bwa-dummy
+ zlib1g-dev{a}
+0 packages upgraded, 15 newly installed, 0 to remove and 2 not upgraded.
+Need to get 0 B/6942 kB of archives. After unpacking 18.6 MB will be used.
Writing extended state information...
debconf: delaying package configuration, since apt-utils is not installed
-Selecting previously deselected package libmagic1.
-(Reading database ... 12519 files and directories currently installed.)
-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 html2text.
+Selecting previously unselected package libffi5.
+(Reading database ... 12474 files and directories currently installed.)
+Unpacking libffi5 (from .../libffi5_3.0.10-3_kfreebsd-amd64.deb) ...
+Selecting previously unselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.30.2-4_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 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 libpcre3.
-Unpacking libpcre3 (from .../libpcre3_8.02-1.1_kfreebsd-amd64.deb) ...
-Selecting previously deselected package libglib2.0-0.
-Unpacking libglib2.0-0 (from .../libglib2.0-0_2.24.2-1_kfreebsd-amd64.deb) ...
-Selecting previously deselected package libxml2.
-Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_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-base.
-Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_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_8.0.0_all.deb) ...
-Selecting previously deselected package cdbs.
-Unpacking cdbs (from .../archives/cdbs_0.4.89_all.deb) ...
-Selecting previously deselected package zlib1g-dev.
+Selecting previously unselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.9.11_all.deb) ...
+Selecting previously unselected package zlib1g-dev.
Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_kfreebsd-amd64.deb) ...
+Selecting previously unselected package sbuild-build-depends-bwa-dummy.
+Unpacking sbuild-build-depends-bwa-dummy (from .../sbuild-build-depends-bwa-dummy.deb) ...
Processing triggers for man-db ...
-debconf: unable to initialize frontend: Dialog
-debconf: (TERM is not set, so the dialog frontend is not usable.)
-debconf: falling back to frontend: Readline
-debconf: unable to initialize frontend: Readline
-debconf: (This frontend requires a controlling tty.)
-debconf: falling back to frontend: Teletype
-Setting up libmagic1 (5.04-5) ...
-Setting up file (5.04-5) ...
+Setting up libffi5 (3.0.10-3) ...
+Setting up libglib2.0-0 (2.30.2-4) ...
+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 libpcre3 (8.02-1.1) ...
-Setting up libglib2.0-0 (2.24.2-1) ...
-Setting up libxml2 (2.7.8.dfsg-2) ...
-Setting up libcroco3 (0.6.2-1) ...
-Setting up libunistring0 (0.9.3-3) ...
-Setting up gettext-base (0.18.1.1-3) ...
-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 (8.0.0) ...
-Setting up cdbs (0.4.89) ...
+Setting up debhelper (8.9.11) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
Setting up sbuild-build-depends-bwa-dummy (0.invalid.0) ...
Reading package lists...
@@ -227,8 +265,8 @@ Reading extended state information...
Initializing package states...
Writing extended state information...
Kernel: GNU/kFreeBSD 8.1-1-amd64 kfreebsd-amd64 (x86_64)
-Toolchain package versions: libc6-dev_ =*=NOT INSTALLED=*= dpkg-dev_1.15.8.8 libstdc++6_4.5.1-11 gcc-4.4_4.4.5-10 g++-4.4_4.4.5-10 binutils_2.21-3 libstdc++6-4.4-dev_4.4.5-10 libc0.1-dev_2.11.2-8 kfreebsd-kernel-headers_0.53
-Package versions: adduser_3.112+nmu2 apt_0.8.10 aptitude_0.6.3-3.2 base-files_6.0 base-passwd_3.5.22 bash_4.1-3 binutils_2.21-3 bsdmainutils_8.2.1 bsdutils_1:2.17.2-6 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.89 coreutils_8.5-1 cpio_2.11-6 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_8.0.0 debian-archive-keyring_2010.08.28 debianutils_3.4.2 diffutils_1:3.0-1 dpkg_1.15.8.8 dpkg-dev_1.15.8.8 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.14.5-1 file_5.04-5 findutils_4.4.2-1 freebsd-utils_8.1-3.1 g++_4:4.4.5-2 g++-4.4_4.4.5-10 gcc_4:4.4.5-2 gcc-4.2-base_4.2.4-6 gcc-4.4_4.4.5-10 gcc-4.4-base_4.4.5-10 gcc-4.5-base_4.5.1-11 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_1.20.1-10 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_2.17.2-6 libboost-iostreams1.42.0_1.42.0-4 libbsd0_0.2.0-1 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-8 libc-dev-bin_2.11.2-8 libc0.1_2.11.2-8 libc0.1-dev_2.11.2-8 libcam0_8.1-5 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libcwidget3_0.5.16-3 libdb4.7_4.7.25-12 libdb4.8_4.8.30-3 libdpkg-perl_1.15.8.8 libedit2_2.11-20080614-2 libept1_1.0.4 libexpat1_2.0.1-7 libgc1c2_1:6.8-1.2 libgcc1_1:4.5.1-11 libgcrypt11_1.4.5-2 libgdbm3_1.8.3-9 libgeom0_8.1-5 libglib2.0-0_2.24.2-1 libgmp3c2_2:4.3.2+dfsg-1 libgnutls26_2.8.6-1 libgomp1_4.5.1-11 libgpg-error0_1.6-1 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 libmpfr4_3.0.0-2 libncurses5_5.7+20100313-5 libncursesw5_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_8.02-1.1 libpng12-0_1.2.44-1 libreadline6_6.1-3 libsasl2-2_2.1.23.dfsg1-7 libsbuf0_8.1-5 libsigc++-2.0-0c2a_2.2.4.2-1 libslang2_2.2.2-4 libsqlite3-0_3.7.4-2 libss2_1.41.12-2 libstdc++6_4.5.1-11 libstdc++6-4.4-dev_4.4.5-10 libsysfs2_2.1.0+repack-1 libtasn1-3_2.7-1 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_2:0.1.12-16 libuuid1_2.17.2-6 libxapian15_1.0.20-2 libxapian22_1.2.4-1 libxml2_2.7.8.dfsg-2 login_1:4.1.4.2+svn3283-2 lsb-base_3.2-26 lzma_4.43-14 make_3.81-8 man-db_2.5.7-8 mawk_1.3.3-15 ncurses-base_5.7+20100313-5 ncurses-bin_5.7+20100313-5 netbase_4.44 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 po-debconf_1.0.16+nmu1 procps_1:3.2.8-10 psmisc_22.13-1 readline-common_6.1-3 sbuild-build-depends-bwa-dummy_0.invalid.0 sed_4.2.1-8 sensible-utils_0.0.6 sudo_1.7.4p4-6 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_2010o-1 ufsutils_7.3-1+b1 util-linux_2.17.2-6 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_2.22-1 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: adduser_3.113 apt_0.8.15.9 aptitude_0.6.4-1.2 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.22-1 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_8.9.11 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-2011-11-20-1 e2fsprogs_1.42~WIP-2011-11-20-1 fakeroot_1.18.1-1 file_5.09-2 findutils_4.4.2-1 freebsd-utils_8.2+ds2-11 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_1.4-2 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 kbdcontrol_8.2+ds2-11 kfreebsd-kernel-headers_0.60 libacl1_2.2.51-4 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libboost-iostreams1.42.0_1.42.0-4+b1 libboost-iostreams1.46.1_1.46.1-7+b1 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 libclass-isa-perl_0.36-2 libcomerr2_1.42~WIP-2011-11-20-1 libcroco3_0.6.2-2 libcwidget3_0.5.16-3.1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.1.1 libept1_1.0.5 libexpat1_2.0.1-7.2 libffi5_3.0.10-3 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_2.30.2-4 libgmp10_2:5.0.2+dfsg-2 libgnutls26_2.12.14-3 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+b1 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 libpopt0_1.16-1 libquadmath0_4.6.2-4 libreadline6_6.2-7 libsasl2-2_2.1.25.dfsg1-2 libsbuf0_8.2+ds1-4 libsigc++-2.0-0c2a_2.2.9-1 libslang2_2.2.4-3 libsqlite3-0_3.7.9-2 libss2_1.42~WIP-2011-11-20-1 libssl1.0.0_1.0.0e-2.1 libstdc++6_4.6.2-4 libstdc++6-4.6-dev_4.6.2-4 libswitch-perl_2.16-2 libsysfs2_2.1.0+repack-1 libtasn1-3_2.10-1 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 libxapian15_1.0.20-2 libxapian22_1.2.7-1 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_5.14.2-5 perl-base_5.14.2-5 perl-modules_5.14.2-5 po-debconf_1.0.16+nmu1 procps_1:3.2.8-11 psmisc_22.13-1 readline-common_6.2-7 sbuild-build-depends-bwa-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 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 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 │
@@ -238,14 +276,12 @@ Package versions: adduser_3.112+nmu2 apt_0.8.10 aptitude_0.6.3-3.2 base-files_6.
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 Thu Jan 20 12:57:54 2011 UTC using RSA key ID 2295D502
+gpgv: Signature made Tue Nov 22 02:41:12 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~rc-1.dsc
-dpkg-source: info: extracting bwa in bwa-0.5.9~rc
-dpkg-source: info: unpacking bwa_0.5.9~rc.orig.tar.bz2
-dpkg-source: info: unpacking bwa_0.5.9~rc-1.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bwa_0.6.0-2.dsc
+dpkg-source: info: extracting bwa in bwa-0.6.0
+dpkg-source: info: unpacking bwa_0.6.0-2.tar.gz
Check disc space
────────────────
@@ -254,159 +290,220 @@ 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~rc-1
- dpkg-source --before-build bwa-0.5.9~rc
+dpkg-buildpackage: source version 0.6.0-2
+ dpkg-source --before-build bwa-0.6.0
dpkg-buildpackage: host architecture kfreebsd-amd64
- /usr/bin/fakeroot debian/rules clean
-test -x debian/rules
-dh_testroot
-rm -f debian/stamp-makefile-build debian/stamp-makefile-install
-/usr/bin/make -C . CFLAGS="-g -O2 -g -Wall -O2" CXXFLAGS="-g -O2 -g -Wall -O2" CPPFLAGS="" LDFLAGS="" -k clean
-make[1]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-kfreebsd-amd64-1PtzXZ/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-kfreebsd-amd64-1PtzXZ/bwa-0.5.9~rc'
+ fakeroot debian/rules clean
+dh clean
+ dh_testdir
+ dh_auto_clean
+make[1]: Entering directory `/build/buildd-bwa_0.6.0-2-kfreebsd-amd64-2lhsBi/bwa-0.6.0'
rm -f gmon.out *.o a.out bwa *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-kfreebsd-amd64-1PtzXZ/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-kfreebsd-amd64-1PtzXZ/bwa-0.5.9~rc/bwt_gen'
-rm -f gmon.out *.o a.out *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-kfreebsd-amd64-1PtzXZ/bwa-0.5.9~rc/bwt_gen'
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-kfreebsd-amd64-1PtzXZ/bwa-0.5.9~rc'
-dh_clean
+make[1]: Leaving directory `/build/buildd-bwa_0.6.0-2-kfreebsd-amd64-2lhsBi/bwa-0.6.0'
+ dh_clean
debian/rules build
-test -x debian/rules
-mkdir -p "."
-/usr/bin/make -C . CFLAGS="-g -O2 -g -Wall -O2" CXXFLAGS="-g -O2 -g -Wall -O2" CPPFLAGS="" LDFLAGS=""
-make[1]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-kfreebsd-amd64-1PtzXZ/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-kfreebsd-amd64-1PtzXZ/bwa-0.5.9~rc'
-make[2]: Nothing to be done for `lib'.
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-kfreebsd-amd64-1PtzXZ/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-kfreebsd-amd64-1PtzXZ/bwa-0.5.9~rc/bwt_gen'
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwt_gen.c -o bwt_gen.o
-gcc -c -g -O2 -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~rc-1-kfreebsd-amd64-1PtzXZ/bwa-0.5.9~rc/bwt_gen'
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD utils.c -o utils.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwt.c -o bwt.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtio.c -o bwtio.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtaln.c -o bwtaln.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtgap.c -o bwtgap.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD is.c -o is.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bntseq.c -o bntseq.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtmisc.c -o bwtmisc.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtindex.c -o bwtindex.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD stdaln.c -o stdaln.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD simple_dp.c -o simple_dp.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwaseqio.c -o bwaseqio.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwase.c -o bwase.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwape.c -o bwape.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD kstring.c -o kstring.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD cs2nt.c -o cs2nt.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_core.c -o bwtsw2_core.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_main.c -o bwtsw2_main.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_aux.c -o bwtsw2_aux.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwt_lite.c -o bwt_lite.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_chain.c -o bwtsw2_chain.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bamlite.c -o bamlite.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD main.c -o main.o
-gcc -g -O2 -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~rc-1-kfreebsd-amd64-1PtzXZ/bwa-0.5.9~rc'
-touch debian/stamp-makefile-build
-DEB_MAKE_CHECK_TARGET unset, not running checks
- /usr/bin/fakeroot debian/rules binary-arch
-test -x debian/rules
-dh_testroot
-dh_prep
-dh_installdirs -A
-mkdir -p "."
-DEB_MAKE_CHECK_TARGET unset, not running checks
-DEB_MAKE_INSTALL_TARGET unset, skipping default makefile.mk common-install target
-Adding cdbs dependencies to debian/bwa.substvars
-dh_installdirs -pbwa
-dh_installdocs -pbwa ./NEWS
-dh_installexamples -pbwa
-dh_installman -pbwa
-dh_installinfo -pbwa
-dh_installmenu -pbwa
-dh_installcron -pbwa
-dh_installinit -pbwa
-dh_installdebconf -pbwa
-dh_installemacsen -pbwa
-dh_installcatalogs -pbwa
-dh_installpam -pbwa
-dh_installlogrotate -pbwa
-dh_installlogcheck -pbwa
-dh_installchangelogs -pbwa ./ChangeLog
-dh_installudev -pbwa
-dh_lintian -pbwa
-dh_install -pbwa
-dh_link -pbwa
-dh_installmime -pbwa
-dh_strip -pbwa
-dh_compress -pbwa
-dh_fixperms -pbwa
-dh_makeshlibs -pbwa
-dh_installdeb -pbwa
-dh_perl -pbwa
-dh_shlibdeps -pbwa
-dh_gencontrol -pbwa
+dh build
+ dh_testdir
+ dh_auto_configure
+ debian/rules override_dh_auto_build
+make[1]: Entering directory `/build/buildd-bwa_0.6.0-2-kfreebsd-amd64-2lhsBi/bwa-0.6.0'
+dh_auto_build -- CFLAGS="-Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro" DFLAGS="-DHAVE_PTHREAD -D_NO_SSE2"
+make[2]: Entering directory `/build/buildd-bwa_0.6.0-2-kfreebsd-amd64-2lhsBi/bwa-0.6.0'
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 QSufSort.c -o QSufSort.o
+QSufSort.c: In function 'QSufSortSuffixSort':
+QSufSort.c:62:10: warning: variable 'maxNumInputSymbol' set but not used [-Wunused-but-set-variable]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt_gen.c -o bwt_gen.o
+bwt_gen.c: In function 'BWTIncBuildRelativeRank':
+bwt_gen.c:873:10: warning: variable 'oldInverseSa0RelativeRank' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncMergeBwt':
+bwt_gen.c:947:15: warning: variable 'bitsInWordMinusBitPerChar' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncConstructFromPacked':
+bwt_gen.c:1452:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwt_gen.c:1468:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwt_gen.c:1483:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 utils.c -o utils.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt.c -o bwt.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtio.c -o bwtio.o
+bwtio.c: In function 'bwt_restore_bwt':
+bwtio.c:62:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:63:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:64:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c: In function 'bwt_restore_sa':
+bwtio.c:36:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:38:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:39:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:40:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:47:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtaln.c -o bwtaln.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtgap.c -o bwtgap.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 is.c -o is.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bntseq.c -o bntseq.o
+bntseq.c: In function 'bns_restore_core':
+bntseq.c:98:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:106:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:114:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:123:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:129:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtmisc.c -o bwtmisc.o
+bwtmisc.c: In function 'bwa_pac2cspac_core':
+bwtmisc.c:172:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtmisc.c: In function 'bwt_pac2bwt':
+bwtmisc.c:72:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtmisc.c: In function 'bwa_seq_len':
+bwtmisc.c:51:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtindex.c -o bwtindex.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 ksw.c -o ksw.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 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 -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 simple_dp.c -o simple_dp.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwaseqio.c -o bwaseqio.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwase.c -o bwase.o
+bwase.c: In function 'bwa_aln2seq_core':
+bwase.c:74:15: warning: variable 'k' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_print_sam1':
+bwase.c:447:17: warning: variable 'm_is_N' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_sai2sam_se_core':
+bwase.c:603:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:619:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:624:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c: In function 'bwa_refine_gapped':
+bwase.c:310:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:316:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwape.c -o bwape.o
+bwape.c: In function 'bwa_sai2sam_pe_core':
+bwape.c:683:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:686:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:697:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c: In function 'bwa_paired_sw':
+bwape.c:527:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c: In function 'bwa_cal_pac_pos_pe':
+bwape.c:312:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:316:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 kstring.c -o kstring.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 cs2nt.c -o cs2nt.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_core.c -o bwtsw2_core.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_main.c -o bwtsw2_main.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_aux.c -o bwtsw2_aux.o
+bwtsw2_aux.c: In function 'gen_cigar':
+bwtsw2_aux.c:186:7: warning: variable 'score' set but not used [-Wunused-but-set-variable]
+bwtsw2_aux.c: In function 'bsw2_aln':
+bwtsw2_aux.c:734:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt_lite.c -o bwt_lite.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_chain.c -o bwtsw2_chain.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bamlite.c -o bamlite.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 fastmap.c -o fastmap.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_pair.c -o bwtsw2_pair.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 main.c -o main.o
+gcc -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 QSufSort.o bwt_gen.o utils.o bwt.o bwtio.o bwtaln.o bwtgap.o is.o bntseq.o bwtmisc.o bwtindex.o ksw.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 fastmap.o bwtsw2_pair.o main.o -o bwa -lm -lz -lpthread
+make[2]: Leaving directory `/build/buildd-bwa_0.6.0-2-kfreebsd-amd64-2lhsBi/bwa-0.6.0'
+make[1]: Leaving directory `/build/buildd-bwa_0.6.0-2-kfreebsd-amd64-2lhsBi/bwa-0.6.0'
+ dh_auto_test
+ fakeroot debian/rules binary-arch
+dh binary-arch
+ dh_testroot -a
+ dh_prep -a
+ dh_installdirs -a
+ dh_auto_install -a
+ dh_install -a
+ dh_installdocs -a
+ dh_installchangelogs -a
+ dh_installexamples -a
+ dh_installman -a
+ dh_installcatalogs -a
+ dh_installcron -a
+ dh_installdebconf -a
+ dh_installemacsen -a
+ dh_installifupdown -a
+ dh_installinfo -a
+ dh_installinit -a
+ dh_installmenu -a
+ dh_installmime -a
+ dh_installmodules -a
+ dh_installlogcheck -a
+ dh_installlogrotate -a
+ dh_installpam -a
+ dh_installppp -a
+ 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
+ dh_perl -a
+ dh_usrlocal -a
+ dh_link -a
+ dh_compress -a
+ dh_fixperms -a
+ dh_strip -a
+ dh_makeshlibs -a
+ dh_shlibdeps -a
+ dh_installdeb -a
+ dh_gencontrol -a
dpkg-gencontrol: warning: package bwa: unused substitution variable ${perl:Depends}
-dh_md5sums -pbwa
-dh_builddeb -pbwa
-dpkg-deb: building package `bwa' in `../bwa_0.5.9~rc-1_kfreebsd-amd64.deb'.
- dpkg-genchanges -B -mkfreebsd-amd64 Build Daemon (fano) <buildd_kfreebsd-amd64-fano at buildd.debian.org> >../bwa_0.5.9~rc-1_kfreebsd-amd64.changes
+ dh_md5sums -a
+ dh_builddeb -a
+dpkg-deb: building package `bwa' in `../bwa_0.6.0-2_kfreebsd-amd64.deb'.
+ dpkg-genchanges -B -mkfreebsd-amd64 Build Daemon (fano) <buildd_kfreebsd-amd64-fano at buildd.debian.org> >../bwa_0.6.0-2_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~rc
+ dpkg-source --after-build bwa-0.6.0
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110120-1311
+Build finished at 20111122-0321
-bwa_0.5.9~rc-1_kfreebsd-amd64.changes:
+bwa_0.6.0-2_kfreebsd-amd64.changes:
Format: 1.8
-Date: Thu, 20 Jan 2011 21:42:55 +0900
+Date: Tue, 22 Nov 2011 11:32:11 +0900
Source: bwa
Binary: bwa
Architecture: kfreebsd-amd64
-Version: 0.5.9~rc-1
+Version: 0.6.0-2
Distribution: experimental
Urgency: low
Maintainer: kfreebsd-amd64 Build Daemon (fano) <buildd_kfreebsd-amd64-fano at buildd.debian.org>
Changed-By: Charles Plessy <plessy at debian.org>
Description:
bwa - Burrows-Wheeler Aligner
+Closes: 648803
Changes:
- bwa (0.5.9~rc-1) experimental; urgency=low
+ bwa (0.6.0-2) experimental; urgency=low
.
- * New usptream release candidate.
+ [9410de3] Disable SSE2 everywhere except on amd64 (Closes: #648803).
+ [fb4c559] Reimplementation of Standard SW for when SSE2 is unavailable.
+ cherry picked from upstream commit 182cb2e.
+ This commit modifies upstream sources.
+ [9c93ccd] Use native format to bypass mandatory patch system.
Checksums-Sha1:
- cd7f30bc3fae206d7e6b1b9e090cc6949e46bfff 135154 bwa_0.5.9~rc-1_kfreebsd-amd64.deb
+ 40141db7501b702852a59f4f9a0adb83fee5ffbd 149368 bwa_0.6.0-2_kfreebsd-amd64.deb
Checksums-Sha256:
- bd51c2a2ce6185336e884d3525ebb325bc0261220a8dcb67fab9285b6d2b4c84 135154 bwa_0.5.9~rc-1_kfreebsd-amd64.deb
+ f6d8f4839af2e03695fa844294b07be15239390edaa8f51eadcf6cb70ffc7a54 149368 bwa_0.6.0-2_kfreebsd-amd64.deb
Files:
- 374e66f6094ed9a24de6dbb347886447 135154 science optional bwa_0.5.9~rc-1_kfreebsd-amd64.deb
+ 92ce3c3f917767eaab8bc69c00053314 149368 science optional bwa_0.6.0-2_kfreebsd-amd64.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bwa_0.5.9~rc-1_kfreebsd-amd64.deb
-─────────────────────────────────
+bwa_0.6.0-2_kfreebsd-amd64.deb
+──────────────────────────────
new debian package, version 2.0.
- size 135154 bytes: control archive= 949 bytes.
- 788 bytes, 17 lines control
- 556 bytes, 9 lines md5sums
+ size 149368 bytes: control archive= 997 bytes.
+ 785 bytes, 17 lines control
+ 610 bytes, 10 lines md5sums
Package: bwa
- Version: 0.5.9~rc-1
+ Version: 0.6.0-2
Architecture: kfreebsd-amd64
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 272
+ Installed-Size: 257
Depends: libc0.1 (>= 2.7), zlib1g (>= 1:1.1.4)
Suggests: samtools
Section: science
@@ -420,24 +517,25 @@ bwa_0.5.9~rc-1_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 2011-01-20 13:11 ./
-drwxr-xr-x root/root 0 2011-01-20 13:11 ./usr/
-drwxr-xr-x root/root 0 2011-01-20 13:11 ./usr/share/
-drwxr-xr-x root/root 0 2011-01-20 13:11 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-01-20 13:11 ./usr/share/doc/bwa/
--rw-r--r-- root/root 5606 2011-01-20 11:35 ./usr/share/doc/bwa/NEWS.gz
--rw-r--r-- root/root 2679 2011-01-20 11:52 ./usr/share/doc/bwa/copyright
--rw-r--r-- root/root 17751 2011-01-20 11:35 ./usr/share/doc/bwa/changelog.gz
--rw-r--r-- root/root 17751 2011-01-20 11:35 ./usr/share/doc/bwa/ChangeLog.gz
--rw-r--r-- root/root 805 2011-01-20 12:43 ./usr/share/doc/bwa/changelog.Debian.gz
-drwxr-xr-x root/root 0 2011-01-20 13:11 ./usr/share/man/
-drwxr-xr-x root/root 0 2011-01-20 13:11 ./usr/share/man/man1/
--rw-r--r-- root/root 7423 2011-01-20 13:11 ./usr/share/man/man1/bwa.1.gz
-drwxr-xr-x root/root 0 2011-01-20 13:11 ./usr/share/bwa/
--rwxr-xr-x root/root 3176 2011-01-20 11:35 ./usr/share/bwa/solid2fastq.pl
--rwxr-xr-x root/root 616 2011-01-20 11:35 ./usr/share/bwa/qualfa2fq.pl
-drwxr-xr-x root/root 0 2011-01-20 13:11 ./usr/bin/
--rwxr-xr-x root/root 193000 2011-01-20 13:11 ./usr/bin/bwa
+drwxr-xr-x root/root 0 2011-11-22 03:21 ./
+drwxr-xr-x root/root 0 2011-11-22 03:21 ./usr/
+drwxr-xr-x root/root 0 2011-11-22 03:21 ./usr/bin/
+-rwxr-xr-x root/root 215656 2011-11-22 03:21 ./usr/bin/bwa
+drwxr-xr-x root/root 0 2011-11-22 03:21 ./usr/share/
+drwxr-xr-x root/root 0 2011-11-22 03:21 ./usr/share/bwa/
+-rwxr-xr-x root/root 3176 2011-11-22 01:55 ./usr/share/bwa/solid2fastq.pl
+-rwxr-xr-x root/root 616 2011-11-22 01:55 ./usr/share/bwa/qualfa2fq.pl
+-rwxr-xr-x root/root 730 2011-11-22 01:55 ./usr/share/bwa/xa2multi.pl
+drwxr-xr-x root/root 0 2011-11-22 03:21 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-11-22 03:21 ./usr/share/doc/bwa/
+-rw-r--r-- root/root 634 2011-11-22 01:55 ./usr/share/doc/bwa/README
+-rw-r--r-- root/root 2785 2011-11-22 01:55 ./usr/share/doc/bwa/copyright
+-rw-r--r-- root/root 17912 2011-11-22 01:55 ./usr/share/doc/bwa/changelog.gz
+-rw-r--r-- root/root 6680 2011-11-22 01:55 ./usr/share/doc/bwa/NEWS.gz
+-rw-r--r-- root/root 1471 2011-11-22 02:32 ./usr/share/doc/bwa/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-11-22 03:21 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-11-22 03:21 ./usr/share/man/man1/
+-rw-r--r-- root/root 7745 2011-11-22 03:21 ./usr/share/man/man1/bwa.1.gz
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -446,33 +544,69 @@ drwxr-xr-x root/root 0 2011-01-20 13:11 ./usr/bin/
Built successfully
────────────────────────────────────────────────────────────────────────────────
-Purging /srv/home/buildd/chroots/experimental/build/buildd-bwa_0.5.9~rc-1-kfreebsd-amd64-1PtzXZ
-(Reading database ... 13363 files and directories currently installed.)
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /var/lib/schroot/mount/experimental-ka-sbuild-1321931992-81990/build/buildd-bwa_0.6.0-2-kfreebsd-amd64-2lhsBi
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 2 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* libffi5* libglib2.0-0* libmagic1* libunistring0* libxml2*
+ po-debconf* sbuild-build-depends-bwa-dummy* sbuild-build-depends-core-dummy*
+ zlib1g-dev*
+0 upgraded, 0 newly installed, 16 to remove and 2 not upgraded.
+After this operation, 18.6 MB disk space will be freed.
+(Reading database ... 13300 files and directories currently installed.)
Removing sbuild-build-depends-bwa-dummy ...
-Removing zlib1g-dev ...
-Removing cdbs ...
Removing debhelper ...
+Removing file ...
Removing po-debconf ...
Removing intltool-debian ...
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 libffi5 ...
+Purging configuration files for libffi5 ...
Removing libmagic1 ...
Purging configuration files for libmagic1 ...
+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 ...
+Removing sbuild-build-depends-core-dummy ...
+Removing zlib1g-dev ...
Processing triggers for man-db ...
-────────────────────────────────────────────────────────────────────────────────
-Finished at 20110120-1311
-Build needed 00:01:00, 2674k disc space
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Architecture: kfreebsd-amd64
+Build-Space: 3176
+Build-Time: 25
+Distribution: experimental
+Install-Time: 50
+Job: bwa_0.6.0-2
+Package: bwa
+Package-Time: 96
+Source-Version: 0.6.0-2
+Space: 3176
+Status: successful
+Version: 0.6.0-2
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20111122-0321
+Build needed 00:01:36, 3176k disc space
+Signature with key 'D33FE1D8' requested:
diff --git a/kfreebsd-i386.log b/kfreebsd-i386.log
index 53c4254..8745f53 100644
--- a/kfreebsd-i386.log
+++ b/kfreebsd-i386.log
@@ -1,99 +1,116 @@
-From buildd at field.debian.org Thu Jan 20 14:45:24 2011
+From buildd at field.debian.org Tue Nov 22 03:21:05 2011
Return-path: <buildd at field.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 field.debian.org>)
- id 1PfvlL-0007zt-9Q
- for logs at buildd.debian.org; Thu, 20 Jan 2011 14:45:23 +0000
+ (Exim 4.72) (envelope-from <buildd at field.debian.org>)
+ id 1RSguv-00067n-DJ
+ for logs at buildd.debian.org; Tue, 22 Nov 2011 03:21:05 +0000
Received: from field.debian.org ([194.177.211.210])
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 merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at field.debian.org>)
- id 1PfvlJ-0001S5-CF; Thu, 20 Jan 2011 14:45:21 +0000
+ (Exim 4.72) (envelope-from <buildd at field.debian.org>)
+ id 1RSguu-0001UY-8k; Tue, 22 Nov 2011 03:21:04 +0000
Received: from buildd by field.debian.org with local (Exim 4.72)
(envelope-from <buildd at field.debian.org>)
- id 1PfvlH-00020B-VR; Thu, 20 Jan 2011 14:45:19 +0000
-Date: Thu, 20 Jan 2011 14:45:19 +0000
-Message-Id: <E1PfvlH-00020B-VR at field.debian.org>
+ id 1RSgut-000815-NE; Tue, 22 Nov 2011 03:21:03 +0000
+Message-Id: <E1RSgut-000815-NE at field.debian.org>
+MIME-Version: 1.0
+Content-Transfer-Encoding: binary
+X-Mailer: MIME::Lite 3.027 (F2.77; B3.08; Q3.08)
+Date: Tue, 22 Nov 2011 03:21:03 +0000
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~rc-1 on kfreebsd-i386
+To: logs at buildd.debian.org,aurelien at aurel32.net,christoph at debian.org
+Subject: Log for successful build of bwa_0.6.0-2 on kfreebsd-i386
(dist=experimental)
-Content-Type: text/plain; charset=UTF-8
-Content-Transfer-Encoding: 8bit
+Key-Id: 65BA331C
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 field.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bwa 0.5.9~rc-1 (kfreebsd-i386) 20 Jan 2011 14:43 ║
+║ bwa 0.6.0-2 (kfreebsd-i386) 22 Nov 2011 03:18 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bwa
-Version: 0.5.9~rc-1
+Version: 0.6.0-2
+Source Version: 0.6.0-2
Architecture: kfreebsd-i386
-Chroot Build Dir: /srv/home/buildd/chroots/experimental/build/buildd-bwa_0.5.9~rc-1-kfreebsd-i386-Iru2e_
-Start Time: 20110120-1443
-Hit http://ftp.gr.debian.org sid Release.gpg
-Ign http://ftp.gr.debian.org/debian/ sid/contrib Translation-en
-Ign http://ftp.gr.debian.org/debian/ sid/main Translation-en
-Ign http://ftp.gr.debian.org/debian/ sid/non-free Translation-en
-Hit http://ftp.gr.debian.org experimental Release.gpg
-Ign http://ftp.gr.debian.org/debian/ experimental/contrib Translation-en
-Ign http://ftp.gr.debian.org/debian/ experimental/main Translation-en
-Ign http://ftp.gr.debian.org/debian/ experimental/non-free Translation-en
-Hit http://ftp.gr.debian.org sid Release
-Hit http://ftp.gr.debian.org experimental Release
-Hit http://ftp.gr.debian.org sid/main kfreebsd-i386 Packages/DiffIndex
-Get:1 http://incoming.debian.org sid Release.gpg [835 B]
-Ign http://incoming.debian.org/debian/ sid/contrib Translation-en
-Ign http://incoming.debian.org/debian/ sid/main Translation-en
-Ign http://incoming.debian.org/debian/ sid/non-free Translation-en
-Get:2 http://incoming.debian.org Release.gpg [835 B]
-Ign http://incoming.debian.org/buildd-unstable/ Translation-en
-Get:3 http://incoming.debian.org experimental Release.gpg [835 B]
-Ign http://incoming.debian.org/debian/ experimental/contrib Translation-en
-Ign http://incoming.debian.org/debian/ experimental/main Translation-en
-Ign http://incoming.debian.org/debian/ experimental/non-free Translation-en
-Hit http://ftp.gr.debian.org sid/contrib kfreebsd-i386 Packages/DiffIndex
+Get:1 http://ftp.gr.debian.org sid InRelease [160 kB]
+Get:2 http://ftp.gr.debian.org experimental InRelease [139 kB]
+Get:3 http://ftp.gr.debian.org sid/main kfreebsd-i386 Packages/DiffIndex [2038 B]
+Get:4 http://ftp.gr.debian.org sid/contrib kfreebsd-i386 Packages/DiffIndex [2023 B]
+Get:5 http://incoming.debian.org sid InRelease [160 kB]
Hit http://ftp.gr.debian.org sid/non-free kfreebsd-i386 Packages/DiffIndex
-Hit http://ftp.gr.debian.org experimental/main Sources/DiffIndex
+Ign http://ftp.gr.debian.org sid/contrib TranslationIndex
+Get:6 http://ftp.gr.debian.org sid/main TranslationIndex [2045 B]
+Ign http://ftp.gr.debian.org sid/non-free TranslationIndex
+Get:7 http://ftp.gr.debian.org experimental/main Sources/DiffIndex [2023 B]
Hit http://ftp.gr.debian.org experimental/contrib Sources/DiffIndex
Hit http://ftp.gr.debian.org experimental/non-free Sources/DiffIndex
-Hit http://ftp.gr.debian.org experimental/main kfreebsd-i386 Packages/DiffIndex
+Get:8 http://ftp.gr.debian.org experimental/main kfreebsd-i386 Packages/DiffIndex [2023 B]
Hit http://ftp.gr.debian.org experimental/contrib kfreebsd-i386 Packages/DiffIndex
Hit http://ftp.gr.debian.org experimental/non-free kfreebsd-i386 Packages/DiffIndex
-Get:4 http://incoming.debian.org Release.gpg [835 B]
-Ign http://incoming.debian.org/buildd-experimental/ Translation-en
-Get:5 http://incoming.debian.org sid Release [104 kB]
-Hit http://ftp.gr.debian.org experimental/non-free kfreebsd-i386 Packages
-Get:6 http://incoming.debian.org Release [1604 B]
-Get:7 http://incoming.debian.org experimental Release [102 kB]
-Get:8 http://incoming.debian.org Release [1625 B]
-Get:9 http://incoming.debian.org sid/main kfreebsd-i386 Packages/DiffIndex [2038 B]
+Ign http://ftp.gr.debian.org experimental/contrib TranslationIndex
+Ign http://ftp.gr.debian.org experimental/main TranslationIndex
+Ign http://ftp.gr.debian.org experimental/non-free TranslationIndex
+Get:9 http://ftp.gr.debian.org sid/main kfreebsd-i386 2011-11-21-2017.26.pdiff [13.2 kB]
+Get:10 http://ftp.gr.debian.org sid/contrib kfreebsd-i386 2011-11-21-2017.26.pdiff [524 B]
+Get:11 http://ftp.gr.debian.org sid/main kfreebsd-i386 2011-11-21-2017.26.pdiff [13.2 kB]
+Get:12 http://ftp.gr.debian.org experimental/main 2011-11-21-2017.26.pdiff [1146 B]
+Get:13 http://ftp.gr.debian.org experimental/main kfreebsd-i386 2011-11-21-2017.26.pdiff [3123 B]
+Get:14 http://ftp.gr.debian.org experimental/non-free kfreebsd-i386 Packages [4360 B]
+Ign http://ftp.gr.debian.org sid/contrib Translation-en
+Ign http://ftp.gr.debian.org sid/non-free Translation-en
+Ign http://ftp.gr.debian.org experimental/contrib Translation-en
+Ign http://ftp.gr.debian.org experimental/main Translation-en
+Ign http://ftp.gr.debian.org experimental/non-free Translation-en
+Ign http://incoming.debian.org InRelease
+Get:15 http://incoming.debian.org experimental InRelease [139 kB]
+Ign http://incoming.debian.org InRelease
+Get:16 http://incoming.debian.org Release.gpg [836 B]
+Get:17 http://incoming.debian.org sid/main kfreebsd-i386 Packages/DiffIndex [2038 B]
Hit http://incoming.debian.org sid/contrib kfreebsd-i386 Packages/DiffIndex
Hit http://incoming.debian.org sid/non-free kfreebsd-i386 Packages/DiffIndex
-Get:10 http://incoming.debian.org Packages [121 kB]
-Get:11 http://incoming.debian.org experimental/main Sources/DiffIndex [2023 B]
+Ign http://incoming.debian.org sid/contrib TranslationIndex
+Get:18 http://incoming.debian.org sid/main TranslationIndex [2045 B]
+Ign http://incoming.debian.org sid/non-free TranslationIndex
+Get:19 http://incoming.debian.org Release.gpg [836 B]
+Get:20 http://incoming.debian.org experimental/main Sources/DiffIndex [2023 B]
Hit http://incoming.debian.org experimental/contrib Sources/DiffIndex
Hit http://incoming.debian.org experimental/non-free Sources/DiffIndex
-Hit http://incoming.debian.org experimental/main kfreebsd-i386 Packages/DiffIndex
+Get:21 http://ftp.gr.debian.org sid/contrib kfreebsd-i386 2011-11-21-2017.26.pdiff [524 B]
+Get:22 http://ftp.gr.debian.org experimental/main 2011-11-21-2017.26.pdiff [1146 B]
+Get:23 http://ftp.gr.debian.org experimental/main kfreebsd-i386 2011-11-21-2017.26.pdiff [3123 B]
+Get:24 http://incoming.debian.org experimental/main kfreebsd-i386 Packages/DiffIndex [2023 B]
Hit http://incoming.debian.org experimental/contrib kfreebsd-i386 Packages/DiffIndex
Hit http://incoming.debian.org experimental/non-free kfreebsd-i386 Packages/DiffIndex
-Hit http://incoming.debian.org Sources
-Get:12 http://incoming.debian.org Packages [96.2 kB]
-Get:13 http://incoming.debian.org sid/main kfreebsd-i386 2011-01-20-1414.53.pdiff [3941 B]
-Get:14 http://incoming.debian.org experimental/main 2011-01-20-1414.53.pdiff [3127 B]
-Hit http://incoming.debian.org experimental/non-free kfreebsd-i386 Packages
-Get:15 http://incoming.debian.org sid/main kfreebsd-i386 2011-01-20-1414.53.pdiff [3941 B]
-Get:16 http://incoming.debian.org experimental/main 2011-01-20-1414.53.pdiff [3127 B]
-Get:17 http://incoming.debian.org sid/main kfreebsd-i386 2011-01-20-1414.53.pdiff [3941 B]
-Get:18 http://incoming.debian.org experimental/main 2011-01-20-1414.53.pdiff [3127 B]
-Fetched 441 kB in 5s (83.8 kB/s)
+Ign http://incoming.debian.org experimental/contrib TranslationIndex
+Ign http://incoming.debian.org experimental/main TranslationIndex
+Ign http://incoming.debian.org experimental/non-free TranslationIndex
+Get:25 http://incoming.debian.org Release [1604 B]
+Get:26 http://incoming.debian.org sid/main kfreebsd-i386 2011-11-22-0216.01.pdiff [12.8 kB]
+Get:27 http://incoming.debian.org sid/main kfreebsd-i386 2011-11-22-0216.01.pdiff [12.8 kB]
+Get:28 http://incoming.debian.org Release [1626 B]
+Get:29 http://incoming.debian.org experimental/main 2011-11-22-0216.01.pdiff [990 B]
+Get:30 http://incoming.debian.org experimental/main kfreebsd-i386 2011-11-22-0216.01.pdiff [3077 B]
+Get:31 http://incoming.debian.org experimental/non-free kfreebsd-i386 Packages [4360 B]
+Get:32 http://incoming.debian.org Packages [315 kB]
+Get:33 http://incoming.debian.org Sources [2999 B]
+Get:34 http://incoming.debian.org Packages [28.9 kB]
+Get:35 http://incoming.debian.org experimental/main 2011-11-22-0216.01.pdiff [990 B]
+Get:36 http://incoming.debian.org experimental/main kfreebsd-i386 2011-11-22-0216.01.pdiff [3077 B]
+Ign http://incoming.debian.org sid/contrib Translation-en
+Ign http://incoming.debian.org sid/non-free Translation-en
+Ign http://incoming.debian.org experimental/contrib Translation-en
+Ign http://incoming.debian.org experimental/main Translation-en
+Ign http://incoming.debian.org experimental/non-free Translation-en
+Ign http://incoming.debian.org Translation-en
+Ign http://incoming.debian.org Translation-en
+Fetched 1012 kB in 7s (134 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -113,45 +130,30 @@ 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 118 kB of source archives.
-Get:1 http://incoming.debian.org/debian/ experimental/main bwa 0.5.9~rc-1 (dsc) [1915 B]
-Get:2 http://incoming.debian.org/debian/ experimental/main bwa 0.5.9~rc-1 (tar) [113 kB]
-Get:3 http://incoming.debian.org/debian/ experimental/main bwa 0.5.9~rc-1 (diff) [3594 B]
-Fetched 118 kB in 1s (91.6 kB/s)
+git://git.debian.org/debian-med/bwa.git
+Need to get 171 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-experimental/ bwa 0.6.0-2 (dsc) [1681 B]
+Get:2 http://incoming.debian.org/buildd-experimental/ bwa 0.6.0-2 (tar) [169 kB]
+Fetched 171 kB in 1s (139 kB/s)
Download complete and in download only mode
Check arch
──────────
-** Using build dependencies supplied by package:
-Build-Depends: cdbs, debhelper (>= 8), zlib1g-dev
+dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/build/buildd-bwa_0.6.0-2-kfreebsd-i386-icN3sP/resolver-9uA589/apt_archive/sbuild-build-depends-core-dummy.deb'.
+OK
+Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install build dependencies (aptitude-based resolver) │
+│ Install core build dependencies (aptitude-based resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
Reading package lists...
Building dependency tree...
Reading state information...
aptitude is already the newest version.
-0 upgraded, 0 newly installed, 0 to remove and 7 not upgraded.
-dpkg-deb: building package `sbuild-build-depends-bwa-dummy' in `/build/buildd-bwa_0.5.9~rc-1-kfreebsd-i386-Iru2e_/buildd-bwa-kfreebsd-i386-28fjGs/sbuild-build-depends-bwa-dummy.deb'.
-Selecting previously deselected package sbuild-build-depends-bwa-dummy.
-(Reading database ... 12197 files and directories currently installed.)
-Unpacking sbuild-build-depends-bwa-dummy (from .../sbuild-build-depends-bwa-dummy.deb) ...
-dpkg: dependency problems prevent configuration of sbuild-build-depends-bwa-dummy:
- sbuild-build-depends-bwa-dummy depends on cdbs; however:
- Package cdbs is not installed.
- sbuild-build-depends-bwa-dummy depends on debhelper (>= 8); however:
- Package debhelper is not installed.
- sbuild-build-depends-bwa-dummy depends on zlib1g-dev; however:
- Package zlib1g-dev is not installed.
-dpkg: error processing sbuild-build-depends-bwa-dummy (--install):
- dependency problems - leaving unconfigured
-Errors were encountered while processing:
- sbuild-build-depends-bwa-dummy
-aptitude -y --without-recommends -o APT::Install-Recommends=false -o Aptitude::ProblemResolver::StepScore=100 -o Aptitude::ProblemResolver::Hints::KeepDummy=reject sbuild-build-depends-bwa-dummy :UNINST -o Aptitude::ProblemResolver::Keep-All-Tier=55000 -o Aptitude::ProblemResolver::Remove-Essential-Tier=maximum install sbuild-build-depends-bwa-dummy
+0 upgraded, 0 newly installed, 0 to remove and 2 not upgraded.
+aptitude -y --without-recommends -o Dpkg::Options::=--force-confold -o Aptitude::CmdLine::Ignore-Trust-Violations=false -o Aptitude::ProblemResolver::StepScore=100 -o Aptitude::ProblemResolver::SolutionCost=safety, priority, non-default-versions -o Aptitude::ProblemResolver::Hints::KeepDummy=reject sbuild-build-depends-core-dummy :UNINST -o Aptitude::ProblemResolver::Keep-All-Level=55000 -o Aptitude::ProblemResolver::Remove-Essential-Level=maximum install sbuild-build-depends-core-dummy
Reading package lists...
Building dependency tree...
Reading state information...
@@ -159,67 +161,110 @@ Reading extended state information...
Initializing package states...
Writing extended state information...
The following NEW packages will be installed:
- cdbs{a} debhelper{a} file{a} gettext{a} gettext-base{a} html2text{a}
- intltool-debian{a} libcroco3{a} libglib2.0-0{a} libmagic1{a} libpcre3{a}
- libunistring0{a} libxml2{a} po-debconf{a} zlib1g-dev{a}
-The following partially installed packages will be configured:
- sbuild-build-depends-bwa-dummy
-0 packages upgraded, 15 newly installed, 0 to remove and 7 not upgraded.
-Need to get 0 B/7239 kB of archives. After unpacking 19.6 MB will be used.
+ sbuild-build-depends-core-dummy
+0 packages upgraded, 1 newly installed, 0 to remove and 2 not upgraded.
+Need to get 0 B/716 B of archives. After unpacking 0 B will be used.
Writing extended state information...
debconf: delaying package configuration, since apt-utils is not installed
-Selecting previously deselected package libmagic1.
-(Reading database ... 12197 files and directories currently installed.)
-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 html2text.
+Selecting previously unselected package sbuild-build-depends-core-dummy.
+(Reading database ... 12099 files and directories currently installed.)
+Unpacking sbuild-build-depends-core-dummy (from .../sbuild-build-depends-core-dummy.deb) ...
+Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
+Reading package lists...
+Building dependency tree...
+Reading state information...
+Reading extended state information...
+Initializing package states...
+Writing extended state information...
+dpkg-deb: building package `sbuild-build-depends-bwa-dummy' in `/build/buildd-bwa_0.6.0-2-kfreebsd-i386-icN3sP/resolver-9uA589/apt_archive/sbuild-build-depends-bwa-dummy.deb'.
+OK
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install bwa build dependencies (aptitude-based resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+aptitude is already the newest version.
+0 upgraded, 0 newly installed, 0 to remove and 2 not upgraded.
+aptitude -y --without-recommends -o Dpkg::Options::=--force-confold -o Aptitude::CmdLine::Ignore-Trust-Violations=false -o Aptitude::ProblemResolver::StepScore=100 -o Aptitude::ProblemResolver::SolutionCost=safety, priority, non-default-versions -o Aptitude::ProblemResolver::Hints::KeepDummy=reject sbuild-build-depends-bwa-dummy :UNINST -o Aptitude::ProblemResolver::Keep-All-Level=55000 -o Aptitude::ProblemResolver::Remove-Essential-Level=maximum install sbuild-build-depends-bwa-dummy
+Reading package lists...
+Building dependency tree...
+Reading state information...
+Reading extended state information...
+Initializing package states...
+The following NEW packages will be installed:
+ debhelper{a} file{a} gettext{a} gettext-base{a} html2text{a}
+ intltool-debian{a} libcroco3{a} libffi5{a} libglib2.0-0{a} libmagic1{a}
+ libunistring0{a} libxml2{a} po-debconf{a} sbuild-build-depends-bwa-dummy
+ zlib1g-dev{a}
+0 packages upgraded, 15 newly installed, 0 to remove and 2 not upgraded.
+Need to get 6811 kB/6812 kB of archives. After unpacking 18.1 MB will be used.
+Writing extended state information...
+Get: 1 http://ftp.gr.debian.org/debian/ sid/main libffi5 kfreebsd-i386 3.0.10-3 [20.3 kB]
+Get: 2 http://ftp.gr.debian.org/debian/ sid/main libglib2.0-0 kfreebsd-i386 2.30.2-4 [1810 kB]
+Get: 3 http://ftp.gr.debian.org/debian/ sid/main libxml2 kfreebsd-i386 2.7.8.dfsg-5 [894 kB]
+Get: 4 http://ftp.gr.debian.org/debian/ sid/main libcroco3 kfreebsd-i386 0.6.2-2 [122 kB]
+Get: 5 http://ftp.gr.debian.org/debian/ sid/main libunistring0 kfreebsd-i386 0.9.3-5 [440 kB]
+Get: 6 http://ftp.gr.debian.org/debian/ sid/main libmagic1 kfreebsd-i386 5.09-2 [245 kB]
+Get: 7 http://ftp.gr.debian.org/debian/ sid/main file kfreebsd-i386 5.09-2 [51.6 kB]
+Get: 8 http://ftp.gr.debian.org/debian/ sid/main gettext-base kfreebsd-i386 0.18.1.1-5 [134 kB]
+Get: 9 http://ftp.gr.debian.org/debian/ sid/main html2text kfreebsd-i386 1.3.2a-15 [101 kB]
+Get: 10 http://ftp.gr.debian.org/debian/ sid/main gettext kfreebsd-i386 0.18.1.1-5 [2001 kB]
+Get: 11 http://ftp.gr.debian.org/debian/ sid/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get: 12 http://ftp.gr.debian.org/debian/ sid/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get: 13 http://ftp.gr.debian.org/debian/ sid/main debhelper all 8.9.11 [552 kB]
+Get: 14 http://ftp.gr.debian.org/debian/ sid/main zlib1g-dev kfreebsd-i386 1:1.2.3.4.dfsg-3 [186 kB]
+Fetched 6811 kB in 0s (9181 kB/s)
+debconf: delaying package configuration, since apt-utils is not installed
+Selecting previously unselected package libffi5.
+(Reading database ... 12099 files and directories currently installed.)
+Unpacking libffi5 (from .../libffi5_3.0.10-3_kfreebsd-i386.deb) ...
+Selecting previously unselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.30.2-4_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 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 libpcre3.
-Unpacking libpcre3 (from .../libpcre3_8.02-1.1_kfreebsd-i386.deb) ...
-Selecting previously deselected package libglib2.0-0.
-Unpacking libglib2.0-0 (from .../libglib2.0-0_2.24.2-1_kfreebsd-i386.deb) ...
-Selecting previously deselected package libxml2.
-Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_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-base.
-Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_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_8.0.0_all.deb) ...
-Selecting previously deselected package cdbs.
-Unpacking cdbs (from .../archives/cdbs_0.4.89_all.deb) ...
-Selecting previously deselected package zlib1g-dev.
+Selecting previously unselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.9.11_all.deb) ...
+Selecting previously unselected package zlib1g-dev.
Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_kfreebsd-i386.deb) ...
+Selecting previously unselected package sbuild-build-depends-bwa-dummy.
+Unpacking sbuild-build-depends-bwa-dummy (from .../sbuild-build-depends-bwa-dummy.deb) ...
Processing triggers for man-db ...
-debconf: unable to initialize frontend: Dialog
-debconf: (TERM is not set, so the dialog frontend is not usable.)
-debconf: falling back to frontend: Readline
-debconf: unable to initialize frontend: Readline
-debconf: (This frontend requires a controlling tty.)
-debconf: falling back to frontend: Teletype
-Setting up libmagic1 (5.04-5) ...
-Setting up file (5.04-5) ...
+Setting up libffi5 (3.0.10-3) ...
+Setting up libglib2.0-0 (2.30.2-4) ...
+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 libpcre3 (8.02-1.1) ...
-Setting up libglib2.0-0 (2.24.2-1) ...
-Setting up libxml2 (2.7.8.dfsg-2) ...
-Setting up libcroco3 (0.6.2-1) ...
-Setting up libunistring0 (0.9.3-3) ...
-Setting up gettext-base (0.18.1.1-3) ...
-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 (8.0.0) ...
-Setting up cdbs (0.4.89) ...
+Setting up debhelper (8.9.11) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
Setting up sbuild-build-depends-bwa-dummy (0.invalid.0) ...
Reading package lists...
@@ -229,8 +274,8 @@ Reading extended state information...
Initializing package states...
Writing extended state information...
Kernel: GNU/kFreeBSD 8.1-1-686-smp kfreebsd-i386 (i686)
-Toolchain package versions: libc6-dev_ =*=NOT INSTALLED=*= dpkg-dev_1.15.8.8 libstdc++6_4.5.1-1 gcc-4.4_4.4.5-10 g++-4.4_4.4.5-10 binutils_2.21-2 libstdc++6-4.4-dev_4.4.5-10 libc0.1-dev_2.11.2-8 kfreebsd-kernel-headers_0.53
-Package versions: apt_0.8.10 aptitude_0.6.3-3.2 base-files_6.0 base-passwd_3.5.22 bash_4.1-3 binutils_2.21-2 bsdmainutils_8.2.1 bsdutils_1:2.17.2-6 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.89 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_8.0.0 debian-archive-keyring_2010.08.28 debianutils_3.4.2 diffutils_1:3.0-1 dpkg_1.15.8.8 dpkg-dev_1.15.8.8 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.14.5-1 file_5.04-5 findutils_4.4.2-1 freebsd-utils_8.1-3.1 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 gcc-4.5-base_4.5.1-1 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_1.20.1-10 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_2.17.2-6 libboost-iostreams1.42.0_1.42.0-4 libbsd0_0.2.0-1 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-8 libc-dev-bin_2.11.2-8 libc0.1_2.11.2-8 libc0.1-dev_2.11.2-8 libcam0_8.1-5 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libcwidget3_0.5.16-3 libdb4.7_4.7.25-12 libdb4.8_4.8.30-3 libdpkg-perl_1.15.8.8 libedit2_2.11-20080614-2 libept1_1.0.4 libexpat1_2.0.1-7 libgc1c2_1:6.8-1.2 libgcc1_1:4.5.1-1 libgdbm3_1.8.3-9 libgeom0_8.1-5 libglib2.0-0_2.24.2-1 libgmp3c2_2:4.3.2+dfsg-1 libgomp1_4.5.1-1 libkiconv4_8.1-5 libkvm0_8.1-5 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 libncursesw5_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_8.02-1.1 libreadline6_6.1-3 libsbuf0_8.1-5 libsigc++-2.0-0c2a_2.2.4.2-1 libslang2_2.2.2-4 libsqlite3-0_3.7.4-2 libss2_1.41.12-2 libssl0.9.8_0.9.8o-4 libstdc++6_4.5.1-1 libstdc++6-4.4-dev_4.4.5-10 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_2:0.1.12-16 libuuid1_2.17.2-6 libxapian15_1.0.20-2 libxapian22_1.2.4-1 libxml2_2.7.8.dfsg-2 login_1:4.1.4.2+svn3283-2 lsb-base_3.2-26 lzma_4.43-14 make_3.81-8 man-db_2.5.7-8 mawk_1.3.3-15 ncurses-base_5.7+20100313-5 ncurses-bin_5.7+20100313-5 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 po-debconf_1.0.16+nmu1 procps_1:3.2.8-10 readline-common_6.1-3 sbuild-build-depends-bwa-dummy_0.invalid.0 sed_4.2.1-8 sensible-utils_0.0.6 sudo_1.7.4p4-6 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_2010o-1 ufsutils_7.3-1+b1 util-linux_2.17.2-6 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_2.22-1 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 aptitude_0.6.4-1.2 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.22-1 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_8.9.11 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-2011-11-20-1 e2fsprogs_1.42~WIP-2011-11-20-1 fakeroot_1.18.1-1 file_5.09-2 findutils_4.5.10-1 freebsd-utils_8.2+ds2-11 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_1.4-2 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 kbdcontrol_8.2+ds2-11 kfreebsd-kernel-headers_0.60 libacl1_2.2.51-4 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libboost-iostreams1.42.0_1.42.0-4+b1 libboost-iostreams1.46.1_1.46.1-7+b1 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 libclass-isa-perl_0.36-2 libcomerr2_1.42~WIP-2011-11-20-1 libcroco3_0.6.2-2 libcwidget3_0.5.16-3.1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.1.1 libept1_1.0.5 libexpat1_2.0.1-7.2 libffi5_3.0.10-3 libgc1c2_1:7.1-8 libgcc1_1:4.6.2-4 libgdbm3_1.8.3-10 libgeom1_8.2+ds1-4 libglib2.0-0_2.30.2-4 libgmp10_2:5.0.2+dfsg-2 libgomp1_4.6.2-4 libgssglue1_0.3-3.1 libjail1_8.2+ds1-4 libkiconv4_8.2+ds1-4 libkvm0_8.2+ds1-4 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 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 libquadmath0_4.6.2-4 libreadline6_6.2-7 libsbuf0_8.2+ds1-4 libsigc++-2.0-0c2a_2.2.9-1 libslang2_2.2.4-3 libsqlite3-0_3.7.9-2 libss2_1.42~WIP-2011-11-20-1 libssl0.9.8_0.9.8o-7 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 libtirpc1_0.2.2-5 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxapian15_1.0.20-2 libxapian22_1.2.7-1 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_5.14.2-5 perl-base_5.14.2-5 perl-modules_5.14.2-5 po-debconf_1.0.16+nmu1 procps_1:3.2.8-11 readline-common_6.2-7 sbuild-build-depends-bwa-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 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 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 │
@@ -240,14 +285,12 @@ Package versions: apt_0.8.10 aptitude_0.6.3-3.2 base-files_6.0 base-passwd_3.5.2
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 Thu Jan 20 12:57:54 2011 UTC using RSA key ID 2295D502
+gpgv: Signature made Tue Nov 22 02:41:12 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~rc-1.dsc
-dpkg-source: info: extracting bwa in bwa-0.5.9~rc
-dpkg-source: info: unpacking bwa_0.5.9~rc.orig.tar.bz2
-dpkg-source: info: unpacking bwa_0.5.9~rc-1.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bwa_0.6.0-2.dsc
+dpkg-source: info: extracting bwa in bwa-0.6.0
+dpkg-source: info: unpacking bwa_0.6.0-2.tar.gz
Check disc space
────────────────
@@ -256,159 +299,222 @@ 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~rc-1
- dpkg-source --before-build bwa-0.5.9~rc
+dpkg-buildpackage: source version 0.6.0-2
+ dpkg-source --before-build bwa-0.6.0
dpkg-buildpackage: host architecture kfreebsd-i386
- /usr/bin/fakeroot debian/rules clean
-test -x debian/rules
-dh_testroot
-rm -f debian/stamp-makefile-build debian/stamp-makefile-install
-/usr/bin/make -C . CFLAGS="-g -O2 -g -Wall -O2" CXXFLAGS="-g -O2 -g -Wall -O2" CPPFLAGS="" LDFLAGS="" -k clean
-make[1]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-kfreebsd-i386-Iru2e_/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-kfreebsd-i386-Iru2e_/bwa-0.5.9~rc'
+ fakeroot debian/rules clean
+dh clean
+ dh_testdir
+ dh_auto_clean
+make[1]: Entering directory `/build/buildd-bwa_0.6.0-2-kfreebsd-i386-icN3sP/bwa-0.6.0'
rm -f gmon.out *.o a.out bwa *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-kfreebsd-i386-Iru2e_/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-kfreebsd-i386-Iru2e_/bwa-0.5.9~rc/bwt_gen'
-rm -f gmon.out *.o a.out *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-kfreebsd-i386-Iru2e_/bwa-0.5.9~rc/bwt_gen'
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-kfreebsd-i386-Iru2e_/bwa-0.5.9~rc'
-dh_clean
+make[1]: Leaving directory `/build/buildd-bwa_0.6.0-2-kfreebsd-i386-icN3sP/bwa-0.6.0'
+ dh_clean
debian/rules build
-test -x debian/rules
-mkdir -p "."
-/usr/bin/make -C . CFLAGS="-g -O2 -g -Wall -O2" CXXFLAGS="-g -O2 -g -Wall -O2" CPPFLAGS="" LDFLAGS=""
-make[1]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-kfreebsd-i386-Iru2e_/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-kfreebsd-i386-Iru2e_/bwa-0.5.9~rc'
-make[2]: Nothing to be done for `lib'.
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-kfreebsd-i386-Iru2e_/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-kfreebsd-i386-Iru2e_/bwa-0.5.9~rc/bwt_gen'
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwt_gen.c -o bwt_gen.o
-gcc -c -g -O2 -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~rc-1-kfreebsd-i386-Iru2e_/bwa-0.5.9~rc/bwt_gen'
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD utils.c -o utils.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwt.c -o bwt.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtio.c -o bwtio.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtaln.c -o bwtaln.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtgap.c -o bwtgap.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD is.c -o is.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bntseq.c -o bntseq.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtmisc.c -o bwtmisc.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtindex.c -o bwtindex.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD stdaln.c -o stdaln.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD simple_dp.c -o simple_dp.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwaseqio.c -o bwaseqio.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwase.c -o bwase.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwape.c -o bwape.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD kstring.c -o kstring.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD cs2nt.c -o cs2nt.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_core.c -o bwtsw2_core.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_main.c -o bwtsw2_main.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_aux.c -o bwtsw2_aux.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwt_lite.c -o bwt_lite.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_chain.c -o bwtsw2_chain.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bamlite.c -o bamlite.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD main.c -o main.o
-gcc -g -O2 -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~rc-1-kfreebsd-i386-Iru2e_/bwa-0.5.9~rc'
-touch debian/stamp-makefile-build
-DEB_MAKE_CHECK_TARGET unset, not running checks
- /usr/bin/fakeroot debian/rules binary-arch
-test -x debian/rules
-dh_testroot
-dh_prep
-dh_installdirs -A
-mkdir -p "."
-DEB_MAKE_CHECK_TARGET unset, not running checks
-DEB_MAKE_INSTALL_TARGET unset, skipping default makefile.mk common-install target
-Adding cdbs dependencies to debian/bwa.substvars
-dh_installdirs -pbwa
-dh_installdocs -pbwa ./NEWS
-dh_installexamples -pbwa
-dh_installman -pbwa
-dh_installinfo -pbwa
-dh_installmenu -pbwa
-dh_installcron -pbwa
-dh_installinit -pbwa
-dh_installdebconf -pbwa
-dh_installemacsen -pbwa
-dh_installcatalogs -pbwa
-dh_installpam -pbwa
-dh_installlogrotate -pbwa
-dh_installlogcheck -pbwa
-dh_installchangelogs -pbwa ./ChangeLog
-dh_installudev -pbwa
-dh_lintian -pbwa
-dh_install -pbwa
-dh_link -pbwa
-dh_installmime -pbwa
-dh_strip -pbwa
-dh_compress -pbwa
-dh_fixperms -pbwa
-dh_makeshlibs -pbwa
-dh_installdeb -pbwa
-dh_perl -pbwa
-dh_shlibdeps -pbwa
-dh_gencontrol -pbwa
+dh build
+ dh_testdir
+ dh_auto_configure
+ debian/rules override_dh_auto_build
+make[1]: Entering directory `/build/buildd-bwa_0.6.0-2-kfreebsd-i386-icN3sP/bwa-0.6.0'
+dh_auto_build -- CFLAGS="-Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro" DFLAGS="-DHAVE_PTHREAD -D_NO_SSE2"
+make[2]: Entering directory `/build/buildd-bwa_0.6.0-2-kfreebsd-i386-icN3sP/bwa-0.6.0'
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 QSufSort.c -o QSufSort.o
+QSufSort.c: In function 'QSufSortSuffixSort':
+QSufSort.c:62:10: warning: variable 'maxNumInputSymbol' set but not used [-Wunused-but-set-variable]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt_gen.c -o bwt_gen.o
+bwt_gen.c: In function 'BWTIncBuildRelativeRank':
+bwt_gen.c:873:10: warning: variable 'oldInverseSa0RelativeRank' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncMergeBwt':
+bwt_gen.c:947:15: warning: variable 'bitsInWordMinusBitPerChar' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncConstructFromPacked':
+bwt_gen.c:1452:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwt_gen.c:1468:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwt_gen.c:1483:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 utils.c -o utils.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt.c -o bwt.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtio.c -o bwtio.o
+bwtio.c: In function 'bwt_restore_bwt':
+bwtio.c:62:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:63:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:64:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c: In function 'bwt_restore_sa':
+bwtio.c:36:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:38:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:39:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:40:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:47:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtaln.c -o bwtaln.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtgap.c -o bwtgap.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 is.c -o is.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bntseq.c -o bntseq.o
+bntseq.c: In function 'bns_restore_core':
+bntseq.c:98:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:106:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:114:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:123:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:129:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtmisc.c -o bwtmisc.o
+bwtmisc.c: In function 'bwa_pac2cspac_core':
+bwtmisc.c:172:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtmisc.c: In function 'bwt_pac2bwt':
+bwtmisc.c:72:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtmisc.c: In function 'bwa_seq_len':
+bwtmisc.c:51:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtindex.c -o bwtindex.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 ksw.c -o ksw.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 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 -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 simple_dp.c -o simple_dp.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwaseqio.c -o bwaseqio.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwase.c -o bwase.o
+bwase.c: In function 'bwa_aln2seq_core':
+bwase.c:74:15: warning: variable 'k' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_print_sam1':
+bwase.c:447:17: warning: variable 'm_is_N' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_sai2sam_se_core':
+bwase.c:603:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:619:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:624:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c: In function 'bwa_refine_gapped':
+bwase.c:310:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:316:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwape.c -o bwape.o
+bwape.c: In function 'bwa_sai2sam_pe_core':
+bwape.c:683:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:686:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:697:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c: In function 'bwa_paired_sw':
+bwape.c:527:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c: In function 'bwa_cal_pac_pos_pe':
+bwape.c:312:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:316:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 kstring.c -o kstring.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 cs2nt.c -o cs2nt.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_core.c -o bwtsw2_core.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_main.c -o bwtsw2_main.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_aux.c -o bwtsw2_aux.o
+bwtsw2_aux.c: In function 'gen_cigar':
+bwtsw2_aux.c:186:7: warning: variable 'score' set but not used [-Wunused-but-set-variable]
+bwtsw2_aux.c: In function 'bsw2_aln':
+bwtsw2_aux.c:734:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt_lite.c -o bwt_lite.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_chain.c -o bwtsw2_chain.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bamlite.c -o bamlite.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 fastmap.c -o fastmap.o
+fastmap.c: In function 'main_fastmap':
+fastmap.c:54:3: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'size_t' [-Wformat]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_pair.c -o bwtsw2_pair.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 main.c -o main.o
+gcc -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 QSufSort.o bwt_gen.o utils.o bwt.o bwtio.o bwtaln.o bwtgap.o is.o bntseq.o bwtmisc.o bwtindex.o ksw.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 fastmap.o bwtsw2_pair.o main.o -o bwa -lm -lz -lpthread
+make[2]: Leaving directory `/build/buildd-bwa_0.6.0-2-kfreebsd-i386-icN3sP/bwa-0.6.0'
+make[1]: Leaving directory `/build/buildd-bwa_0.6.0-2-kfreebsd-i386-icN3sP/bwa-0.6.0'
+ dh_auto_test
+ fakeroot debian/rules binary-arch
+dh binary-arch
+ dh_testroot -a
+ dh_prep -a
+ dh_installdirs -a
+ dh_auto_install -a
+ dh_install -a
+ dh_installdocs -a
+ dh_installchangelogs -a
+ dh_installexamples -a
+ dh_installman -a
+ dh_installcatalogs -a
+ dh_installcron -a
+ dh_installdebconf -a
+ dh_installemacsen -a
+ dh_installifupdown -a
+ dh_installinfo -a
+ dh_installinit -a
+ dh_installmenu -a
+ dh_installmime -a
+ dh_installmodules -a
+ dh_installlogcheck -a
+ dh_installlogrotate -a
+ dh_installpam -a
+ dh_installppp -a
+ 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
+ dh_perl -a
+ dh_usrlocal -a
+ dh_link -a
+ dh_compress -a
+ dh_fixperms -a
+ dh_strip -a
+ dh_makeshlibs -a
+ dh_shlibdeps -a
+ dh_installdeb -a
+ dh_gencontrol -a
dpkg-gencontrol: warning: package bwa: unused substitution variable ${perl:Depends}
-dh_md5sums -pbwa
-dh_builddeb -pbwa
-dpkg-deb: building package `bwa' in `../bwa_0.5.9~rc-1_kfreebsd-i386.deb'.
- dpkg-genchanges -B -mkfreebsd-i386 Build Daemon (field) <buildd_kfreebsd-i386-field at buildd.debian.org> >../bwa_0.5.9~rc-1_kfreebsd-i386.changes
+ dh_md5sums -a
+ dh_builddeb -a
+dpkg-deb: building package `bwa' in `../bwa_0.6.0-2_kfreebsd-i386.deb'.
+ dpkg-genchanges -B -mkfreebsd-i386 Build Daemon (field) <buildd_kfreebsd-i386-field at buildd.debian.org> >../bwa_0.6.0-2_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~rc
+ dpkg-source --after-build bwa-0.6.0
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110120-1444
+Build finished at 20111122-0320
-bwa_0.5.9~rc-1_kfreebsd-i386.changes:
+bwa_0.6.0-2_kfreebsd-i386.changes:
Format: 1.8
-Date: Thu, 20 Jan 2011 21:42:55 +0900
+Date: Tue, 22 Nov 2011 11:32:11 +0900
Source: bwa
Binary: bwa
Architecture: kfreebsd-i386
-Version: 0.5.9~rc-1
+Version: 0.6.0-2
Distribution: experimental
Urgency: low
Maintainer: kfreebsd-i386 Build Daemon (field) <buildd_kfreebsd-i386-field at buildd.debian.org>
Changed-By: Charles Plessy <plessy at debian.org>
Description:
bwa - Burrows-Wheeler Aligner
+Closes: 648803
Changes:
- bwa (0.5.9~rc-1) experimental; urgency=low
+ bwa (0.6.0-2) experimental; urgency=low
.
- * New usptream release candidate.
+ [9410de3] Disable SSE2 everywhere except on amd64 (Closes: #648803).
+ [fb4c559] Reimplementation of Standard SW for when SSE2 is unavailable.
+ cherry picked from upstream commit 182cb2e.
+ This commit modifies upstream sources.
+ [9c93ccd] Use native format to bypass mandatory patch system.
Checksums-Sha1:
- f8c43e0a11bc03409105e9343940da6a3b3c2a73 137042 bwa_0.5.9~rc-1_kfreebsd-i386.deb
+ 2b32b6f3ae7bf2049562e74069ba02a73ad768f0 171582 bwa_0.6.0-2_kfreebsd-i386.deb
Checksums-Sha256:
- 6744a0b7894bba5d533a9df383150066592607de8702eeedd45fd09725af1056 137042 bwa_0.5.9~rc-1_kfreebsd-i386.deb
+ cedaabda0c9ac38f91a4ed6469b78ac4fd2b15492a7f46cc83f631a7ec8c6241 171582 bwa_0.6.0-2_kfreebsd-i386.deb
Files:
- f2de8986c457c860954e485af4bad35d 137042 science optional bwa_0.5.9~rc-1_kfreebsd-i386.deb
+ 16935d45a8fee77bb0279c4802971276 171582 science optional bwa_0.6.0-2_kfreebsd-i386.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bwa_0.5.9~rc-1_kfreebsd-i386.deb
-────────────────────────────────
+bwa_0.6.0-2_kfreebsd-i386.deb
+─────────────────────────────
new debian package, version 2.0.
- size 137042 bytes: control archive= 949 bytes.
- 787 bytes, 17 lines control
- 556 bytes, 9 lines md5sums
+ size 171582 bytes: control archive= 997 bytes.
+ 784 bytes, 17 lines control
+ 610 bytes, 10 lines md5sums
Package: bwa
- Version: 0.5.9~rc-1
+ Version: 0.6.0-2
Architecture: kfreebsd-i386
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 306
+ Installed-Size: 316
Depends: libc0.1 (>= 2.7), zlib1g (>= 1:1.1.4)
Suggests: samtools
Section: science
@@ -422,24 +528,25 @@ bwa_0.5.9~rc-1_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 2011-01-20 14:44 ./
-drwxr-xr-x root/root 0 2011-01-20 14:44 ./usr/
-drwxr-xr-x root/root 0 2011-01-20 14:44 ./usr/share/
-drwxr-xr-x root/root 0 2011-01-20 14:44 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-01-20 14:44 ./usr/share/doc/bwa/
--rw-r--r-- root/root 5606 2011-01-20 11:35 ./usr/share/doc/bwa/NEWS.gz
--rw-r--r-- root/root 2679 2011-01-20 11:52 ./usr/share/doc/bwa/copyright
--rw-r--r-- root/root 17751 2011-01-20 11:35 ./usr/share/doc/bwa/changelog.gz
--rw-r--r-- root/root 17751 2011-01-20 11:35 ./usr/share/doc/bwa/ChangeLog.gz
--rw-r--r-- root/root 805 2011-01-20 12:43 ./usr/share/doc/bwa/changelog.Debian.gz
-drwxr-xr-x root/root 0 2011-01-20 14:44 ./usr/share/man/
-drwxr-xr-x root/root 0 2011-01-20 14:44 ./usr/share/man/man1/
--rw-r--r-- root/root 7423 2011-01-20 14:44 ./usr/share/man/man1/bwa.1.gz
-drwxr-xr-x root/root 0 2011-01-20 14:44 ./usr/share/bwa/
--rwxr-xr-x root/root 3176 2011-01-20 11:35 ./usr/share/bwa/solid2fastq.pl
--rwxr-xr-x root/root 616 2011-01-20 11:35 ./usr/share/bwa/qualfa2fq.pl
-drwxr-xr-x root/root 0 2011-01-20 14:44 ./usr/bin/
--rwxr-xr-x root/root 199376 2011-01-20 14:44 ./usr/bin/bwa
+drwxr-xr-x root/root 0 2011-11-22 03:20 ./
+drwxr-xr-x root/root 0 2011-11-22 03:20 ./usr/
+drwxr-xr-x root/root 0 2011-11-22 03:20 ./usr/bin/
+-rwxr-xr-x root/root 276100 2011-11-22 03:20 ./usr/bin/bwa
+drwxr-xr-x root/root 0 2011-11-22 03:20 ./usr/share/
+drwxr-xr-x root/root 0 2011-11-22 03:20 ./usr/share/bwa/
+-rwxr-xr-x root/root 3176 2011-11-22 01:55 ./usr/share/bwa/solid2fastq.pl
+-rwxr-xr-x root/root 616 2011-11-22 01:55 ./usr/share/bwa/qualfa2fq.pl
+-rwxr-xr-x root/root 730 2011-11-22 01:55 ./usr/share/bwa/xa2multi.pl
+drwxr-xr-x root/root 0 2011-11-22 03:20 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-11-22 03:20 ./usr/share/doc/bwa/
+-rw-r--r-- root/root 634 2011-11-22 01:55 ./usr/share/doc/bwa/README
+-rw-r--r-- root/root 2785 2011-11-22 01:55 ./usr/share/doc/bwa/copyright
+-rw-r--r-- root/root 17912 2011-11-22 01:55 ./usr/share/doc/bwa/changelog.gz
+-rw-r--r-- root/root 6680 2011-11-22 01:55 ./usr/share/doc/bwa/NEWS.gz
+-rw-r--r-- root/root 1471 2011-11-22 02:32 ./usr/share/doc/bwa/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-11-22 03:20 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-11-22 03:20 ./usr/share/man/man1/
+-rw-r--r-- root/root 7745 2011-11-22 03:20 ./usr/share/man/man1/bwa.1.gz
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -448,33 +555,69 @@ drwxr-xr-x root/root 0 2011-01-20 14:44 ./usr/bin/
Built successfully
────────────────────────────────────────────────────────────────────────────────
-Purging /srv/home/buildd/chroots/experimental/build/buildd-bwa_0.5.9~rc-1-kfreebsd-i386-Iru2e_
-(Reading database ... 13046 files and directories currently installed.)
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /var/lib/schroot/mount/experimental-ki-sbuild-1321931890-28863/build/buildd-bwa_0.6.0-2-kfreebsd-i386-icN3sP
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 2 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* libffi5* libglib2.0-0* libmagic1* libunistring0* libxml2*
+ po-debconf* sbuild-build-depends-bwa-dummy* sbuild-build-depends-core-dummy*
+ zlib1g-dev*
+0 upgraded, 0 newly installed, 16 to remove and 2 not upgraded.
+After this operation, 18.1 MB disk space will be freed.
+(Reading database ... 12925 files and directories currently installed.)
Removing sbuild-build-depends-bwa-dummy ...
-Removing zlib1g-dev ...
-Removing cdbs ...
Removing debhelper ...
+Removing file ...
Removing po-debconf ...
Removing intltool-debian ...
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 libffi5 ...
+Purging configuration files for libffi5 ...
Removing libmagic1 ...
Purging configuration files for libmagic1 ...
+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 ...
+Removing sbuild-build-depends-core-dummy ...
+Removing zlib1g-dev ...
Processing triggers for man-db ...
-────────────────────────────────────────────────────────────────────────────────
-Finished at 20110120-1444
-Build needed 00:01:41, 2278k disc space
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Architecture: kfreebsd-i386
+Build-Space: 2816
+Build-Time: 25
+Distribution: experimental
+Install-Time: 93
+Job: bwa_0.6.0-2
+Package: bwa
+Package-Time: 140
+Source-Version: 0.6.0-2
+Space: 2816
+Status: successful
+Version: 0.6.0-2
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20111122-0320
+Build needed 00:02:20, 2816k disc space
+Signature with key '65BA331C' requested:
diff --git a/mips.log b/mips.log
new file mode 100644
index 0000000..939f3de
--- /dev/null
+++ b/mips.log
@@ -0,0 +1,1220 @@
+From buildd2 at corelli.debian.org Tue Nov 22 03:28:44 2011
+Return-path: <buildd2 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 4.72) (envelope-from <buildd2 at corelli.debian.org>)
+ id 1RSh2J-0007ab-WE
+ for logs at buildd.debian.org; Tue, 22 Nov 2011 03:28:44 +0000
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+ 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 4.72) (envelope-from <buildd2 at corelli.debian.org>)
+ id 1RSh2I-0001od-Or
+ for logs at buildd.debian.org; Tue, 22 Nov 2011 03:28:43 +0000
+Received: from buildd2 by corelli.debian.org with local (Exim 4.69)
+ (envelope-from <buildd2 at corelli.debian.org>) id 1RSh2G-0006Uq-O0
+ for logs at buildd.debian.org; Tue, 22 Nov 2011 03:28:40 +0000
+From: buildd on corelli <buildd2 at corelli.debian.org>
+To: logs at buildd.debian.org
+Subject: Log for successful build of bwa_0.6.0-2 on mips (dist=experimental)
+Content-Type: text/plain; charset=UTF-8
+Content-Transfer-Encoding: 8bit
+Message-Id: <E1RSh2G-0006Uq-O0 at corelli.debian.org>
+Date: Tue, 22 Nov 2011 03:28:40 +0000
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on corelli.debian.org
+
+╔══════════════════════════════════════════════════════════════════════════════╗
+║ bwa 0.6.0-2 (mips) 22 Nov 2011 03:17 ║
+╚══════════════════════════════════════════════════════════════════════════════╝
+
+Package: bwa
+Version: 0.6.0-2
+Source Version: 0.6.0-2
+Architecture: mips
+Get:1 http://mirror-ubc.debian.org unstable InRelease [160 kB]
+Get:2 http://mirror-ubc.debian.org experimental InRelease [139 kB]
+Get:3 http://incoming.debian.org unstable InRelease [160 kB]
+Get:4 http://mirror-ubc.debian.org unstable/main Sources [5927 kB]
+Get:5 http://incoming.debian.org experimental InRelease [139 kB]
+Ign http://incoming.debian.org InRelease
+Ign http://incoming.debian.org InRelease
+Get:6 http://incoming.debian.org unstable/main Sources [5927 kB]
+Get:7 http://mirror-ubc.debian.org unstable/contrib Sources [57.2 kB]
+Get:8 http://mirror-ubc.debian.org unstable/non-free Sources [102 kB]
+Get:9 http://mirror-ubc.debian.org unstable/main mips Packages [7641 kB]
+Get:10 http://incoming.debian.org unstable/contrib Sources [57.2 kB]
+Get:11 http://incoming.debian.org unstable/non-free Sources [102 kB]
+Get:12 http://incoming.debian.org unstable/main mips Packages [7641 kB]
+Get:13 http://mirror-ubc.debian.org unstable/contrib mips Packages [56.1 kB]
+Ign http://mirror-ubc.debian.org unstable/contrib TranslationIndex
+Get:14 http://mirror-ubc.debian.org unstable/main TranslationIndex [2045 B]
+Get:15 http://mirror-ubc.debian.org experimental/main Sources [177 kB]
+Get:16 http://mirror-ubc.debian.org experimental/contrib Sources [1400 B]
+Get:17 http://mirror-ubc.debian.org experimental/non-free Sources [2641 B]
+Get:18 http://mirror-ubc.debian.org experimental/main mips Packages [325 kB]
+Get:19 http://mirror-ubc.debian.org experimental/contrib mips Packages [1846 B]
+Ign http://mirror-ubc.debian.org experimental/contrib TranslationIndex
+Ign http://mirror-ubc.debian.org experimental/main TranslationIndex
+Ign http://mirror-ubc.debian.org unstable/contrib Translation-en
+Ign http://mirror-ubc.debian.org experimental/contrib Translation-en
+Ign http://mirror-ubc.debian.org experimental/main Translation-en
+Get:20 http://incoming.debian.org unstable/contrib mips Packages [56.1 kB]
+Ign http://incoming.debian.org unstable/contrib TranslationIndex
+Get:21 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
+Get:22 http://incoming.debian.org Release.gpg [836 B]
+Get:23 http://incoming.debian.org Release.gpg [836 B]
+Get:24 http://incoming.debian.org experimental/main Sources [177 kB]
+Get:25 http://incoming.debian.org experimental/contrib Sources [1400 B]
+Get:26 http://incoming.debian.org experimental/non-free Sources [2641 B]
+Get:27 http://incoming.debian.org experimental/main mips Packages [325 kB]
+Get:28 http://incoming.debian.org experimental/contrib mips Packages [1846 B]
+Ign http://incoming.debian.org experimental/contrib TranslationIndex
+Ign http://incoming.debian.org experimental/main TranslationIndex
+Get:29 http://incoming.debian.org Release [1604 B]
+Get:30 http://incoming.debian.org Release [1626 B]
+Get:31 http://incoming.debian.org Sources [33.2 kB]
+Get:32 http://incoming.debian.org Packages [315 kB]
+Get:33 http://incoming.debian.org Sources [2999 B]
+Get:34 http://incoming.debian.org Packages [28.9 kB]
+Ign http://incoming.debian.org unstable/contrib Translation-en
+Ign http://incoming.debian.org experimental/contrib Translation-en
+Ign http://incoming.debian.org experimental/main Translation-en
+Ign http://incoming.debian.org Translation-en
+Ign http://incoming.debian.org Translation-en
+Fetched 29.6 MB in 1min 28s (335 kB/s)
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Fetch source files │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Check APT
+─────────
+
+Checking available source versions...
+
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+NOTICE: 'bwa' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/debian-med/bwa.git
+Need to get 171 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-experimental/ bwa 0.6.0-2 (dsc) [1681 B]
+Get:2 http://incoming.debian.org/buildd-experimental/ bwa 0.6.0-2 (tar) [169 kB]
+Fetched 171 kB in 0s (233 kB/s)
+Download complete and in download only mode
+
+Check arch
+──────────
+
+dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/build/buildd2-bwa_0.6.0-2-mips-G3dIR8/resolver-YMz6C9/apt_archive/sbuild-build-depends-core-dummy.deb'.
+OK
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install core build dependencies (aptitude-based resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following extra packages will be installed:
+ libboost-iostreams1.46.1 libcwidget3 libept1 libncursesw5 libsigc++-2.0-0c2a
+ libsqlite3-0 libxapian22
+Suggested packages:
+ tasksel debtags libcwidget-dev xapian-tools
+Recommended packages:
+ aptitude-doc-en aptitude-doc apt-xapian-index libparse-debianchangelog-perl
+ libgpm2
+The following NEW packages will be installed:
+ aptitude libboost-iostreams1.46.1 libcwidget3 libept1 libncursesw5
+ libsigc++-2.0-0c2a libsqlite3-0 libxapian22
+0 upgraded, 8 newly installed, 0 to remove and 11 not upgraded.
+Need to get 6228 kB of archives.
+After this operation, 18.4 MB of additional disk space will be used.
+Get:1 http://mirror-ubc.debian.org/debian/ unstable/main libncursesw5 mips 5.9-4 [307 kB]
+Get:2 http://mirror-ubc.debian.org/debian/ unstable/main libboost-iostreams1.46.1 mips 1.46.1-7+b1 [54.7 kB]
+Get:3 http://mirror-ubc.debian.org/debian/ unstable/main libsigc++-2.0-0c2a mips 2.2.9-1 [41.3 kB]
+Get:4 http://mirror-ubc.debian.org/debian/ unstable/main libcwidget3 mips 0.5.16-3.1 [326 kB]
+Get:5 http://mirror-ubc.debian.org/debian/ unstable/main libxapian22 mips 1.2.7-1 [1163 kB]
+Get:6 http://mirror-ubc.debian.org/debian/ unstable/main libept1 mips 1.0.5 [140 kB]
+Get:7 http://mirror-ubc.debian.org/debian/ unstable/main libsqlite3-0 mips 3.7.9-2 [448 kB]
+Get:8 http://mirror-ubc.debian.org/debian/ unstable/main aptitude mips 0.6.4-1.2 [3747 kB]
+debconf: delaying package configuration, since apt-utils is not installed
+Fetched 6228 kB in 1s (5719 kB/s)
+Selecting previously unselected package libncursesw5.
+(Reading database ... 10651 files and directories currently installed.)
+Unpacking libncursesw5 (from .../libncursesw5_5.9-4_mips.deb) ...
+Selecting previously unselected package libboost-iostreams1.46.1.
+Unpacking libboost-iostreams1.46.1 (from .../libboost-iostreams1.46.1_1.46.1-7+b1_mips.deb) ...
+Selecting previously unselected package libsigc++-2.0-0c2a.
+Unpacking libsigc++-2.0-0c2a (from .../libsigc++-2.0-0c2a_2.2.9-1_mips.deb) ...
+Selecting previously unselected package libcwidget3.
+Unpacking libcwidget3 (from .../libcwidget3_0.5.16-3.1_mips.deb) ...
+Selecting previously unselected package libxapian22.
+Unpacking libxapian22 (from .../libxapian22_1.2.7-1_mips.deb) ...
+Selecting previously unselected package libept1.
+Unpacking libept1 (from .../libept1_1.0.5_mips.deb) ...
+Selecting previously unselected package libsqlite3-0.
+Unpacking libsqlite3-0 (from .../libsqlite3-0_3.7.9-2_mips.deb) ...
+Selecting previously unselected package aptitude.
+Unpacking aptitude (from .../aptitude_0.6.4-1.2_mips.deb) ...
+Setting up libncursesw5 (5.9-4) ...
+Setting up libboost-iostreams1.46.1 (1.46.1-7+b1) ...
+Setting up libsigc++-2.0-0c2a (2.2.9-1) ...
+Setting up libcwidget3 (0.5.16-3.1) ...
+Setting up libxapian22 (1.2.7-1) ...
+Setting up libept1 (1.0.5) ...
+Setting up libsqlite3-0 (3.7.9-2) ...
+Setting up aptitude (0.6.4-1.2) ...
+update-alternatives: using /usr/bin/aptitude-curses to provide /usr/bin/aptitude (aptitude) in auto mode.
+aptitude -y --without-recommends -o Dpkg::Options::=--force-confold -o Aptitude::CmdLine::Ignore-Trust-Violations=false -o Aptitude::ProblemResolver::StepScore=100 -o Aptitude::ProblemResolver::SolutionCost=safety, priority, non-default-versions -o Aptitude::ProblemResolver::Hints::KeepDummy=reject sbuild-build-depends-core-dummy :UNINST -o Aptitude::ProblemResolver::Keep-All-Level=55000 -o Aptitude::ProblemResolver::Remove-Essential-Level=maximum install sbuild-build-depends-core-dummy
+Reading package lists...
+Building dependency tree...
+Reading state information...
+Initializing package states...
+Writing extended state information...
+The following NEW packages will be installed:
+ sbuild-build-depends-core-dummy
+0 packages upgraded, 1 newly installed, 0 to remove and 11 not upgraded.
+Need to get 0 B/710 B of archives. After unpacking 0 B will be used.
+Writing extended state information...
+debconf: delaying package configuration, since apt-utils is not installed
+Selecting previously unselected package sbuild-build-depends-core-dummy.
+(Reading database ... 10856 files and directories currently installed.)
+Unpacking sbuild-build-depends-core-dummy (from .../sbuild-build-depends-core-dummy.deb) ...
+Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
+Reading package lists...
+Building dependency tree...
+Reading state information...
+Reading extended state information...
+Initializing package states...
+Writing extended state information...
+dpkg-deb: building package `sbuild-build-depends-bwa-dummy' in `/build/buildd2-bwa_0.6.0-2-mips-G3dIR8/resolver-YMz6C9/apt_archive/sbuild-build-depends-bwa-dummy.deb'.
+OK
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install bwa build dependencies (aptitude-based resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+aptitude is already the newest version.
+0 upgraded, 0 newly installed, 0 to remove and 11 not upgraded.
+aptitude -y --without-recommends -o Dpkg::Options::=--force-confold -o Aptitude::CmdLine::Ignore-Trust-Violations=false -o Aptitude::ProblemResolver::StepScore=100 -o Aptitude::ProblemResolver::SolutionCost=safety, priority, non-default-versions -o Aptitude::ProblemResolver::Hints::KeepDummy=reject sbuild-build-depends-bwa-dummy :UNINST -o Aptitude::ProblemResolver::Keep-All-Level=55000 -o Aptitude::ProblemResolver::Remove-Essential-Level=maximum install sbuild-build-depends-bwa-dummy
+Reading package lists...
+Building dependency tree...
+Reading state information...
+Reading extended state information...
+Initializing package states...
+The following NEW packages will be installed:
+ bsdmainutils{a} debhelper{a} file{a} gettext{a} gettext-base{a}
+ groff-base{a} html2text{a} intltool-debian{a} libcroco3{a} libffi5{a}
+ libglib2.0-0{a} libmagic1{a} libpcre3{a} libpipeline1{a} libunistring0{a}
+ libxml2{a} man-db{a} po-debconf{a} sbuild-build-depends-bwa-dummy
+ zlib1g-dev{a}
+0 packages upgraded, 20 newly installed, 0 to remove and 11 not upgraded.
+Need to get 9321 kB/9322 kB of archives. After unpacking 26.9 MB will be used.
+Writing extended state information...
+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 libffi5 mips 3.0.10-3 [23.0 kB]
+Get: 4 http://mirror-ubc.debian.org/debian/ unstable/main libglib2.0-0 mips 2.30.2-4 [1751 kB]
+Get: 5 http://mirror-ubc.debian.org/debian/ unstable/main libxml2 mips 2.7.8.dfsg-5 [858 kB]
+Get: 6 http://mirror-ubc.debian.org/debian/ unstable/main libcroco3 mips 0.6.2-2 [104 kB]
+Get: 7 http://mirror-ubc.debian.org/debian/ unstable/main libunistring0 mips 0.9.3-5 [411 kB]
+Get: 8 http://mirror-ubc.debian.org/debian/ unstable/main bsdmainutils mips 8.2.3 [206 kB]
+Get: 9 http://mirror-ubc.debian.org/debian/ unstable/main groff-base mips 1.21-6 [1152 kB]
+Get: 10 http://mirror-ubc.debian.org/debian/ unstable/main man-db mips 2.6.0.2-3 [984 kB]
+Get: 11 http://mirror-ubc.debian.org/debian/ unstable/main libmagic1 mips 5.09-2 [249 kB]
+Get: 12 http://mirror-ubc.debian.org/debian/ unstable/main file mips 5.09-2 [51.8 kB]
+Get: 13 http://mirror-ubc.debian.org/debian/ unstable/main gettext-base mips 0.18.1.1-5 [136 kB]
+Get: 14 http://mirror-ubc.debian.org/debian/ unstable/main html2text mips 1.3.2a-15 [103 kB]
+Get: 15 http://mirror-ubc.debian.org/debian/ unstable/main gettext mips 0.18.1.1-5 [2032 kB]
+Get: 16 http://mirror-ubc.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get: 17 http://mirror-ubc.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get: 18 http://mirror-ubc.debian.org/debian/ unstable/main debhelper all 8.9.11 [552 kB]
+Get: 19 http://mirror-ubc.debian.org/debian/ unstable/main zlib1g-dev mips 1:1.2.3.4.dfsg-3 [191 kB]
+Fetched 9321 kB in 1s (5879 kB/s)
+debconf: delaying package configuration, since apt-utils is not installed
+Selecting previously unselected package libpipeline1.
+(Reading database ... 10856 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 libffi5.
+Unpacking libffi5 (from .../libffi5_3.0.10-3_mips.deb) ...
+Selecting previously unselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.30.2-4_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 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_8.9.11_all.deb) ...
+Selecting previously unselected package zlib1g-dev.
+Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_mips.deb) ...
+Selecting previously unselected package sbuild-build-depends-bwa-dummy.
+Unpacking sbuild-build-depends-bwa-dummy (from .../sbuild-build-depends-bwa-dummy.deb) ...
+Setting up libpipeline1 (1.2.0-5) ...
+Setting up libpcre3 (8.12-4) ...
+Setting up libffi5 (3.0.10-3) ...
+Setting up libglib2.0-0 (2.30.2-4) ...
+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 (8.9.11) ...
+Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
+Setting up sbuild-build-depends-bwa-dummy (0.invalid.0) ...
+Reading package lists...
+Building dependency tree...
+Reading state information...
+Reading extended state information...
+Initializing package states...
+Writing extended state information...
+Kernel: Linux 2.6.35.4-dsa-octeon mips (mips64)
+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 aptitude_0.6.4-1.2 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_8.9.11 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_1.4-2 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 libboost-iostreams1.46.1_1.46.1-7+b1 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 libcwidget3_0.5.16-3.1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.1.1 libept1_1.0.5 libffi5_3.0.10-3 libgc1c2_1:7.1-8 libgcc1_1:4.6.2-4 libgdbm3_1.8.3-10 libglib2.0-0_2.30.2-4 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_3.1.0-3 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 libreadline6_6.2-7 libselinux1_2.1.0-4 libsepol1_2.1.0-1.1 libsigc++-2.0-0c2a_2.2.9-1 libslang2_2.2.4-3 libsqlite3-0_3.7.9-2 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 libxapian22_1.2.7-1 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 netbase_4.47 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 sbuild-build-depends-bwa-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 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 │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Unpack source
+─────────────
+
+gpgv: keyblock resource `/home/buildd2/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Tue Nov 22 02:41:12 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_0.6.0-2.dsc
+dpkg-source: info: extracting bwa in bwa-0.6.0
+dpkg-source: info: unpacking bwa_0.6.0-2.tar.gz
+
+Check disc space
+────────────────
+
+
+dpkg-buildpackage
+─────────────────
+
+dpkg-buildpackage: source package bwa
+dpkg-buildpackage: source version 0.6.0-2
+ dpkg-source --before-build bwa-0.6.0
+dpkg-buildpackage: host architecture mips
+ fakeroot debian/rules clean
+dh clean
+ dh_testdir
+ dh_auto_clean
+make[1]: Entering directory `/build/buildd2-bwa_0.6.0-2-mips-G3dIR8/bwa-0.6.0'
+rm -f gmon.out *.o a.out bwa *~ *.a
+make[1]: Leaving directory `/build/buildd2-bwa_0.6.0-2-mips-G3dIR8/bwa-0.6.0'
+ dh_clean
+ debian/rules build
+dh build
+ dh_testdir
+ dh_auto_configure
+ debian/rules override_dh_auto_build
+make[1]: Entering directory `/build/buildd2-bwa_0.6.0-2-mips-G3dIR8/bwa-0.6.0'
+dh_auto_build -- CFLAGS="-Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro" DFLAGS="-DHAVE_PTHREAD -D_NO_SSE2"
+make[2]: Entering directory `/build/buildd2-bwa_0.6.0-2-mips-G3dIR8/bwa-0.6.0'
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 QSufSort.c -o QSufSort.o
+QSufSort.c: In function 'QSufSortSuffixSort':
+QSufSort.c:62:10: warning: variable 'maxNumInputSymbol' set but not used [-Wunused-but-set-variable]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt_gen.c -o bwt_gen.o
+bwt_gen.c: In function 'BWTIncBuildRelativeRank':
+bwt_gen.c:873:10: warning: variable 'oldInverseSa0RelativeRank' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncMergeBwt':
+bwt_gen.c:947:15: warning: variable 'bitsInWordMinusBitPerChar' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncConstructFromPacked':
+bwt_gen.c:1452:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwt_gen.c:1468:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwt_gen.c:1483:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 utils.c -o utils.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt.c -o bwt.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtio.c -o bwtio.o
+bwtio.c: In function 'bwt_restore_bwt':
+bwtio.c:62:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:63:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:64:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c: In function 'bwt_restore_sa':
+bwtio.c:36:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:38:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:39:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:40:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:47:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtaln.c -o bwtaln.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtgap.c -o bwtgap.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 is.c -o is.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bntseq.c -o bntseq.o
+bntseq.c: In function 'bns_restore_core':
+bntseq.c:98:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:106:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:114:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:123:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:129:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtmisc.c -o bwtmisc.o
+bwtmisc.c: In function 'bwa_pac2cspac_core':
+bwtmisc.c:172:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtmisc.c: In function 'bwt_pac2bwt':
+bwtmisc.c:72:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtmisc.c: In function 'bwa_seq_len':
+bwtmisc.c:51:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtindex.c -o bwtindex.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 ksw.c -o ksw.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 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 -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 simple_dp.c -o simple_dp.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwaseqio.c -o bwaseqio.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwase.c -o bwase.o
+bwase.c: In function 'bwa_aln2seq_core':
+bwase.c:74:15: warning: variable 'k' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_print_sam1':
+bwase.c:447:17: warning: variable 'm_is_N' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_sai2sam_se_core':
+bwase.c:603:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:619:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:624:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c: In function 'bwa_refine_gapped':
+bwase.c:310:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:316:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwape.c -o bwape.o
+bwape.c: In function 'bwa_sai2sam_pe_core':
+bwape.c:683:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:686:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:697:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c: In function 'bwa_paired_sw':
+bwape.c:527:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c: In function 'bwa_cal_pac_pos_pe':
+bwape.c:312:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:316:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 kstring.c -o kstring.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 cs2nt.c -o cs2nt.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_core.c -o bwtsw2_core.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_main.c -o bwtsw2_main.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_aux.c -o bwtsw2_aux.o
+bwtsw2_aux.c: In function 'gen_cigar':
+bwtsw2_aux.c:186:7: warning: variable 'score' set but not used [-Wunused-but-set-variable]
+bwtsw2_aux.c: In function 'bsw2_aln':
+bwtsw2_aux.c:734:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt_lite.c -o bwt_lite.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_chain.c -o bwtsw2_chain.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bamlite.c -o bamlite.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 fastmap.c -o fastmap.o
+fastmap.c: In function 'main_fastmap':
+fastmap.c:54:3: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'size_t' [-Wformat]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_pair.c -o bwtsw2_pair.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 main.c -o main.o
+gcc -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 QSufSort.o bwt_gen.o utils.o bwt.o bwtio.o bwtaln.o bwtgap.o is.o bntseq.o bwtmisc.o bwtindex.o ksw.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 fastmap.o bwtsw2_pair.o main.o -o bwa -lm -lz -lpthread
+make[2]: Leaving directory `/build/buildd2-bwa_0.6.0-2-mips-G3dIR8/bwa-0.6.0'
+make[1]: Leaving directory `/build/buildd2-bwa_0.6.0-2-mips-G3dIR8/bwa-0.6.0'
+ dh_auto_test
+ fakeroot debian/rules binary-arch
+dh binary-arch
+ dh_testroot -a
+ dh_prep -a
+ dh_installdirs -a
+ dh_auto_install -a
+ dh_install -a
+ dh_installdocs -a
+ dh_installchangelogs -a
+ dh_installexamples -a
+ dh_installman -a
+ dh_installcatalogs -a
+ dh_installcron -a
+ dh_installdebconf -a
+ dh_installemacsen -a
+ dh_installifupdown -a
+ dh_installinfo -a
+ dh_installinit -a
+ dh_installmenu -a
+ dh_installmime -a
+ dh_installmodules -a
+ dh_installlogcheck -a
+ dh_installlogrotate -a
+ dh_installpam -a
+ dh_installppp -a
+ 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
+ dh_perl -a
+ dh_usrlocal -a
+ dh_link -a
+ dh_compress -a
+ dh_fixperms -a
+ dh_strip -a
+ dh_makeshlibs -a
+ dh_shlibdeps -a
+ dh_installdeb -a
+ dh_gencontrol -a
+dpkg-gencontrol: warning: package bwa: unused substitution variable ${perl:Depends}
+ dh_md5sums -a
+ dh_builddeb -a
+dpkg-deb: building package `bwa' in `../bwa_0.6.0-2_mips.deb'.
+ dpkg-genchanges -B -mmips Build Daemon (corelli) <buildd_mips-corelli2 at buildd.debian.org> >../bwa_0.6.0-2_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-0.6.0
+dpkg-buildpackage: binary only upload (no source included)
+────────────────────────────────────────────────────────────────────────────────
+Build finished at 20111122-0328
+
+bwa_0.6.0-2_mips.changes:
+Format: 1.8
+Date: Tue, 22 Nov 2011 11:32:11 +0900
+Source: bwa
+Binary: bwa
+Architecture: mips
+Version: 0.6.0-2
+Distribution: experimental
+Urgency: low
+Maintainer: mips Build Daemon (corelli) <buildd_mips-corelli2 at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ bwa - Burrows-Wheeler Aligner
+Closes: 648803
+Changes:
+ bwa (0.6.0-2) experimental; urgency=low
+ .
+ [9410de3] Disable SSE2 everywhere except on amd64 (Closes: #648803).
+ [fb4c559] Reimplementation of Standard SW for when SSE2 is unavailable.
+ cherry picked from upstream commit 182cb2e.
+ This commit modifies upstream sources.
+ [9c93ccd] Use native format to bypass mandatory patch system.
+Checksums-Sha1:
+ 150669980059ea5ec485d8370523dd94732d913c 180116 bwa_0.6.0-2_mips.deb
+Checksums-Sha256:
+ 667d9e6922ee9f89a9357fe880fb572c59429bf18ffdccae71034074f726e829 180116 bwa_0.6.0-2_mips.deb
+Files:
+ bf92f6525dc95d86ebb73be422423227 180116 science optional bwa_0.6.0-2_mips.deb
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Package contents │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+bwa_0.6.0-2_mips.deb
+────────────────────
+
+ new debian package, version 2.0.
+ size 180116 bytes: control archive= 994 bytes.
+ 773 bytes, 17 lines control
+ 610 bytes, 10 lines md5sums
+ Package: bwa
+ Version: 0.6.0-2
+ Architecture: mips
+ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+ Installed-Size: 342
+ Depends: libc6 (>= 2.7), zlib1g (>= 1:1.1.4)
+ Suggests: samtools
+ Section: science
+ Priority: optional
+ Homepage: http://bio-bwa.sourceforge.net/
+ Description: Burrows-Wheeler Aligner
+ Burrows-Wheeler Aligner (BWA) is a program that aligns relatively short
+ nucleotide sequences against a long reference sequence such as the human
+ genome. It implements two algorithms, bwa-short and BWA-SW. The former works
+ for query sequences shorter than 200 bp and the latter for longer sequences up
+ 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 2011-11-22 03:27 ./
+drwxr-xr-x root/root 0 2011-11-22 03:27 ./usr/
+drwxr-xr-x root/root 0 2011-11-22 03:27 ./usr/share/
+drwxr-xr-x root/root 0 2011-11-22 03:27 ./usr/share/bwa/
+-rwxr-xr-x root/root 730 2011-11-22 01:55 ./usr/share/bwa/xa2multi.pl
+-rwxr-xr-x root/root 616 2011-11-22 01:55 ./usr/share/bwa/qualfa2fq.pl
+-rwxr-xr-x root/root 3176 2011-11-22 01:55 ./usr/share/bwa/solid2fastq.pl
+drwxr-xr-x root/root 0 2011-11-22 03:27 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-11-22 03:27 ./usr/share/man/man1/
+-rw-r--r-- root/root 7745 2011-11-22 03:27 ./usr/share/man/man1/bwa.1.gz
+drwxr-xr-x root/root 0 2011-11-22 03:27 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-11-22 03:27 ./usr/share/doc/bwa/
+-rw-r--r-- root/root 17912 2011-11-22 01:55 ./usr/share/doc/bwa/changelog.gz
+-rw-r--r-- root/root 1471 2011-11-22 02:32 ./usr/share/doc/bwa/changelog.Debian.gz
+-rw-r--r-- root/root 634 2011-11-22 01:55 ./usr/share/doc/bwa/README
+-rw-r--r-- root/root 2785 2011-11-22 01:55 ./usr/share/doc/bwa/copyright
+-rw-r--r-- root/root 6680 2011-11-22 01:55 ./usr/share/doc/bwa/NEWS.gz
+drwxr-xr-x root/root 0 2011-11-22 03:28 ./usr/bin/
+-rwxr-xr-x root/root 267428 2011-11-22 03:28 ./usr/bin/bwa
+
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Finished │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /var/lib/schroot/mount/sid-experimental-mips-sbuild-72fd90dc-4c0c-4012-9487-2f9ba9501a81/build/buildd2-bwa_0.6.0-2-mips-G3dIR8
+Not cleaning session: cloned chroot in use
+Can't open average time db /var/lib/sbuild/avg-build-times
+Can't open average space db /var/lib/sbuild/avg-build-space
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Architecture: mips
+Build-Space: 3052
+Build-Time: 262
+Distribution: experimental
+Install-Time: 262
+Job: bwa_0.6.0-2
+Package: bwa
+Package-Time: 664
+Source-Version: 0.6.0-2
+Space: 3052
+Status: successful
+Version: 0.6.0-2
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20111122-0328
+Build needed 00:11:04, 3052k disc space
+Signature with key '102A90D8' requested:
+
+From buildd at phrixos.ayous.org Tue Nov 22 03:25:18 2011
+Return-path: <buildd at phrixos.ayous.org>
+Received: from phrixos.ayous.org ([2001:a60:f006:deb:223:9eff:fe00:f7c]
+ helo=alius.ayous.org)
+ by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at phrixos.ayous.org>)
+ id 1RSgyy-0006gu-T3
+ for logs at buildd.debian.org; Tue, 22 Nov 2011 03:25:18 +0000
+Received: from buildd by phrixos.ayous.org with local (Exim 4.72)
+ (envelope-from <buildd at phrixos.ayous.org>)
+ id 1RSgyv-0004UV-Sq; Tue, 22 Nov 2011 03:25:13 +0000
+Date: Tue, 22 Nov 2011 03:25:13 +0000
+Message-Id: <E1RSgyv-0004UV-Sq at phrixos.ayous.org>
+From: buildd on phrixos <buildd at phrixos.ayous.org>
+To: aba+buildd_phrixos at not.so.argh.org,logs at buildd.debian.org
+Subject: Log for successful build of bwa_0.6.0-2 on mipsel (dist=experimental)
+Content-Type: text/plain; charset=UTF-8
+Content-Transfer-Encoding: 8bit
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.60.0 (23 Feb 2010) on phrixos.ayous.org
+
+╔══════════════════════════════════════════════════════════════════════════════╗
+║ bwa 0.6.0-2 (mipsel) 22 Nov 2011 03:19 ║
+╚══════════════════════════════════════════════════════════════════════════════╝
+
+Package: bwa
+Version: 0.6.0-2
+Architecture: mipsel
+Chroot Build Dir: /var/lib/schroot/mount/sid-experimental-mipsel-sbuild-bd93e7a3-d660-4874-a222-38dde256cbad/build/buildd-bwa_0.6.0-2-mipsel-63ZhFl
+Start Time: 20111122-0319
+Get:1 http://incoming.debian.org unstable InRelease [160 kB]
+Get:2 http://incoming.debian.org experimental InRelease [139 kB]
+Get:3 http://mirror.ayous.org unstable InRelease [160 kB]
+Get:4 http://mirror.ayous.org experimental InRelease [139 kB]
+Ign http://mirror.ayous.org unstable/contrib TranslationIndex
+Get:5 http://mirror.ayous.org unstable/main TranslationIndex [2045 B]
+Get:6 http://mirror.ayous.org unstable/main Sources [7464 kB]
+Ign http://incoming.debian.org InRelease
+Ign http://incoming.debian.org InRelease
+Ign http://incoming.debian.org unstable/contrib TranslationIndex
+Get:7 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
+Ign http://incoming.debian.org experimental/contrib TranslationIndex
+Ign http://incoming.debian.org experimental/main TranslationIndex
+Get:8 http://incoming.debian.org Release.gpg [836 B]
+Get:9 http://incoming.debian.org Release.gpg [836 B]
+Get:10 http://incoming.debian.org unstable/main Sources [7464 kB]
+Get:11 http://mirror.ayous.org unstable/contrib Sources [67.8 kB]
+Get:12 http://mirror.ayous.org unstable/non-free Sources [122 kB]
+Get:13 http://mirror.ayous.org unstable/main mipsel Packages [10.0 MB]
+Get:14 http://incoming.debian.org unstable/contrib Sources [67.8 kB]
+Get:15 http://incoming.debian.org unstable/non-free Sources [122 kB]
+Get:16 http://incoming.debian.org unstable/main mipsel Packages [10.0 MB]
+Get:17 http://mirror.ayous.org unstable/contrib mipsel Packages [68.7 kB]
+Ign http://mirror.ayous.org experimental/contrib TranslationIndex
+Ign http://mirror.ayous.org experimental/main TranslationIndex
+Get:18 http://mirror.ayous.org experimental/main Sources [226 kB]
+Get:19 http://mirror.ayous.org experimental/contrib Sources [1265 B]
+Get:20 http://mirror.ayous.org experimental/non-free Sources [2499 B]
+Get:21 http://mirror.ayous.org experimental/main mipsel Packages [421 kB]
+Get:22 http://mirror.ayous.org experimental/contrib mipsel Packages [1712 B]
+Ign http://mirror.ayous.org unstable/contrib Translation-en
+Ign http://mirror.ayous.org experimental/contrib Translation-en
+Ign http://mirror.ayous.org experimental/main Translation-en
+Get:23 http://incoming.debian.org unstable/contrib mipsel Packages [68.7 kB]
+Get:24 http://incoming.debian.org experimental/main Sources [226 kB]
+Get:25 http://incoming.debian.org experimental/contrib Sources [1265 B]
+Get:26 http://incoming.debian.org experimental/non-free Sources [2499 B]
+Get:27 http://incoming.debian.org experimental/main mipsel Packages [421 kB]
+Get:28 http://incoming.debian.org experimental/contrib mipsel Packages [1712 B]
+Get:29 http://incoming.debian.org Release [1604 B]
+Get:30 http://incoming.debian.org Release [1626 B]
+Get:31 http://incoming.debian.org Sources [39.1 kB]
+Get:32 http://incoming.debian.org Packages [491 kB]
+Get:33 http://incoming.debian.org Sources [2966 B]
+Get:34 http://incoming.debian.org Packages [36.7 kB]
+Ign http://incoming.debian.org unstable/contrib Translation-en
+Ign http://incoming.debian.org experimental/contrib Translation-en
+Ign http://incoming.debian.org experimental/main Translation-en
+Ign http://incoming.debian.org Translation-en
+Ign http://incoming.debian.org Translation-en
+Fetched 38.0 MB in 1min 10s (541 kB/s)
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Fetch source files │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Check APT
+─────────
+
+Checking available source versions...
+
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+NOTICE: 'bwa' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/debian-med/bwa.git
+Need to get 171 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-experimental/ bwa 0.6.0-2 (dsc) [1681 B]
+Get:2 http://incoming.debian.org/buildd-experimental/ bwa 0.6.0-2 (tar) [169 kB]
+Fetched 171 kB in 1s (122 kB/s)
+Download complete and in download only mode
+
+Check arch
+──────────
+
+** Using build dependencies supplied by package:
+Build-Depends: debhelper (>= 8.9.4~), zlib1g-dev
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install build dependencies (aptitude-based resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following extra packages will be installed:
+ libboost-iostreams1.46.1 libcwidget3 libept1 libncursesw5 libsigc++-2.0-0c2a
+ libsqlite3-0 libxapian22
+Suggested packages:
+ tasksel debtags libcwidget-dev xapian-tools
+Recommended packages:
+ aptitude-doc-en aptitude-doc apt-xapian-index libparse-debianchangelog-perl
+ libgpm2
+The following NEW packages will be installed:
+ aptitude libboost-iostreams1.46.1 libcwidget3 libept1 libncursesw5
+ libsigc++-2.0-0c2a libsqlite3-0 libxapian22
+0 upgraded, 8 newly installed, 0 to remove and 10 not upgraded.
+Need to get 6208 kB of archives.
+After this operation, 18.4 MB of additional disk space will be used.
+Get:1 http://mirror.ayous.org/debian/ unstable/main libncursesw5 mipsel 5.9-4 [308 kB]
+Get:2 http://mirror.ayous.org/debian/ unstable/main libboost-iostreams1.46.1 mipsel 1.46.1-7+b1 [53.7 kB]
+Get:3 http://mirror.ayous.org/debian/ unstable/main libsigc++-2.0-0c2a mipsel 2.2.9-1 [41.6 kB]
+Get:4 http://mirror.ayous.org/debian/ unstable/main libcwidget3 mipsel 0.5.16-3.1 [323 kB]
+Get:5 http://mirror.ayous.org/debian/ unstable/main libxapian22 mipsel 1.2.7-1 [1156 kB]
+Get:6 http://mirror.ayous.org/debian/ unstable/main libept1 mipsel 1.0.5 [138 kB]
+Get:7 http://mirror.ayous.org/debian/ unstable/main libsqlite3-0 mipsel 3.7.9-2 [449 kB]
+Get:8 http://mirror.ayous.org/debian/ unstable/main aptitude mipsel 0.6.4-1.2 [3738 kB]
+debconf: delaying package configuration, since apt-utils is not installed
+Fetched 6208 kB in 0s (7010 kB/s)
+Selecting previously unselected package libncursesw5.
+(Reading database ... 10678 files and directories currently installed.)
+Unpacking libncursesw5 (from .../libncursesw5_5.9-4_mipsel.deb) ...
+Selecting previously unselected package libboost-iostreams1.46.1.
+Unpacking libboost-iostreams1.46.1 (from .../libboost-iostreams1.46.1_1.46.1-7+b1_mipsel.deb) ...
+Selecting previously unselected package libsigc++-2.0-0c2a.
+Unpacking libsigc++-2.0-0c2a (from .../libsigc++-2.0-0c2a_2.2.9-1_mipsel.deb) ...
+Selecting previously unselected package libcwidget3.
+Unpacking libcwidget3 (from .../libcwidget3_0.5.16-3.1_mipsel.deb) ...
+Selecting previously unselected package libxapian22.
+Unpacking libxapian22 (from .../libxapian22_1.2.7-1_mipsel.deb) ...
+Selecting previously unselected package libept1.
+Unpacking libept1 (from .../libept1_1.0.5_mipsel.deb) ...
+Selecting previously unselected package libsqlite3-0.
+Unpacking libsqlite3-0 (from .../libsqlite3-0_3.7.9-2_mipsel.deb) ...
+Selecting previously unselected package aptitude.
+Unpacking aptitude (from .../aptitude_0.6.4-1.2_mipsel.deb) ...
+Setting up libncursesw5 (5.9-4) ...
+Setting up libboost-iostreams1.46.1 (1.46.1-7+b1) ...
+Setting up libsigc++-2.0-0c2a (2.2.9-1) ...
+Setting up libcwidget3 (0.5.16-3.1) ...
+Setting up libxapian22 (1.2.7-1) ...
+Setting up libept1 (1.0.5) ...
+Setting up libsqlite3-0 (3.7.9-2) ...
+Setting up aptitude (0.6.4-1.2) ...
+update-alternatives: using /usr/bin/aptitude-curses to provide /usr/bin/aptitude (aptitude) in auto mode.
+dpkg-deb: building package `sbuild-build-depends-bwa-dummy' in `/build/buildd-bwa_0.6.0-2-mipsel-63ZhFl/buildd-bwa-mipsel-oRSqD_/sbuild-build-depends-bwa-dummy.deb'.
+Selecting previously unselected package sbuild-build-depends-bwa-dummy.
+(Reading database ... 10883 files and directories currently installed.)
+Unpacking sbuild-build-depends-bwa-dummy (from .../sbuild-build-depends-bwa-dummy.deb) ...
+dpkg: dependency problems prevent configuration of sbuild-build-depends-bwa-dummy:
+ sbuild-build-depends-bwa-dummy depends on debhelper (>= 8.9.4~); however:
+ Package debhelper is not installed.
+ sbuild-build-depends-bwa-dummy depends on zlib1g-dev; however:
+ Package zlib1g-dev is not installed.
+dpkg: error processing sbuild-build-depends-bwa-dummy (--install):
+ dependency problems - leaving unconfigured
+Errors were encountered while processing:
+ sbuild-build-depends-bwa-dummy
+aptitude -y --without-recommends -o APT::Install-Recommends=false -o Aptitude::ProblemResolver::StepScore=100 -o Aptitude::ProblemResolver::Hints::KeepDummy=reject sbuild-build-depends-bwa-dummy :UNINST -o Aptitude::ProblemResolver::Keep-All-Tier=55000 -o Aptitude::ProblemResolver::Remove-Essential-Tier=maximum install sbuild-build-depends-bwa-dummy
+Reading package lists...
+Building dependency tree...
+Reading state information...
+Initializing package states...
+Writing extended state information...
+The following NEW packages will be installed:
+ bsdmainutils{a} debhelper{a} file{a} gettext{a} gettext-base{a}
+ groff-base{a} html2text{a} intltool-debian{a} libcroco3{a} libffi5{a}
+ libglib2.0-0{a} libmagic1{a} libpcre3{a} libpipeline1{a} libunistring0{a}
+ libxml2{a} man-db{a} po-debconf{a} zlib1g-dev{a}
+The following partially installed packages will be configured:
+ sbuild-build-depends-bwa-dummy
+0 packages upgraded, 19 newly installed, 0 to remove and 10 not upgraded.
+Need to get 9278 kB of archives. After unpacking 26.9 MB will be used.
+Writing extended state information...
+Get: 1 http://mirror.ayous.org/debian/ unstable/main libmagic1 mipsel 5.09-2 [247 kB]
+Get: 2 http://mirror.ayous.org/debian/ unstable/main file mipsel 5.09-2 [52.0 kB]
+Get: 3 http://mirror.ayous.org/debian/ unstable/main html2text mipsel 1.3.2a-15 [103 kB]
+Get: 4 http://mirror.ayous.org/debian/ unstable/main libffi5 mipsel 3.0.10-3 [22.8 kB]
+Get: 5 http://mirror.ayous.org/debian/ unstable/main libpcre3 mipsel 8.12-4 [227 kB]
+Get: 6 http://mirror.ayous.org/debian/ unstable/main libglib2.0-0 mipsel 2.30.2-4 [1747 kB]
+Get: 7 http://mirror.ayous.org/debian/ unstable/main libxml2 mipsel 2.7.8.dfsg-5 [858 kB]
+Get: 8 http://mirror.ayous.org/debian/ unstable/main libcroco3 mipsel 0.6.2-2 [103 kB]
+Get: 9 http://mirror.ayous.org/debian/ unstable/main libunistring0 mipsel 0.9.3-5 [407 kB]
+Get: 10 http://mirror.ayous.org/debian/ unstable/main gettext-base mipsel 0.18.1.1-5 [133 kB]
+Get: 11 http://mirror.ayous.org/debian/ unstable/main gettext mipsel 0.18.1.1-5 [2008 kB]
+Get: 12 http://mirror.ayous.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get: 13 http://mirror.ayous.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get: 14 http://mirror.ayous.org/debian/ unstable/main groff-base mipsel 1.21-6 [1142 kB]
+Get: 15 http://mirror.ayous.org/debian/ unstable/main bsdmainutils mipsel 8.2.3 [208 kB]
+Get: 16 http://mirror.ayous.org/debian/ unstable/main libpipeline1 mipsel 1.2.0-5 [35.3 kB]
+Get: 17 http://mirror.ayous.org/debian/ unstable/main man-db mipsel 2.6.0.2-3 [986 kB]
+Get: 18 http://mirror.ayous.org/debian/ unstable/main debhelper all 8.9.11 [552 kB]
+Get: 19 http://mirror.ayous.org/debian/ unstable/main zlib1g-dev mipsel 1:1.2.3.4.dfsg-3 [192 kB]
+Fetched 9278 kB in 1s (6791 kB/s)
+debconf: delaying package configuration, since apt-utils is not installed
+Selecting previously unselected package libmagic1.
+(Reading database ... 10883 files and directories currently installed.)
+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 html2text.
+Unpacking html2text (from .../html2text_1.3.2a-15_mipsel.deb) ...
+Selecting previously unselected package libffi5.
+Unpacking libffi5 (from .../libffi5_3.0.10-3_mipsel.deb) ...
+Selecting previously unselected package libpcre3.
+Unpacking libpcre3 (from .../libpcre3_8.12-4_mipsel.deb) ...
+Selecting previously unselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.30.2-4_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 gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-5_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 groff-base.
+Unpacking groff-base (from .../groff-base_1.21-6_mipsel.deb) ...
+Selecting previously unselected package bsdmainutils.
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.3_mipsel.deb) ...
+Selecting previously unselected package libpipeline1.
+Unpacking libpipeline1 (from .../libpipeline1_1.2.0-5_mipsel.deb) ...
+Selecting previously unselected package man-db.
+Unpacking man-db (from .../man-db_2.6.0.2-3_mipsel.deb) ...
+Selecting previously unselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.9.11_all.deb) ...
+Selecting previously unselected package zlib1g-dev.
+Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_mipsel.deb) ...
+Setting up libmagic1 (5.09-2) ...
+Setting up file (5.09-2) ...
+Setting up html2text (1.3.2a-15) ...
+Setting up libffi5 (3.0.10-3) ...
+Setting up libpcre3 (8.12-4) ...
+Setting up libglib2.0-0 (2.30.2-4) ...
+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 gettext-base (0.18.1.1-5) ...
+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 groff-base (1.21-6) ...
+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 libpipeline1 (1.2.0-5) ...
+Setting up man-db (2.6.0.2-3) ...
+debconf: unable to initialize frontend: Dialog
+debconf: (TERM is not set, so the dialog frontend is not usable.)
+debconf: falling back to frontend: Readline
+debconf: unable to initialize frontend: Readline
+debconf: (This frontend requires a controlling tty.)
+debconf: falling back to frontend: Teletype
+Building database of manual pages ...
+Setting up debhelper (8.9.11) ...
+Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
+Setting up sbuild-build-depends-bwa-dummy (0.invalid.0) ...
+Reading package lists...
+Building dependency tree...
+Reading state information...
+Reading extended state information...
+Initializing package states...
+Writing extended state information...
+Kernel: Linux 2.6.36-rc6-loongson-2f mipsel (mips64)
+Toolchain package versions: libc6-dev_2.13-21 dpkg-dev_1.16.1.1 linux-libc-dev_3.0.0-6 gcc-4.6_4.6.2-4 g++-4.6_4.6.2-4 binutils_2.21.90.20111025-1 libstdc++6-4.6-dev_4.6.2-4 libstdc++6_4.6.2-4
+Package versions: apt_0.8.15.9 aptitude_0.6.4-1.2 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 debconf-english_1.5.38 debfoster_2.7-1.1 debhelper_8.9.11 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 libboost-iostreams1.46.1_1.46.1-7+b1 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 libcwidget3_0.5.16-3.1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.1.1 libept1_1.0.5 libffi5_3.0.10-3 libgc1c2_1:7.1-8 libgcc1_1:4.6.2-4 libgdbm3_1.8.3-10 libglib2.0-0_2.30.2-4 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 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 libreadline6_6.2-7 libselinux1_2.1.0-4 libsepol1_2.1.0-1.1 libsigc++-2.0-0c2a_2.2.9-1 libslang2_2.2.4-3 libsqlite3-0_3.7.9-2 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 libxapian22_1.2.7-1 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 lzma_4.43-14 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 sbuild-build-depends-bwa-dummy_0.invalid.0 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 │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Unpack source
+─────────────
+
+dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::native
+gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Tue Nov 22 02:41:12 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_0.6.0-2.dsc
+dpkg-source: info: extracting bwa in bwa-0.6.0
+dpkg-source: info: unpacking bwa_0.6.0-2.tar.gz
+
+Check disc space
+────────────────
+
+
+dpkg-buildpackage
+─────────────────
+
+dpkg-buildpackage: source package bwa
+dpkg-buildpackage: source version 0.6.0-2
+ dpkg-source --before-build bwa-0.6.0
+dpkg-buildpackage: host architecture mipsel
+ /usr/bin/fakeroot debian/rules clean
+dh clean
+ dh_testdir
+ dh_auto_clean
+make[1]: Entering directory `/build/buildd-bwa_0.6.0-2-mipsel-63ZhFl/bwa-0.6.0'
+rm -f gmon.out *.o a.out bwa *~ *.a
+make[1]: Leaving directory `/build/buildd-bwa_0.6.0-2-mipsel-63ZhFl/bwa-0.6.0'
+ dh_clean
+ debian/rules build
+dh build
+ dh_testdir
+ dh_auto_configure
+ debian/rules override_dh_auto_build
+make[1]: Entering directory `/build/buildd-bwa_0.6.0-2-mipsel-63ZhFl/bwa-0.6.0'
+dh_auto_build -- CFLAGS="-Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro" DFLAGS="-DHAVE_PTHREAD -D_NO_SSE2"
+make[2]: Entering directory `/build/buildd-bwa_0.6.0-2-mipsel-63ZhFl/bwa-0.6.0'
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 QSufSort.c -o QSufSort.o
+QSufSort.c: In function 'QSufSortSuffixSort':
+QSufSort.c:62:10: warning: variable 'maxNumInputSymbol' set but not used [-Wunused-but-set-variable]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt_gen.c -o bwt_gen.o
+bwt_gen.c: In function 'BWTIncBuildRelativeRank':
+bwt_gen.c:873:10: warning: variable 'oldInverseSa0RelativeRank' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncMergeBwt':
+bwt_gen.c:947:15: warning: variable 'bitsInWordMinusBitPerChar' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncConstructFromPacked':
+bwt_gen.c:1452:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwt_gen.c:1468:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwt_gen.c:1483:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 utils.c -o utils.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt.c -o bwt.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtio.c -o bwtio.o
+bwtio.c: In function 'bwt_restore_bwt':
+bwtio.c:62:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:63:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:64:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c: In function 'bwt_restore_sa':
+bwtio.c:36:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:38:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:39:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:40:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:47:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtaln.c -o bwtaln.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtgap.c -o bwtgap.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 is.c -o is.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bntseq.c -o bntseq.o
+bntseq.c: In function 'bns_restore_core':
+bntseq.c:98:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:106:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:114:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:123:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:129:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtmisc.c -o bwtmisc.o
+bwtmisc.c: In function 'bwa_pac2cspac_core':
+bwtmisc.c:172:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtmisc.c: In function 'bwt_pac2bwt':
+bwtmisc.c:72:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtmisc.c: In function 'bwa_seq_len':
+bwtmisc.c:51:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtindex.c -o bwtindex.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 ksw.c -o ksw.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 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 -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 simple_dp.c -o simple_dp.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwaseqio.c -o bwaseqio.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwase.c -o bwase.o
+bwase.c: In function 'bwa_aln2seq_core':
+bwase.c:74:15: warning: variable 'k' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_print_sam1':
+bwase.c:447:17: warning: variable 'm_is_N' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_sai2sam_se_core':
+bwase.c:603:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:619:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:624:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c: In function 'bwa_refine_gapped':
+bwase.c:310:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:316:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwape.c -o bwape.o
+bwape.c: In function 'bwa_sai2sam_pe_core':
+bwape.c:683:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:686:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:697:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c: In function 'bwa_paired_sw':
+bwape.c:527:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c: In function 'bwa_cal_pac_pos_pe':
+bwape.c:312:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:316:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 kstring.c -o kstring.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 cs2nt.c -o cs2nt.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_core.c -o bwtsw2_core.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_main.c -o bwtsw2_main.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_aux.c -o bwtsw2_aux.o
+bwtsw2_aux.c: In function 'gen_cigar':
+bwtsw2_aux.c:186:7: warning: variable 'score' set but not used [-Wunused-but-set-variable]
+bwtsw2_aux.c: In function 'bsw2_aln':
+bwtsw2_aux.c:734:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt_lite.c -o bwt_lite.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_chain.c -o bwtsw2_chain.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bamlite.c -o bamlite.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 fastmap.c -o fastmap.o
+fastmap.c: In function 'main_fastmap':
+fastmap.c:54:3: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'size_t' [-Wformat]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_pair.c -o bwtsw2_pair.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 main.c -o main.o
+gcc -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 QSufSort.o bwt_gen.o utils.o bwt.o bwtio.o bwtaln.o bwtgap.o is.o bntseq.o bwtmisc.o bwtindex.o ksw.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 fastmap.o bwtsw2_pair.o main.o -o bwa -lm -lz -lpthread
+make[2]: Leaving directory `/build/buildd-bwa_0.6.0-2-mipsel-63ZhFl/bwa-0.6.0'
+make[1]: Leaving directory `/build/buildd-bwa_0.6.0-2-mipsel-63ZhFl/bwa-0.6.0'
+ dh_auto_test
+ /usr/bin/fakeroot debian/rules binary-arch
+dh binary-arch
+ dh_testroot -a
+ dh_prep -a
+ dh_installdirs -a
+ dh_auto_install -a
+ dh_install -a
+ dh_installdocs -a
+ dh_installchangelogs -a
+ dh_installexamples -a
+ dh_installman -a
+ dh_installcatalogs -a
+ dh_installcron -a
+ dh_installdebconf -a
+ dh_installemacsen -a
+ dh_installifupdown -a
+ dh_installinfo -a
+ dh_installinit -a
+ dh_installmenu -a
+ dh_installmime -a
+ dh_installmodules -a
+ dh_installlogcheck -a
+ dh_installlogrotate -a
+ dh_installpam -a
+ dh_installppp -a
+ 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
+ dh_perl -a
+ dh_usrlocal -a
+ dh_link -a
+ dh_compress -a
+ dh_fixperms -a
+ dh_strip -a
+ dh_makeshlibs -a
+ dh_shlibdeps -a
+ dh_installdeb -a
+ dh_gencontrol -a
+dpkg-gencontrol: warning: package bwa: unused substitution variable ${perl:Depends}
+ dh_md5sums -a
+ dh_builddeb -a
+dpkg-deb: building package `bwa' in `../bwa_0.6.0-2_mipsel.deb'.
+ dpkg-genchanges -B -mmipsel Build Daemon (phrixos) <buildd_mipsel-phrixos at buildd.debian.org> >../bwa_0.6.0-2_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-0.6.0
+dpkg-buildpackage: binary only upload (no source included)
+────────────────────────────────────────────────────────────────────────────────
+Build finished at 20111122-0325
+
+bwa_0.6.0-2_mipsel.changes:
+Format: 1.8
+Date: Tue, 22 Nov 2011 11:32:11 +0900
+Source: bwa
+Binary: bwa
+Architecture: mipsel
+Version: 0.6.0-2
+Distribution: experimental
+Urgency: low
+Maintainer: mipsel Build Daemon (phrixos) <buildd_mipsel-phrixos at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ bwa - Burrows-Wheeler Aligner
+Closes: 648803
+Changes:
+ bwa (0.6.0-2) experimental; urgency=low
+ .
+ [9410de3] Disable SSE2 everywhere except on amd64 (Closes: #648803).
+ [fb4c559] Reimplementation of Standard SW for when SSE2 is unavailable.
+ cherry picked from upstream commit 182cb2e.
+ This commit modifies upstream sources.
+ [9c93ccd] Use native format to bypass mandatory patch system.
+Checksums-Sha1:
+ 75c5c8bd4dfcd2a868e5055cb7fd0e188d031ea4 182538 bwa_0.6.0-2_mipsel.deb
+Checksums-Sha256:
+ 50511f387f552febeb8b0417f12afebc69818f9fe26ec1408ab55cded9a77295 182538 bwa_0.6.0-2_mipsel.deb
+Files:
+ c021a09f2ed88c4e3c1581e04e835722 182538 science optional bwa_0.6.0-2_mipsel.deb
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Package contents │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+bwa_0.6.0-2_mipsel.deb
+──────────────────────
+
+ new debian package, version 2.0.
+ size 182538 bytes: control archive= 995 bytes.
+ 775 bytes, 17 lines control
+ 610 bytes, 10 lines md5sums
+ Package: bwa
+ Version: 0.6.0-2
+ Architecture: mipsel
+ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+ Installed-Size: 342
+ Depends: libc6 (>= 2.7), zlib1g (>= 1:1.1.4)
+ Suggests: samtools
+ Section: science
+ Priority: optional
+ Homepage: http://bio-bwa.sourceforge.net/
+ Description: Burrows-Wheeler Aligner
+ Burrows-Wheeler Aligner (BWA) is a program that aligns relatively short
+ nucleotide sequences against a long reference sequence such as the human
+ genome. It implements two algorithms, bwa-short and BWA-SW. The former works
+ for query sequences shorter than 200 bp and the latter for longer sequences up
+ 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 2011-11-22 03:24 ./
+drwxr-xr-x root/root 0 2011-11-22 03:24 ./usr/
+drwxr-xr-x root/root 0 2011-11-22 03:24 ./usr/share/
+drwxr-xr-x root/root 0 2011-11-22 03:24 ./usr/share/bwa/
+-rwxr-xr-x root/root 616 2011-11-22 01:55 ./usr/share/bwa/qualfa2fq.pl
+-rwxr-xr-x root/root 3176 2011-11-22 01:55 ./usr/share/bwa/solid2fastq.pl
+-rwxr-xr-x root/root 730 2011-11-22 01:55 ./usr/share/bwa/xa2multi.pl
+drwxr-xr-x root/root 0 2011-11-22 03:24 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-11-22 03:24 ./usr/share/doc/bwa/
+-rw-r--r-- root/root 17912 2011-11-22 01:55 ./usr/share/doc/bwa/changelog.gz
+-rw-r--r-- root/root 6680 2011-11-22 01:55 ./usr/share/doc/bwa/NEWS.gz
+-rw-r--r-- root/root 634 2011-11-22 01:55 ./usr/share/doc/bwa/README
+-rw-r--r-- root/root 2785 2011-11-22 01:55 ./usr/share/doc/bwa/copyright
+-rw-r--r-- root/root 1471 2011-11-22 02:32 ./usr/share/doc/bwa/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-11-22 03:24 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-11-22 03:24 ./usr/share/man/man1/
+-rw-r--r-- root/root 7745 2011-11-22 03:24 ./usr/share/man/man1/bwa.1.gz
+drwxr-xr-x root/root 0 2011-11-22 03:24 ./usr/bin/
+-rwxr-xr-x root/root 267428 2011-11-22 03:24 ./usr/bin/bwa
+
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Finished │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
+Purging /var/lib/schroot/mount/sid-experimental-mipsel-sbuild-bd93e7a3-d660-4874-a222-38dde256cbad/build/buildd-bwa_0.6.0-2-mipsel-63ZhFl
+Not removing build depends: cloned chroot in use
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20111122-0325
+Build needed 00:06:07, 3052k disc space
+
diff --git a/mipsel.log b/mipsel.log
index 550e8fa..6da6acf 100644
--- a/mipsel.log
+++ b/mipsel.log
@@ -1,19 +1,19 @@
-From buildd at phrixos.ayous.org Sat Jan 22 19:47:36 2011
+From buildd at phrixos.ayous.org Tue Nov 22 03:25:18 2011
Return-path: <buildd at phrixos.ayous.org>
-Received: from [2001:a60:f006:deb:223:9eff:fe00:f7c] (helo=alius.ayous.org)
+Received: from phrixos.ayous.org ([2001:a60:f006:deb:223:9eff:fe00:f7c]
+ helo=alius.ayous.org)
by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at phrixos.ayous.org>)
- id 1PgjQs-0007Ma-Od
- for logs at buildd.debian.org; Sat, 22 Jan 2011 19:47:36 +0000
+ (Exim 4.72) (envelope-from <buildd at phrixos.ayous.org>)
+ id 1RSgyy-0006gu-T3
+ for logs at buildd.debian.org; Tue, 22 Nov 2011 03:25:18 +0000
Received: from buildd by phrixos.ayous.org with local (Exim 4.72)
(envelope-from <buildd at phrixos.ayous.org>)
- id 1PgjQp-00060n-N8; Sat, 22 Jan 2011 19:47:31 +0000
-Date: Sat, 22 Jan 2011 19:47:31 +0000
-Message-Id: <E1PgjQp-00060n-N8 at phrixos.ayous.org>
+ id 1RSgyv-0004UV-Sq; Tue, 22 Nov 2011 03:25:13 +0000
+Date: Tue, 22 Nov 2011 03:25:13 +0000
+Message-Id: <E1RSgyv-0004UV-Sq at phrixos.ayous.org>
From: buildd on phrixos <buildd at phrixos.ayous.org>
To: aba+buildd_phrixos at not.so.argh.org,logs at buildd.debian.org
-Subject: Log for successful build of bwa_0.5.9~rc-1 on mipsel
- (dist=experimental)
+Subject: Log for successful build of bwa_0.6.0-2 on mipsel (dist=experimental)
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit
Delivered-To: logs at buildd.debian.org
@@ -21,109 +21,65 @@ Delivered-To: logs at buildd.debian.org
sbuild (Debian sbuild) 0.60.0 (23 Feb 2010) on phrixos.ayous.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bwa 0.5.9~rc-1 (mipsel) 22 Jan 2011 19:41 ║
+║ bwa 0.6.0-2 (mipsel) 22 Nov 2011 03:19 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bwa
-Version: 0.5.9~rc-1
+Version: 0.6.0-2
Architecture: mipsel
-Chroot Build Dir: /var/lib/schroot/mount/sid-experimental-mipsel-sbuild-b2939a4e-0652-4122-8c7d-c7be8c392465/build/buildd-bwa_0.5.9~rc-1-mipsel-LDb3tY
-Start Time: 20110122-1941
-Get:1 http://incoming.debian.org unstable Release.gpg [835 B]
-Ign http://incoming.debian.org/debian/ unstable/contrib Translation-en
-Ign http://incoming.debian.org/debian/ unstable/main Translation-en
-Get:2 http://incoming.debian.org experimental Release.gpg [835 B]
-Ign http://incoming.debian.org/debian/ experimental/contrib Translation-en
-Ign http://incoming.debian.org/debian/ experimental/main Translation-en
-Get:3 http://mirror.ayous.org unstable Release.gpg [835 B]
-Ign http://mirror.ayous.org/debian/ unstable/contrib Translation-en
-Get:4 http://incoming.debian.org Release.gpg [835 B]
-Ign http://mirror.ayous.org/debian/ unstable/main Translation-en
-Get:5 http://mirror.ayous.org experimental Release.gpg [835 B]
-Ign http://mirror.ayous.org/debian/ experimental/contrib Translation-en
-Ign http://mirror.ayous.org/debian/ experimental/main Translation-en
-Ign http://incoming.debian.org/buildd-unstable/ Translation-en
-Get:6 http://mirror.ayous.org unstable Release [104 kB]
-Get:7 http://mirror.ayous.org experimental Release [102 kB]
-Ign http://mirror.ayous.org unstable/main Sources
-Ign http://mirror.ayous.org unstable/contrib Sources
-Ign http://mirror.ayous.org unstable/non-free Sources
-Ign http://mirror.ayous.org unstable/main mipsel Packages
-Ign http://mirror.ayous.org unstable/contrib mipsel Packages
-Get:8 http://incoming.debian.org Release.gpg [835 B]
-Ign http://mirror.ayous.org unstable/main Sources
-Ign http://mirror.ayous.org experimental/main Sources
-Ign http://mirror.ayous.org experimental/contrib Sources
-Ign http://mirror.ayous.org experimental/non-free Sources
-Ign http://mirror.ayous.org experimental/main mipsel Packages
-Ign http://mirror.ayous.org experimental/contrib mipsel Packages
-Ign http://mirror.ayous.org unstable/contrib Sources
-Ign http://mirror.ayous.org unstable/non-free Sources
-Ign http://mirror.ayous.org unstable/main mipsel Packages
-Ign http://incoming.debian.org/buildd-experimental/ Translation-en
-Ign http://mirror.ayous.org unstable/contrib mipsel Packages
-Get:9 http://incoming.debian.org unstable Release [104 kB]
-Get:10 http://incoming.debian.org experimental Release [102 kB]
-Get:11 http://mirror.ayous.org unstable/main Sources [5254 kB]
-Get:12 http://incoming.debian.org Release [1604 B]
-Ign http://mirror.ayous.org experimental/main Sources
-Ign http://mirror.ayous.org experimental/contrib Sources
-Ign http://mirror.ayous.org experimental/non-free Sources
-Ign http://mirror.ayous.org experimental/main mipsel Packages
-Ign http://mirror.ayous.org experimental/contrib mipsel Packages
-Get:13 http://incoming.debian.org Release [1625 B]
-Ign http://incoming.debian.org unstable/main Sources
-Ign http://incoming.debian.org unstable/contrib Sources
-Ign http://incoming.debian.org unstable/non-free Sources
-Ign http://incoming.debian.org unstable/main mipsel Packages
-Ign http://incoming.debian.org unstable/contrib mipsel Packages
-Ign http://incoming.debian.org experimental/main Sources
-Ign http://incoming.debian.org experimental/contrib Sources
-Ign http://incoming.debian.org experimental/non-free Sources
-Ign http://incoming.debian.org experimental/main mipsel Packages
-Ign http://incoming.debian.org experimental/contrib mipsel Packages
-Ign http://incoming.debian.org Sources
-Ign http://incoming.debian.org Packages
-Get:14 http://mirror.ayous.org unstable/contrib Sources [46.1 kB]
-Ign http://incoming.debian.org unstable/main Sources
-Get:15 http://mirror.ayous.org unstable/non-free Sources [100 kB]
-Ign http://incoming.debian.org unstable/contrib Sources
-Ign http://incoming.debian.org unstable/non-free Sources
-Get:16 http://mirror.ayous.org unstable/main mipsel Packages [8898 kB]
-Ign http://incoming.debian.org unstable/main mipsel Packages
-Ign http://incoming.debian.org unstable/contrib mipsel Packages
-Ign http://incoming.debian.org experimental/main Sources
-Ign http://incoming.debian.org experimental/contrib Sources
-Ign http://incoming.debian.org experimental/non-free Sources
-Ign http://incoming.debian.org experimental/main mipsel Packages
-Ign http://incoming.debian.org experimental/contrib mipsel Packages
-Ign http://incoming.debian.org Sources
-Ign http://incoming.debian.org Packages
-Ign http://incoming.debian.org Sources
-Ign http://incoming.debian.org Packages
-Get:17 http://incoming.debian.org unstable/main Sources [5254 kB]
-Get:18 http://incoming.debian.org unstable/contrib Sources [46.1 kB]
-Get:19 http://incoming.debian.org unstable/non-free Sources [100 kB]
-Get:20 http://mirror.ayous.org unstable/contrib mipsel Packages [61.1 kB]
-Get:21 http://incoming.debian.org unstable/main mipsel Packages [8898 kB]
-Get:22 http://mirror.ayous.org experimental/main Sources [499 kB]
-Get:23 http://mirror.ayous.org experimental/contrib Sources [4554 B]
-Get:24 http://mirror.ayous.org experimental/non-free Sources [6509 B]
-Get:25 http://mirror.ayous.org experimental/main mipsel Packages [990 kB]
-Get:26 http://mirror.ayous.org experimental/contrib mipsel Packages [5103 B]
-Get:27 http://incoming.debian.org unstable/contrib mipsel Packages [61.1 kB]
-Get:28 http://incoming.debian.org experimental/main Sources [499 kB]
-Get:29 http://incoming.debian.org experimental/contrib Sources [4554 B]
-Get:30 http://incoming.debian.org experimental/non-free Sources [6509 B]
-Get:31 http://incoming.debian.org experimental/main mipsel Packages [990 kB]
-Get:32 http://incoming.debian.org experimental/contrib mipsel Packages [5103 B]
-Ign http://incoming.debian.org Sources
-Ign http://incoming.debian.org Packages
-Get:33 http://incoming.debian.org Sources [9549 B]
-Get:34 http://incoming.debian.org Packages [177 kB]
-Get:35 http://incoming.debian.org Sources [12.1 kB]
-Get:36 http://incoming.debian.org Packages [177 kB]
-Fetched 32.5 MB in 32s (1013 kB/s)
+Chroot Build Dir: /var/lib/schroot/mount/sid-experimental-mipsel-sbuild-bd93e7a3-d660-4874-a222-38dde256cbad/build/buildd-bwa_0.6.0-2-mipsel-63ZhFl
+Start Time: 20111122-0319
+Get:1 http://incoming.debian.org unstable InRelease [160 kB]
+Get:2 http://incoming.debian.org experimental InRelease [139 kB]
+Get:3 http://mirror.ayous.org unstable InRelease [160 kB]
+Get:4 http://mirror.ayous.org experimental InRelease [139 kB]
+Ign http://mirror.ayous.org unstable/contrib TranslationIndex
+Get:5 http://mirror.ayous.org unstable/main TranslationIndex [2045 B]
+Get:6 http://mirror.ayous.org unstable/main Sources [7464 kB]
+Ign http://incoming.debian.org InRelease
+Ign http://incoming.debian.org InRelease
+Ign http://incoming.debian.org unstable/contrib TranslationIndex
+Get:7 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
+Ign http://incoming.debian.org experimental/contrib TranslationIndex
+Ign http://incoming.debian.org experimental/main TranslationIndex
+Get:8 http://incoming.debian.org Release.gpg [836 B]
+Get:9 http://incoming.debian.org Release.gpg [836 B]
+Get:10 http://incoming.debian.org unstable/main Sources [7464 kB]
+Get:11 http://mirror.ayous.org unstable/contrib Sources [67.8 kB]
+Get:12 http://mirror.ayous.org unstable/non-free Sources [122 kB]
+Get:13 http://mirror.ayous.org unstable/main mipsel Packages [10.0 MB]
+Get:14 http://incoming.debian.org unstable/contrib Sources [67.8 kB]
+Get:15 http://incoming.debian.org unstable/non-free Sources [122 kB]
+Get:16 http://incoming.debian.org unstable/main mipsel Packages [10.0 MB]
+Get:17 http://mirror.ayous.org unstable/contrib mipsel Packages [68.7 kB]
+Ign http://mirror.ayous.org experimental/contrib TranslationIndex
+Ign http://mirror.ayous.org experimental/main TranslationIndex
+Get:18 http://mirror.ayous.org experimental/main Sources [226 kB]
+Get:19 http://mirror.ayous.org experimental/contrib Sources [1265 B]
+Get:20 http://mirror.ayous.org experimental/non-free Sources [2499 B]
+Get:21 http://mirror.ayous.org experimental/main mipsel Packages [421 kB]
+Get:22 http://mirror.ayous.org experimental/contrib mipsel Packages [1712 B]
+Ign http://mirror.ayous.org unstable/contrib Translation-en
+Ign http://mirror.ayous.org experimental/contrib Translation-en
+Ign http://mirror.ayous.org experimental/main Translation-en
+Get:23 http://incoming.debian.org unstable/contrib mipsel Packages [68.7 kB]
+Get:24 http://incoming.debian.org experimental/main Sources [226 kB]
+Get:25 http://incoming.debian.org experimental/contrib Sources [1265 B]
+Get:26 http://incoming.debian.org experimental/non-free Sources [2499 B]
+Get:27 http://incoming.debian.org experimental/main mipsel Packages [421 kB]
+Get:28 http://incoming.debian.org experimental/contrib mipsel Packages [1712 B]
+Get:29 http://incoming.debian.org Release [1604 B]
+Get:30 http://incoming.debian.org Release [1626 B]
+Get:31 http://incoming.debian.org Sources [39.1 kB]
+Get:32 http://incoming.debian.org Packages [491 kB]
+Get:33 http://incoming.debian.org Sources [2966 B]
+Get:34 http://incoming.debian.org Packages [36.7 kB]
+Ign http://incoming.debian.org unstable/contrib Translation-en
+Ign http://incoming.debian.org experimental/contrib Translation-en
+Ign http://incoming.debian.org experimental/main Translation-en
+Ign http://incoming.debian.org Translation-en
+Ign http://incoming.debian.org Translation-en
+Fetched 38.0 MB in 1min 10s (541 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -143,19 +99,18 @@ 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 118 kB of source archives.
-Get:1 http://mirror.ayous.org/debian/ experimental/main bwa 0.5.9~rc-1 (dsc) [1915 B]
-Get:2 http://mirror.ayous.org/debian/ experimental/main bwa 0.5.9~rc-1 (tar) [113 kB]
-Get:3 http://mirror.ayous.org/debian/ experimental/main bwa 0.5.9~rc-1 (diff) [3594 B]
-Fetched 118 kB in 1s (90.1 kB/s)
+git://git.debian.org/debian-med/bwa.git
+Need to get 171 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-experimental/ bwa 0.6.0-2 (dsc) [1681 B]
+Get:2 http://incoming.debian.org/buildd-experimental/ bwa 0.6.0-2 (tar) [169 kB]
+Fetched 171 kB in 1s (122 kB/s)
Download complete and in download only mode
Check arch
──────────
** Using build dependencies supplied by package:
-Build-Depends: cdbs, debhelper (>= 8), zlib1g-dev
+Build-Depends: debhelper (>= 8.9.4~), zlib1g-dev
┌──────────────────────────────────────────────────────────────────────────────┐
│ Install build dependencies (aptitude-based resolver) │
@@ -165,7 +120,7 @@ Reading package lists...
Building dependency tree...
Reading state information...
The following extra packages will be installed:
- libboost-iostreams1.42.0 libcwidget3 libept1 libncursesw5 libsigc++-2.0-0c2a
+ libboost-iostreams1.46.1 libcwidget3 libept1 libncursesw5 libsigc++-2.0-0c2a
libsqlite3-0 libxapian22
Suggested packages:
tasksel debtags libcwidget-dev xapian-tools
@@ -173,55 +128,53 @@ Recommended packages:
aptitude-doc-en aptitude-doc apt-xapian-index libparse-debianchangelog-perl
libgpm2
The following NEW packages will be installed:
- aptitude libboost-iostreams1.42.0 libcwidget3 libept1 libncursesw5
+ aptitude libboost-iostreams1.46.1 libcwidget3 libept1 libncursesw5
libsigc++-2.0-0c2a libsqlite3-0 libxapian22
-0 upgraded, 8 newly installed, 0 to remove and 57 not upgraded.
-Need to get 6307 kB of archives.
-After this operation, 20.7 MB of additional disk space will be used.
-Get:1 http://mirror.ayous.org/debian/ unstable/main libboost-iostreams1.42.0 mipsel 1.42.0-4 [55.2 kB]
-Get:2 http://mirror.ayous.org/debian/ unstable/main libncursesw5 mipsel 5.7+20100313-5 [371 kB]
-Get:3 http://mirror.ayous.org/debian/ unstable/main libsigc++-2.0-0c2a mipsel 2.2.4.2-1 [39.2 kB]
-Get:4 http://mirror.ayous.org/debian/ unstable/main libcwidget3 mipsel 0.5.16-3 [270 kB]
-Get:5 http://mirror.ayous.org/debian/ unstable/main libxapian22 mipsel 1.2.4-1 [1158 kB]
-Get:6 http://mirror.ayous.org/debian/ unstable/main libept1 mipsel 1.0.4 [135 kB]
-Get:7 http://mirror.ayous.org/debian/ unstable/main libsqlite3-0 mipsel 3.7.4-2 [423 kB]
-Get:8 http://mirror.ayous.org/debian/ unstable/main aptitude mipsel 0.6.3-3.2 [3856 kB]
+0 upgraded, 8 newly installed, 0 to remove and 10 not upgraded.
+Need to get 6208 kB of archives.
+After this operation, 18.4 MB of additional disk space will be used.
+Get:1 http://mirror.ayous.org/debian/ unstable/main libncursesw5 mipsel 5.9-4 [308 kB]
+Get:2 http://mirror.ayous.org/debian/ unstable/main libboost-iostreams1.46.1 mipsel 1.46.1-7+b1 [53.7 kB]
+Get:3 http://mirror.ayous.org/debian/ unstable/main libsigc++-2.0-0c2a mipsel 2.2.9-1 [41.6 kB]
+Get:4 http://mirror.ayous.org/debian/ unstable/main libcwidget3 mipsel 0.5.16-3.1 [323 kB]
+Get:5 http://mirror.ayous.org/debian/ unstable/main libxapian22 mipsel 1.2.7-1 [1156 kB]
+Get:6 http://mirror.ayous.org/debian/ unstable/main libept1 mipsel 1.0.5 [138 kB]
+Get:7 http://mirror.ayous.org/debian/ unstable/main libsqlite3-0 mipsel 3.7.9-2 [449 kB]
+Get:8 http://mirror.ayous.org/debian/ unstable/main aptitude mipsel 0.6.4-1.2 [3738 kB]
debconf: delaying package configuration, since apt-utils is not installed
-Fetched 6307 kB in 1s (5518 kB/s)
-Selecting previously deselected package libboost-iostreams1.42.0.
-(Reading database ... 10144 files and directories currently installed.)
-Unpacking libboost-iostreams1.42.0 (from .../libboost-iostreams1.42.0_1.42.0-4_mipsel.deb) ...
-Selecting previously deselected package libncursesw5.
-Unpacking libncursesw5 (from .../libncursesw5_5.7+20100313-5_mipsel.deb) ...
-Selecting previously deselected package libsigc++-2.0-0c2a.
-Unpacking libsigc++-2.0-0c2a (from .../libsigc++-2.0-0c2a_2.2.4.2-1_mipsel.deb) ...
-Selecting previously deselected package libcwidget3.
-Unpacking libcwidget3 (from .../libcwidget3_0.5.16-3_mipsel.deb) ...
-Selecting previously deselected package libxapian22.
-Unpacking libxapian22 (from .../libxapian22_1.2.4-1_mipsel.deb) ...
-Selecting previously deselected package libept1.
-Unpacking libept1 (from .../libept1_1.0.4_mipsel.deb) ...
-Selecting previously deselected package libsqlite3-0.
-Unpacking libsqlite3-0 (from .../libsqlite3-0_3.7.4-2_mipsel.deb) ...
-Selecting previously deselected package aptitude.
-Unpacking aptitude (from .../aptitude_0.6.3-3.2_mipsel.deb) ...
-Setting up libboost-iostreams1.42.0 (1.42.0-4) ...
-Setting up libncursesw5 (5.7+20100313-5) ...
-Setting up libsigc++-2.0-0c2a (2.2.4.2-1) ...
-Setting up libcwidget3 (0.5.16-3) ...
-Setting up libxapian22 (1.2.4-1) ...
-Setting up libept1 (1.0.4) ...
-Setting up libsqlite3-0 (3.7.4-2) ...
-Setting up aptitude (0.6.3-3.2) ...
+Fetched 6208 kB in 0s (7010 kB/s)
+Selecting previously unselected package libncursesw5.
+(Reading database ... 10678 files and directories currently installed.)
+Unpacking libncursesw5 (from .../libncursesw5_5.9-4_mipsel.deb) ...
+Selecting previously unselected package libboost-iostreams1.46.1.
+Unpacking libboost-iostreams1.46.1 (from .../libboost-iostreams1.46.1_1.46.1-7+b1_mipsel.deb) ...
+Selecting previously unselected package libsigc++-2.0-0c2a.
+Unpacking libsigc++-2.0-0c2a (from .../libsigc++-2.0-0c2a_2.2.9-1_mipsel.deb) ...
+Selecting previously unselected package libcwidget3.
+Unpacking libcwidget3 (from .../libcwidget3_0.5.16-3.1_mipsel.deb) ...
+Selecting previously unselected package libxapian22.
+Unpacking libxapian22 (from .../libxapian22_1.2.7-1_mipsel.deb) ...
+Selecting previously unselected package libept1.
+Unpacking libept1 (from .../libept1_1.0.5_mipsel.deb) ...
+Selecting previously unselected package libsqlite3-0.
+Unpacking libsqlite3-0 (from .../libsqlite3-0_3.7.9-2_mipsel.deb) ...
+Selecting previously unselected package aptitude.
+Unpacking aptitude (from .../aptitude_0.6.4-1.2_mipsel.deb) ...
+Setting up libncursesw5 (5.9-4) ...
+Setting up libboost-iostreams1.46.1 (1.46.1-7+b1) ...
+Setting up libsigc++-2.0-0c2a (2.2.9-1) ...
+Setting up libcwidget3 (0.5.16-3.1) ...
+Setting up libxapian22 (1.2.7-1) ...
+Setting up libept1 (1.0.5) ...
+Setting up libsqlite3-0 (3.7.9-2) ...
+Setting up aptitude (0.6.4-1.2) ...
update-alternatives: using /usr/bin/aptitude-curses to provide /usr/bin/aptitude (aptitude) in auto mode.
-dpkg-deb: building package `sbuild-build-depends-bwa-dummy' in `/build/buildd-bwa_0.5.9~rc-1-mipsel-LDb3tY/buildd-bwa-mipsel-P9gaXb/sbuild-build-depends-bwa-dummy.deb'.
-Selecting previously deselected package sbuild-build-depends-bwa-dummy.
-(Reading database ... 10352 files and directories currently installed.)
+dpkg-deb: building package `sbuild-build-depends-bwa-dummy' in `/build/buildd-bwa_0.6.0-2-mipsel-63ZhFl/buildd-bwa-mipsel-oRSqD_/sbuild-build-depends-bwa-dummy.deb'.
+Selecting previously unselected package sbuild-build-depends-bwa-dummy.
+(Reading database ... 10883 files and directories currently installed.)
Unpacking sbuild-build-depends-bwa-dummy (from .../sbuild-build-depends-bwa-dummy.deb) ...
dpkg: dependency problems prevent configuration of sbuild-build-depends-bwa-dummy:
- sbuild-build-depends-bwa-dummy depends on cdbs; however:
- Package cdbs is not installed.
- sbuild-build-depends-bwa-dummy depends on debhelper (>= 8); however:
+ sbuild-build-depends-bwa-dummy depends on debhelper (>= 8.9.4~); however:
Package debhelper is not installed.
sbuild-build-depends-bwa-dummy depends on zlib1g-dev; however:
Package zlib1g-dev is not installed.
@@ -236,89 +189,95 @@ Reading state information...
Initializing package states...
Writing extended state information...
The following NEW packages will be installed:
- bsdmainutils{a} cdbs{a} debhelper{a} file{a} gettext{a} gettext-base{a}
- groff-base{a} html2text{a} intltool-debian{a} libcroco3{a}
- libglib2.0-0{a} libmagic1{a} libpcre3{a} libunistring0{a} libxml2{a}
- man-db{a} po-debconf{a} zlib1g-dev{a}
+ bsdmainutils{a} debhelper{a} file{a} gettext{a} gettext-base{a}
+ groff-base{a} html2text{a} intltool-debian{a} libcroco3{a} libffi5{a}
+ libglib2.0-0{a} libmagic1{a} libpcre3{a} libpipeline1{a} libunistring0{a}
+ libxml2{a} man-db{a} po-debconf{a} zlib1g-dev{a}
The following partially installed packages will be configured:
sbuild-build-depends-bwa-dummy
-0 packages upgraded, 18 newly installed, 0 to remove and 57 not upgraded.
-Need to get 9973 kB of archives. After unpacking 30.3 MB will be used.
+0 packages upgraded, 19 newly installed, 0 to remove and 10 not upgraded.
+Need to get 9278 kB of archives. After unpacking 26.9 MB will be used.
Writing extended state information...
-Get:1 http://mirror.ayous.org/debian/ unstable/main libmagic1 mipsel 5.04-5 [238 kB]
-Get:2 http://mirror.ayous.org/debian/ unstable/main file mipsel 5.04-5 [49.5 kB]
-Get:3 http://mirror.ayous.org/debian/ unstable/main html2text mipsel 1.3.2a-15 [103 kB]
-Get:4 http://mirror.ayous.org/debian/ unstable/main libpcre3 mipsel 8.02-1.1 [233 kB]
-Get:5 http://mirror.ayous.org/debian/ unstable/main libglib2.0-0 mipsel 2.24.2-1 [1039 kB]
-Get:6 http://mirror.ayous.org/debian/ unstable/main libxml2 mipsel 2.7.8.dfsg-2 [833 kB]
-Get:7 http://mirror.ayous.org/debian/ unstable/main libcroco3 mipsel 0.6.2-1 [110 kB]
-Get:8 http://mirror.ayous.org/debian/ unstable/main libunistring0 mipsel 0.9.3-3 [411 kB]
-Get:9 http://mirror.ayous.org/debian/ unstable/main gettext-base mipsel 0.18.1.1-3 [152 kB]
-Get:10 http://mirror.ayous.org/debian/ unstable/main gettext mipsel 0.18.1.1-3 [2023 kB]
-Get:11 http://mirror.ayous.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
-Get:12 http://mirror.ayous.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
-Get:13 http://mirror.ayous.org/debian/ unstable/main groff-base mipsel 1.20.1-10 [1188 kB]
-Get:14 http://mirror.ayous.org/debian/ unstable/main bsdmainutils mipsel 8.2.1 [207 kB]
-Get:15 http://mirror.ayous.org/debian/ unstable/main man-db mipsel 2.5.7-8 [1248 kB]
-Get:16 http://mirror.ayous.org/debian/ unstable/main debhelper all 8.0.0 [454 kB]
-Get:17 http://mirror.ayous.org/debian/ unstable/main cdbs all 0.4.89 [1240 kB]
-Get:18 http://mirror.ayous.org/debian/ unstable/main zlib1g-dev mipsel 1:1.2.3.4.dfsg-3 [192 kB]
+Get: 1 http://mirror.ayous.org/debian/ unstable/main libmagic1 mipsel 5.09-2 [247 kB]
+Get: 2 http://mirror.ayous.org/debian/ unstable/main file mipsel 5.09-2 [52.0 kB]
+Get: 3 http://mirror.ayous.org/debian/ unstable/main html2text mipsel 1.3.2a-15 [103 kB]
+Get: 4 http://mirror.ayous.org/debian/ unstable/main libffi5 mipsel 3.0.10-3 [22.8 kB]
+Get: 5 http://mirror.ayous.org/debian/ unstable/main libpcre3 mipsel 8.12-4 [227 kB]
+Get: 6 http://mirror.ayous.org/debian/ unstable/main libglib2.0-0 mipsel 2.30.2-4 [1747 kB]
+Get: 7 http://mirror.ayous.org/debian/ unstable/main libxml2 mipsel 2.7.8.dfsg-5 [858 kB]
+Get: 8 http://mirror.ayous.org/debian/ unstable/main libcroco3 mipsel 0.6.2-2 [103 kB]
+Get: 9 http://mirror.ayous.org/debian/ unstable/main libunistring0 mipsel 0.9.3-5 [407 kB]
+Get: 10 http://mirror.ayous.org/debian/ unstable/main gettext-base mipsel 0.18.1.1-5 [133 kB]
+Get: 11 http://mirror.ayous.org/debian/ unstable/main gettext mipsel 0.18.1.1-5 [2008 kB]
+Get: 12 http://mirror.ayous.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get: 13 http://mirror.ayous.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get: 14 http://mirror.ayous.org/debian/ unstable/main groff-base mipsel 1.21-6 [1142 kB]
+Get: 15 http://mirror.ayous.org/debian/ unstable/main bsdmainutils mipsel 8.2.3 [208 kB]
+Get: 16 http://mirror.ayous.org/debian/ unstable/main libpipeline1 mipsel 1.2.0-5 [35.3 kB]
+Get: 17 http://mirror.ayous.org/debian/ unstable/main man-db mipsel 2.6.0.2-3 [986 kB]
+Get: 18 http://mirror.ayous.org/debian/ unstable/main debhelper all 8.9.11 [552 kB]
+Get: 19 http://mirror.ayous.org/debian/ unstable/main zlib1g-dev mipsel 1:1.2.3.4.dfsg-3 [192 kB]
+Fetched 9278 kB in 1s (6791 kB/s)
debconf: delaying package configuration, since apt-utils is not installed
-Fetched 9973 kB in 1s (5268 kB/s)
-Selecting previously deselected package libmagic1.
-(Reading database ... 10352 files and directories currently installed.)
-Unpacking libmagic1 (from .../libmagic1_5.04-5_mipsel.deb) ...
-Selecting previously deselected package file.
-Unpacking file (from .../file_5.04-5_mipsel.deb) ...
-Selecting previously deselected package html2text.
+Selecting previously unselected package libmagic1.
+(Reading database ... 10883 files and directories currently installed.)
+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 html2text.
Unpacking html2text (from .../html2text_1.3.2a-15_mipsel.deb) ...
-Selecting previously deselected package libpcre3.
-Unpacking libpcre3 (from .../libpcre3_8.02-1.1_mipsel.deb) ...
-Selecting previously deselected package libglib2.0-0.
-Unpacking libglib2.0-0 (from .../libglib2.0-0_2.24.2-1_mipsel.deb) ...
-Selecting previously deselected package libxml2.
-Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_mipsel.deb) ...
-Selecting previously deselected package libcroco3.
-Unpacking libcroco3 (from .../libcroco3_0.6.2-1_mipsel.deb) ...
-Selecting previously deselected package libunistring0.
-Unpacking libunistring0 (from .../libunistring0_0.9.3-3_mipsel.deb) ...
-Selecting previously deselected package gettext-base.
-Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_mipsel.deb) ...
-Selecting previously deselected package gettext.
-Unpacking gettext (from .../gettext_0.18.1.1-3_mipsel.deb) ...
-Selecting previously deselected package intltool-debian.
+Selecting previously unselected package libffi5.
+Unpacking libffi5 (from .../libffi5_3.0.10-3_mipsel.deb) ...
+Selecting previously unselected package libpcre3.
+Unpacking libpcre3 (from .../libpcre3_8.12-4_mipsel.deb) ...
+Selecting previously unselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.30.2-4_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 gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-5_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 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 groff-base.
-Unpacking groff-base (from .../groff-base_1.20.1-10_mipsel.deb) ...
-Selecting previously deselected package bsdmainutils.
-Unpacking bsdmainutils (from .../bsdmainutils_8.2.1_mipsel.deb) ...
-Selecting previously deselected package man-db.
-Unpacking man-db (from .../man-db_2.5.7-8_mipsel.deb) ...
-Selecting previously deselected package debhelper.
-Unpacking debhelper (from .../debhelper_8.0.0_all.deb) ...
-Selecting previously deselected package cdbs.
-Unpacking cdbs (from .../archives/cdbs_0.4.89_all.deb) ...
-Selecting previously deselected package zlib1g-dev.
+Selecting previously unselected package groff-base.
+Unpacking groff-base (from .../groff-base_1.21-6_mipsel.deb) ...
+Selecting previously unselected package bsdmainutils.
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.3_mipsel.deb) ...
+Selecting previously unselected package libpipeline1.
+Unpacking libpipeline1 (from .../libpipeline1_1.2.0-5_mipsel.deb) ...
+Selecting previously unselected package man-db.
+Unpacking man-db (from .../man-db_2.6.0.2-3_mipsel.deb) ...
+Selecting previously unselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.9.11_all.deb) ...
+Selecting previously unselected package zlib1g-dev.
Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_mipsel.deb) ...
-Setting up libmagic1 (5.04-5) ...
-Setting up file (5.04-5) ...
+Setting up libmagic1 (5.09-2) ...
+Setting up file (5.09-2) ...
Setting up html2text (1.3.2a-15) ...
-Setting up libpcre3 (8.02-1.1) ...
-Setting up libglib2.0-0 (2.24.2-1) ...
-Setting up libxml2 (2.7.8.dfsg-2) ...
-Setting up libcroco3 (0.6.2-1) ...
-Setting up libunistring0 (0.9.3-3) ...
-Setting up gettext-base (0.18.1.1-3) ...
-Setting up gettext (0.18.1.1-3) ...
+Setting up libffi5 (3.0.10-3) ...
+Setting up libpcre3 (8.12-4) ...
+Setting up libglib2.0-0 (2.30.2-4) ...
+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 gettext-base (0.18.1.1-5) ...
+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 groff-base (1.20.1-10) ...
-Setting up bsdmainutils (8.2.1) ...
+Setting up groff-base (1.21-6) ...
+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 man-db (2.5.7-8) ...
+Setting up libpipeline1 (1.2.0-5) ...
+Setting up man-db (2.6.0.2-3) ...
debconf: unable to initialize frontend: Dialog
debconf: (TERM is not set, so the dialog frontend is not usable.)
debconf: falling back to frontend: Readline
@@ -326,8 +285,7 @@ debconf: unable to initialize frontend: Readline
debconf: (This frontend requires a controlling tty.)
debconf: falling back to frontend: Teletype
Building database of manual pages ...
-Setting up debhelper (8.0.0) ...
-Setting up cdbs (0.4.89) ...
+Setting up debhelper (8.9.11) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
Setting up sbuild-build-depends-bwa-dummy (0.invalid.0) ...
Reading package lists...
@@ -337,8 +295,8 @@ Reading extended state information...
Initializing package states...
Writing extended state information...
Kernel: Linux 2.6.36-rc6-loongson-2f mipsel (mips64)
-Toolchain package versions: libc6-dev_2.11.2-6 dpkg-dev_1.15.8.5 linux-libc-dev_2.6.32-23 gcc-4.4_4.4.5-2 g++-4.4_4.4.5-2 binutils_2.20.1-15 libstdc++6-4.4-dev_4.4.5-2 libstdc++6_4.4.5-2
-Package versions: apt_0.8.6 aptitude_0.6.3-3.2 base-files_5.9 base-passwd_3.5.22 bash_4.1-3 binutils_2.20.1-15 bsdmainutils_8.2.1 bsdutils_1:2.17.2-3.3 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.89 coreutils_8.5-1 cpp_4:4.4.5-1 cpp-4.4_4.4.5-2 dash_0.5.5.1-7 debconf_1.5.36 debconf-i18n_1.5.36 debfoster_2.7-1.1 debhelper_8.0.0 debian-archive-keyring_2010.08.28 debianutils_3.4.1 diffutils_1:3.0-1 dpkg_1.15.8.5 dpkg-dev_1.15.8.5 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.14.4-1 file_5.04-5 findutils_4.4.2-1 g++_4:4.4.5-1 g++-4.4_4.4.5-2 gcc_4:4.4.5-1 gcc-4.4_4.4.5-2 gcc-4.4-base_4.4.5-2 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_1.20.1-10 gzip_1.3.12-9 hostname_3.04 html2text_1.3.2a-15 initscripts_2.88dsf-12 insserv_1.14.0-2 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-4 libattr1_1:2.4.44-2 libblkid1_2.17.2-3.3 libboost-iostreams1.42.0_1.42.0-4 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-6 libc-dev-bin_2.11.2-6 libc6_2.11.2-6 libc6-dev_2.11.2-6 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libcwidget3_0.5.16-3 libdb4.7_4.7.25-9 libdb4.8_4.8.30-2 libdpkg-perl_1.15.8.5 libept1_1.0.4 libgc1c2_1:6.8-1.2 libgcc1_1:4.4.5-2 libgdbm3_1.8.3-9 libglib2.0-0_2.24.2-1 libgmp3c2_2:4.3.2+dfsg-1 libgomp1_4.4.5-2 liblocale-gettext-perl_1.05-6 liblzma2_4.999.9beta+20100810-1 libmagic1_5.04-5 libmpfr1ldbl_2.4.2-3 libmpfr4_3.0.0-2 libncurses5_5.7+20100313-4 libncursesw5_5.7+20100313-5 libpam-modules_1.1.1-6 libpam-runtime_1.1.1-6 libpam0g_1.1.1-6 libpcre3_8.02-1.1 libreadline6_6.1-3 libselinux1_2.0.96-1 libsepol1_2.0.41-1 libsigc++-2.0-0c2a_2.2.4.2-1 libslang2_2.2.2-4 libsqlite3-0_3.7.4-2 libss2_1.41.12-2 libstdc++6_4.4.5-2 libstdc++6-4.4-dev_4.4.5-2 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_2:0.1.12-16 libuuid1_2.17.2-3.3 libxapian22_1.2.4-1 libxml2_2.7.8.dfsg-2 linux-libc-dev_2.6.32-23 login_1:4.1.4.2+svn3283-2 lsb-base_3.2-26 lzma_4.43-14 make_3.81-8 man-db_2.5.7-8 mawk_1.3.3-15 mount_2.17.2-3.3 ncurses-base_5.7+20100313-4 ncurses-bin_5.7+20100313-4 passwd_1:4.1.4.2+svn3283-2 patch_2.6-3 perl_5.10.1-15 perl-base_5.10.1-15 perl-modules_5.10.1-15 po-debconf_1.0.16+nmu1 readline-common_6.1-3 sbuild-build-depends-bwa-dummy_0.invalid.0 sed_4.2.1-7 sensible-utils_0.0.4 sudo_1.7.4p4-4 sysv-rc_2.88dsf-12 sysvinit_2.88dsf-12 sysvinit-utils_2.88dsf-12 tar_1.23-3 tzdata_2010m-1 util-linux_2.17.2-3.3 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: libc6-dev_2.13-21 dpkg-dev_1.16.1.1 linux-libc-dev_3.0.0-6 gcc-4.6_4.6.2-4 g++-4.6_4.6.2-4 binutils_2.21.90.20111025-1 libstdc++6-4.6-dev_4.6.2-4 libstdc++6_4.6.2-4
+Package versions: apt_0.8.15.9 aptitude_0.6.4-1.2 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 debconf-english_1.5.38 debfoster_2.7-1.1 debhelper_8.9.11 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 libboost-iostreams1.46.1_1.46.1-7+b1 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 libcwidget3_0.5.16-3.1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.1.1 libept1_1.0.5 libffi5_3.0.10-3 libgc1c2_1:7.1-8 libgcc1_1:4.6.2-4 libgdbm3_1.8.3-10 libglib2.0-0_2.30.2-4 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 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 libreadline6_6.2-7 libselinux1_2.1.0-4 libsepol1_2.1.0-1.1 libsigc++-2.0-0c2a_2.2.9-1 libslang2_2.2.4-3 libsqlite3-0_3.7.9-2 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 libxapian22_1.2.7-1 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 lzma_4.43-14 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 sbuild-build-depends-bwa-dummy_0.invalid.0 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 │
@@ -348,14 +306,13 @@ Package versions: apt_0.8.6 aptitude_0.6.3-3.2 base-files_5.9 base-passwd_3.5.22
Unpack source
─────────────
-dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
+dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::native
gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
-gpgv: Signature made Thu Jan 20 12:57:54 2011 UTC using RSA key ID 2295D502
+gpgv: Signature made Tue Nov 22 02:41:12 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~rc-1.dsc
-dpkg-source: info: extracting bwa in bwa-0.5.9~rc
-dpkg-source: info: unpacking bwa_0.5.9~rc.orig.tar.bz2
-dpkg-source: info: unpacking bwa_0.5.9~rc-1.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bwa_0.6.0-2.dsc
+dpkg-source: info: extracting bwa in bwa-0.6.0
+dpkg-source: info: unpacking bwa_0.6.0-2.tar.gz
Check disc space
────────────────
@@ -364,159 +321,222 @@ 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~rc-1
- dpkg-source --before-build bwa-0.5.9~rc
+dpkg-buildpackage: source version 0.6.0-2
+ dpkg-source --before-build bwa-0.6.0
dpkg-buildpackage: host architecture mipsel
/usr/bin/fakeroot debian/rules clean
-test -x debian/rules
-dh_testroot
-rm -f debian/stamp-makefile-build debian/stamp-makefile-install
-/usr/bin/make -C . CFLAGS="-g -O2 -g -Wall -O2" CXXFLAGS="-g -O2 -g -Wall -O2" CPPFLAGS="" LDFLAGS="" -k clean
-make[1]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-mipsel-LDb3tY/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-mipsel-LDb3tY/bwa-0.5.9~rc'
+dh clean
+ dh_testdir
+ dh_auto_clean
+make[1]: Entering directory `/build/buildd-bwa_0.6.0-2-mipsel-63ZhFl/bwa-0.6.0'
rm -f gmon.out *.o a.out bwa *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-mipsel-LDb3tY/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-mipsel-LDb3tY/bwa-0.5.9~rc/bwt_gen'
-rm -f gmon.out *.o a.out *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-mipsel-LDb3tY/bwa-0.5.9~rc/bwt_gen'
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-mipsel-LDb3tY/bwa-0.5.9~rc'
-dh_clean
+make[1]: Leaving directory `/build/buildd-bwa_0.6.0-2-mipsel-63ZhFl/bwa-0.6.0'
+ dh_clean
debian/rules build
-test -x debian/rules
-mkdir -p "."
-/usr/bin/make -C . CFLAGS="-g -O2 -g -Wall -O2" CXXFLAGS="-g -O2 -g -Wall -O2" CPPFLAGS="" LDFLAGS=""
-make[1]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-mipsel-LDb3tY/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-mipsel-LDb3tY/bwa-0.5.9~rc'
-make[2]: Nothing to be done for `lib'.
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-mipsel-LDb3tY/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-mipsel-LDb3tY/bwa-0.5.9~rc/bwt_gen'
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwt_gen.c -o bwt_gen.o
-gcc -c -g -O2 -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~rc-1-mipsel-LDb3tY/bwa-0.5.9~rc/bwt_gen'
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD utils.c -o utils.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwt.c -o bwt.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtio.c -o bwtio.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtaln.c -o bwtaln.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtgap.c -o bwtgap.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD is.c -o is.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bntseq.c -o bntseq.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtmisc.c -o bwtmisc.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtindex.c -o bwtindex.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD stdaln.c -o stdaln.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD simple_dp.c -o simple_dp.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwaseqio.c -o bwaseqio.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwase.c -o bwase.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwape.c -o bwape.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD kstring.c -o kstring.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD cs2nt.c -o cs2nt.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_core.c -o bwtsw2_core.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_main.c -o bwtsw2_main.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_aux.c -o bwtsw2_aux.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwt_lite.c -o bwt_lite.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_chain.c -o bwtsw2_chain.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bamlite.c -o bamlite.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD main.c -o main.o
-gcc -g -O2 -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~rc-1-mipsel-LDb3tY/bwa-0.5.9~rc'
-touch debian/stamp-makefile-build
-DEB_MAKE_CHECK_TARGET unset, not running checks
+dh build
+ dh_testdir
+ dh_auto_configure
+ debian/rules override_dh_auto_build
+make[1]: Entering directory `/build/buildd-bwa_0.6.0-2-mipsel-63ZhFl/bwa-0.6.0'
+dh_auto_build -- CFLAGS="-Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro" DFLAGS="-DHAVE_PTHREAD -D_NO_SSE2"
+make[2]: Entering directory `/build/buildd-bwa_0.6.0-2-mipsel-63ZhFl/bwa-0.6.0'
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 QSufSort.c -o QSufSort.o
+QSufSort.c: In function 'QSufSortSuffixSort':
+QSufSort.c:62:10: warning: variable 'maxNumInputSymbol' set but not used [-Wunused-but-set-variable]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt_gen.c -o bwt_gen.o
+bwt_gen.c: In function 'BWTIncBuildRelativeRank':
+bwt_gen.c:873:10: warning: variable 'oldInverseSa0RelativeRank' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncMergeBwt':
+bwt_gen.c:947:15: warning: variable 'bitsInWordMinusBitPerChar' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncConstructFromPacked':
+bwt_gen.c:1452:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwt_gen.c:1468:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwt_gen.c:1483:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 utils.c -o utils.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt.c -o bwt.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtio.c -o bwtio.o
+bwtio.c: In function 'bwt_restore_bwt':
+bwtio.c:62:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:63:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:64:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c: In function 'bwt_restore_sa':
+bwtio.c:36:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:38:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:39:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:40:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:47:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtaln.c -o bwtaln.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtgap.c -o bwtgap.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 is.c -o is.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bntseq.c -o bntseq.o
+bntseq.c: In function 'bns_restore_core':
+bntseq.c:98:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:106:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:114:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:123:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:129:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtmisc.c -o bwtmisc.o
+bwtmisc.c: In function 'bwa_pac2cspac_core':
+bwtmisc.c:172:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtmisc.c: In function 'bwt_pac2bwt':
+bwtmisc.c:72:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtmisc.c: In function 'bwa_seq_len':
+bwtmisc.c:51:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtindex.c -o bwtindex.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 ksw.c -o ksw.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 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 -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 simple_dp.c -o simple_dp.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwaseqio.c -o bwaseqio.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwase.c -o bwase.o
+bwase.c: In function 'bwa_aln2seq_core':
+bwase.c:74:15: warning: variable 'k' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_print_sam1':
+bwase.c:447:17: warning: variable 'm_is_N' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_sai2sam_se_core':
+bwase.c:603:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:619:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:624:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c: In function 'bwa_refine_gapped':
+bwase.c:310:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:316:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwape.c -o bwape.o
+bwape.c: In function 'bwa_sai2sam_pe_core':
+bwape.c:683:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:686:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:697:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c: In function 'bwa_paired_sw':
+bwape.c:527:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c: In function 'bwa_cal_pac_pos_pe':
+bwape.c:312:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:316:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 kstring.c -o kstring.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 cs2nt.c -o cs2nt.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_core.c -o bwtsw2_core.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_main.c -o bwtsw2_main.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_aux.c -o bwtsw2_aux.o
+bwtsw2_aux.c: In function 'gen_cigar':
+bwtsw2_aux.c:186:7: warning: variable 'score' set but not used [-Wunused-but-set-variable]
+bwtsw2_aux.c: In function 'bsw2_aln':
+bwtsw2_aux.c:734:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt_lite.c -o bwt_lite.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_chain.c -o bwtsw2_chain.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bamlite.c -o bamlite.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 fastmap.c -o fastmap.o
+fastmap.c: In function 'main_fastmap':
+fastmap.c:54:3: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'size_t' [-Wformat]
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_pair.c -o bwtsw2_pair.o
+gcc -c -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 main.c -o main.o
+gcc -Wall -g -O2 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 QSufSort.o bwt_gen.o utils.o bwt.o bwtio.o bwtaln.o bwtgap.o is.o bntseq.o bwtmisc.o bwtindex.o ksw.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 fastmap.o bwtsw2_pair.o main.o -o bwa -lm -lz -lpthread
+make[2]: Leaving directory `/build/buildd-bwa_0.6.0-2-mipsel-63ZhFl/bwa-0.6.0'
+make[1]: Leaving directory `/build/buildd-bwa_0.6.0-2-mipsel-63ZhFl/bwa-0.6.0'
+ dh_auto_test
/usr/bin/fakeroot debian/rules binary-arch
-test -x debian/rules
-dh_testroot
-dh_prep
-dh_installdirs -A
-mkdir -p "."
-DEB_MAKE_CHECK_TARGET unset, not running checks
-DEB_MAKE_INSTALL_TARGET unset, skipping default makefile.mk common-install target
-Adding cdbs dependencies to debian/bwa.substvars
-dh_installdirs -pbwa
-dh_installdocs -pbwa ./NEWS
-dh_installexamples -pbwa
-dh_installman -pbwa
-dh_installinfo -pbwa
-dh_installmenu -pbwa
-dh_installcron -pbwa
-dh_installinit -pbwa
-dh_installdebconf -pbwa
-dh_installemacsen -pbwa
-dh_installcatalogs -pbwa
-dh_installpam -pbwa
-dh_installlogrotate -pbwa
-dh_installlogcheck -pbwa
-dh_installchangelogs -pbwa ./ChangeLog
-dh_installudev -pbwa
-dh_lintian -pbwa
-dh_install -pbwa
-dh_link -pbwa
-dh_installmime -pbwa
-dh_strip -pbwa
-dh_compress -pbwa
-dh_fixperms -pbwa
-dh_makeshlibs -pbwa
-dh_installdeb -pbwa
-dh_perl -pbwa
-dh_shlibdeps -pbwa
-dh_gencontrol -pbwa
+dh binary-arch
+ dh_testroot -a
+ dh_prep -a
+ dh_installdirs -a
+ dh_auto_install -a
+ dh_install -a
+ dh_installdocs -a
+ dh_installchangelogs -a
+ dh_installexamples -a
+ dh_installman -a
+ dh_installcatalogs -a
+ dh_installcron -a
+ dh_installdebconf -a
+ dh_installemacsen -a
+ dh_installifupdown -a
+ dh_installinfo -a
+ dh_installinit -a
+ dh_installmenu -a
+ dh_installmime -a
+ dh_installmodules -a
+ dh_installlogcheck -a
+ dh_installlogrotate -a
+ dh_installpam -a
+ dh_installppp -a
+ 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
+ dh_perl -a
+ dh_usrlocal -a
+ dh_link -a
+ dh_compress -a
+ dh_fixperms -a
+ dh_strip -a
+ dh_makeshlibs -a
+ dh_shlibdeps -a
+ dh_installdeb -a
+ dh_gencontrol -a
dpkg-gencontrol: warning: package bwa: unused substitution variable ${perl:Depends}
-dh_md5sums -pbwa
-dh_builddeb -pbwa
-dpkg-deb: building package `bwa' in `../bwa_0.5.9~rc-1_mipsel.deb'.
- dpkg-genchanges -B -mmipsel Build Daemon (phrixos) <buildd_mipsel-phrixos at buildd.debian.org> >../bwa_0.5.9~rc-1_mipsel.changes
+ dh_md5sums -a
+ dh_builddeb -a
+dpkg-deb: building package `bwa' in `../bwa_0.6.0-2_mipsel.deb'.
+ dpkg-genchanges -B -mmipsel Build Daemon (phrixos) <buildd_mipsel-phrixos at buildd.debian.org> >../bwa_0.6.0-2_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~rc
+ dpkg-source --after-build bwa-0.6.0
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110122-1947
+Build finished at 20111122-0325
-bwa_0.5.9~rc-1_mipsel.changes:
+bwa_0.6.0-2_mipsel.changes:
Format: 1.8
-Date: Thu, 20 Jan 2011 21:42:55 +0900
+Date: Tue, 22 Nov 2011 11:32:11 +0900
Source: bwa
Binary: bwa
Architecture: mipsel
-Version: 0.5.9~rc-1
+Version: 0.6.0-2
Distribution: experimental
Urgency: low
Maintainer: mipsel Build Daemon (phrixos) <buildd_mipsel-phrixos at buildd.debian.org>
Changed-By: Charles Plessy <plessy at debian.org>
Description:
bwa - Burrows-Wheeler Aligner
+Closes: 648803
Changes:
- bwa (0.5.9~rc-1) experimental; urgency=low
+ bwa (0.6.0-2) experimental; urgency=low
.
- * New usptream release candidate.
+ [9410de3] Disable SSE2 everywhere except on amd64 (Closes: #648803).
+ [fb4c559] Reimplementation of Standard SW for when SSE2 is unavailable.
+ cherry picked from upstream commit 182cb2e.
+ This commit modifies upstream sources.
+ [9c93ccd] Use native format to bypass mandatory patch system.
Checksums-Sha1:
- 88044c480fe440a537ad9a0652a41fc4dc21ed14 155470 bwa_0.5.9~rc-1_mipsel.deb
+ 75c5c8bd4dfcd2a868e5055cb7fd0e188d031ea4 182538 bwa_0.6.0-2_mipsel.deb
Checksums-Sha256:
- cd18903169185b8bb92bb4fcecf1dd0b3f8e634b1671b987eaeb9e6bcfa175ee 155470 bwa_0.5.9~rc-1_mipsel.deb
+ 50511f387f552febeb8b0417f12afebc69818f9fe26ec1408ab55cded9a77295 182538 bwa_0.6.0-2_mipsel.deb
Files:
- 886899d3f92bb94cd89eb206f5703145 155470 science optional bwa_0.5.9~rc-1_mipsel.deb
+ c021a09f2ed88c4e3c1581e04e835722 182538 science optional bwa_0.6.0-2_mipsel.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bwa_0.5.9~rc-1_mipsel.deb
-─────────────────────────
+bwa_0.6.0-2_mipsel.deb
+──────────────────────
new debian package, version 2.0.
- size 155470 bytes: control archive= 944 bytes.
- 778 bytes, 17 lines control
- 556 bytes, 9 lines md5sums
+ size 182538 bytes: control archive= 995 bytes.
+ 775 bytes, 17 lines control
+ 610 bytes, 10 lines md5sums
Package: bwa
- Version: 0.5.9~rc-1
+ Version: 0.6.0-2
Architecture: mipsel
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 364
+ Installed-Size: 342
Depends: libc6 (>= 2.7), zlib1g (>= 1:1.1.4)
Suggests: samtools
Section: science
@@ -530,24 +550,25 @@ bwa_0.5.9~rc-1_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 2011-01-22 19:47 ./
-drwxr-xr-x root/root 0 2011-01-22 19:47 ./usr/
-drwxr-xr-x root/root 0 2011-01-22 19:47 ./usr/share/
-drwxr-xr-x root/root 0 2011-01-22 19:47 ./usr/share/bwa/
--rwxr-xr-x root/root 616 2011-01-20 11:35 ./usr/share/bwa/qualfa2fq.pl
--rwxr-xr-x root/root 3176 2011-01-20 11:35 ./usr/share/bwa/solid2fastq.pl
-drwxr-xr-x root/root 0 2011-01-22 19:47 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-01-22 19:47 ./usr/share/doc/bwa/
--rw-r--r-- root/root 17751 2011-01-20 11:35 ./usr/share/doc/bwa/changelog.gz
--rw-r--r-- root/root 5606 2011-01-20 11:35 ./usr/share/doc/bwa/NEWS.gz
--rw-r--r-- root/root 17751 2011-01-20 11:35 ./usr/share/doc/bwa/ChangeLog.gz
--rw-r--r-- root/root 2679 2011-01-20 11:52 ./usr/share/doc/bwa/copyright
--rw-r--r-- root/root 805 2011-01-20 12:43 ./usr/share/doc/bwa/changelog.Debian.gz
-drwxr-xr-x root/root 0 2011-01-22 19:47 ./usr/share/man/
-drwxr-xr-x root/root 0 2011-01-22 19:47 ./usr/share/man/man1/
--rw-r--r-- root/root 7423 2011-01-22 19:47 ./usr/share/man/man1/bwa.1.gz
-drwxr-xr-x root/root 0 2011-01-22 19:47 ./usr/bin/
--rwxr-xr-x root/root 252144 2011-01-22 19:47 ./usr/bin/bwa
+drwxr-xr-x root/root 0 2011-11-22 03:24 ./
+drwxr-xr-x root/root 0 2011-11-22 03:24 ./usr/
+drwxr-xr-x root/root 0 2011-11-22 03:24 ./usr/share/
+drwxr-xr-x root/root 0 2011-11-22 03:24 ./usr/share/bwa/
+-rwxr-xr-x root/root 616 2011-11-22 01:55 ./usr/share/bwa/qualfa2fq.pl
+-rwxr-xr-x root/root 3176 2011-11-22 01:55 ./usr/share/bwa/solid2fastq.pl
+-rwxr-xr-x root/root 730 2011-11-22 01:55 ./usr/share/bwa/xa2multi.pl
+drwxr-xr-x root/root 0 2011-11-22 03:24 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-11-22 03:24 ./usr/share/doc/bwa/
+-rw-r--r-- root/root 17912 2011-11-22 01:55 ./usr/share/doc/bwa/changelog.gz
+-rw-r--r-- root/root 6680 2011-11-22 01:55 ./usr/share/doc/bwa/NEWS.gz
+-rw-r--r-- root/root 634 2011-11-22 01:55 ./usr/share/doc/bwa/README
+-rw-r--r-- root/root 2785 2011-11-22 01:55 ./usr/share/doc/bwa/copyright
+-rw-r--r-- root/root 1471 2011-11-22 02:32 ./usr/share/doc/bwa/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-11-22 03:24 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-11-22 03:24 ./usr/share/man/man1/
+-rw-r--r-- root/root 7745 2011-11-22 03:24 ./usr/share/man/man1/bwa.1.gz
+drwxr-xr-x root/root 0 2011-11-22 03:24 ./usr/bin/
+-rwxr-xr-x root/root 267428 2011-11-22 03:24 ./usr/bin/bwa
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -556,9 +577,9 @@ drwxr-xr-x root/root 0 2011-01-22 19:47 ./usr/bin/
Built successfully
────────────────────────────────────────────────────────────────────────────────
-Purging /var/lib/schroot/mount/sid-experimental-mipsel-sbuild-b2939a4e-0652-4122-8c7d-c7be8c392465/build/buildd-bwa_0.5.9~rc-1-mipsel-LDb3tY
+Purging /var/lib/schroot/mount/sid-experimental-mipsel-sbuild-bd93e7a3-d660-4874-a222-38dde256cbad/build/buildd-bwa_0.6.0-2-mipsel-63ZhFl
Not removing build depends: cloned chroot in use
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110122-1947
-Build needed 00:05:53, 2692k disc space
+Finished at 20111122-0325
+Build needed 00:06:07, 3052k disc space
diff --git a/powerpc.log b/powerpc.log
index 5ba648f..2e162d3 100644
--- a/powerpc.log
+++ b/powerpc.log
@@ -1,91 +1,95 @@
-From buildd at poulenc.debian.org Thu Jan 20 13:12:12 2011
-Return-path: <buildd at poulenc.debian.org>
-Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
+From buildd at porpora.debian.org Tue Nov 22 03:21:58 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=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 poulenc.debian.org>)
- id 1PfuJA-0007lx-5r
- for logs at buildd.debian.org; Thu, 20 Jan 2011 13:12:12 +0000
-Received: from poulenc.ynic.york.ac.uk ([144.32.168.77]
- helo=poulenc.debian.org)
+ (Exim 4.72) (envelope-from <buildd at porpora.debian.org>)
+ id 1RSgvm-0006GO-HO
+ for logs at buildd.debian.org; Tue, 22 Nov 2011 03:21:58 +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=poulenc.debian.org, EMAIL=hostmaster at poulenc.debian.org (verified)
- by merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at poulenc.debian.org>)
- id 1PfuJ8-0007iJ-LO; Thu, 20 Jan 2011 13:12:10 +0000
-Received: from buildd by poulenc.debian.org with local (Exim 4.69)
- (envelope-from <buildd at poulenc.debian.org>)
- id 1PfuJ7-0001xi-8d; Thu, 20 Jan 2011 13:12:09 +0000
-From: buildd on poulenc <buildd at poulenc.debian.org>
+ 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 4.72) (envelope-from <buildd at porpora.debian.org>)
+ id 1RSgvl-0005e2-MV; Tue, 22 Nov 2011 03:21:57 +0000
+Received: from buildd by porpora.debian.org with local (Exim 4.72)
+ (envelope-from <buildd at porpora.debian.org>)
+ id 1RSgvl-0000nP-9V; Tue, 22 Nov 2011 03:21:57 +0000
+Message-Id: <E1RSgvl-0000nP-9V 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: Tue, 22 Nov 2011 03:21:57 +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_0.5.9~rc-1 on powerpc
- (dist=experimental)
-Content-Type: text/plain; charset=UTF-8
-Content-Transfer-Encoding: 8bit
-Message-Id: <E1PfuJ7-0001xi-8d at poulenc.debian.org>
-Date: Thu, 20 Jan 2011 13:12:09 +0000
+Subject: Log for successful build of bwa_0.6.0-2 on powerpc (dist=experimental)
+Key-Id: 8CE75D05
Delivered-To: logs at buildd.debian.org
-sbuild (Debian sbuild) 0.60.0 (23 Feb 2010) on poulenc.debian.org
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on porpora.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bwa 0.5.9~rc-1 (powerpc) 20 Jan 2011 13:09 ║
+║ bwa 0.6.0-2 (powerpc) 22 Nov 2011 03:19 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bwa
-Version: 0.5.9~rc-1
+Version: 0.6.0-2
+Source Version: 0.6.0-2
Architecture: powerpc
-Chroot Build Dir: /var/lib/schroot/mount/sid-experimental-powerpc-sbuild-694c0549-20b9-4178-8ce3-6a583e3e8302/build/buildd-bwa_0.5.9~rc-1-powerpc-GhiopG
-Start Time: 20110120-1309
-Get:1 http://ftp.uk.debian.org unstable Release.gpg [835 B]
-Ign http://ftp.uk.debian.org/debian/ unstable/contrib Translation-en
-Ign http://ftp.uk.debian.org/debian/ unstable/main Translation-en
-Get:2 http://ftp.uk.debian.org experimental Release.gpg [835 B]
-Ign http://ftp.uk.debian.org/debian/ experimental/contrib Translation-en
-Ign http://ftp.uk.debian.org/debian/ experimental/main Translation-en
-Get:3 http://ftp.uk.debian.org unstable Release [104 kB]
-Get:4 http://ftp.uk.debian.org experimental Release [102 kB]
-Get:5 http://incoming.debian.org unstable Release.gpg [835 B]
-Ign http://incoming.debian.org/debian/ unstable/contrib Translation-en
-Ign http://incoming.debian.org/debian/ unstable/main Translation-en
-Get:6 http://ftp.uk.debian.org unstable/main Sources [4072 kB]
-Get:7 http://incoming.debian.org experimental Release.gpg [835 B]
-Ign http://incoming.debian.org/debian/ experimental/contrib Translation-en
-Ign http://incoming.debian.org/debian/ experimental/main Translation-en
-Get:8 http://incoming.debian.org Release.gpg [835 B]
-Ign http://incoming.debian.org/buildd-unstable/ Translation-en
-Get:9 http://incoming.debian.org Release.gpg [835 B]
-Ign http://incoming.debian.org/buildd-experimental/ Translation-en
-Get:10 http://incoming.debian.org unstable Release [104 kB]
-Get:11 http://incoming.debian.org experimental Release [102 kB]
-Get:12 http://incoming.debian.org Release [1604 B]
-Get:13 http://incoming.debian.org Release [1625 B]
-Get:14 http://incoming.debian.org unstable/main Sources [4072 kB]
-Get:15 http://ftp.uk.debian.org unstable/contrib Sources [38.6 kB]
-Get:16 http://ftp.uk.debian.org unstable/non-free Sources [83.9 kB]
-Get:17 http://ftp.uk.debian.org unstable/main powerpc Packages [6864 kB]
-Get:18 http://incoming.debian.org unstable/contrib Sources [38.6 kB]
-Get:19 http://incoming.debian.org unstable/non-free Sources [83.9 kB]
-Get:20 http://incoming.debian.org unstable/main powerpc Packages [6864 kB]
-Get:21 http://incoming.debian.org unstable/contrib powerpc Packages [49.2 kB]
-Get:22 http://incoming.debian.org experimental/main Sources [393 kB]
-Get:23 http://incoming.debian.org experimental/contrib Sources [4450 B]
-Get:24 http://incoming.debian.org experimental/non-free Sources [6418 B]
-Get:25 http://incoming.debian.org experimental/main powerpc Packages [812 kB]
-Get:26 http://incoming.debian.org experimental/contrib powerpc Packages [5865 B]
-Get:27 http://incoming.debian.org Sources [11.7 kB]
-Get:28 http://incoming.debian.org Packages [103 kB]
-Get:29 http://incoming.debian.org Sources [9718 B]
-Get:30 http://incoming.debian.org Packages [89.7 kB]
-Get:31 http://ftp.uk.debian.org unstable/contrib powerpc Packages [49.2 kB]
-Get:32 http://ftp.uk.debian.org experimental/main Sources [393 kB]
-Get:33 http://ftp.uk.debian.org experimental/contrib Sources [4450 B]
-Get:34 http://ftp.uk.debian.org experimental/non-free Sources [6418 B]
-Get:35 http://ftp.uk.debian.org experimental/main powerpc Packages [812 kB]
-Get:36 http://ftp.uk.debian.org experimental/contrib powerpc Packages [5865 B]
-Fetched 25.3 MB in 28s (883 kB/s)
+Get:1 http://incoming.debian.org unstable InRelease [160 kB]
+Get:2 http://ftp.uk.debian.org unstable InRelease [160 kB]
+Get:3 http://ftp.uk.debian.org experimental InRelease [139 kB]
+Get:4 http://ftp.uk.debian.org unstable/main Sources [5927 kB]
+Get:5 http://incoming.debian.org experimental InRelease [139 kB]
+Ign http://incoming.debian.org InRelease
+Ign http://incoming.debian.org InRelease
+Get:6 http://incoming.debian.org unstable/main Sources [5927 kB]
+Get:7 http://ftp.uk.debian.org unstable/contrib Sources [57.4 kB]
+Get:8 http://ftp.uk.debian.org unstable/non-free Sources [102 kB]
+Get:9 http://ftp.uk.debian.org unstable/main powerpc Packages [7742 kB]
+Get:10 http://ftp.uk.debian.org unstable/contrib powerpc Packages [55.8 kB]
+Ign http://ftp.uk.debian.org unstable/contrib TranslationIndex
+Get:11 http://ftp.uk.debian.org unstable/main TranslationIndex [2045 B]
+Get:12 http://ftp.uk.debian.org experimental/main Sources [177 kB]
+Get:13 http://ftp.uk.debian.org experimental/contrib Sources [1400 B]
+Get:14 http://ftp.uk.debian.org experimental/non-free Sources [2641 B]
+Get:15 http://ftp.uk.debian.org experimental/main powerpc Packages [329 kB]
+Get:16 http://ftp.uk.debian.org experimental/contrib powerpc Packages [1846 B]
+Ign http://ftp.uk.debian.org experimental/contrib TranslationIndex
+Ign http://ftp.uk.debian.org experimental/main TranslationIndex
+Ign http://ftp.uk.debian.org unstable/contrib Translation-en
+Ign http://ftp.uk.debian.org experimental/contrib Translation-en
+Ign http://ftp.uk.debian.org experimental/main Translation-en
+Get:17 http://incoming.debian.org unstable/contrib Sources [57.2 kB]
+Get:18 http://incoming.debian.org unstable/non-free Sources [102 kB]
+Get:19 http://incoming.debian.org unstable/main powerpc Packages [7744 kB]
+Get:20 http://incoming.debian.org unstable/contrib powerpc Packages [55.8 kB]
+Ign http://incoming.debian.org unstable/contrib TranslationIndex
+Get:21 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
+Get:22 http://incoming.debian.org Release.gpg [836 B]
+Get:23 http://incoming.debian.org Release.gpg [836 B]
+Get:24 http://incoming.debian.org experimental/main Sources [177 kB]
+Get:25 http://incoming.debian.org experimental/contrib Sources [1400 B]
+Get:26 http://incoming.debian.org experimental/non-free Sources [2641 B]
+Get:27 http://incoming.debian.org experimental/main powerpc Packages [331 kB]
+Get:28 http://incoming.debian.org experimental/contrib powerpc Packages [1846 B]
+Ign http://incoming.debian.org experimental/contrib TranslationIndex
+Ign http://incoming.debian.org experimental/main TranslationIndex
+Get:29 http://incoming.debian.org Release [1604 B]
+Get:30 http://incoming.debian.org Release [1626 B]
+Get:31 http://incoming.debian.org Sources [33.2 kB]
+Get:32 http://incoming.debian.org Packages [315 kB]
+Get:33 http://incoming.debian.org Sources [2999 B]
+Get:34 http://incoming.debian.org Packages [28.9 kB]
+Ign http://incoming.debian.org unstable/contrib Translation-en
+Ign http://incoming.debian.org experimental/contrib Translation-en
+Ign http://incoming.debian.org experimental/main Translation-en
+Ign http://incoming.debian.org Translation-en
+Ign http://incoming.debian.org Translation-en
+Fetched 29.8 MB in 27s (1101 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -105,29 +109,29 @@ 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 118 kB of source archives.
-Get:1 http://incoming.debian.org/buildd-experimental/ bwa 0.5.9~rc-1 (dsc) [1915 B]
-Get:2 http://incoming.debian.org/buildd-experimental/ bwa 0.5.9~rc-1 (tar) [113 kB]
-Get:3 http://incoming.debian.org/buildd-experimental/ bwa 0.5.9~rc-1 (diff) [3594 B]
-Fetched 118 kB in 0s (141 kB/s)
+git://git.debian.org/debian-med/bwa.git
+Need to get 171 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-experimental/ bwa 0.6.0-2 (dsc) [1681 B]
+Get:2 http://incoming.debian.org/buildd-experimental/ bwa 0.6.0-2 (tar) [169 kB]
+Fetched 171 kB in 1s (140 kB/s)
Download complete and in download only mode
Check arch
──────────
-** Using build dependencies supplied by package:
-Build-Depends: cdbs, debhelper (>= 8), zlib1g-dev
+dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/build/buildd-bwa_0.6.0-2-powerpc-PzIQoY/resolver-aQ6Hov/apt_archive/sbuild-build-depends-core-dummy.deb'.
+OK
+Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install build dependencies (aptitude-based resolver) │
+│ Install core build dependencies (aptitude-based resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
Reading package lists...
Building dependency tree...
Reading state information...
The following extra packages will be installed:
- libboost-iostreams1.42.0 libcwidget3 libept1 libncursesw5 libsigc++-2.0-0c2a
+ libboost-iostreams1.46.1 libcwidget3 libept1 libncursesw5 libsigc++-2.0-0c2a
libsqlite3-0 libxapian22
Suggested packages:
tasksel debtags libcwidget-dev xapian-tools
@@ -135,161 +139,181 @@ Recommended packages:
aptitude-doc-en aptitude-doc apt-xapian-index libparse-debianchangelog-perl
libgpm2
The following NEW packages will be installed:
- aptitude libboost-iostreams1.42.0 libcwidget3 libept1 libncursesw5
+ aptitude libboost-iostreams1.46.1 libcwidget3 libept1 libncursesw5
libsigc++-2.0-0c2a libsqlite3-0 libxapian22
-0 upgraded, 8 newly installed, 0 to remove and 13 not upgraded.
-Need to get 6512 kB of archives.
-After this operation, 18.4 MB of additional disk space will be used.
-Get:1 http://ftp.uk.debian.org/debian/ unstable/main libboost-iostreams1.42.0 powerpc 1.42.0-4 [59.9 kB]
-Get:2 http://ftp.uk.debian.org/debian/ unstable/main libncursesw5 powerpc 5.7+20100313-5 [388 kB]
-Get:3 http://ftp.uk.debian.org/debian/ unstable/main libsigc++-2.0-0c2a powerpc 2.2.4.2-1 [40.2 kB]
-Get:4 http://ftp.uk.debian.org/debian/ unstable/main libcwidget3 powerpc 0.5.16-3 [314 kB]
-Get:5 http://ftp.uk.debian.org/debian/ unstable/main libxapian22 powerpc 1.2.4-1 [1265 kB]
-Get:6 http://ftp.uk.debian.org/debian/ unstable/main libept1 powerpc 1.0.4 [156 kB]
-Get:7 http://ftp.uk.debian.org/debian/ unstable/main libsqlite3-0 powerpc 3.7.4-2 [414 kB]
-Get:8 http://ftp.uk.debian.org/debian/ unstable/main aptitude powerpc 0.6.3-3.2 [3875 kB]
+0 upgraded, 8 newly installed, 0 to remove and 11 not upgraded.
+Need to get 6542 kB of archives.
+After this operation, 17.8 MB of additional disk space will be used.
+Get:1 http://ftp.uk.debian.org/debian/ unstable/main libncursesw5 powerpc 5.9-4 [314 kB]
+Get:2 http://ftp.uk.debian.org/debian/ unstable/main libboost-iostreams1.46.1 powerpc 1.46.1-7+b1 [58.0 kB]
+Get:3 http://ftp.uk.debian.org/debian/ unstable/main libsigc++-2.0-0c2a powerpc 2.2.9-1 [41.8 kB]
+Get:4 http://ftp.uk.debian.org/debian/ unstable/main libcwidget3 powerpc 0.5.16-3.1 [393 kB]
+Get:5 http://ftp.uk.debian.org/debian/ unstable/main libxapian22 powerpc 1.2.7-1 [1240 kB]
+Get:6 http://ftp.uk.debian.org/debian/ unstable/main libept1 powerpc 1.0.5 [164 kB]
+Get:7 http://ftp.uk.debian.org/debian/ unstable/main libsqlite3-0 powerpc 3.7.9-2 [424 kB]
+Get:8 http://ftp.uk.debian.org/debian/ unstable/main aptitude powerpc 0.6.4-1.2 [3906 kB]
debconf: delaying package configuration, since apt-utils is not installed
-Fetched 6512 kB in 2s (3074 kB/s)
-Selecting previously deselected package libboost-iostreams1.42.0.
-(Reading database ... 10161 files and directories currently installed.)
-Unpacking libboost-iostreams1.42.0 (from .../libboost-iostreams1.42.0_1.42.0-4_powerpc.deb) ...
-Selecting previously deselected package libncursesw5.
-Unpacking libncursesw5 (from .../libncursesw5_5.7+20100313-5_powerpc.deb) ...
-Selecting previously deselected package libsigc++-2.0-0c2a.
-Unpacking libsigc++-2.0-0c2a (from .../libsigc++-2.0-0c2a_2.2.4.2-1_powerpc.deb) ...
-Selecting previously deselected package libcwidget3.
-Unpacking libcwidget3 (from .../libcwidget3_0.5.16-3_powerpc.deb) ...
-Selecting previously deselected package libxapian22.
-Unpacking libxapian22 (from .../libxapian22_1.2.4-1_powerpc.deb) ...
-Selecting previously deselected package libept1.
-Unpacking libept1 (from .../libept1_1.0.4_powerpc.deb) ...
-Selecting previously deselected package libsqlite3-0.
-Unpacking libsqlite3-0 (from .../libsqlite3-0_3.7.4-2_powerpc.deb) ...
-Selecting previously deselected package aptitude.
-Unpacking aptitude (from .../aptitude_0.6.3-3.2_powerpc.deb) ...
-Setting up libboost-iostreams1.42.0 (1.42.0-4) ...
-Setting up libncursesw5 (5.7+20100313-5) ...
-Setting up libsigc++-2.0-0c2a (2.2.4.2-1) ...
-Setting up libcwidget3 (0.5.16-3) ...
-Setting up libxapian22 (1.2.4-1) ...
-Setting up libept1 (1.0.4) ...
-Setting up libsqlite3-0 (3.7.4-2) ...
-Setting up aptitude (0.6.3-3.2) ...
+Fetched 6542 kB in 1s (3399 kB/s)
+Selecting previously unselected package libncursesw5.
+(Reading database ... 10677 files and directories currently installed.)
+Unpacking libncursesw5 (from .../libncursesw5_5.9-4_powerpc.deb) ...
+Selecting previously unselected package libboost-iostreams1.46.1.
+Unpacking libboost-iostreams1.46.1 (from .../libboost-iostreams1.46.1_1.46.1-7+b1_powerpc.deb) ...
+Selecting previously unselected package libsigc++-2.0-0c2a.
+Unpacking libsigc++-2.0-0c2a (from .../libsigc++-2.0-0c2a_2.2.9-1_powerpc.deb) ...
+Selecting previously unselected package libcwidget3.
+Unpacking libcwidget3 (from .../libcwidget3_0.5.16-3.1_powerpc.deb) ...
+Selecting previously unselected package libxapian22.
+Unpacking libxapian22 (from .../libxapian22_1.2.7-1_powerpc.deb) ...
+Selecting previously unselected package libept1.
+Unpacking libept1 (from .../libept1_1.0.5_powerpc.deb) ...
+Selecting previously unselected package libsqlite3-0.
+Unpacking libsqlite3-0 (from .../libsqlite3-0_3.7.9-2_powerpc.deb) ...
+Selecting previously unselected package aptitude.
+Unpacking aptitude (from .../aptitude_0.6.4-1.2_powerpc.deb) ...
+Setting up libncursesw5 (5.9-4) ...
+Setting up libboost-iostreams1.46.1 (1.46.1-7+b1) ...
+Setting up libsigc++-2.0-0c2a (2.2.9-1) ...
+Setting up libcwidget3 (0.5.16-3.1) ...
+Setting up libxapian22 (1.2.7-1) ...
+Setting up libept1 (1.0.5) ...
+Setting up libsqlite3-0 (3.7.9-2) ...
+Setting up aptitude (0.6.4-1.2) ...
update-alternatives: using /usr/bin/aptitude-curses to provide /usr/bin/aptitude (aptitude) in auto mode.
-dpkg-deb: building package `sbuild-build-depends-bwa-dummy' in `/build/buildd-bwa_0.5.9~rc-1-powerpc-GhiopG/buildd-bwa-powerpc-reK4oo/sbuild-build-depends-bwa-dummy.deb'.
-Selecting previously deselected package sbuild-build-depends-bwa-dummy.
-(Reading database ... 10369 files and directories currently installed.)
-Unpacking sbuild-build-depends-bwa-dummy (from .../sbuild-build-depends-bwa-dummy.deb) ...
-dpkg: dependency problems prevent configuration of sbuild-build-depends-bwa-dummy:
- sbuild-build-depends-bwa-dummy depends on cdbs; however:
- Package cdbs is not installed.
- sbuild-build-depends-bwa-dummy depends on debhelper (>= 8); however:
- Package debhelper is not installed.
- sbuild-build-depends-bwa-dummy depends on zlib1g-dev; however:
- Package zlib1g-dev is not installed.
-dpkg: error processing sbuild-build-depends-bwa-dummy (--install):
- dependency problems - leaving unconfigured
-Errors were encountered while processing:
- sbuild-build-depends-bwa-dummy
-aptitude -y --without-recommends -o APT::Install-Recommends=false -o Aptitude::ProblemResolver::StepScore=100 -o Aptitude::ProblemResolver::Hints::KeepDummy=reject sbuild-build-depends-bwa-dummy :UNINST -o Aptitude::ProblemResolver::Keep-All-Tier=55000 -o Aptitude::ProblemResolver::Remove-Essential-Tier=maximum install sbuild-build-depends-bwa-dummy
+aptitude -y --without-recommends -o Dpkg::Options::=--force-confold -o Aptitude::CmdLine::Ignore-Trust-Violations=false -o Aptitude::ProblemResolver::StepScore=100 -o Aptitude::ProblemResolver::SolutionCost=safety, priority, non-default-versions -o Aptitude::ProblemResolver::Hints::KeepDummy=reject sbuild-build-depends-core-dummy :UNINST -o Aptitude::ProblemResolver::Keep-All-Level=55000 -o Aptitude::ProblemResolver::Remove-Essential-Level=maximum install sbuild-build-depends-core-dummy
Reading package lists...
Building dependency tree...
Reading state information...
Initializing package states...
Writing extended state information...
The following NEW packages will be installed:
- bsdmainutils{a} cdbs{a} debhelper{a} file{a} gettext{a} gettext-base{a}
- groff-base{a} html2text{a} intltool-debian{a} libcroco3{a}
- libglib2.0-0{a} libmagic1{a} libpcre3{a} libunistring0{a} libxml2{a}
- man-db{a} po-debconf{a} zlib1g-dev{a}
-The following partially installed packages will be configured:
- sbuild-build-depends-bwa-dummy
-0 packages upgraded, 18 newly installed, 0 to remove and 13 not upgraded.
-Need to get 10.2 MB of archives. After unpacking 29.4 MB will be used.
+ sbuild-build-depends-core-dummy
+0 packages upgraded, 1 newly installed, 0 to remove and 11 not upgraded.
+Need to get 0 B/712 B of archives. After unpacking 0 B will be used.
Writing extended state information...
-Get:1 http://ftp.uk.debian.org/debian/ unstable/main libmagic1 powerpc 5.04-5 [241 kB]
-Get:2 http://ftp.uk.debian.org/debian/ unstable/main file powerpc 5.04-5 [49.9 kB]
-Get:3 http://ftp.uk.debian.org/debian/ unstable/main html2text powerpc 1.3.2a-15 [105 kB]
-Get:4 http://ftp.uk.debian.org/debian/ unstable/main libpcre3 powerpc 8.02-1.1 [231 kB]
-Get:5 http://ftp.uk.debian.org/debian/ unstable/main libglib2.0-0 powerpc 2.24.2-1 [1111 kB]
-Get:6 http://ftp.uk.debian.org/debian/ unstable/main libxml2 powerpc 2.7.8.dfsg-2 [849 kB]
-Get:7 http://ftp.uk.debian.org/debian/ unstable/main libcroco3 powerpc 0.6.2-1 [128 kB]
-Get:8 http://ftp.uk.debian.org/debian/ unstable/main libunistring0 powerpc 0.9.3-3 [422 kB]
-Get:9 http://ftp.uk.debian.org/debian/ unstable/main gettext-base powerpc 0.18.1.1-3 [141 kB]
-Get:10 http://ftp.uk.debian.org/debian/ unstable/main gettext powerpc 0.18.1.1-3 [2046 kB]
-Get:11 http://ftp.uk.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
-Get:12 http://ftp.uk.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
-Get:13 http://ftp.uk.debian.org/debian/ unstable/main groff-base powerpc 1.20.1-10 [1196 kB]
-Get:14 http://ftp.uk.debian.org/debian/ unstable/main bsdmainutils powerpc 8.2.1 [209 kB]
-Get:15 http://ftp.uk.debian.org/debian/ unstable/main man-db powerpc 2.5.7-8 [1286 kB]
-Get:16 http://ftp.uk.debian.org/debian/ unstable/main debhelper all 8.0.0 [454 kB]
-Get:17 http://ftp.uk.debian.org/debian/ unstable/main cdbs all 0.4.89 [1240 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 10.2 MB in 1s (7285 kB/s)
-Selecting previously deselected package libmagic1.
-(Reading database ... 10369 files and directories currently installed.)
-Unpacking libmagic1 (from .../libmagic1_5.04-5_powerpc.deb) ...
-Selecting previously deselected package file.
-Unpacking file (from .../file_5.04-5_powerpc.deb) ...
-Selecting previously deselected package html2text.
+Selecting previously unselected package sbuild-build-depends-core-dummy.
+(Reading database ... 10882 files and directories currently installed.)
+Unpacking sbuild-build-depends-core-dummy (from .../sbuild-build-depends-core-dummy.deb) ...
+Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
+Reading package lists...
+Building dependency tree...
+Reading state information...
+Reading extended state information...
+Initializing package states...
+Writing extended state information...
+dpkg-deb: building package `sbuild-build-depends-bwa-dummy' in `/build/buildd-bwa_0.6.0-2-powerpc-PzIQoY/resolver-aQ6Hov/apt_archive/sbuild-build-depends-bwa-dummy.deb'.
+OK
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install bwa build dependencies (aptitude-based resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+aptitude is already the newest version.
+0 upgraded, 0 newly installed, 0 to remove and 11 not upgraded.
+aptitude -y --without-recommends -o Dpkg::Options::=--force-confold -o Aptitude::CmdLine::Ignore-Trust-Violations=false -o Aptitude::ProblemResolver::StepScore=100 -o Aptitude::ProblemResolver::SolutionCost=safety, priority, non-default-versions -o Aptitude::ProblemResolver::Hints::KeepDummy=reject sbuild-build-depends-bwa-dummy :UNINST -o Aptitude::ProblemResolver::Keep-All-Level=55000 -o Aptitude::ProblemResolver::Remove-Essential-Level=maximum install sbuild-build-depends-bwa-dummy
+Reading package lists...
+Building dependency tree...
+Reading state information...
+Reading extended state information...
+Initializing package states...
+The following NEW packages will be installed:
+ bsdmainutils{a} debhelper{a} file{a} gettext{a} gettext-base{a}
+ groff-base{a} html2text{a} intltool-debian{a} libcroco3{a} libffi5{a}
+ libglib2.0-0{a} libmagic1{a} libpcre3{a} libpipeline1{a} libunistring0{a}
+ libxml2{a} man-db{a} po-debconf{a} sbuild-build-depends-bwa-dummy
+ zlib1g-dev{a}
+0 packages upgraded, 20 newly installed, 0 to remove and 11 not upgraded.
+Need to get 9430 kB/9431 kB of archives. After unpacking 26.5 MB will be used.
+Writing extended state information...
+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 libffi5 powerpc 3.0.10-3 [25.5 kB]
+Get: 4 http://ftp.uk.debian.org/debian/ unstable/main libglib2.0-0 powerpc 2.30.2-4 [1798 kB]
+Get: 5 http://ftp.uk.debian.org/debian/ unstable/main libxml2 powerpc 2.7.8.dfsg-5 [837 kB]
+Get: 6 http://ftp.uk.debian.org/debian/ unstable/main libcroco3 powerpc 0.6.2-2 [114 kB]
+Get: 7 http://ftp.uk.debian.org/debian/ unstable/main libunistring0 powerpc 0.9.3-5 [421 kB]
+Get: 8 http://ftp.uk.debian.org/debian/ unstable/main bsdmainutils powerpc 8.2.3 [207 kB]
+Get: 9 http://ftp.uk.debian.org/debian/ unstable/main groff-base powerpc 1.21-6 [1179 kB]
+Get: 10 http://ftp.uk.debian.org/debian/ unstable/main man-db powerpc 2.6.0.2-3 [1014 kB]
+Get: 11 http://ftp.uk.debian.org/debian/ unstable/main libmagic1 powerpc 5.09-2 [253 kB]
+Get: 12 http://ftp.uk.debian.org/debian/ unstable/main file powerpc 5.09-2 [52.0 kB]
+Get: 13 http://ftp.uk.debian.org/debian/ unstable/main gettext-base powerpc 0.18.1.1-5 [132 kB]
+Get: 14 http://ftp.uk.debian.org/debian/ unstable/main html2text powerpc 1.3.2a-15 [105 kB]
+Get: 15 http://ftp.uk.debian.org/debian/ unstable/main gettext powerpc 0.18.1.1-5 [2036 kB]
+Get: 16 http://ftp.uk.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get: 17 http://ftp.uk.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get: 18 http://ftp.uk.debian.org/debian/ unstable/main debhelper all 8.9.11 [552 kB]
+Get: 19 http://ftp.uk.debian.org/debian/ unstable/main zlib1g-dev powerpc 1:1.2.3.4.dfsg-3 [190 kB]
+Fetched 9430 kB in 2s (3628 kB/s)
+debconf: delaying package configuration, since apt-utils is not installed
+Selecting previously unselected package libpipeline1.
+(Reading database ... 10882 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 libffi5.
+Unpacking libffi5 (from .../libffi5_3.0.10-3_powerpc.deb) ...
+Selecting previously unselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.30.2-4_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 deselected package libpcre3.
-Unpacking libpcre3 (from .../libpcre3_8.02-1.1_powerpc.deb) ...
-Selecting previously deselected package libglib2.0-0.
-Unpacking libglib2.0-0 (from .../libglib2.0-0_2.24.2-1_powerpc.deb) ...
-Selecting previously deselected package libxml2.
-Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_powerpc.deb) ...
-Selecting previously deselected package libcroco3.
-Unpacking libcroco3 (from .../libcroco3_0.6.2-1_powerpc.deb) ...
-Selecting previously deselected package libunistring0.
-Unpacking libunistring0 (from .../libunistring0_0.9.3-3_powerpc.deb) ...
-Selecting previously deselected package gettext-base.
-Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_powerpc.deb) ...
-Selecting previously deselected package gettext.
-Unpacking gettext (from .../gettext_0.18.1.1-3_powerpc.deb) ...
-Selecting previously deselected package intltool-debian.
+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 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 groff-base.
-Unpacking groff-base (from .../groff-base_1.20.1-10_powerpc.deb) ...
-Selecting previously deselected package bsdmainutils.
-Unpacking bsdmainutils (from .../bsdmainutils_8.2.1_powerpc.deb) ...
-Selecting previously deselected package man-db.
-Unpacking man-db (from .../man-db_2.5.7-8_powerpc.deb) ...
-Selecting previously deselected package debhelper.
-Unpacking debhelper (from .../debhelper_8.0.0_all.deb) ...
-Selecting previously deselected package cdbs.
-Unpacking cdbs (from .../archives/cdbs_0.4.89_all.deb) ...
-Selecting previously deselected package zlib1g-dev.
+Selecting previously unselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.9.11_all.deb) ...
+Selecting previously unselected package zlib1g-dev.
Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_powerpc.deb) ...
-Setting up libmagic1 (5.04-5) ...
-Setting up file (5.04-5) ...
-Setting up html2text (1.3.2a-15) ...
-Setting up libpcre3 (8.02-1.1) ...
-Setting up libglib2.0-0 (2.24.2-1) ...
-Setting up libxml2 (2.7.8.dfsg-2) ...
-Setting up libcroco3 (0.6.2-1) ...
-Setting up libunistring0 (0.9.3-3) ...
-Setting up gettext-base (0.18.1.1-3) ...
-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 groff-base (1.20.1-10) ...
-Setting up bsdmainutils (8.2.1) ...
+Selecting previously unselected package sbuild-build-depends-bwa-dummy.
+Unpacking sbuild-build-depends-bwa-dummy (from .../sbuild-build-depends-bwa-dummy.deb) ...
+Setting up libpipeline1 (1.2.0-5) ...
+Setting up libpcre3 (8.12-4) ...
+Setting up libffi5 (3.0.10-3) ...
+Setting up libglib2.0-0 (2.30.2-4) ...
+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 man-db (2.5.7-8) ...
-debconf: unable to initialize frontend: Dialog
-debconf: (TERM is not set, so the dialog frontend is not usable.)
-debconf: falling back to frontend: Readline
-debconf: unable to initialize frontend: Readline
-debconf: (This frontend requires a controlling tty.)
-debconf: falling back to frontend: Teletype
+Setting up groff-base (1.21-6) ...
+Setting up man-db (2.6.0.2-3) ...
Building database of manual pages ...
-Setting up debhelper (8.0.0) ...
-Setting up cdbs (0.4.89) ...
+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 (8.9.11) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
Setting up sbuild-build-depends-bwa-dummy (0.invalid.0) ...
Reading package lists...
@@ -298,9 +322,9 @@ Reading state information...
Reading extended state information...
Initializing package states...
Writing extended state information...
-Kernel: Linux 2.6.26-2-powerpc64 powerpc (ppc64)
-Toolchain package versions: libc6-dev_2.11.2-7 dpkg-dev_1.15.8.8 linux-libc-dev_2.6.32-30 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_4.4.5-10
-Package versions: apt_0.8.10 aptitude_0.6.3-3.2 base-files_6.0 base-passwd_3.5.22 bash_4.1-3 binutils_2.20.1-15 bsdmainutils_8.2.1 bsdutils_1:2.17.2-6 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.89 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_1.5.37 debconf-i18n_1.5.37 debfoster_2.7-1.1 debhelper_8.0.0 debian-archive-keyring_2010.08.28 debianutils_3.4.2 diffutils_1:3.0-1 dpkg_1.15.8.8 dpkg-dev_1.15.8.8 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.14.5-1 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_1.20.1-10 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_2.17.2-6 libboost-iostreams1.42.0_1.42.0-4 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-7 libc-dev-bin_2.11.2-7 libc6_2.11.2-7 libc6-dev_2.11.2-7 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libcwidget3_0.5.16-3 libdb4.7_4.7.25-11 libdb4.8_4.8.30-3 libdpkg-perl_1.15.8.8 libept1_1.0.4 libgc1c2_1:6.8-1.2 libgcc1_1:4.4.5-10 libgdbm3_1.8.3-9 libglib2.0-0_2.24.2-1 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 libncursesw5_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_8.02-1.1 libreadline6_6.1-3 libselinux1_2.0.96-1 libsepol1_2.0.42-1 libsigc++-2.0-0c2a_2.2.4.2-1 libslang2_2.2.2-4 libsqlite3-0_3.7.4-2 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_2:0.1.12-16 libuuid1_2.17.2-6 libxapian22_1.2.4-1 libxml2_2.7.8.dfsg-2 linux-libc-dev_2.6.32-30 login_1:4.1.4.2+svn3283-2 lsb-base_3.2-26 make_3.81-8 man-db_2.5.7-8 mawk_1.3.3-15 mount_2.17.2-6 ncurses-base_5.7+20100313-5 ncurses-bin_5.7+20100313-5 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 po-debconf_1.0.16+nmu1 readline-common_6.1-3 sbuild-build-depends-bwa-dummy_0.invalid.0 sed_4.2.1-8 sensible-utils_0.0.6 sudo_1.7.4p4-6 sysv-rc_2.88dsf-13.1 sysvinit_2.88dsf-13.1 sysvinit-utils_2.88dsf-13.1 tar_1.25-3 tzdata_2010o-1 util-linux_2.17.2-6 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+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_4.6.2-4 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 aptitude_0.6.4-1.2 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_8.9.11 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 libboost-iostreams1.46.1_1.46.1-7+b1 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 libcwidget3_0.5.16-3.1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.1.1 libept1_1.0.5 libffi5_3.0.10-3 libgc1c2_1:7.1-8 libgcc1_1:4.6.2-4 libgdbm3_1.8.3-10 libglib2.0-0_2.30.2-4 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 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 libreadline6_6.2-7 libselinux1_2.1.0-4 libsepol1_2.1.0-1.1 libsigc++-2.0-0c2a_2.2.9-1 libslang2_2.2.4-3 libsqlite3-0_3.7.9-2 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 libxapian22_1.2.7-1 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_5.9-4 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 sbuild-build-depends-bwa-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 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 │
@@ -310,14 +334,12 @@ Package versions: apt_0.8.10 aptitude_0.6.3-3.2 base-files_6.0 base-passwd_3.5.2
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 Thu Jan 20 12:57:54 2011 UTC using RSA key ID 2295D502
+gpgv: Signature made Tue Nov 22 02:41:12 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~rc-1.dsc
-dpkg-source: info: extracting bwa in bwa-0.5.9~rc
-dpkg-source: info: unpacking bwa_0.5.9~rc.orig.tar.bz2
-dpkg-source: info: unpacking bwa_0.5.9~rc-1.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bwa_0.6.0-2.dsc
+dpkg-source: info: extracting bwa in bwa-0.6.0
+dpkg-source: info: unpacking bwa_0.6.0-2.tar.gz
Check disc space
────────────────
@@ -326,159 +348,222 @@ 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~rc-1
- dpkg-source --before-build bwa-0.5.9~rc
+dpkg-buildpackage: source version 0.6.0-2
+ dpkg-source --before-build bwa-0.6.0
dpkg-buildpackage: host architecture powerpc
- /usr/bin/fakeroot debian/rules clean
-test -x debian/rules
-dh_testroot
-rm -f debian/stamp-makefile-build debian/stamp-makefile-install
-/usr/bin/make -C . CFLAGS="-g -O2 -g -Wall -O2" CXXFLAGS="-g -O2 -g -Wall -O2" CPPFLAGS="" LDFLAGS="" -k clean
-make[1]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-powerpc-GhiopG/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-powerpc-GhiopG/bwa-0.5.9~rc'
+ fakeroot debian/rules clean
+dh clean
+ dh_testdir
+ dh_auto_clean
+make[1]: Entering directory `/build/buildd-bwa_0.6.0-2-powerpc-PzIQoY/bwa-0.6.0'
rm -f gmon.out *.o a.out bwa *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-powerpc-GhiopG/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-powerpc-GhiopG/bwa-0.5.9~rc/bwt_gen'
-rm -f gmon.out *.o a.out *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-powerpc-GhiopG/bwa-0.5.9~rc/bwt_gen'
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-powerpc-GhiopG/bwa-0.5.9~rc'
-dh_clean
+make[1]: Leaving directory `/build/buildd-bwa_0.6.0-2-powerpc-PzIQoY/bwa-0.6.0'
+ dh_clean
debian/rules build
-test -x debian/rules
-mkdir -p "."
-/usr/bin/make -C . CFLAGS="-g -O2 -g -Wall -O2" CXXFLAGS="-g -O2 -g -Wall -O2" CPPFLAGS="" LDFLAGS=""
-make[1]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-powerpc-GhiopG/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-powerpc-GhiopG/bwa-0.5.9~rc'
-make[2]: Nothing to be done for `lib'.
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-powerpc-GhiopG/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-powerpc-GhiopG/bwa-0.5.9~rc/bwt_gen'
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwt_gen.c -o bwt_gen.o
-gcc -c -g -O2 -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~rc-1-powerpc-GhiopG/bwa-0.5.9~rc/bwt_gen'
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD utils.c -o utils.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwt.c -o bwt.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtio.c -o bwtio.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtaln.c -o bwtaln.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtgap.c -o bwtgap.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD is.c -o is.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bntseq.c -o bntseq.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtmisc.c -o bwtmisc.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtindex.c -o bwtindex.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD stdaln.c -o stdaln.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD simple_dp.c -o simple_dp.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwaseqio.c -o bwaseqio.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwase.c -o bwase.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwape.c -o bwape.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD kstring.c -o kstring.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD cs2nt.c -o cs2nt.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_core.c -o bwtsw2_core.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_main.c -o bwtsw2_main.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_aux.c -o bwtsw2_aux.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwt_lite.c -o bwt_lite.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_chain.c -o bwtsw2_chain.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bamlite.c -o bamlite.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD main.c -o main.o
-gcc -g -O2 -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~rc-1-powerpc-GhiopG/bwa-0.5.9~rc'
-touch debian/stamp-makefile-build
-DEB_MAKE_CHECK_TARGET unset, not running checks
- /usr/bin/fakeroot debian/rules binary-arch
-test -x debian/rules
-dh_testroot
-dh_prep
-dh_installdirs -A
-mkdir -p "."
-DEB_MAKE_CHECK_TARGET unset, not running checks
-DEB_MAKE_INSTALL_TARGET unset, skipping default makefile.mk common-install target
-Adding cdbs dependencies to debian/bwa.substvars
-dh_installdirs -pbwa
-dh_installdocs -pbwa ./NEWS
-dh_installexamples -pbwa
-dh_installman -pbwa
-dh_installinfo -pbwa
-dh_installmenu -pbwa
-dh_installcron -pbwa
-dh_installinit -pbwa
-dh_installdebconf -pbwa
-dh_installemacsen -pbwa
-dh_installcatalogs -pbwa
-dh_installpam -pbwa
-dh_installlogrotate -pbwa
-dh_installlogcheck -pbwa
-dh_installchangelogs -pbwa ./ChangeLog
-dh_installudev -pbwa
-dh_lintian -pbwa
-dh_install -pbwa
-dh_link -pbwa
-dh_installmime -pbwa
-dh_strip -pbwa
-dh_compress -pbwa
-dh_fixperms -pbwa
-dh_makeshlibs -pbwa
-dh_installdeb -pbwa
-dh_perl -pbwa
-dh_shlibdeps -pbwa
-dh_gencontrol -pbwa
+dh build
+ dh_testdir
+ dh_auto_configure
+ debian/rules override_dh_auto_build
+make[1]: Entering directory `/build/buildd-bwa_0.6.0-2-powerpc-PzIQoY/bwa-0.6.0'
+dh_auto_build -- CFLAGS="-Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro" DFLAGS="-DHAVE_PTHREAD -D_NO_SSE2"
+make[2]: Entering directory `/build/buildd-bwa_0.6.0-2-powerpc-PzIQoY/bwa-0.6.0'
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 QSufSort.c -o QSufSort.o
+QSufSort.c: In function 'QSufSortSuffixSort':
+QSufSort.c:62:10: warning: variable 'maxNumInputSymbol' set but not used [-Wunused-but-set-variable]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt_gen.c -o bwt_gen.o
+bwt_gen.c: In function 'BWTIncBuildRelativeRank':
+bwt_gen.c:873:10: warning: variable 'oldInverseSa0RelativeRank' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncMergeBwt':
+bwt_gen.c:947:15: warning: variable 'bitsInWordMinusBitPerChar' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncConstructFromPacked':
+bwt_gen.c:1452:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwt_gen.c:1468:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwt_gen.c:1483:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 utils.c -o utils.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt.c -o bwt.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtio.c -o bwtio.o
+bwtio.c: In function 'bwt_restore_bwt':
+bwtio.c:62:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:63:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:64:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c: In function 'bwt_restore_sa':
+bwtio.c:36:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:38:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:39:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:40:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:47:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtaln.c -o bwtaln.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtgap.c -o bwtgap.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 is.c -o is.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bntseq.c -o bntseq.o
+bntseq.c: In function 'bns_restore_core':
+bntseq.c:98:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:106:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:114:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:123:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:129:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtmisc.c -o bwtmisc.o
+bwtmisc.c: In function 'bwa_pac2cspac_core':
+bwtmisc.c:172:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtmisc.c: In function 'bwt_pac2bwt':
+bwtmisc.c:72:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtmisc.c: In function 'bwa_seq_len':
+bwtmisc.c:51:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtindex.c -o bwtindex.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 ksw.c -o ksw.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 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 -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 simple_dp.c -o simple_dp.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwaseqio.c -o bwaseqio.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwase.c -o bwase.o
+bwase.c: In function 'bwa_aln2seq_core':
+bwase.c:74:15: warning: variable 'k' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_print_sam1':
+bwase.c:447:17: warning: variable 'm_is_N' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_sai2sam_se_core':
+bwase.c:603:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:619:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:624:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c: In function 'bwa_refine_gapped':
+bwase.c:310:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:316:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwape.c -o bwape.o
+bwape.c: In function 'bwa_sai2sam_pe_core':
+bwape.c:683:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:686:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:697:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c: In function 'bwa_paired_sw':
+bwape.c:527:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c: In function 'bwa_cal_pac_pos_pe':
+bwape.c:312:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:316:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 kstring.c -o kstring.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 cs2nt.c -o cs2nt.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_core.c -o bwtsw2_core.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_main.c -o bwtsw2_main.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_aux.c -o bwtsw2_aux.o
+bwtsw2_aux.c: In function 'gen_cigar':
+bwtsw2_aux.c:186:7: warning: variable 'score' set but not used [-Wunused-but-set-variable]
+bwtsw2_aux.c: In function 'bsw2_aln':
+bwtsw2_aux.c:734:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt_lite.c -o bwt_lite.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_chain.c -o bwtsw2_chain.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bamlite.c -o bamlite.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 fastmap.c -o fastmap.o
+fastmap.c: In function 'main_fastmap':
+fastmap.c:54:3: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'size_t' [-Wformat]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_pair.c -o bwtsw2_pair.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 main.c -o main.o
+gcc -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 QSufSort.o bwt_gen.o utils.o bwt.o bwtio.o bwtaln.o bwtgap.o is.o bntseq.o bwtmisc.o bwtindex.o ksw.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 fastmap.o bwtsw2_pair.o main.o -o bwa -lm -lz -lpthread
+make[2]: Leaving directory `/build/buildd-bwa_0.6.0-2-powerpc-PzIQoY/bwa-0.6.0'
+make[1]: Leaving directory `/build/buildd-bwa_0.6.0-2-powerpc-PzIQoY/bwa-0.6.0'
+ dh_auto_test
+ fakeroot debian/rules binary-arch
+dh binary-arch
+ dh_testroot -a
+ dh_prep -a
+ dh_installdirs -a
+ dh_auto_install -a
+ dh_install -a
+ dh_installdocs -a
+ dh_installchangelogs -a
+ dh_installexamples -a
+ dh_installman -a
+ dh_installcatalogs -a
+ dh_installcron -a
+ dh_installdebconf -a
+ dh_installemacsen -a
+ dh_installifupdown -a
+ dh_installinfo -a
+ dh_installinit -a
+ dh_installmenu -a
+ dh_installmime -a
+ dh_installmodules -a
+ dh_installlogcheck -a
+ dh_installlogrotate -a
+ dh_installpam -a
+ dh_installppp -a
+ 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
+ dh_perl -a
+ dh_usrlocal -a
+ dh_link -a
+ dh_compress -a
+ dh_fixperms -a
+ dh_strip -a
+ dh_makeshlibs -a
+ dh_shlibdeps -a
+ dh_installdeb -a
+ dh_gencontrol -a
dpkg-gencontrol: warning: package bwa: unused substitution variable ${perl:Depends}
-dh_md5sums -pbwa
-dh_builddeb -pbwa
-dpkg-deb: building package `bwa' in `../bwa_0.5.9~rc-1_powerpc.deb'.
- dpkg-genchanges -B -mpowerpc Build Daemon (poulenc) <buildd_powerpc-poulenc at buildd.debian.org> >../bwa_0.5.9~rc-1_powerpc.changes
+ dh_md5sums -a
+ dh_builddeb -a
+dpkg-deb: building package `bwa' in `../bwa_0.6.0-2_powerpc.deb'.
+ dpkg-genchanges -B -mpowerpc Build Daemon (porpora) <buildd_powerpc-porpora at buildd.debian.org> >../bwa_0.6.0-2_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~rc
+ dpkg-source --after-build bwa-0.6.0
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110120-1312
+Build finished at 20111122-0321
-bwa_0.5.9~rc-1_powerpc.changes:
+bwa_0.6.0-2_powerpc.changes:
Format: 1.8
-Date: Thu, 20 Jan 2011 21:42:55 +0900
+Date: Tue, 22 Nov 2011 11:32:11 +0900
Source: bwa
Binary: bwa
Architecture: powerpc
-Version: 0.5.9~rc-1
+Version: 0.6.0-2
Distribution: experimental
Urgency: low
-Maintainer: powerpc Build Daemon (poulenc) <buildd_powerpc-poulenc at buildd.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
+Closes: 648803
Changes:
- bwa (0.5.9~rc-1) experimental; urgency=low
+ bwa (0.6.0-2) experimental; urgency=low
.
- * New usptream release candidate.
+ [9410de3] Disable SSE2 everywhere except on amd64 (Closes: #648803).
+ [fb4c559] Reimplementation of Standard SW for when SSE2 is unavailable.
+ cherry picked from upstream commit 182cb2e.
+ This commit modifies upstream sources.
+ [9c93ccd] Use native format to bypass mandatory patch system.
Checksums-Sha1:
- 48cbbc2cd7798043cf09a2afbf1dd21179ea79d8 150598 bwa_0.5.9~rc-1_powerpc.deb
+ bff759d4272a7263cb15aad637d9bb668c6b6f15 176470 bwa_0.6.0-2_powerpc.deb
Checksums-Sha256:
- 4e8f6787b630de5c0ec708c22cd7401b35403994e4decccb7fe73f7125eb67a5 150598 bwa_0.5.9~rc-1_powerpc.deb
+ b119ebe38c0ea30dc743f929c5b0c4508ac6fe5fcc9e217fdcd2d07b0fc0a7e9 176470 bwa_0.6.0-2_powerpc.deb
Files:
- 517f18804525d30611ea241d56fdd88b 150598 science optional bwa_0.5.9~rc-1_powerpc.deb
+ a6898ab561a36a210c35b60c29cd84a4 176470 science optional bwa_0.6.0-2_powerpc.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bwa_0.5.9~rc-1_powerpc.deb
-──────────────────────────
+bwa_0.6.0-2_powerpc.deb
+───────────────────────
new debian package, version 2.0.
- size 150598 bytes: control archive= 944 bytes.
- 779 bytes, 17 lines control
- 556 bytes, 9 lines md5sums
+ size 176470 bytes: control archive= 992 bytes.
+ 776 bytes, 17 lines control
+ 610 bytes, 10 lines md5sums
Package: bwa
- Version: 0.5.9~rc-1
+ Version: 0.6.0-2
Architecture: powerpc
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 336
+ Installed-Size: 323
Depends: libc6 (>= 2.7), zlib1g (>= 1:1.1.4)
Suggests: samtools
Section: science
@@ -492,24 +577,25 @@ bwa_0.5.9~rc-1_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 2011-01-20 13:12 ./
-drwxr-xr-x root/root 0 2011-01-20 13:12 ./usr/
-drwxr-xr-x root/root 0 2011-01-20 13:12 ./usr/share/
-drwxr-xr-x root/root 0 2011-01-20 13:12 ./usr/share/man/
-drwxr-xr-x root/root 0 2011-01-20 13:12 ./usr/share/man/man1/
--rw-r--r-- root/root 7423 2011-01-20 13:12 ./usr/share/man/man1/bwa.1.gz
-drwxr-xr-x root/root 0 2011-01-20 13:12 ./usr/share/bwa/
--rwxr-xr-x root/root 3176 2011-01-20 11:35 ./usr/share/bwa/solid2fastq.pl
--rwxr-xr-x root/root 616 2011-01-20 11:35 ./usr/share/bwa/qualfa2fq.pl
-drwxr-xr-x root/root 0 2011-01-20 13:12 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-01-20 13:12 ./usr/share/doc/bwa/
--rw-r--r-- root/root 17751 2011-01-20 11:35 ./usr/share/doc/bwa/changelog.gz
--rw-r--r-- root/root 2679 2011-01-20 11:52 ./usr/share/doc/bwa/copyright
--rw-r--r-- root/root 805 2011-01-20 12:43 ./usr/share/doc/bwa/changelog.Debian.gz
--rw-r--r-- root/root 5606 2011-01-20 11:35 ./usr/share/doc/bwa/NEWS.gz
--rw-r--r-- root/root 17751 2011-01-20 11:35 ./usr/share/doc/bwa/ChangeLog.gz
-drwxr-xr-x root/root 0 2011-01-20 13:12 ./usr/bin/
--rwxr-xr-x root/root 224360 2011-01-20 13:12 ./usr/bin/bwa
+drwxr-xr-x root/root 0 2011-11-22 03:21 ./
+drwxr-xr-x root/root 0 2011-11-22 03:21 ./usr/
+drwxr-xr-x root/root 0 2011-11-22 03:21 ./usr/bin/
+-rwxr-xr-x root/root 247344 2011-11-22 03:21 ./usr/bin/bwa
+drwxr-xr-x root/root 0 2011-11-22 03:21 ./usr/share/
+drwxr-xr-x root/root 0 2011-11-22 03:21 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-11-22 03:21 ./usr/share/man/man1/
+-rw-r--r-- root/root 7745 2011-11-22 03:21 ./usr/share/man/man1/bwa.1.gz
+drwxr-xr-x root/root 0 2011-11-22 03:21 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-11-22 03:21 ./usr/share/doc/bwa/
+-rw-r--r-- root/root 17912 2011-11-22 01:55 ./usr/share/doc/bwa/changelog.gz
+-rw-r--r-- root/root 2785 2011-11-22 01:55 ./usr/share/doc/bwa/copyright
+-rw-r--r-- root/root 634 2011-11-22 01:55 ./usr/share/doc/bwa/README
+-rw-r--r-- root/root 6680 2011-11-22 01:55 ./usr/share/doc/bwa/NEWS.gz
+-rw-r--r-- root/root 1471 2011-11-22 02:32 ./usr/share/doc/bwa/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-11-22 03:21 ./usr/share/bwa/
+-rwxr-xr-x root/root 730 2011-11-22 01:55 ./usr/share/bwa/xa2multi.pl
+-rwxr-xr-x root/root 3176 2011-11-22 01:55 ./usr/share/bwa/solid2fastq.pl
+-rwxr-xr-x root/root 616 2011-11-22 01:55 ./usr/share/bwa/qualfa2fq.pl
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -518,9 +604,31 @@ drwxr-xr-x root/root 0 2011-01-20 13:12 ./usr/bin/
Built successfully
────────────────────────────────────────────────────────────────────────────────
-Purging /var/lib/schroot/mount/sid-experimental-powerpc-sbuild-694c0549-20b9-4178-8ce3-6a583e3e8302/build/buildd-bwa_0.5.9~rc-1-powerpc-GhiopG
-Not removing build depends: cloned chroot in use
-────────────────────────────────────────────────────────────────────────────────
-Finished at 20110120-1312
-Build needed 00:02:33, 2636k disc space
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /var/lib/schroot/mount/sid-experimental-powerpc-sbuild-e8f02ee3-028b-4aab-8f40-39f3ea09dcd5/build/buildd-bwa_0.6.0-2-powerpc-PzIQoY
+Not cleaning session: cloned chroot in use
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Architecture: powerpc
+Build-Space: 3036
+Build-Time: 38
+Distribution: experimental
+Install-Time: 73
+Job: bwa_0.6.0-2
+Package: bwa
+Package-Time: 153
+Source-Version: 0.6.0-2
+Space: 3036
+Status: successful
+Version: 0.6.0-2
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20111122-0321
+Build needed 00:02:33, 3036k disc space
+Signature with key '8CE75D05' requested:
diff --git a/s390.log b/s390.log
index 53ced33..c9edca3 100644
--- a/s390.log
+++ b/s390.log
@@ -1,90 +1,95 @@
-From buildd at zandonai.debian.org Thu Jan 20 13:53:22 2011
+From buildd at zandonai.debian.org Tue Nov 22 03:26:20 2011
Return-path: <buildd at zandonai.debian.org>
-Received: from kokkonen.debian.org ([2001:41b8:202:deb:216:35ff:fec4:6340])
+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 zandonai.debian.org>)
- id 1Pfuwz-00033a-SW
- for logs at buildd.debian.org; Thu, 20 Jan 2011 13:53:22 +0000
+ (Exim 4.72) (envelope-from <buildd at zandonai.debian.org>)
+ id 1RSh00-0007BA-8G
+ for logs at buildd.debian.org; Tue, 22 Nov 2011 03:26:20 +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 kokkonen.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at zandonai.debian.org>)
- id 1Pfuwy-0000KR-TZ; Thu, 20 Jan 2011 13:53:21 +0000
-Received: from buildd by zandonai.debian.org with local (Exim 4.69)
+ (Exim 4.72) (envelope-from <buildd at zandonai.debian.org>)
+ id 1RSgzz-0005qB-FC; Tue, 22 Nov 2011 03:26:19 +0000
+Received: from buildd by zandonai.debian.org with local (Exim 4.72)
(envelope-from <buildd at zandonai.debian.org>)
- id 1Pfuwx-00043G-KH; Thu, 20 Jan 2011 13:53:19 +0000
+ id 1RSgzy-0004Dz-Ra; Tue, 22 Nov 2011 03:26:18 +0000
+Message-Id: <E1RSgzy-0004Dz-Ra 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: Tue, 22 Nov 2011 03:26:18 +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~rc-1 on s390 (dist=experimental)
-Content-Type: text/plain; charset=UTF-8
-Content-Transfer-Encoding: 8bit
-Message-Id: <E1Pfuwx-00043G-KH at zandonai.debian.org>
-Date: Thu, 20 Jan 2011 13:53:19 +0000
+Subject: Log for successful build of bwa_0.6.0-2 on s390 (dist=experimental)
+Key-Id: 772711F7
Delivered-To: logs at buildd.debian.org
-sbuild (Debian sbuild) 0.60.0 (23 Feb 2010) on zandonai.debian.org
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on zandonai.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bwa 0.5.9~rc-1 (s390) 20 Jan 2011 13:51 ║
+║ bwa 0.6.0-2 (s390) 22 Nov 2011 03:24 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bwa
-Version: 0.5.9~rc-1
+Version: 0.6.0-2
+Source Version: 0.6.0-2
Architecture: s390
-Chroot Build Dir: /var/lib/schroot/mount/sid-experimental-s390-sbuild-5e65459d-5a03-4a7c-ac4f-9831b09dea8a/build/buildd-bwa_0.5.9~rc-1-s390-anr5mr
-Start Time: 20110120-1351
-Get:1 http://ftp.de.debian.org unstable Release.gpg [835 B]
-Ign http://ftp.de.debian.org/debian/ unstable/contrib Translation-en
-Ign http://ftp.de.debian.org/debian/ unstable/main Translation-en
-Get:2 http://ftp.de.debian.org experimental Release.gpg [835 B]
-Ign http://ftp.de.debian.org/debian/ experimental/contrib Translation-en
-Ign http://ftp.de.debian.org/debian/ experimental/main Translation-en
-Get:3 http://ftp.de.debian.org unstable Release [104 kB]
-Get:4 http://incoming.debian.org unstable Release.gpg [835 B]
-Ign http://incoming.debian.org/debian/ unstable/contrib Translation-en
-Ign http://incoming.debian.org/debian/ unstable/main Translation-en
-Get:5 http://ftp.de.debian.org experimental Release [102 kB]
-Get:6 http://incoming.debian.org experimental Release.gpg [835 B]
-Ign http://incoming.debian.org/debian/ experimental/contrib Translation-en
-Ign http://incoming.debian.org/debian/ experimental/main Translation-en
-Get:7 http://incoming.debian.org Release.gpg [835 B]
-Ign http://incoming.debian.org/buildd-unstable/ Translation-en
-Get:8 http://incoming.debian.org Release.gpg [835 B]
-Ign http://incoming.debian.org/buildd-experimental/ Translation-en
-Get:9 http://incoming.debian.org unstable Release [104 kB]
-Get:10 http://ftp.de.debian.org unstable/main Sources [4072 kB]
-Get:11 http://incoming.debian.org experimental Release [102 kB]
-Get:12 http://incoming.debian.org Release [1604 B]
-Get:13 http://incoming.debian.org Release [1625 B]
-Get:14 http://incoming.debian.org unstable/main Sources [4072 kB]
-Get:15 http://ftp.de.debian.org unstable/contrib Sources [38.6 kB]
-Get:16 http://ftp.de.debian.org unstable/non-free Sources [83.9 kB]
-Get:17 http://ftp.de.debian.org unstable/main s390 Packages [6778 kB]
-Get:18 http://ftp.de.debian.org unstable/contrib s390 Packages [48.0 kB]
-Get:19 http://ftp.de.debian.org experimental/main Sources [393 kB]
-Get:20 http://ftp.de.debian.org experimental/contrib Sources [4450 B]
-Get:21 http://ftp.de.debian.org experimental/non-free Sources [6418 B]
-Get:22 http://ftp.de.debian.org experimental/main s390 Packages [787 kB]
-Get:23 http://ftp.de.debian.org experimental/contrib s390 Packages [5255 B]
-Get:24 http://incoming.debian.org unstable/contrib Sources [38.6 kB]
-Get:25 http://incoming.debian.org unstable/non-free Sources [83.9 kB]
-Get:26 http://incoming.debian.org unstable/main s390 Packages [6778 kB]
-Get:27 http://incoming.debian.org unstable/contrib s390 Packages [48.0 kB]
-Get:28 http://incoming.debian.org experimental/main Sources [393 kB]
-Get:29 http://incoming.debian.org experimental/contrib Sources [4450 B]
-Get:30 http://incoming.debian.org experimental/non-free Sources [6418 B]
-Get:31 http://incoming.debian.org experimental/main s390 Packages [787 kB]
-Get:32 http://incoming.debian.org experimental/contrib s390 Packages [5255 B]
-Get:33 http://incoming.debian.org Sources [11.7 kB]
-Get:34 http://incoming.debian.org Packages [103 kB]
-Get:35 http://incoming.debian.org Sources [9718 B]
-Get:36 http://incoming.debian.org Packages [91.5 kB]
-Fetched 25.1 MB in 23s (1068 kB/s)
+Get:1 http://ftp.de.debian.org unstable InRelease [160 kB]
+Get:2 http://ftp.de.debian.org experimental InRelease [139 kB]
+Get:3 http://incoming.debian.org unstable InRelease [160 kB]
+Get:4 http://ftp.de.debian.org unstable/main Sources [5927 kB]
+Get:5 http://incoming.debian.org experimental InRelease [139 kB]
+Ign http://incoming.debian.org InRelease
+Ign http://incoming.debian.org InRelease
+Get:6 http://incoming.debian.org unstable/main Sources [5927 kB]
+Get:7 http://ftp.de.debian.org unstable/contrib Sources [57.4 kB]
+Get:8 http://ftp.de.debian.org unstable/non-free Sources [102 kB]
+Get:9 http://ftp.de.debian.org unstable/main s390 Packages [7649 kB]
+Get:10 http://ftp.de.debian.org unstable/contrib s390 Packages [54.8 kB]
+Ign http://ftp.de.debian.org unstable/contrib TranslationIndex
+Get:11 http://ftp.de.debian.org unstable/main TranslationIndex [2045 B]
+Get:12 http://ftp.de.debian.org experimental/main Sources [177 kB]
+Get:13 http://ftp.de.debian.org experimental/contrib Sources [1400 B]
+Get:14 http://ftp.de.debian.org experimental/non-free Sources [2641 B]
+Get:15 http://ftp.de.debian.org experimental/main s390 Packages [343 kB]
+Get:16 http://ftp.de.debian.org experimental/contrib s390 Packages [1846 B]
+Ign http://ftp.de.debian.org experimental/contrib TranslationIndex
+Ign http://ftp.de.debian.org experimental/main TranslationIndex
+Ign http://ftp.de.debian.org unstable/contrib Translation-en
+Ign http://ftp.de.debian.org experimental/contrib Translation-en
+Ign http://ftp.de.debian.org experimental/main Translation-en
+Get:17 http://incoming.debian.org unstable/contrib Sources [57.2 kB]
+Get:18 http://incoming.debian.org unstable/non-free Sources [102 kB]
+Get:19 http://incoming.debian.org unstable/main s390 Packages [7649 kB]
+Get:20 http://incoming.debian.org unstable/contrib s390 Packages [54.8 kB]
+Ign http://incoming.debian.org unstable/contrib TranslationIndex
+Get:21 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
+Get:22 http://incoming.debian.org Release.gpg [836 B]
+Get:23 http://incoming.debian.org Release.gpg [836 B]
+Get:24 http://incoming.debian.org experimental/main Sources [177 kB]
+Get:25 http://incoming.debian.org experimental/contrib Sources [1400 B]
+Get:26 http://incoming.debian.org experimental/non-free Sources [2641 B]
+Get:27 http://incoming.debian.org experimental/main s390 Packages [345 kB]
+Get:28 http://incoming.debian.org experimental/contrib s390 Packages [1846 B]
+Ign http://incoming.debian.org experimental/contrib TranslationIndex
+Ign http://incoming.debian.org experimental/main TranslationIndex
+Get:29 http://incoming.debian.org Release [1604 B]
+Get:30 http://incoming.debian.org Release [1626 B]
+Get:31 http://incoming.debian.org Sources [33.2 kB]
+Get:32 http://incoming.debian.org Packages [315 kB]
+Get:33 http://incoming.debian.org Sources [2999 B]
+Get:34 http://incoming.debian.org Packages [28.9 kB]
+Ign http://incoming.debian.org unstable/contrib Translation-en
+Ign http://incoming.debian.org experimental/contrib Translation-en
+Ign http://incoming.debian.org experimental/main Translation-en
+Ign http://incoming.debian.org Translation-en
+Ign http://incoming.debian.org Translation-en
+Fetched 29.6 MB in 25s (1171 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -104,29 +109,29 @@ 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 118 kB of source archives.
-Get:1 http://incoming.debian.org/buildd-experimental/ bwa 0.5.9~rc-1 (dsc) [1915 B]
-Get:2 http://incoming.debian.org/buildd-experimental/ bwa 0.5.9~rc-1 (tar) [113 kB]
-Get:3 http://incoming.debian.org/buildd-experimental/ bwa 0.5.9~rc-1 (diff) [3594 B]
-Fetched 118 kB in 0s (133 kB/s)
+git://git.debian.org/debian-med/bwa.git
+Need to get 171 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-experimental/ bwa 0.6.0-2 (dsc) [1681 B]
+Get:2 http://incoming.debian.org/buildd-experimental/ bwa 0.6.0-2 (tar) [169 kB]
+Fetched 171 kB in 0s (224 kB/s)
Download complete and in download only mode
Check arch
──────────
-** Using build dependencies supplied by package:
-Build-Depends: cdbs, debhelper (>= 8), zlib1g-dev
+dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/build/buildd-bwa_0.6.0-2-s390-Uhahm4/resolver-herWAn/apt_archive/sbuild-build-depends-core-dummy.deb'.
+OK
+Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install build dependencies (aptitude-based resolver) │
+│ Install core build dependencies (aptitude-based resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
Reading package lists...
Building dependency tree...
Reading state information...
The following extra packages will be installed:
- libboost-iostreams1.42.0 libcwidget3 libept1 libncursesw5 libsigc++-2.0-0c2a
+ libboost-iostreams1.46.1 libcwidget3 libept1 libncursesw5 libsigc++-2.0-0c2a
libsqlite3-0 libxapian22
Suggested packages:
tasksel debtags libcwidget-dev xapian-tools
@@ -134,161 +139,181 @@ Recommended packages:
aptitude-doc-en aptitude-doc apt-xapian-index libparse-debianchangelog-perl
libgpm2
The following NEW packages will be installed:
- aptitude libboost-iostreams1.42.0 libcwidget3 libept1 libncursesw5
+ aptitude libboost-iostreams1.46.1 libcwidget3 libept1 libncursesw5
libsigc++-2.0-0c2a libsqlite3-0 libxapian22
-0 upgraded, 8 newly installed, 0 to remove and 10 not upgraded.
-Need to get 6318 kB of archives.
-After this operation, 17.9 MB of additional disk space will be used.
-Get:1 http://ftp.de.debian.org/debian/ unstable/main libboost-iostreams1.42.0 s390 1.42.0-4 [57.8 kB]
-Get:2 http://ftp.de.debian.org/debian/ unstable/main libncursesw5 s390 5.7+20100313-5 [396 kB]
-Get:3 http://ftp.de.debian.org/debian/ unstable/main libsigc++-2.0-0c2a s390 2.2.4.2-1 [39.9 kB]
-Get:4 http://ftp.de.debian.org/debian/ unstable/main libcwidget3 s390 0.5.16-3 [303 kB]
-Get:5 http://ftp.de.debian.org/debian/ unstable/main libxapian22 s390 1.2.4-1 [1226 kB]
-Get:6 http://ftp.de.debian.org/debian/ unstable/main libept1 s390 1.0.4 [148 kB]
-Get:7 http://ftp.de.debian.org/debian/ unstable/main libsqlite3-0 s390 3.7.4-2 [428 kB]
-Get:8 http://ftp.de.debian.org/debian/ unstable/main aptitude s390 0.6.3-3.2 [3719 kB]
+0 upgraded, 8 newly installed, 0 to remove and 11 not upgraded.
+Need to get 6389 kB of archives.
+After this operation, 17.7 MB of additional disk space will be used.
+Get:1 http://ftp.de.debian.org/debian/ unstable/main libncursesw5 s390 5.9-4 [323 kB]
+Get:2 http://ftp.de.debian.org/debian/ unstable/main libboost-iostreams1.46.1 s390 1.46.1-7+b1 [57.6 kB]
+Get:3 http://ftp.de.debian.org/debian/ unstable/main libsigc++-2.0-0c2a s390 2.2.9-1 [42.4 kB]
+Get:4 http://ftp.de.debian.org/debian/ unstable/main libcwidget3 s390 0.5.16-3.1 [366 kB]
+Get:5 http://ftp.de.debian.org/debian/ unstable/main libxapian22 s390 1.2.7-1 [1230 kB]
+Get:6 http://ftp.de.debian.org/debian/ unstable/main libept1 s390 1.0.5 [153 kB]
+Get:7 http://ftp.de.debian.org/debian/ unstable/main libsqlite3-0 s390 3.7.9-2 [450 kB]
+Get:8 http://ftp.de.debian.org/debian/ unstable/main aptitude s390 0.6.4-1.2 [3767 kB]
debconf: delaying package configuration, since apt-utils is not installed
-Fetched 6318 kB in 2s (2900 kB/s)
-Selecting previously deselected package libboost-iostreams1.42.0.
-(Reading database ... 10088 files and directories currently installed.)
-Unpacking libboost-iostreams1.42.0 (from .../libboost-iostreams1.42.0_1.42.0-4_s390.deb) ...
-Selecting previously deselected package libncursesw5.
-Unpacking libncursesw5 (from .../libncursesw5_5.7+20100313-5_s390.deb) ...
-Selecting previously deselected package libsigc++-2.0-0c2a.
-Unpacking libsigc++-2.0-0c2a (from .../libsigc++-2.0-0c2a_2.2.4.2-1_s390.deb) ...
-Selecting previously deselected package libcwidget3.
-Unpacking libcwidget3 (from .../libcwidget3_0.5.16-3_s390.deb) ...
-Selecting previously deselected package libxapian22.
-Unpacking libxapian22 (from .../libxapian22_1.2.4-1_s390.deb) ...
-Selecting previously deselected package libept1.
-Unpacking libept1 (from .../libept1_1.0.4_s390.deb) ...
-Selecting previously deselected package libsqlite3-0.
-Unpacking libsqlite3-0 (from .../libsqlite3-0_3.7.4-2_s390.deb) ...
-Selecting previously deselected package aptitude.
-Unpacking aptitude (from .../aptitude_0.6.3-3.2_s390.deb) ...
-Setting up libboost-iostreams1.42.0 (1.42.0-4) ...
-Setting up libncursesw5 (5.7+20100313-5) ...
-Setting up libsigc++-2.0-0c2a (2.2.4.2-1) ...
-Setting up libcwidget3 (0.5.16-3) ...
-Setting up libxapian22 (1.2.4-1) ...
-Setting up libept1 (1.0.4) ...
-Setting up libsqlite3-0 (3.7.4-2) ...
-Setting up aptitude (0.6.3-3.2) ...
+Fetched 6389 kB in 1s (3523 kB/s)
+Selecting previously unselected package libncursesw5.
+(Reading database ... 10599 files and directories currently installed.)
+Unpacking libncursesw5 (from .../libncursesw5_5.9-4_s390.deb) ...
+Selecting previously unselected package libboost-iostreams1.46.1.
+Unpacking libboost-iostreams1.46.1 (from .../libboost-iostreams1.46.1_1.46.1-7+b1_s390.deb) ...
+Selecting previously unselected package libsigc++-2.0-0c2a.
+Unpacking libsigc++-2.0-0c2a (from .../libsigc++-2.0-0c2a_2.2.9-1_s390.deb) ...
+Selecting previously unselected package libcwidget3.
+Unpacking libcwidget3 (from .../libcwidget3_0.5.16-3.1_s390.deb) ...
+Selecting previously unselected package libxapian22.
+Unpacking libxapian22 (from .../libxapian22_1.2.7-1_s390.deb) ...
+Selecting previously unselected package libept1.
+Unpacking libept1 (from .../libept1_1.0.5_s390.deb) ...
+Selecting previously unselected package libsqlite3-0.
+Unpacking libsqlite3-0 (from .../libsqlite3-0_3.7.9-2_s390.deb) ...
+Selecting previously unselected package aptitude.
+Unpacking aptitude (from .../aptitude_0.6.4-1.2_s390.deb) ...
+Setting up libncursesw5 (5.9-4) ...
+Setting up libboost-iostreams1.46.1 (1.46.1-7+b1) ...
+Setting up libsigc++-2.0-0c2a (2.2.9-1) ...
+Setting up libcwidget3 (0.5.16-3.1) ...
+Setting up libxapian22 (1.2.7-1) ...
+Setting up libept1 (1.0.5) ...
+Setting up libsqlite3-0 (3.7.9-2) ...
+Setting up aptitude (0.6.4-1.2) ...
update-alternatives: using /usr/bin/aptitude-curses to provide /usr/bin/aptitude (aptitude) in auto mode.
-dpkg-deb: building package `sbuild-build-depends-bwa-dummy' in `/build/buildd-bwa_0.5.9~rc-1-s390-anr5mr/buildd-bwa-s390-33aTnY/sbuild-build-depends-bwa-dummy.deb'.
-Selecting previously deselected package sbuild-build-depends-bwa-dummy.
-(Reading database ... 10296 files and directories currently installed.)
-Unpacking sbuild-build-depends-bwa-dummy (from .../sbuild-build-depends-bwa-dummy.deb) ...
-dpkg: dependency problems prevent configuration of sbuild-build-depends-bwa-dummy:
- sbuild-build-depends-bwa-dummy depends on cdbs; however:
- Package cdbs is not installed.
- sbuild-build-depends-bwa-dummy depends on debhelper (>= 8); however:
- Package debhelper is not installed.
- sbuild-build-depends-bwa-dummy depends on zlib1g-dev; however:
- Package zlib1g-dev is not installed.
-dpkg: error processing sbuild-build-depends-bwa-dummy (--install):
- dependency problems - leaving unconfigured
-Errors were encountered while processing:
- sbuild-build-depends-bwa-dummy
-aptitude -y --without-recommends -o APT::Install-Recommends=false -o Aptitude::ProblemResolver::StepScore=100 -o Aptitude::ProblemResolver::Hints::KeepDummy=reject sbuild-build-depends-bwa-dummy :UNINST -o Aptitude::ProblemResolver::Keep-All-Tier=55000 -o Aptitude::ProblemResolver::Remove-Essential-Tier=maximum install sbuild-build-depends-bwa-dummy
+aptitude -y --without-recommends -o Dpkg::Options::=--force-confold -o Aptitude::CmdLine::Ignore-Trust-Violations=false -o Aptitude::ProblemResolver::StepScore=100 -o Aptitude::ProblemResolver::SolutionCost=safety, priority, non-default-versions -o Aptitude::ProblemResolver::Hints::KeepDummy=reject sbuild-build-depends-core-dummy :UNINST -o Aptitude::ProblemResolver::Keep-All-Level=55000 -o Aptitude::ProblemResolver::Remove-Essential-Level=maximum install sbuild-build-depends-core-dummy
Reading package lists...
Building dependency tree...
Reading state information...
Initializing package states...
Writing extended state information...
The following NEW packages will be installed:
- bsdmainutils{a} cdbs{a} debhelper{a} file{a} gettext{a} gettext-base{a}
- groff-base{a} html2text{a} intltool-debian{a} libcroco3{a}
- libglib2.0-0{a} libmagic1{a} libpcre3{a} libunistring0{a} libxml2{a}
- man-db{a} po-debconf{a} zlib1g-dev{a}
-The following partially installed packages will be configured:
- sbuild-build-depends-bwa-dummy
-0 packages upgraded, 18 newly installed, 0 to remove and 10 not upgraded.
-Need to get 10.2 MB of archives. After unpacking 28.9 MB will be used.
+ sbuild-build-depends-core-dummy
+0 packages upgraded, 1 newly installed, 0 to remove and 11 not upgraded.
+Need to get 0 B/710 B of archives. After unpacking 0 B will be used.
Writing extended state information...
-Get:1 http://ftp.de.debian.org/debian/ unstable/main libmagic1 s390 5.04-5 [243 kB]
-Get:2 http://ftp.de.debian.org/debian/ unstable/main file s390 5.04-5 [50.0 kB]
-Get:3 http://ftp.de.debian.org/debian/ unstable/main html2text s390 1.3.2a-15 [101 kB]
-Get:4 http://ftp.de.debian.org/debian/ unstable/main libpcre3 s390 8.02-1.1 [239 kB]
-Get:5 http://ftp.de.debian.org/debian/ unstable/main libglib2.0-0 s390 2.24.2-1 [1140 kB]
-Get:6 http://ftp.de.debian.org/debian/ unstable/main libxml2 s390 2.7.8.dfsg-2 [873 kB]
-Get:7 http://ftp.de.debian.org/debian/ unstable/main libcroco3 s390 0.6.2-1 [128 kB]
-Get:8 http://ftp.de.debian.org/debian/ unstable/main libunistring0 s390 0.9.3-3 [431 kB]
-Get:9 http://ftp.de.debian.org/debian/ unstable/main gettext-base s390 0.18.1.1-3 [142 kB]
-Get:10 http://ftp.de.debian.org/debian/ unstable/main gettext s390 0.18.1.1-3 [2068 kB]
-Get:11 http://ftp.de.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
-Get:12 http://ftp.de.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
-Get:13 http://ftp.de.debian.org/debian/ unstable/main groff-base s390 1.20.1-10 [1112 kB]
-Get:14 http://ftp.de.debian.org/debian/ unstable/main bsdmainutils s390 8.2.1 [208 kB]
-Get:15 http://ftp.de.debian.org/debian/ unstable/main man-db s390 2.5.7-8 [1303 kB]
-Get:16 http://ftp.de.debian.org/debian/ unstable/main debhelper all 8.0.0 [454 kB]
-Get:17 http://ftp.de.debian.org/debian/ unstable/main cdbs all 0.4.89 [1240 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 10.2 MB in 3s (3064 kB/s)
-Selecting previously deselected package libmagic1.
-(Reading database ... 10296 files and directories currently installed.)
-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 html2text.
+Selecting previously unselected package sbuild-build-depends-core-dummy.
+(Reading database ... 10804 files and directories currently installed.)
+Unpacking sbuild-build-depends-core-dummy (from .../sbuild-build-depends-core-dummy.deb) ...
+Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
+Reading package lists...
+Building dependency tree...
+Reading state information...
+Reading extended state information...
+Initializing package states...
+Writing extended state information...
+dpkg-deb: building package `sbuild-build-depends-bwa-dummy' in `/build/buildd-bwa_0.6.0-2-s390-Uhahm4/resolver-herWAn/apt_archive/sbuild-build-depends-bwa-dummy.deb'.
+OK
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install bwa build dependencies (aptitude-based resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+aptitude is already the newest version.
+0 upgraded, 0 newly installed, 0 to remove and 11 not upgraded.
+aptitude -y --without-recommends -o Dpkg::Options::=--force-confold -o Aptitude::CmdLine::Ignore-Trust-Violations=false -o Aptitude::ProblemResolver::StepScore=100 -o Aptitude::ProblemResolver::SolutionCost=safety, priority, non-default-versions -o Aptitude::ProblemResolver::Hints::KeepDummy=reject sbuild-build-depends-bwa-dummy :UNINST -o Aptitude::ProblemResolver::Keep-All-Level=55000 -o Aptitude::ProblemResolver::Remove-Essential-Level=maximum install sbuild-build-depends-bwa-dummy
+Reading package lists...
+Building dependency tree...
+Reading state information...
+Reading extended state information...
+Initializing package states...
+The following NEW packages will be installed:
+ bsdmainutils{a} debhelper{a} file{a} gettext{a} gettext-base{a}
+ groff-base{a} html2text{a} intltool-debian{a} libcroco3{a} libffi5{a}
+ libglib2.0-0{a} libmagic1{a} libpcre3{a} libpipeline1{a} libunistring0{a}
+ libxml2{a} man-db{a} po-debconf{a} sbuild-build-depends-bwa-dummy
+ zlib1g-dev{a}
+0 packages upgraded, 20 newly installed, 0 to remove and 11 not upgraded.
+Need to get 9621 kB/9622 kB of archives. After unpacking 26.7 MB will be used.
+Writing extended state information...
+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 libffi5 s390 3.0.10-3 [25.3 kB]
+Get: 4 http://ftp.de.debian.org/debian/ unstable/main libglib2.0-0 s390 2.30.2-4 [1874 kB]
+Get: 5 http://ftp.de.debian.org/debian/ unstable/main libxml2 s390 2.7.8.dfsg-5 [879 kB]
+Get: 6 http://ftp.de.debian.org/debian/ unstable/main libcroco3 s390 0.6.2-2 [122 kB]
+Get: 7 http://ftp.de.debian.org/debian/ unstable/main libunistring0 s390 0.9.3-5 [433 kB]
+Get: 8 http://ftp.de.debian.org/debian/ unstable/main bsdmainutils s390 8.2.3 [209 kB]
+Get: 9 http://ftp.de.debian.org/debian/ unstable/main groff-base s390 1.21-6 [1156 kB]
+Get: 10 http://ftp.de.debian.org/debian/ unstable/main man-db s390 2.6.0.2-3 [1029 kB]
+Get: 11 http://ftp.de.debian.org/debian/ unstable/main libmagic1 s390 5.09-2 [257 kB]
+Get: 12 http://ftp.de.debian.org/debian/ unstable/main file s390 5.09-2 [52.6 kB]
+Get: 13 http://ftp.de.debian.org/debian/ unstable/main gettext-base s390 0.18.1.1-5 [143 kB]
+Get: 14 http://ftp.de.debian.org/debian/ unstable/main html2text s390 1.3.2a-15 [101 kB]
+Get: 15 http://ftp.de.debian.org/debian/ unstable/main gettext s390 0.18.1.1-5 [2073 kB]
+Get: 16 http://ftp.de.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get: 17 http://ftp.de.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get: 18 http://ftp.de.debian.org/debian/ unstable/main debhelper all 8.9.11 [552 kB]
+Get: 19 http://ftp.de.debian.org/debian/ unstable/main zlib1g-dev s390 1:1.2.3.4.dfsg-3 [193 kB]
+Fetched 9621 kB in 2s (3594 kB/s)
+debconf: delaying package configuration, since apt-utils is not installed
+Selecting previously unselected package libpipeline1.
+(Reading database ... 10804 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 libffi5.
+Unpacking libffi5 (from .../libffi5_3.0.10-3_s390.deb) ...
+Selecting previously unselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.30.2-4_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 libpcre3.
-Unpacking libpcre3 (from .../libpcre3_8.02-1.1_s390.deb) ...
-Selecting previously deselected package libglib2.0-0.
-Unpacking libglib2.0-0 (from .../libglib2.0-0_2.24.2-1_s390.deb) ...
-Selecting previously deselected package libxml2.
-Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_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-base.
-Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_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 groff-base.
-Unpacking groff-base (from .../groff-base_1.20.1-10_s390.deb) ...
-Selecting previously deselected package bsdmainutils.
-Unpacking bsdmainutils (from .../bsdmainutils_8.2.1_s390.deb) ...
-Selecting previously deselected package man-db.
-Unpacking man-db (from .../man-db_2.5.7-8_s390.deb) ...
-Selecting previously deselected package debhelper.
-Unpacking debhelper (from .../debhelper_8.0.0_all.deb) ...
-Selecting previously deselected package cdbs.
-Unpacking cdbs (from .../archives/cdbs_0.4.89_all.deb) ...
-Selecting previously deselected package zlib1g-dev.
+Selecting previously unselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.9.11_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 libmagic1 (5.04-5) ...
-Setting up file (5.04-5) ...
-Setting up html2text (1.3.2a-15) ...
-Setting up libpcre3 (8.02-1.1) ...
-Setting up libglib2.0-0 (2.24.2-1) ...
-Setting up libxml2 (2.7.8.dfsg-2) ...
-Setting up libcroco3 (0.6.2-1) ...
-Setting up libunistring0 (0.9.3-3) ...
-Setting up gettext-base (0.18.1.1-3) ...
-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 groff-base (1.20.1-10) ...
-Setting up bsdmainutils (8.2.1) ...
+Selecting previously unselected package sbuild-build-depends-bwa-dummy.
+Unpacking sbuild-build-depends-bwa-dummy (from .../sbuild-build-depends-bwa-dummy.deb) ...
+Setting up libpipeline1 (1.2.0-5) ...
+Setting up libpcre3 (8.12-4) ...
+Setting up libffi5 (3.0.10-3) ...
+Setting up libglib2.0-0 (2.30.2-4) ...
+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 man-db (2.5.7-8) ...
-debconf: unable to initialize frontend: Dialog
-debconf: (TERM is not set, so the dialog frontend is not usable.)
-debconf: falling back to frontend: Readline
-debconf: unable to initialize frontend: Readline
-debconf: (This frontend requires a controlling tty.)
-debconf: falling back to frontend: Teletype
+Setting up groff-base (1.21-6) ...
+Setting up man-db (2.6.0.2-3) ...
Building database of manual pages ...
-Setting up debhelper (8.0.0) ...
-Setting up cdbs (0.4.89) ...
+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 (8.9.11) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
Setting up sbuild-build-depends-bwa-dummy (0.invalid.0) ...
Reading package lists...
@@ -297,9 +322,9 @@ Reading state information...
Reading extended state information...
Initializing package states...
Writing extended state information...
-Kernel: Linux 2.6.32-bpo.5-s390x s390 (s390x)
-Toolchain package versions: libc6-dev_2.11.2-7 dpkg-dev_1.15.8.8 linux-libc-dev_2.6.32-30 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_4.4.5-10
-Package versions: apt_0.8.10 aptitude_0.6.3-3.2 base-files_6.0 base-passwd_3.5.22 bash_4.1-3 binutils_2.20.1-15 bsdmainutils_8.2.1 bsdutils_1:2.17.2-6 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.89 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_1.5.37 debconf-i18n_1.5.37 debfoster_2.7-1.1 debhelper_8.0.0 debian-archive-keyring_2010.08.28 debianutils_3.4.2 diffutils_1:3.0-1 dpkg_1.15.8.8 dpkg-dev_1.15.8.8 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.14.5-1 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_1.20.1-10 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_2.17.2-6 libboost-iostreams1.42.0_1.42.0-4 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-7 libc-dev-bin_2.11.2-7 libc6_2.11.2-7 libc6-dev_2.11.2-7 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libcwidget3_0.5.16-3 libdb4.7_4.7.25-12 libdb4.8_4.8.30-3 libdpkg-perl_1.15.8.8 libept1_1.0.4 libgc1c2_1:6.8-1.2 libgcc1_1:4.4.5-10 libgdbm3_1.8.3-9 libglib2.0-0_2.24.2-1 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 libncursesw5_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_8.02-1.1 libreadline6_6.1-3 libselinux1_2.0.96-1 libsepol1_2.0.42-1 libsigc++-2.0-0c2a_2.2.4.2-1 libslang2_2.2.2-4 libsqlite3-0_3.7.4-2 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 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_2:0.1.12-16 libuuid1_2.17.2-6 libxapian22_1.2.4-1 libxml2_2.7.8.dfsg-2 linux-libc-dev_2.6.32-30 login_1:4.1.4.2+svn3283-2 lsb-base_3.2-26 make_3.81-8 man-db_2.5.7-8 mawk_1.3.3-15 mount_2.17.2-6 ncurses-base_5.7+20100313-5 ncurses-bin_5.7+20100313-5 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 po-debconf_1.0.16+nmu1 readline-common_6.1-3 sbuild-build-depends-bwa-dummy_0.invalid.0 sed_4.2.1-8 sensible-utils_0.0.6 sudo_1.7.4p4-6 sysv-rc_2.88dsf-13.1 sysvinit_2.88dsf-13.1 sysvinit-utils_2.88dsf-13.1 tar_1.25-3 tzdata_2010o-1 util-linux_2.17.2-6 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+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 aptitude_0.6.4-1.2 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_8.9.11 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 libboost-iostreams1.46.1_1.46.1-7+b1 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 libcwidget3_0.5.16-3.1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.1.1 libept1_1.0.5 libffi5_3.0.10-3 libgc1c2_1:7.1-8 libgcc1_1:4.6.2-4 libgdbm3_1.8.3-10 libglib2.0-0_2.30.2-4 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 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 libreadline6_6.2-7 libselinux1_2.1.0-4 libsepol1_2.1.0-1.1 libsigc++-2.0-0c2a_2.2.9-1 libslang2_2.2.4-3 libsqlite3-0_3.7.9-2 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 libxapian22_1.2.7-1 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 sbuild-build-depends-bwa-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 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 │
@@ -309,14 +334,12 @@ Package versions: apt_0.8.10 aptitude_0.6.3-3.2 base-files_6.0 base-passwd_3.5.2
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 Thu Jan 20 12:57:54 2011 UTC using RSA key ID 2295D502
+gpgv: Signature made Tue Nov 22 02:41:12 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~rc-1.dsc
-dpkg-source: info: extracting bwa in bwa-0.5.9~rc
-dpkg-source: info: unpacking bwa_0.5.9~rc.orig.tar.bz2
-dpkg-source: info: unpacking bwa_0.5.9~rc-1.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bwa_0.6.0-2.dsc
+dpkg-source: info: extracting bwa in bwa-0.6.0
+dpkg-source: info: unpacking bwa_0.6.0-2.tar.gz
Check disc space
────────────────
@@ -325,159 +348,220 @@ 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~rc-1
- dpkg-source --before-build bwa-0.5.9~rc
+dpkg-buildpackage: source version 0.6.0-2
+ dpkg-source --before-build bwa-0.6.0
dpkg-buildpackage: host architecture s390
- /usr/bin/fakeroot debian/rules clean
-test -x debian/rules
-dh_testroot
-rm -f debian/stamp-makefile-build debian/stamp-makefile-install
-/usr/bin/make -C . CFLAGS="-g -O2 -g -Wall -O2" CXXFLAGS="-g -O2 -g -Wall -O2" CPPFLAGS="" LDFLAGS="" -k clean
-make[1]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-s390-anr5mr/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-s390-anr5mr/bwa-0.5.9~rc'
+ fakeroot debian/rules clean
+dh clean
+ dh_testdir
+ dh_auto_clean
+make[1]: Entering directory `/build/buildd-bwa_0.6.0-2-s390-Uhahm4/bwa-0.6.0'
rm -f gmon.out *.o a.out bwa *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-s390-anr5mr/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-s390-anr5mr/bwa-0.5.9~rc/bwt_gen'
-rm -f gmon.out *.o a.out *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-s390-anr5mr/bwa-0.5.9~rc/bwt_gen'
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-s390-anr5mr/bwa-0.5.9~rc'
-dh_clean
+make[1]: Leaving directory `/build/buildd-bwa_0.6.0-2-s390-Uhahm4/bwa-0.6.0'
+ dh_clean
debian/rules build
-test -x debian/rules
-mkdir -p "."
-/usr/bin/make -C . CFLAGS="-g -O2 -g -Wall -O2" CXXFLAGS="-g -O2 -g -Wall -O2" CPPFLAGS="" LDFLAGS=""
-make[1]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-s390-anr5mr/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-s390-anr5mr/bwa-0.5.9~rc'
-make[2]: Nothing to be done for `lib'.
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-s390-anr5mr/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-s390-anr5mr/bwa-0.5.9~rc/bwt_gen'
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwt_gen.c -o bwt_gen.o
-gcc -c -g -O2 -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~rc-1-s390-anr5mr/bwa-0.5.9~rc/bwt_gen'
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD utils.c -o utils.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwt.c -o bwt.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtio.c -o bwtio.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtaln.c -o bwtaln.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtgap.c -o bwtgap.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD is.c -o is.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bntseq.c -o bntseq.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtmisc.c -o bwtmisc.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtindex.c -o bwtindex.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD stdaln.c -o stdaln.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD simple_dp.c -o simple_dp.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwaseqio.c -o bwaseqio.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwase.c -o bwase.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwape.c -o bwape.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD kstring.c -o kstring.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD cs2nt.c -o cs2nt.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_core.c -o bwtsw2_core.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_main.c -o bwtsw2_main.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_aux.c -o bwtsw2_aux.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwt_lite.c -o bwt_lite.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_chain.c -o bwtsw2_chain.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bamlite.c -o bamlite.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD main.c -o main.o
-gcc -g -O2 -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~rc-1-s390-anr5mr/bwa-0.5.9~rc'
-touch debian/stamp-makefile-build
-DEB_MAKE_CHECK_TARGET unset, not running checks
- /usr/bin/fakeroot debian/rules binary-arch
-test -x debian/rules
-dh_testroot
-dh_prep
-dh_installdirs -A
-mkdir -p "."
-DEB_MAKE_CHECK_TARGET unset, not running checks
-DEB_MAKE_INSTALL_TARGET unset, skipping default makefile.mk common-install target
-Adding cdbs dependencies to debian/bwa.substvars
-dh_installdirs -pbwa
-dh_installdocs -pbwa ./NEWS
-dh_installexamples -pbwa
-dh_installman -pbwa
-dh_installinfo -pbwa
-dh_installmenu -pbwa
-dh_installcron -pbwa
-dh_installinit -pbwa
-dh_installdebconf -pbwa
-dh_installemacsen -pbwa
-dh_installcatalogs -pbwa
-dh_installpam -pbwa
-dh_installlogrotate -pbwa
-dh_installlogcheck -pbwa
-dh_installchangelogs -pbwa ./ChangeLog
-dh_installudev -pbwa
-dh_lintian -pbwa
-dh_install -pbwa
-dh_link -pbwa
-dh_installmime -pbwa
-dh_strip -pbwa
-dh_compress -pbwa
-dh_fixperms -pbwa
-dh_makeshlibs -pbwa
-dh_installdeb -pbwa
-dh_perl -pbwa
-dh_shlibdeps -pbwa
-dh_gencontrol -pbwa
+dh build
+ dh_testdir
+ dh_auto_configure
+ debian/rules override_dh_auto_build
+make[1]: Entering directory `/build/buildd-bwa_0.6.0-2-s390-Uhahm4/bwa-0.6.0'
+dh_auto_build -- CFLAGS="-Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro" DFLAGS="-DHAVE_PTHREAD -D_NO_SSE2"
+make[2]: Entering directory `/build/buildd-bwa_0.6.0-2-s390-Uhahm4/bwa-0.6.0'
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 QSufSort.c -o QSufSort.o
+QSufSort.c: In function 'QSufSortSuffixSort':
+QSufSort.c:62:10: warning: variable 'maxNumInputSymbol' set but not used [-Wunused-but-set-variable]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt_gen.c -o bwt_gen.o
+bwt_gen.c: In function 'BWTIncBuildRelativeRank':
+bwt_gen.c:873:10: warning: variable 'oldInverseSa0RelativeRank' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncMergeBwt':
+bwt_gen.c:947:15: warning: variable 'bitsInWordMinusBitPerChar' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncConstructFromPacked':
+bwt_gen.c:1452:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwt_gen.c:1468:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwt_gen.c:1483:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 utils.c -o utils.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt.c -o bwt.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtio.c -o bwtio.o
+bwtio.c: In function 'bwt_restore_bwt':
+bwtio.c:62:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:63:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:64:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c: In function 'bwt_restore_sa':
+bwtio.c:36:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:38:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:39:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:40:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:47:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtaln.c -o bwtaln.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtgap.c -o bwtgap.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 is.c -o is.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bntseq.c -o bntseq.o
+bntseq.c: In function 'bns_restore_core':
+bntseq.c:98:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:106:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:114:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:123:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:129:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtmisc.c -o bwtmisc.o
+bwtmisc.c: In function 'bwa_pac2cspac_core':
+bwtmisc.c:172:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtmisc.c: In function 'bwt_pac2bwt':
+bwtmisc.c:72:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtmisc.c: In function 'bwa_seq_len':
+bwtmisc.c:51:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtindex.c -o bwtindex.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 ksw.c -o ksw.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 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 -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 simple_dp.c -o simple_dp.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwaseqio.c -o bwaseqio.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwase.c -o bwase.o
+bwase.c: In function 'bwa_aln2seq_core':
+bwase.c:74:15: warning: variable 'k' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_print_sam1':
+bwase.c:447:17: warning: variable 'm_is_N' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_sai2sam_se_core':
+bwase.c:603:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:619:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:624:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c: In function 'bwa_refine_gapped':
+bwase.c:310:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:316:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwape.c -o bwape.o
+bwape.c: In function 'bwa_sai2sam_pe_core':
+bwape.c:683:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:686:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:697:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c: In function 'bwa_paired_sw':
+bwape.c:527:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c: In function 'bwa_cal_pac_pos_pe':
+bwape.c:312:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:316:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 kstring.c -o kstring.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 cs2nt.c -o cs2nt.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_core.c -o bwtsw2_core.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_main.c -o bwtsw2_main.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_aux.c -o bwtsw2_aux.o
+bwtsw2_aux.c: In function 'gen_cigar':
+bwtsw2_aux.c:186:7: warning: variable 'score' set but not used [-Wunused-but-set-variable]
+bwtsw2_aux.c: In function 'bsw2_aln':
+bwtsw2_aux.c:734:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt_lite.c -o bwt_lite.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_chain.c -o bwtsw2_chain.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bamlite.c -o bamlite.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 fastmap.c -o fastmap.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_pair.c -o bwtsw2_pair.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 main.c -o main.o
+gcc -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 QSufSort.o bwt_gen.o utils.o bwt.o bwtio.o bwtaln.o bwtgap.o is.o bntseq.o bwtmisc.o bwtindex.o ksw.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 fastmap.o bwtsw2_pair.o main.o -o bwa -lm -lz -lpthread
+make[2]: Leaving directory `/build/buildd-bwa_0.6.0-2-s390-Uhahm4/bwa-0.6.0'
+make[1]: Leaving directory `/build/buildd-bwa_0.6.0-2-s390-Uhahm4/bwa-0.6.0'
+ dh_auto_test
+ fakeroot debian/rules binary-arch
+dh binary-arch
+ dh_testroot -a
+ dh_prep -a
+ dh_installdirs -a
+ dh_auto_install -a
+ dh_install -a
+ dh_installdocs -a
+ dh_installchangelogs -a
+ dh_installexamples -a
+ dh_installman -a
+ dh_installcatalogs -a
+ dh_installcron -a
+ dh_installdebconf -a
+ dh_installemacsen -a
+ dh_installifupdown -a
+ dh_installinfo -a
+ dh_installinit -a
+ dh_installmenu -a
+ dh_installmime -a
+ dh_installmodules -a
+ dh_installlogcheck -a
+ dh_installlogrotate -a
+ dh_installpam -a
+ dh_installppp -a
+ 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
+ dh_perl -a
+ dh_usrlocal -a
+ dh_link -a
+ dh_compress -a
+ dh_fixperms -a
+ dh_strip -a
+ dh_makeshlibs -a
+ dh_shlibdeps -a
+ dh_installdeb -a
+ dh_gencontrol -a
dpkg-gencontrol: warning: package bwa: unused substitution variable ${perl:Depends}
-dh_md5sums -pbwa
-dh_builddeb -pbwa
-dpkg-deb: building package `bwa' in `../bwa_0.5.9~rc-1_s390.deb'.
- dpkg-genchanges -B -ms390 Build Daemon (zandonai) <buildd_s390-zandonai at buildd.debian.org> >../bwa_0.5.9~rc-1_s390.changes
+ dh_md5sums -a
+ dh_builddeb -a
+dpkg-deb: building package `bwa' in `../bwa_0.6.0-2_s390.deb'.
+ dpkg-genchanges -B -ms390 Build Daemon (zandonai) <buildd_s390-zandonai at buildd.debian.org> >../bwa_0.6.0-2_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~rc
+ dpkg-source --after-build bwa-0.6.0
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110120-1353
+Build finished at 20111122-0326
-bwa_0.5.9~rc-1_s390.changes:
+bwa_0.6.0-2_s390.changes:
Format: 1.8
-Date: Thu, 20 Jan 2011 21:42:55 +0900
+Date: Tue, 22 Nov 2011 11:32:11 +0900
Source: bwa
Binary: bwa
Architecture: s390
-Version: 0.5.9~rc-1
+Version: 0.6.0-2
Distribution: experimental
Urgency: low
Maintainer: s390 Build Daemon (zandonai) <buildd_s390-zandonai at buildd.debian.org>
Changed-By: Charles Plessy <plessy at debian.org>
Description:
bwa - Burrows-Wheeler Aligner
+Closes: 648803
Changes:
- bwa (0.5.9~rc-1) experimental; urgency=low
+ bwa (0.6.0-2) experimental; urgency=low
.
- * New usptream release candidate.
+ [9410de3] Disable SSE2 everywhere except on amd64 (Closes: #648803).
+ [fb4c559] Reimplementation of Standard SW for when SSE2 is unavailable.
+ cherry picked from upstream commit 182cb2e.
+ This commit modifies upstream sources.
+ [9c93ccd] Use native format to bypass mandatory patch system.
Checksums-Sha1:
- 3de1ec080d3dde8ff0b28d5c3690b4ef8b019f63 138350 bwa_0.5.9~rc-1_s390.deb
+ a65cb823ea2bc2b39332177d9bcb561995966ecc 167666 bwa_0.6.0-2_s390.deb
Checksums-Sha256:
- d82e406b2ce8e79df86ce38adff2cfd42790133eaee51767e7e1f9b2d0263ced 138350 bwa_0.5.9~rc-1_s390.deb
+ 3aa3af6c77d5a511f2475f352feb438097b629919ee212a0d6694c1488d15703 167666 bwa_0.6.0-2_s390.deb
Files:
- 6ecb913862532e14654ef54d16a02aa9 138350 science optional bwa_0.5.9~rc-1_s390.deb
+ e36b87f0c1a5f1de1b90a66b52007453 167666 science optional bwa_0.6.0-2_s390.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bwa_0.5.9~rc-1_s390.deb
-───────────────────────
+bwa_0.6.0-2_s390.deb
+────────────────────
new debian package, version 2.0.
- size 138350 bytes: control archive= 943 bytes.
- 776 bytes, 17 lines control
- 556 bytes, 9 lines md5sums
+ size 167666 bytes: control archive= 990 bytes.
+ 773 bytes, 17 lines control
+ 610 bytes, 10 lines md5sums
Package: bwa
- Version: 0.5.9~rc-1
+ Version: 0.6.0-2
Architecture: s390
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 316
+ Installed-Size: 327
Depends: libc6 (>= 2.7), zlib1g (>= 1:1.1.4)
Suggests: samtools
Section: science
@@ -491,24 +575,25 @@ bwa_0.5.9~rc-1_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 2011-01-20 13:53 ./
-drwxr-xr-x root/root 0 2011-01-20 13:53 ./usr/
-drwxr-xr-x root/root 0 2011-01-20 13:53 ./usr/bin/
--rwxr-xr-x root/root 203176 2011-01-20 13:53 ./usr/bin/bwa
-drwxr-xr-x root/root 0 2011-01-20 13:53 ./usr/share/
-drwxr-xr-x root/root 0 2011-01-20 13:53 ./usr/share/bwa/
--rwxr-xr-x root/root 3176 2011-01-20 11:35 ./usr/share/bwa/solid2fastq.pl
--rwxr-xr-x root/root 616 2011-01-20 11:35 ./usr/share/bwa/qualfa2fq.pl
-drwxr-xr-x root/root 0 2011-01-20 13:53 ./usr/share/man/
-drwxr-xr-x root/root 0 2011-01-20 13:53 ./usr/share/man/man1/
--rw-r--r-- root/root 7423 2011-01-20 13:53 ./usr/share/man/man1/bwa.1.gz
-drwxr-xr-x root/root 0 2011-01-20 13:53 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-01-20 13:53 ./usr/share/doc/bwa/
--rw-r--r-- root/root 5606 2011-01-20 11:35 ./usr/share/doc/bwa/NEWS.gz
--rw-r--r-- root/root 17751 2011-01-20 11:35 ./usr/share/doc/bwa/ChangeLog.gz
--rw-r--r-- root/root 17751 2011-01-20 11:35 ./usr/share/doc/bwa/changelog.gz
--rw-r--r-- root/root 805 2011-01-20 12:43 ./usr/share/doc/bwa/changelog.Debian.gz
--rw-r--r-- root/root 2679 2011-01-20 11:52 ./usr/share/doc/bwa/copyright
+drwxr-xr-x root/root 0 2011-11-22 03:26 ./
+drwxr-xr-x root/root 0 2011-11-22 03:26 ./usr/
+drwxr-xr-x root/root 0 2011-11-22 03:26 ./usr/bin/
+-rwxr-xr-x root/root 251216 2011-11-22 03:26 ./usr/bin/bwa
+drwxr-xr-x root/root 0 2011-11-22 03:26 ./usr/share/
+drwxr-xr-x root/root 0 2011-11-22 03:26 ./usr/share/bwa/
+-rwxr-xr-x root/root 3176 2011-11-22 01:55 ./usr/share/bwa/solid2fastq.pl
+-rwxr-xr-x root/root 616 2011-11-22 01:55 ./usr/share/bwa/qualfa2fq.pl
+-rwxr-xr-x root/root 730 2011-11-22 01:55 ./usr/share/bwa/xa2multi.pl
+drwxr-xr-x root/root 0 2011-11-22 03:26 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-11-22 03:26 ./usr/share/man/man1/
+-rw-r--r-- root/root 7745 2011-11-22 03:26 ./usr/share/man/man1/bwa.1.gz
+drwxr-xr-x root/root 0 2011-11-22 03:26 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-11-22 03:26 ./usr/share/doc/bwa/
+-rw-r--r-- root/root 6680 2011-11-22 01:55 ./usr/share/doc/bwa/NEWS.gz
+-rw-r--r-- root/root 634 2011-11-22 01:55 ./usr/share/doc/bwa/README
+-rw-r--r-- root/root 17912 2011-11-22 01:55 ./usr/share/doc/bwa/changelog.gz
+-rw-r--r-- root/root 1471 2011-11-22 02:32 ./usr/share/doc/bwa/changelog.Debian.gz
+-rw-r--r-- root/root 2785 2011-11-22 01:55 ./usr/share/doc/bwa/copyright
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -517,9 +602,31 @@ drwxr-xr-x root/root 0 2011-01-20 13:53 ./usr/share/doc/bwa/
Built successfully
────────────────────────────────────────────────────────────────────────────────
-Purging /var/lib/schroot/mount/sid-experimental-s390-sbuild-5e65459d-5a03-4a7c-ac4f-9831b09dea8a/build/buildd-bwa_0.5.9~rc-1-s390-anr5mr
-Not removing build depends: cloned chroot in use
-────────────────────────────────────────────────────────────────────────────────
-Finished at 20110120-1353
-Build needed 00:01:20, 2592k disc space
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /var/lib/schroot/mount/sid-experimental-s390-sbuild-7df8e1b9-ab56-4a39-950d-5e0948c31ba4/build/buildd-bwa_0.6.0-2-s390-Uhahm4
+Not cleaning session: cloned chroot in use
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Architecture: s390
+Build-Space: 3084
+Build-Time: 20
+Distribution: experimental
+Install-Time: 22
+Job: bwa_0.6.0-2
+Package: bwa
+Package-Time: 83
+Source-Version: 0.6.0-2
+Space: 3084
+Status: successful
+Version: 0.6.0-2
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20111122-0326
+Build needed 00:01:23, 3084k disc space
+Signature with key '772711F7' requested:
diff --git a/sparc.log b/sparc.log
index ff61cc0..2b63afc 100644
--- a/sparc.log
+++ b/sparc.log
@@ -1,80 +1,95 @@
-From buildd at lebrun.debian.org Thu Jan 20 13:16:51 2011
+From buildd at lebrun.debian.org Tue Nov 22 09:39:58 2011
Return-path: <buildd at lebrun.debian.org>
-Received: from kokkonen.debian.org ([2001:41b8:202:deb:216:35ff:fec4:6340])
+Received: from kokkonen.debian.org ([82.195.75.97])
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 lebrun.debian.org>)
- id 1PfuNe-00089D-JZ
- for logs at buildd.debian.org; Thu, 20 Jan 2011 13:16:51 +0000
+ (Exim 4.72) (envelope-from <buildd at lebrun.debian.org>)
+ id 1RSmpa-0005KW-GO
+ for logs at buildd.debian.org; Tue, 22 Nov 2011 09:39:58 +0000
Received: from lebrun.debian.org ([193.198.184.10])
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 kokkonen.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.69) (envelope-from <buildd at lebrun.debian.org>)
- id 1PfuNc-0007zf-QA; Thu, 20 Jan 2011 13:16:49 +0000
-Received: from buildd by lebrun.debian.org with local (Exim 4.69)
+ (Exim 4.72) (envelope-from <buildd at lebrun.debian.org>)
+ id 1RSmpZ-0005Y1-HL
+ for logs at buildd.debian.org; Tue, 22 Nov 2011 09:39:57 +0000
+Received: from buildd by lebrun.debian.org with local (Exim 4.72)
(envelope-from <buildd at lebrun.debian.org>)
- id 1PfuNb-00060j-UA; Thu, 20 Jan 2011 13:16:47 +0000
+ id 1RSmpX-0005mK-CV; Tue, 22 Nov 2011 09:39:55 +0000
+Message-Id: <E1RSmpX-0005mK-CV at lebrun.debian.org>
+MIME-Version: 1.0
+Content-Transfer-Encoding: binary
+X-Mailer: MIME::Lite 3.027 (F2.77; B3.08; Q3.08)
+Date: Tue, 22 Nov 2011 09:39:55 +0000
From: buildd on lebrun <buildd at lebrun.debian.org>
-To: logs at buildd.debian.org,kibi at debian-ports.org
-Subject: Log for successful build of bwa_0.5.9~rc-1 on sparc
- (dist=experimental)
-Content-Type: text/plain; charset=UTF-8
-Content-Transfer-Encoding: 8bit
-Message-Id: <E1PfuNb-00060j-UA at lebrun.debian.org>
-Date: Thu, 20 Jan 2011 13:16:47 +0000
+To: logs at buildd.debian.org,buildd-admin at lebrun.debian.org
+Subject: Log for successful build of bwa_0.6.0-2 on sparc (dist=experimental)
+Key-Id: 4DF860F5
Delivered-To: logs at buildd.debian.org
-sbuild (Debian sbuild) 0.60.0 (23 Feb 2010) on lebrun.debian.org
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on lebrun.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bwa 0.5.9~rc-1 (sparc) 20 Jan 2011 13:12 ║
+║ bwa 0.6.0-2 (sparc) 22 Nov 2011 09:35 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bwa
-Version: 0.5.9~rc-1
+Version: 0.6.0-2
+Source Version: 0.6.0-2
Architecture: sparc
-Chroot Build Dir: /var/lib/schroot/mount/sid-experimental-sparc-sbuild-bf7c8648-dd96-4022-a39f-ec32f173aa4b/build/buildd-bwa_0.5.9~rc-1-sparc-IS2A3X
-Start Time: 20110120-1312
-Get:1 http://debian.carnet.hr unstable Release.gpg [835B]
-Get:2 http://incoming.debian.org unstable Release.gpg [835B]
-Get:3 http://incoming.debian.org experimental Release.gpg [835B]
-Get:4 http://incoming.debian.org Release.gpg [835B]
-Get:5 http://incoming.debian.org Release.gpg [835B]
-Get:6 http://incoming.debian.org unstable Release [104kB]
-Get:7 http://debian.carnet.hr experimental Release.gpg [835B]
-Get:8 http://debian.carnet.hr unstable Release [104kB]
-Get:9 http://incoming.debian.org experimental Release [102kB]
-Get:10 http://incoming.debian.org Release [1604B]
-Get:11 http://incoming.debian.org Release [1625B]
-Get:12 http://incoming.debian.org unstable/main Packages [6806kB]
-Get:13 http://debian.carnet.hr experimental Release [102kB]
-Get:14 http://debian.carnet.hr unstable/main Packages [6806kB]
-Get:15 http://debian.carnet.hr unstable/contrib Packages [50.4kB]
-Get:16 http://debian.carnet.hr unstable/main Sources [4072kB]
-Get:17 http://debian.carnet.hr unstable/contrib Sources [38.6kB]
-Get:18 http://debian.carnet.hr unstable/non-free Sources [83.9kB]
-Get:19 http://debian.carnet.hr experimental/main Packages [808kB]
-Get:20 http://debian.carnet.hr experimental/contrib Packages [5243B]
-Get:21 http://incoming.debian.org unstable/contrib Packages [50.4kB]
-Get:22 http://incoming.debian.org unstable/main Sources [4072kB]
-Get:23 http://debian.carnet.hr experimental/main Sources [393kB]
-Get:24 http://debian.carnet.hr experimental/contrib Sources [4450B]
-Get:25 http://debian.carnet.hr experimental/non-free Sources [6418B]
-Get:26 http://incoming.debian.org unstable/contrib Sources [38.6kB]
-Get:27 http://incoming.debian.org unstable/non-free Sources [83.9kB]
-Get:28 http://incoming.debian.org experimental/main Packages [808kB]
-Get:29 http://incoming.debian.org experimental/contrib Packages [5243B]
-Get:30 http://incoming.debian.org experimental/main Sources [393kB]
-Get:31 http://incoming.debian.org experimental/contrib Sources [4450B]
-Get:32 http://incoming.debian.org experimental/non-free Sources [6418B]
-Get:33 http://incoming.debian.org Packages [103kB]
-Get:34 http://incoming.debian.org Sources [11.7kB]
-Get:35 http://incoming.debian.org Packages [89.7kB]
-Get:36 http://incoming.debian.org Sources [9718B]
-Fetched 25.2MB in 27s (899kB/s)
+Get:1 http://debian.carnet.hr unstable InRelease [160 kB]
+Get:2 http://incoming.debian.org unstable InRelease [160 kB]
+Get:3 http://debian.carnet.hr experimental InRelease [139 kB]
+Get:4 http://debian.carnet.hr unstable/main Sources [5929 kB]
+Get:5 http://debian.carnet.hr unstable/contrib Sources [57.2 kB]
+Get:6 http://incoming.debian.org experimental InRelease [139 kB]
+Get:7 http://debian.carnet.hr unstable/non-free Sources [102 kB]
+Ign http://incoming.debian.org InRelease
+Ign http://incoming.debian.org InRelease
+Get:8 http://debian.carnet.hr unstable/main sparc Packages [7686 kB]
+Get:9 http://incoming.debian.org unstable/main Sources [5929 kB]
+Get:10 http://debian.carnet.hr unstable/contrib sparc Packages [55.9 kB]
+Ign http://debian.carnet.hr unstable/contrib TranslationIndex
+Get:11 http://debian.carnet.hr unstable/main TranslationIndex [2045 B]
+Get:12 http://debian.carnet.hr experimental/main Sources [177 kB]
+Get:13 http://debian.carnet.hr experimental/contrib Sources [1400 B]
+Get:14 http://debian.carnet.hr experimental/non-free Sources [2641 B]
+Get:15 http://debian.carnet.hr experimental/main sparc Packages [318 kB]
+Get:16 http://debian.carnet.hr experimental/contrib sparc Packages [1846 B]
+Get:17 http://incoming.debian.org unstable/contrib Sources [57.2 kB]
+Get:18 http://incoming.debian.org unstable/non-free Sources [102 kB]
+Get:19 http://incoming.debian.org unstable/main sparc Packages [7686 kB]
+Ign http://debian.carnet.hr experimental/contrib TranslationIndex
+Ign http://debian.carnet.hr experimental/main TranslationIndex
+Get:20 http://incoming.debian.org unstable/contrib sparc Packages [55.9 kB]
+Ign http://incoming.debian.org unstable/contrib TranslationIndex
+Get:21 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
+Get:22 http://incoming.debian.org Release.gpg [836 B]
+Get:23 http://incoming.debian.org Release.gpg [836 B]
+Get:24 http://incoming.debian.org experimental/main Sources [177 kB]
+Get:25 http://incoming.debian.org experimental/contrib Sources [1400 B]
+Get:26 http://incoming.debian.org experimental/non-free Sources [2641 B]
+Get:27 http://incoming.debian.org experimental/main sparc Packages [318 kB]
+Get:28 http://incoming.debian.org experimental/contrib sparc Packages [1846 B]
+Ign http://incoming.debian.org experimental/contrib TranslationIndex
+Ign http://incoming.debian.org experimental/main TranslationIndex
+Get:29 http://incoming.debian.org Release [1604 B]
+Get:30 http://incoming.debian.org Release [1626 B]
+Get:31 http://incoming.debian.org Sources [34.6 kB]
+Get:32 http://incoming.debian.org Packages [314 kB]
+Get:33 http://incoming.debian.org Sources [2999 B]
+Get:34 http://incoming.debian.org Packages [25.7 kB]
+Ign http://incoming.debian.org unstable/contrib Translation-en
+Ign http://incoming.debian.org experimental/contrib Translation-en
+Ign http://incoming.debian.org experimental/main Translation-en
+Ign http://incoming.debian.org Translation-en
+Ign http://incoming.debian.org Translation-en
+Ign http://debian.carnet.hr unstable/contrib Translation-en
+Ign http://debian.carnet.hr experimental/contrib Translation-en
+Ign http://debian.carnet.hr experimental/main Translation-en
+Fetched 29.6 MB in 30s (958 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -93,208 +108,212 @@ Download source files with APT
Reading package lists...
Building dependency tree...
Reading state information...
-Need to get 118kB of source archives.
-Get:1 http://incoming.debian.org bwa 0.5.9~rc-1 (dsc) [1915B]
-Get:2 http://incoming.debian.org bwa 0.5.9~rc-1 (tar) [113kB]
-Get:3 http://incoming.debian.org bwa 0.5.9~rc-1 (diff) [3594B]
-Fetched 118kB in 0s (138kB/s)
+NOTICE: 'bwa' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/debian-med/bwa.git
+Need to get 171 kB of source archives.
+Get:1 http://debian.carnet.hr/debian/ experimental/main bwa 0.6.0-2 (dsc) [1681 B]
+Get:2 http://debian.carnet.hr/debian/ experimental/main bwa 0.6.0-2 (tar) [169 kB]
+Fetched 171 kB in 0s (322 kB/s)
Download complete and in download only mode
Check arch
──────────
-** Using build dependencies supplied by package:
-Build-Depends: cdbs, debhelper (>= 8), zlib1g-dev
+dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/build/buildd-bwa_0.6.0-2-sparc-DMJdCN/resolver-KJD5mH/apt_archive/sbuild-build-depends-core-dummy.deb'.
+OK
+Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install build dependencies (aptitude-based resolver) │
+│ Install core build dependencies (aptitude-based resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
Reading package lists...
Building dependency tree...
Reading state information...
The following extra packages will be installed:
- apt libboost-iostreams1.42.0 libcwidget3 libept1 libncursesw5
- libsigc++-2.0-0c2a libsqlite3-0 libxapian22
+ libboost-iostreams1.46.1 libcwidget3 libept1 libncursesw5 libsigc++-2.0-0c2a
+ libsqlite3-0 libxapian22
Suggested packages:
- apt-doc lzma python-apt tasksel debtags libcwidget-dev xapian-tools
+ tasksel debtags libcwidget-dev xapian-tools
Recommended packages:
aptitude-doc-en aptitude-doc apt-xapian-index libparse-debianchangelog-perl
libgpm2
The following NEW packages will be installed:
- aptitude libboost-iostreams1.42.0 libcwidget3 libept1 libncursesw5
+ aptitude libboost-iostreams1.46.1 libcwidget3 libept1 libncursesw5
libsigc++-2.0-0c2a libsqlite3-0 libxapian22
-The following packages will be upgraded:
- apt
-1 upgraded, 8 newly installed, 0 to remove and 76 not upgraded.
-Need to get 8460kB of archives.
-After this operation, 18.8MB of additional disk space will be used.
-Get:1 http://debian.carnet.hr unstable/main apt 0.8.10.1 [2172kB]
-Get:2 http://debian.carnet.hr unstable/main libboost-iostreams1.42.0 1.42.0-4 [58.6kB]
-Get:3 http://debian.carnet.hr unstable/main libncursesw5 5.7+20100313-5 [373kB]
-Get:4 http://debian.carnet.hr unstable/main libsigc++-2.0-0c2a 2.2.4.2-1 [39.2kB]
-Get:5 http://debian.carnet.hr unstable/main libcwidget3 0.5.16-3 [313kB]
-Get:6 http://debian.carnet.hr unstable/main libxapian22 1.2.4-1 [1182kB]
-Get:7 http://debian.carnet.hr unstable/main libept1 1.0.4 [141kB]
-Get:8 http://debian.carnet.hr unstable/main libsqlite3-0 3.7.4-2 [391kB]
-Get:9 http://debian.carnet.hr unstable/main aptitude 0.6.3-3.2 [3790kB]
+0 upgraded, 8 newly installed, 0 to remove and 10 not upgraded.
+Need to get 6190 kB of archives.
+After this operation, 17.0 MB of additional disk space will be used.
+Get:1 http://debian.carnet.hr/debian/ unstable/main libncursesw5 sparc 5.9-4 [302 kB]
+Get:2 http://debian.carnet.hr/debian/ unstable/main libboost-iostreams1.46.1 sparc 1.46.1-7+b1 [54.0 kB]
+Get:3 http://debian.carnet.hr/debian/ unstable/main libsigc++-2.0-0c2a sparc 2.2.9-1 [41.2 kB]
+Get:4 http://debian.carnet.hr/debian/ unstable/main libcwidget3 sparc 0.5.16-3.1 [292 kB]
+Get:5 http://debian.carnet.hr/debian/ unstable/main libxapian22 sparc 1.2.7-1 [1143 kB]
+Get:6 http://debian.carnet.hr/debian/ unstable/main libept1 sparc 1.0.5 [144 kB]
+Get:7 http://debian.carnet.hr/debian/ unstable/main libsqlite3-0 sparc 3.7.9-2 [400 kB]
+Get:8 http://debian.carnet.hr/debian/ unstable/main aptitude sparc 0.6.4-1.2 [3814 kB]
debconf: delaying package configuration, since apt-utils is not installed
-Fetched 8460kB in 3s (2311kB/s)
-(Reading database ... 10174 files and directories currently installed.)
-Preparing to replace apt 0.7.25.3 (using .../apt_0.8.10.1_sparc.deb) ...
-Unpacking replacement apt ...
-Setting up apt (0.8.10.1) ...
-Installing new version of config file /etc/logrotate.d/apt ...
-Installing new version of config file /etc/apt/apt.conf.d/01autoremove ...
-Installing new version of config file /etc/cron.daily/apt ...
-gpg: key 6070D3A1: "Debian Archive Automatic Signing Key (4.0/etch) <ftpmaster at debian.org>" not changed
-gpg: key ADB11277: "Etch Stable Release Key <debian-release at lists.debian.org>" not changed
-gpg: key BBE55AB3: "Debian-Volatile Archive Automatic Signing Key (4.0/etch)" not changed
-gpg: key F42584E6: "Lenny Stable Release Key <debian-release at lists.debian.org>" not changed
-gpg: key 55BE302B: "Debian Archive Automatic Signing Key (5.0/lenny) <ftpmaster at debian.org>" not changed
-gpg: key 6D849617: "Debian-Volatile Archive Automatic Signing Key (5.0/lenny)" not changed
-gpg: Total number processed: 6
-gpg: unchanged: 6
-Selecting previously deselected package libboost-iostreams1.42.0.
-(Reading database ... 10206 files and directories currently installed.)
-Unpacking libboost-iostreams1.42.0 (from .../libboost-iostreams1.42.0_1.42.0-4_sparc.deb) ...
-Selecting previously deselected package libncursesw5.
-Unpacking libncursesw5 (from .../libncursesw5_5.7+20100313-5_sparc.deb) ...
-Selecting previously deselected package libsigc++-2.0-0c2a.
-Unpacking libsigc++-2.0-0c2a (from .../libsigc++-2.0-0c2a_2.2.4.2-1_sparc.deb) ...
-Selecting previously deselected package libcwidget3.
-Unpacking libcwidget3 (from .../libcwidget3_0.5.16-3_sparc.deb) ...
-Selecting previously deselected package libxapian22.
-Unpacking libxapian22 (from .../libxapian22_1.2.4-1_sparc.deb) ...
-Selecting previously deselected package libept1.
-Unpacking libept1 (from .../libept1_1.0.4_sparc.deb) ...
-Selecting previously deselected package libsqlite3-0.
-Unpacking libsqlite3-0 (from .../libsqlite3-0_3.7.4-2_sparc.deb) ...
-Selecting previously deselected package aptitude.
-Unpacking aptitude (from .../aptitude_0.6.3-3.2_sparc.deb) ...
-Setting up libboost-iostreams1.42.0 (1.42.0-4) ...
-Setting up libncursesw5 (5.7+20100313-5) ...
-Setting up libsigc++-2.0-0c2a (2.2.4.2-1) ...
-Setting up libcwidget3 (0.5.16-3) ...
-Setting up libxapian22 (1.2.4-1) ...
-Setting up libept1 (1.0.4) ...
-Setting up libsqlite3-0 (3.7.4-2) ...
-Setting up aptitude (0.6.3-3.2) ...
+Fetched 6190 kB in 3s (1935 kB/s)
+Selecting previously unselected package libncursesw5.
+(Reading database ... 11008 files and directories currently installed.)
+Unpacking libncursesw5 (from .../libncursesw5_5.9-4_sparc.deb) ...
+Selecting previously unselected package libboost-iostreams1.46.1.
+Unpacking libboost-iostreams1.46.1 (from .../libboost-iostreams1.46.1_1.46.1-7+b1_sparc.deb) ...
+Selecting previously unselected package libsigc++-2.0-0c2a.
+Unpacking libsigc++-2.0-0c2a (from .../libsigc++-2.0-0c2a_2.2.9-1_sparc.deb) ...
+Selecting previously unselected package libcwidget3.
+Unpacking libcwidget3 (from .../libcwidget3_0.5.16-3.1_sparc.deb) ...
+Selecting previously unselected package libxapian22.
+Unpacking libxapian22 (from .../libxapian22_1.2.7-1_sparc.deb) ...
+Selecting previously unselected package libept1.
+Unpacking libept1 (from .../libept1_1.0.5_sparc.deb) ...
+Selecting previously unselected package libsqlite3-0.
+Unpacking libsqlite3-0 (from .../libsqlite3-0_3.7.9-2_sparc.deb) ...
+Selecting previously unselected package aptitude.
+Unpacking aptitude (from .../aptitude_0.6.4-1.2_sparc.deb) ...
+Setting up libncursesw5 (5.9-4) ...
+Setting up libboost-iostreams1.46.1 (1.46.1-7+b1) ...
+Setting up libsigc++-2.0-0c2a (2.2.9-1) ...
+Setting up libcwidget3 (0.5.16-3.1) ...
+Setting up libxapian22 (1.2.7-1) ...
+Setting up libept1 (1.0.5) ...
+Setting up libsqlite3-0 (3.7.9-2) ...
+Setting up aptitude (0.6.4-1.2) ...
update-alternatives: using /usr/bin/aptitude-curses to provide /usr/bin/aptitude (aptitude) in auto mode.
-dpkg-deb: building package `sbuild-build-depends-bwa-dummy' in `/build/buildd-bwa_0.5.9~rc-1-sparc-IS2A3X/buildd-bwa-sparc-GBrAzy/sbuild-build-depends-bwa-dummy.deb'.
-Selecting previously deselected package sbuild-build-depends-bwa-dummy.
-(Reading database ... 10414 files and directories currently installed.)
-Unpacking sbuild-build-depends-bwa-dummy (from .../sbuild-build-depends-bwa-dummy.deb) ...
-dpkg: dependency problems prevent configuration of sbuild-build-depends-bwa-dummy:
- sbuild-build-depends-bwa-dummy depends on cdbs; however:
- Package cdbs is not installed.
- sbuild-build-depends-bwa-dummy depends on debhelper (>= 8); however:
- Package debhelper is not installed.
- sbuild-build-depends-bwa-dummy depends on zlib1g-dev; however:
- Package zlib1g-dev is not installed.
-dpkg: error processing sbuild-build-depends-bwa-dummy (--install):
- dependency problems - leaving unconfigured
-Errors were encountered while processing:
- sbuild-build-depends-bwa-dummy
-aptitude -y --without-recommends -o APT::Install-Recommends=false -o Aptitude::ProblemResolver::StepScore=100 -o Aptitude::ProblemResolver::Hints::KeepDummy=reject sbuild-build-depends-bwa-dummy :UNINST -o Aptitude::ProblemResolver::Keep-All-Tier=55000 -o Aptitude::ProblemResolver::Remove-Essential-Tier=maximum install sbuild-build-depends-bwa-dummy
+aptitude -y --without-recommends -o Dpkg::Options::=--force-confold -o Aptitude::CmdLine::Ignore-Trust-Violations=false -o Aptitude::ProblemResolver::StepScore=100 -o Aptitude::ProblemResolver::SolutionCost=safety, priority, non-default-versions -o Aptitude::ProblemResolver::Hints::KeepDummy=reject sbuild-build-depends-core-dummy :UNINST -o Aptitude::ProblemResolver::Keep-All-Level=55000 -o Aptitude::ProblemResolver::Remove-Essential-Level=maximum install sbuild-build-depends-core-dummy
+Reading package lists...
+Building dependency tree...
+Reading state information...
+Initializing package states...
+Writing extended state information...
+The following NEW packages will be installed:
+ sbuild-build-depends-core-dummy
+0 packages upgraded, 1 newly installed, 0 to remove and 10 not upgraded.
+Need to get 0 B/708 B of archives. After unpacking 0 B will be used.
+Writing extended state information...
+debconf: delaying package configuration, since apt-utils is not installed
+Selecting previously unselected package sbuild-build-depends-core-dummy.
+(Reading database ... 11213 files and directories currently installed.)
+Unpacking sbuild-build-depends-core-dummy (from .../sbuild-build-depends-core-dummy.deb) ...
+Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
Reading package lists...
Building dependency tree...
Reading state information...
+Reading extended state information...
Initializing package states...
Writing extended state information...
+dpkg-deb: building package `sbuild-build-depends-bwa-dummy' in `/build/buildd-bwa_0.6.0-2-sparc-DMJdCN/resolver-KJD5mH/apt_archive/sbuild-build-depends-bwa-dummy.deb'.
+OK
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install bwa build dependencies (aptitude-based resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+aptitude is already the newest version.
+0 upgraded, 0 newly installed, 0 to remove and 10 not upgraded.
+aptitude -y --without-recommends -o Dpkg::Options::=--force-confold -o Aptitude::CmdLine::Ignore-Trust-Violations=false -o Aptitude::ProblemResolver::StepScore=100 -o Aptitude::ProblemResolver::SolutionCost=safety, priority, non-default-versions -o Aptitude::ProblemResolver::Hints::KeepDummy=reject sbuild-build-depends-bwa-dummy :UNINST -o Aptitude::ProblemResolver::Keep-All-Level=55000 -o Aptitude::ProblemResolver::Remove-Essential-Level=maximum install sbuild-build-depends-bwa-dummy
+Reading package lists...
+Building dependency tree...
+Reading state information...
+Reading extended state information...
+Initializing package states...
The following NEW packages will be installed:
- bsdmainutils{a} cdbs{a} debhelper{a} file{a} gettext{a} gettext-base{a}
- groff-base{a} html2text{a} intltool-debian{a} libcroco3{a}
- libglib2.0-0{a} libmagic1{a} libpcre3{a} libunistring0{a} libxml2{a}
- man-db{a} po-debconf{a} zlib1g-dev{a}
-The following partially installed packages will be configured:
- sbuild-build-depends-bwa-dummy
-0 packages upgraded, 18 newly installed, 0 to remove and 76 not upgraded.
-Need to get 9997 kB of archives. After unpacking 28.8 MB will be used.
+ bsdmainutils{a} debhelper{a} file{a} gettext{a} gettext-base{a}
+ groff-base{a} html2text{a} intltool-debian{a} libcroco3{a} libffi5{a}
+ libglib2.0-0{a} libmagic1{a} libpcre3{a} libpipeline1{a} libunistring0{a}
+ libxml2{a} man-db{a} po-debconf{a} sbuild-build-depends-bwa-dummy
+ zlib1g-dev{a}
+0 packages upgraded, 20 newly installed, 0 to remove and 10 not upgraded.
+Need to get 9193 kB/9194 kB of archives. After unpacking 25.9 MB will be used.
Writing extended state information...
-Get:1 http://debian.carnet.hr/debian/ unstable/main libmagic1 sparc 5.04-5 [239 kB]
-Get:2 http://debian.carnet.hr/debian/ unstable/main file sparc 5.04-5 [49.5 kB]
-Get:3 http://debian.carnet.hr/debian/ unstable/main html2text sparc 1.3.2a-15 [100 kB]
-Get:4 http://debian.carnet.hr/debian/ unstable/main libpcre3 sparc 8.02-1.1 [237 kB]
-Get:5 http://debian.carnet.hr/debian/ unstable/main libglib2.0-0 sparc 2.24.2-1 [1074 kB]
-Get:6 http://debian.carnet.hr/debian/ unstable/main libxml2 sparc 2.7.8.dfsg-2 [840 kB]
-Get:7 http://debian.carnet.hr/debian/ unstable/main libcroco3 sparc 0.6.2-1 [119 kB]
-Get:8 http://debian.carnet.hr/debian/ unstable/main libunistring0 sparc 0.9.3-3 [424 kB]
-Get:9 http://debian.carnet.hr/debian/ unstable/main gettext-base sparc 0.18.1.1-3 [140 kB]
-Get:10 http://debian.carnet.hr/debian/ unstable/main gettext sparc 0.18.1.1-3 [2006 kB]
-Get:11 http://debian.carnet.hr/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
-Get:12 http://debian.carnet.hr/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
-Get:13 http://debian.carnet.hr/debian/ unstable/main groff-base sparc 1.20.1-10 [1146 kB]
-Get:14 http://debian.carnet.hr/debian/ unstable/main bsdmainutils sparc 8.2.1 [203 kB]
-Get:15 http://debian.carnet.hr/debian/ unstable/main man-db sparc 2.5.7-8 [1283 kB]
-Get:16 http://debian.carnet.hr/debian/ unstable/main debhelper all 8.0.0 [454 kB]
-Get:17 http://debian.carnet.hr/debian/ unstable/main cdbs all 0.4.89 [1240 kB]
-Get:18 http://debian.carnet.hr/debian/ unstable/main zlib1g-dev sparc 1:1.2.3.4.dfsg-3 [189 kB]
+Get: 1 http://debian.carnet.hr/debian/ unstable/main libpipeline1 sparc 1.2.0-5 [35.0 kB]
+Get: 2 http://debian.carnet.hr/debian/ unstable/main libpcre3 sparc 8.12-4 [231 kB]
+Get: 3 http://debian.carnet.hr/debian/ unstable/main libffi5 sparc 3.0.10-3 [22.7 kB]
+Get: 4 http://debian.carnet.hr/debian/ unstable/main libglib2.0-0 sparc 2.30.2-4 [1693 kB]
+Get: 5 http://debian.carnet.hr/debian/ unstable/main libxml2 sparc 2.7.8.dfsg-5 [816 kB]
+Get: 6 http://debian.carnet.hr/debian/ unstable/main libcroco3 sparc 0.6.2-2 [106 kB]
+Get: 7 http://debian.carnet.hr/debian/ unstable/main libunistring0 sparc 0.9.3-5 [416 kB]
+Get: 8 http://debian.carnet.hr/debian/ unstable/main bsdmainutils sparc 8.2.3 [206 kB]
+Get: 9 http://debian.carnet.hr/debian/ unstable/main groff-base sparc 1.21-6 [1155 kB]
+Get: 10 http://debian.carnet.hr/debian/ unstable/main man-db sparc 2.6.0.2-3 [997 kB]
+Get: 11 http://debian.carnet.hr/debian/ unstable/main libmagic1 sparc 5.09-2 [245 kB]
+Get: 12 http://debian.carnet.hr/debian/ unstable/main file sparc 5.09-2 [51.5 kB]
+Get: 13 http://debian.carnet.hr/debian/ unstable/main gettext-base sparc 0.18.1.1-5 [140 kB]
+Get: 14 http://debian.carnet.hr/debian/ unstable/main html2text sparc 1.3.2a-15 [100 kB]
+Get: 15 http://debian.carnet.hr/debian/ unstable/main gettext sparc 0.18.1.1-5 [1983 kB]
+Get: 16 http://debian.carnet.hr/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get: 17 http://debian.carnet.hr/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get: 18 http://debian.carnet.hr/debian/ unstable/main debhelper all 8.9.11 [552 kB]
+Get: 19 http://debian.carnet.hr/debian/ unstable/main zlib1g-dev sparc 1:1.2.3.4.dfsg-3 [189 kB]
+Fetched 9193 kB in 7s (1219 kB/s)
debconf: delaying package configuration, since apt-utils is not installed
-Fetched 9997 kB in 7s (1386 kB/s)
-Selecting previously deselected package libmagic1.
-(Reading database ... 10414 files and directories currently installed.)
-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 html2text.
+Selecting previously unselected package libpipeline1.
+(Reading database ... 11213 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 libffi5.
+Unpacking libffi5 (from .../libffi5_3.0.10-3_sparc.deb) ...
+Selecting previously unselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.30.2-4_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 libpcre3.
-Unpacking libpcre3 (from .../libpcre3_8.02-1.1_sparc.deb) ...
-Selecting previously deselected package libglib2.0-0.
-Unpacking libglib2.0-0 (from .../libglib2.0-0_2.24.2-1_sparc.deb) ...
-Selecting previously deselected package libxml2.
-Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_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-base.
-Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_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 groff-base.
-Unpacking groff-base (from .../groff-base_1.20.1-10_sparc.deb) ...
-Selecting previously deselected package bsdmainutils.
-Unpacking bsdmainutils (from .../bsdmainutils_8.2.1_sparc.deb) ...
-Selecting previously deselected package man-db.
-Unpacking man-db (from .../man-db_2.5.7-8_sparc.deb) ...
-Selecting previously deselected package debhelper.
-Unpacking debhelper (from .../debhelper_8.0.0_all.deb) ...
-Selecting previously deselected package cdbs.
-Unpacking cdbs (from .../archives/cdbs_0.4.89_all.deb) ...
-Selecting previously deselected package zlib1g-dev.
+Selecting previously unselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.9.11_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 libmagic1 (5.04-5) ...
-Setting up file (5.04-5) ...
-Setting up html2text (1.3.2a-15) ...
-Setting up libpcre3 (8.02-1.1) ...
-Setting up libglib2.0-0 (2.24.2-1) ...
-Setting up libxml2 (2.7.8.dfsg-2) ...
-Setting up libcroco3 (0.6.2-1) ...
-Setting up libunistring0 (0.9.3-3) ...
-Setting up gettext-base (0.18.1.1-3) ...
-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 groff-base (1.20.1-10) ...
-Setting up bsdmainutils (8.2.1) ...
+Selecting previously unselected package sbuild-build-depends-bwa-dummy.
+Unpacking sbuild-build-depends-bwa-dummy (from .../sbuild-build-depends-bwa-dummy.deb) ...
+Setting up libpipeline1 (1.2.0-5) ...
+Setting up libpcre3 (8.12-4) ...
+Setting up libffi5 (3.0.10-3) ...
+Setting up libglib2.0-0 (2.30.2-4) ...
+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 man-db (2.5.7-8) ...
-debconf: unable to initialize frontend: Dialog
-debconf: (TERM is not set, so the dialog frontend is not usable.)
-debconf: falling back to frontend: Readline
-debconf: unable to initialize frontend: Readline
-debconf: (This frontend requires a controlling tty.)
-debconf: falling back to frontend: Teletype
+Setting up groff-base (1.21-6) ...
+Setting up man-db (2.6.0.2-3) ...
Building database of manual pages ...
-Setting up debhelper (8.0.0) ...
-Setting up cdbs (0.4.89) ...
+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 (8.9.11) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
Setting up sbuild-build-depends-bwa-dummy (0.invalid.0) ...
Reading package lists...
@@ -303,9 +322,9 @@ Reading state information...
Reading extended state information...
Initializing package states...
Writing extended state information...
-Kernel: Linux 2.6.32-bpo.5-sparc64-smp sparc (sparc64)
-Toolchain package versions: libc6-dev_2.11.2-2 dpkg-dev_1.15.7.2 linux-libc-dev_2.6.32-17 gcc-4.5_ =*=NOT INSTALLED=*= g++-4.5_ =*=NOT INSTALLED=*= binutils_2.20.1-12 libstdc++6-4.5-dev_ =*=NOT INSTALLED=*= libstdc++6_4.4.4-6
-Package versions: apt_0.8.10.1 aptitude_0.6.3-3.2 base-files_5.8 base-passwd_3.5.22 bash_4.1-3 binutils_2.20.1-12 bsdmainutils_8.2.1 bsdutils_1:2.17.2-3.1 build-essential_11.5 bzip2_1.0.5-4 cdbs_0.4.89 coreutils_8.5-1 cpp_4:4.4.4-2 cpp-4.4_4.4.4-6 dash_0.5.5.1-7 debconf_1.5.33 debconf-i18n_1.5.33 debfoster_2.7-1.1 debhelper_8.0.0 debian-archive-keyring_2009.01.31 debianutils_3.3 diffutils_1:3.0-1 dpkg_1.15.7.2 dpkg-dev_1.15.7.2 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.14.4-1 file_5.04-5 findutils_4.4.2-1 g++_4:4.4.4-2 g++-4.4_4.4.4-6 gcc_4:4.4.4-2 gcc-4.4_4.4.4-6 gcc-4.4-base_4.4.4-6 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_1.20.1-10 gzip_1.3.12-9 hostname_3.04 html2text_1.3.2a-15 initscripts_2.88dsf-11 insserv_1.14.0-2 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-3 libattr1_1:2.4.44-2 libblkid1_2.17.2-3.1 libboost-iostreams1.42.0_1.42.0-4 libbz2-1.0_1.0.5-4 libc-bin_2.11.2-2 libc-dev-bin_2.11.2-2 libc6_2.11.2-2 libc6-dev_2.11.2-2 libc6-dev-sparc64_2.11.2-2 libc6-sparc64_2.11.2-2 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libcwidget3_0.5.16-3 libdb4.7_4.7.25-9 libdb4.8_4.8.26-3 libdpkg-perl_1.15.7.2 libept1_1.0.4 libgc1c2_1:6.8-1.2 libgcc1_1:4.4.4-6 libgdbm3_1.8.3-9 libglib2.0-0_2.24.2-1 libgmp3c2_2:4.3.2+dfsg-1 libgomp1_4.4.4-6 liblocale-gettext-perl_1.05-6 liblzma2_4.999.9beta+20100527-1 libmagic1_5.04-5 libmpfr1ldbl_2.4.2-3 libncurses5_5.7+20100313-2 libncursesw5_5.7+20100313-5 libpam-modules_1.1.1-3 libpam-runtime_1.1.1-3 libpam0g_1.1.1-3 libpcre3_8.02-1.1 libreadline6_6.1-3 libselinux1_2.0.94-1 libsepol1_2.0.41-1 libsigc++-2.0-0c2a_2.2.4.2-1 libsqlite3-0_3.7.4-2 libss2_1.41.12-2 libstdc++6_4.4.4-6 libstdc++6-4.4-dev_4.4.4-6 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_2:0.1.12-15 libuuid1_2.17.2-3.1 libxapian22_1.2.4-1 libxml2_2.7.8.dfsg-2 linux-libc-dev_2.6.32-17 login_1:4.1.4.2-1 lsb-base_3.2-23.1 make_3.81-8 man-db_2.5.7-8 mawk_1.3.3-15 mount_2.17.2-3.1 ncurses-base_5.7+20100313-2 ncurses-bin_5.7+20100313-2 netbase_4.42 passwd_1:4.1.4.2-1 patch_2.6-2 perl_5.10.1-13 perl-base_5.10.1-13 perl-modules_5.10.1-13 po-debconf_1.0.16+nmu1 readline-common_6.1-3 sbuild-build-depends-bwa-dummy_0.invalid.0 sed_4.2.1-7 sensible-utils_0.0.4 sudo_1.7.2p7-1 sysv-rc_2.88dsf-11 sysvinit_2.88dsf-11 sysvinit-utils_2.88dsf-11 tar_1.23-2 tzdata_2010j-1 util-linux_2.17.2-3.1 xz-utils_4.999.9beta+20100527-1 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+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_3.1.1-1
+Package versions: apt_0.8.15.9 aptitude_0.6.4-1.2 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_8.9.11 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_1.4-2 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 libboost-iostreams1.46.1_1.46.1-7+b1 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 libclass-isa-perl_0.36-2 libcomerr2_1.42~WIP-2011-10-16-1 libcroco3_0.6.2-2 libcwidget3_0.5.16-3.1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.1.1 libept1_1.0.5 libffi5_3.0.10-3 libgc1c2_1:7.1-8 libgcc1_1:4.6.2-4 libgdbm3_1.8.3-10 libglib2.0-0_2.30.2-4 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_3.1.0-3 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 libreadline6_6.2-7 libselinux1_2.1.0-4 libsepol1_2.1.0-1.1 libsigc++-2.0-0c2a_2.2.9-1 libsqlite3-0_3.7.9-2 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 libxapian22_1.2.7-1 libxml2_2.7.8.dfsg-5 linux-libc-dev_3.1.1-1 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_5.14.2-4 perl-base_5.14.2-4 perl-modules_5.14.2-4 po-debconf_1.0.16+nmu1 readline-common_6.2-7 sbuild-build-depends-bwa-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 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 │
@@ -315,14 +334,12 @@ Package versions: apt_0.8.10.1 aptitude_0.6.3-3.2 base-files_5.8 base-passwd_3.5
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 Thu Jan 20 12:57:54 2011 UTC using RSA key ID 2295D502
+gpgv: Signature made Tue Nov 22 02:41:12 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~rc-1.dsc
-dpkg-source: info: extracting bwa in bwa-0.5.9~rc
-dpkg-source: info: unpacking bwa_0.5.9~rc.orig.tar.bz2
-dpkg-source: info: unpacking bwa_0.5.9~rc-1.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bwa_0.6.0-2.dsc
+dpkg-source: info: extracting bwa in bwa-0.6.0
+dpkg-source: info: unpacking bwa_0.6.0-2.tar.gz
Check disc space
────────────────
@@ -331,157 +348,222 @@ Check disc space
dpkg-buildpackage
─────────────────
-dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
-dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
-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~rc-1
+dpkg-buildpackage: source version 0.6.0-2
+ dpkg-source --before-build bwa-0.6.0
dpkg-buildpackage: host architecture sparc
- /usr/bin/fakeroot debian/rules clean
-test -x debian/rules
-dh_testroot
-rm -f debian/stamp-makefile-build debian/stamp-makefile-install
-/usr/bin/make -C . CFLAGS="-g -O2 -g -Wall -O2" CXXFLAGS="-g -O2 -g -Wall -O2" CPPFLAGS="" LDFLAGS="" -k clean
-make[1]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-sparc-IS2A3X/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-sparc-IS2A3X/bwa-0.5.9~rc'
+ fakeroot debian/rules clean
+dh clean
+ dh_testdir
+ dh_auto_clean
+make[1]: Entering directory `/build/buildd-bwa_0.6.0-2-sparc-DMJdCN/bwa-0.6.0'
rm -f gmon.out *.o a.out bwa *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-sparc-IS2A3X/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-sparc-IS2A3X/bwa-0.5.9~rc/bwt_gen'
-rm -f gmon.out *.o a.out *~ *.a
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-sparc-IS2A3X/bwa-0.5.9~rc/bwt_gen'
-make[1]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-sparc-IS2A3X/bwa-0.5.9~rc'
-dh_clean
+make[1]: Leaving directory `/build/buildd-bwa_0.6.0-2-sparc-DMJdCN/bwa-0.6.0'
+ dh_clean
debian/rules build
-test -x debian/rules
-mkdir -p "."
-/usr/bin/make -C . CFLAGS="-g -O2 -g -Wall -O2" CXXFLAGS="-g -O2 -g -Wall -O2" CPPFLAGS="" LDFLAGS=""
-make[1]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-sparc-IS2A3X/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-sparc-IS2A3X/bwa-0.5.9~rc'
-make[2]: Nothing to be done for `lib'.
-make[2]: Leaving directory `/build/buildd-bwa_0.5.9~rc-1-sparc-IS2A3X/bwa-0.5.9~rc'
-make[2]: Entering directory `/build/buildd-bwa_0.5.9~rc-1-sparc-IS2A3X/bwa-0.5.9~rc/bwt_gen'
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwt_gen.c -o bwt_gen.o
-gcc -c -g -O2 -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~rc-1-sparc-IS2A3X/bwa-0.5.9~rc/bwt_gen'
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD utils.c -o utils.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwt.c -o bwt.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtio.c -o bwtio.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtaln.c -o bwtaln.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtgap.c -o bwtgap.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD is.c -o is.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bntseq.c -o bntseq.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtmisc.c -o bwtmisc.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtindex.c -o bwtindex.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD stdaln.c -o stdaln.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD simple_dp.c -o simple_dp.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwaseqio.c -o bwaseqio.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwase.c -o bwase.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwape.c -o bwape.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD kstring.c -o kstring.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD cs2nt.c -o cs2nt.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_core.c -o bwtsw2_core.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_main.c -o bwtsw2_main.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_aux.c -o bwtsw2_aux.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwt_lite.c -o bwt_lite.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bwtsw2_chain.c -o bwtsw2_chain.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD bamlite.c -o bamlite.o
-gcc -c -g -O2 -g -Wall -O2 -DHAVE_PTHREAD main.c -o main.o
-gcc -g -O2 -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~rc-1-sparc-IS2A3X/bwa-0.5.9~rc'
-touch debian/stamp-makefile-build
-DEB_MAKE_CHECK_TARGET unset, not running checks
- /usr/bin/fakeroot debian/rules binary-arch
-test -x debian/rules
-dh_testroot
-dh_prep
-dh_installdirs -A
-mkdir -p "."
-DEB_MAKE_CHECK_TARGET unset, not running checks
-DEB_MAKE_INSTALL_TARGET unset, skipping default makefile.mk common-install target
-Adding cdbs dependencies to debian/bwa.substvars
-dh_installdirs -pbwa
-dh_installdocs -pbwa ./NEWS
-dh_installexamples -pbwa
-dh_installman -pbwa
-dh_installinfo -pbwa
-dh_installmenu -pbwa
-dh_installcron -pbwa
-dh_installinit -pbwa
-dh_installdebconf -pbwa
-dh_installemacsen -pbwa
-dh_installcatalogs -pbwa
-dh_installpam -pbwa
-dh_installlogrotate -pbwa
-dh_installlogcheck -pbwa
-dh_installchangelogs -pbwa ./ChangeLog
-dh_installudev -pbwa
-dh_lintian -pbwa
-dh_install -pbwa
-dh_link -pbwa
-dh_installmime -pbwa
-dh_strip -pbwa
-dh_compress -pbwa
-dh_fixperms -pbwa
-dh_makeshlibs -pbwa
-dh_installdeb -pbwa
-dh_perl -pbwa
-dh_shlibdeps -pbwa
-dh_gencontrol -pbwa
+dh build
+ dh_testdir
+ dh_auto_configure
+ debian/rules override_dh_auto_build
+make[1]: Entering directory `/build/buildd-bwa_0.6.0-2-sparc-DMJdCN/bwa-0.6.0'
+dh_auto_build -- CFLAGS="-Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro" DFLAGS="-DHAVE_PTHREAD -D_NO_SSE2"
+make[2]: Entering directory `/build/buildd-bwa_0.6.0-2-sparc-DMJdCN/bwa-0.6.0'
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 QSufSort.c -o QSufSort.o
+QSufSort.c: In function 'QSufSortSuffixSort':
+QSufSort.c:62:10: warning: variable 'maxNumInputSymbol' set but not used [-Wunused-but-set-variable]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt_gen.c -o bwt_gen.o
+bwt_gen.c: In function 'BWTIncBuildRelativeRank':
+bwt_gen.c:873:10: warning: variable 'oldInverseSa0RelativeRank' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncMergeBwt':
+bwt_gen.c:947:15: warning: variable 'bitsInWordMinusBitPerChar' set but not used [-Wunused-but-set-variable]
+bwt_gen.c: In function 'BWTIncConstructFromPacked':
+bwt_gen.c:1452:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwt_gen.c:1468:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwt_gen.c:1483:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 utils.c -o utils.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt.c -o bwt.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtio.c -o bwtio.o
+bwtio.c: In function 'bwt_restore_bwt':
+bwtio.c:62:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:63:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:64:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c: In function 'bwt_restore_sa':
+bwtio.c:36:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:38:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:39:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:40:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtio.c:47:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtaln.c -o bwtaln.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtgap.c -o bwtgap.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 is.c -o is.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bntseq.c -o bntseq.o
+bntseq.c: In function 'bns_restore_core':
+bntseq.c:98:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:106:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:114:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:123:9: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+bntseq.c:129:10: warning: ignoring return value of 'fscanf', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtmisc.c -o bwtmisc.o
+bwtmisc.c: In function 'bwa_pac2cspac_core':
+bwtmisc.c:172:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtmisc.c: In function 'bwt_pac2bwt':
+bwtmisc.c:72:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwtmisc.c: In function 'bwa_seq_len':
+bwtmisc.c:51:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtindex.c -o bwtindex.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 ksw.c -o ksw.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 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 -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 simple_dp.c -o simple_dp.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwaseqio.c -o bwaseqio.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwase.c -o bwase.o
+bwase.c: In function 'bwa_aln2seq_core':
+bwase.c:74:15: warning: variable 'k' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_print_sam1':
+bwase.c:447:17: warning: variable 'm_is_N' set but not used [-Wunused-but-set-variable]
+bwase.c: In function 'bwa_sai2sam_se_core':
+bwase.c:603:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:619:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:624:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c: In function 'bwa_refine_gapped':
+bwase.c:310:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwase.c:316:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwape.c -o bwape.o
+bwape.c: In function 'bwa_sai2sam_pe_core':
+bwape.c:683:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:686:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:697:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c: In function 'bwa_paired_sw':
+bwape.c:527:8: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c: In function 'bwa_cal_pac_pos_pe':
+bwape.c:312:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+bwape.c:316:9: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 kstring.c -o kstring.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 cs2nt.c -o cs2nt.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_core.c -o bwtsw2_core.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_main.c -o bwtsw2_main.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_aux.c -o bwtsw2_aux.o
+bwtsw2_aux.c: In function 'gen_cigar':
+bwtsw2_aux.c:186:7: warning: variable 'score' set but not used [-Wunused-but-set-variable]
+bwtsw2_aux.c: In function 'bsw2_aln':
+bwtsw2_aux.c:734:7: warning: ignoring return value of 'fread', declared with attribute warn_unused_result [-Wunused-result]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwt_lite.c -o bwt_lite.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_chain.c -o bwtsw2_chain.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bamlite.c -o bamlite.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 fastmap.c -o fastmap.o
+fastmap.c: In function 'main_fastmap':
+fastmap.c:54:3: warning: format '%ld' expects argument of type 'long int', but argument 3 has type 'size_t' [-Wformat]
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_pair.c -o bwtsw2_pair.o
+gcc -c -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 main.c -o main.o
+gcc -Wall -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Wformat-security -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 QSufSort.o bwt_gen.o utils.o bwt.o bwtio.o bwtaln.o bwtgap.o is.o bntseq.o bwtmisc.o bwtindex.o ksw.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 fastmap.o bwtsw2_pair.o main.o -o bwa -lm -lz -lpthread
+make[2]: Leaving directory `/build/buildd-bwa_0.6.0-2-sparc-DMJdCN/bwa-0.6.0'
+make[1]: Leaving directory `/build/buildd-bwa_0.6.0-2-sparc-DMJdCN/bwa-0.6.0'
+ dh_auto_test
+ fakeroot debian/rules binary-arch
+dh binary-arch
+ dh_testroot -a
+ dh_prep -a
+ dh_installdirs -a
+ dh_auto_install -a
+ dh_install -a
+ dh_installdocs -a
+ dh_installchangelogs -a
+ dh_installexamples -a
+ dh_installman -a
+ dh_installcatalogs -a
+ dh_installcron -a
+ dh_installdebconf -a
+ dh_installemacsen -a
+ dh_installifupdown -a
+ dh_installinfo -a
+ dh_installinit -a
+ dh_installmenu -a
+ dh_installmime -a
+ dh_installmodules -a
+ dh_installlogcheck -a
+ dh_installlogrotate -a
+ dh_installpam -a
+ dh_installppp -a
+ 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
+ dh_perl -a
+ dh_usrlocal -a
+ dh_link -a
+ dh_compress -a
+ dh_fixperms -a
+ dh_strip -a
+ dh_makeshlibs -a
+ dh_shlibdeps -a
+ dh_installdeb -a
+ dh_gencontrol -a
dpkg-gencontrol: warning: package bwa: unused substitution variable ${perl:Depends}
-dh_md5sums -pbwa
-dh_builddeb -pbwa
-dpkg-deb: building package `bwa' in `../bwa_0.5.9~rc-1_sparc.deb'.
- dpkg-genchanges -B -msparc Build Daemon (lebrun) <buildd_sparc-lebrun at buildd.debian.org> >../bwa_0.5.9~rc-1_sparc.changes
+ dh_md5sums -a
+ dh_builddeb -a
+dpkg-deb: building package `bwa' in `../bwa_0.6.0-2_sparc.deb'.
+ dpkg-genchanges -B -msparc Build Daemon (lebrun) <buildd_sparc-lebrun at buildd.debian.org> >../bwa_0.6.0-2_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-0.6.0
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110120-1316
+Build finished at 20111122-0939
-bwa_0.5.9~rc-1_sparc.changes:
+bwa_0.6.0-2_sparc.changes:
Format: 1.8
-Date: Thu, 20 Jan 2011 21:42:55 +0900
+Date: Tue, 22 Nov 2011 11:32:11 +0900
Source: bwa
Binary: bwa
Architecture: sparc
-Version: 0.5.9~rc-1
+Version: 0.6.0-2
Distribution: experimental
Urgency: low
Maintainer: sparc Build Daemon (lebrun) <buildd_sparc-lebrun at buildd.debian.org>
Changed-By: Charles Plessy <plessy at debian.org>
Description:
bwa - Burrows-Wheeler Aligner
+Closes: 648803
Changes:
- bwa (0.5.9~rc-1) experimental; urgency=low
+ bwa (0.6.0-2) experimental; urgency=low
.
- * New usptream release candidate.
+ [9410de3] Disable SSE2 everywhere except on amd64 (Closes: #648803).
+ [fb4c559] Reimplementation of Standard SW for when SSE2 is unavailable.
+ cherry picked from upstream commit 182cb2e.
+ This commit modifies upstream sources.
+ [9c93ccd] Use native format to bypass mandatory patch system.
Checksums-Sha1:
- 76a45f017d88deef37d50f9c6b860f7848898a61 140106 bwa_0.5.9~rc-1_sparc.deb
+ dd3e343299382b41dde13175987d8bd52191c848 171084 bwa_0.6.0-2_sparc.deb
Checksums-Sha256:
- 2ab1918174bb0f6115ed9384574daa0121b5d2f27af6e9f434e5bd12bc634b51 140106 bwa_0.5.9~rc-1_sparc.deb
+ 18371d8ce3c56b7008c0cc90a5f6941f481db729fa9ff3157b8ba1d7336df094 171084 bwa_0.6.0-2_sparc.deb
Files:
- 3e89d6ebc8539f50718f9b1ef7e1e95d 140106 science optional bwa_0.5.9~rc-1_sparc.deb
+ 2cef601e7f4baf689950a116bc294b17 171084 science optional bwa_0.6.0-2_sparc.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bwa_0.5.9~rc-1_sparc.deb
-────────────────────────
+bwa_0.6.0-2_sparc.deb
+─────────────────────
new debian package, version 2.0.
- size 140106 bytes: control archive= 940 bytes.
- 777 bytes, 17 lines control
- 556 bytes, 9 lines md5sums
+ size 171084 bytes: control archive= 990 bytes.
+ 774 bytes, 17 lines control
+ 610 bytes, 10 lines md5sums
Package: bwa
- Version: 0.5.9~rc-1
+ Version: 0.6.0-2
Architecture: sparc
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 308
+ Installed-Size: 323
Depends: libc6 (>= 2.7), zlib1g (>= 1:1.1.4)
Suggests: samtools
Section: science
@@ -495,24 +577,25 @@ bwa_0.5.9~rc-1_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 2011-01-20 13:16 ./
-drwxr-xr-x root/root 0 2011-01-20 13:16 ./usr/
-drwxr-xr-x root/root 0 2011-01-20 13:16 ./usr/bin/
--rwxr-xr-x root/root 196280 2011-01-20 13:16 ./usr/bin/bwa
-drwxr-xr-x root/root 0 2011-01-20 13:16 ./usr/share/
-drwxr-xr-x root/root 0 2011-01-20 13:16 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-01-20 13:16 ./usr/share/doc/bwa/
--rw-r--r-- root/root 5606 2011-01-20 11:35 ./usr/share/doc/bwa/NEWS.gz
--rw-r--r-- root/root 2679 2011-01-20 11:52 ./usr/share/doc/bwa/copyright
--rw-r--r-- root/root 17751 2011-01-20 11:35 ./usr/share/doc/bwa/ChangeLog.gz
--rw-r--r-- root/root 17751 2011-01-20 11:35 ./usr/share/doc/bwa/changelog.gz
--rw-r--r-- root/root 805 2011-01-20 12:43 ./usr/share/doc/bwa/changelog.Debian.gz
-drwxr-xr-x root/root 0 2011-01-20 13:16 ./usr/share/man/
-drwxr-xr-x root/root 0 2011-01-20 13:16 ./usr/share/man/man1/
--rw-r--r-- root/root 7423 2011-01-20 13:16 ./usr/share/man/man1/bwa.1.gz
-drwxr-xr-x root/root 0 2011-01-20 13:16 ./usr/share/bwa/
--rwxr-xr-x root/root 3176 2011-01-20 11:35 ./usr/share/bwa/solid2fastq.pl
--rwxr-xr-x root/root 616 2011-01-20 11:35 ./usr/share/bwa/qualfa2fq.pl
+drwxr-xr-x root/root 0 2011-11-22 09:39 ./
+drwxr-xr-x root/root 0 2011-11-22 09:39 ./usr/
+drwxr-xr-x root/root 0 2011-11-22 09:39 ./usr/bin/
+-rwxr-xr-x root/root 248016 2011-11-22 09:39 ./usr/bin/bwa
+drwxr-xr-x root/root 0 2011-11-22 09:39 ./usr/share/
+drwxr-xr-x root/root 0 2011-11-22 09:39 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-11-22 09:39 ./usr/share/doc/bwa/
+-rw-r--r-- root/root 6680 2011-11-22 01:55 ./usr/share/doc/bwa/NEWS.gz
+-rw-r--r-- root/root 2785 2011-11-22 01:55 ./usr/share/doc/bwa/copyright
+-rw-r--r-- root/root 17912 2011-11-22 01:55 ./usr/share/doc/bwa/changelog.gz
+-rw-r--r-- root/root 634 2011-11-22 01:55 ./usr/share/doc/bwa/README
+-rw-r--r-- root/root 1471 2011-11-22 02:32 ./usr/share/doc/bwa/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-11-22 09:39 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-11-22 09:39 ./usr/share/man/man1/
+-rw-r--r-- root/root 7745 2011-11-22 09:39 ./usr/share/man/man1/bwa.1.gz
+drwxr-xr-x root/root 0 2011-11-22 09:39 ./usr/share/bwa/
+-rwxr-xr-x root/root 730 2011-11-22 01:55 ./usr/share/bwa/xa2multi.pl
+-rwxr-xr-x root/root 3176 2011-11-22 01:55 ./usr/share/bwa/solid2fastq.pl
+-rwxr-xr-x root/root 616 2011-11-22 01:55 ./usr/share/bwa/qualfa2fq.pl
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -521,9 +604,31 @@ drwxr-xr-x root/root 0 2011-01-20 13:16 ./usr/share/bwa/
Built successfully
────────────────────────────────────────────────────────────────────────────────
-Purging /var/lib/schroot/mount/sid-experimental-sparc-sbuild-bf7c8648-dd96-4022-a39f-ec32f173aa4b/build/buildd-bwa_0.5.9~rc-1-sparc-IS2A3X
-Not removing build depends: cloned chroot in use
-────────────────────────────────────────────────────────────────────────────────
-Finished at 20110120-1316
-Build needed 00:03:53, 2460k disc space
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /var/lib/schroot/mount/sid-experimental-sparc-sbuild-7af38c3f-f4b8-4d67-93c9-a522b3bd959e/build/buildd-bwa_0.6.0-2-sparc-DMJdCN
+Not cleaning session: cloned chroot in use
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Architecture: sparc
+Build-Space: 2972
+Build-Time: 73
+Distribution: experimental
+Install-Time: 113
+Job: bwa_0.6.0-2
+Package: bwa
+Package-Time: 239
+Source-Version: 0.6.0-2
+Space: 2972
+Status: successful
+Version: 0.6.0-2
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20111122-0939
+Build needed 00:03:59, 2972k disc space
+Signature with key '4DF860F5' requested:
--
Burrows-Wheeler Aligner
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