[med-svn] [bwa] 01/01: Logs for 0.7.12-1 on kfreebsd-amd64.
Charles Plessy
plessy at moszumanska.debian.org
Sat Jul 4 04:41:30 UTC 2015
This is an automated email from the git hooks/post-receive script.
plessy pushed a commit to branch experimental-meta
in repository bwa.
commit dd91a504da63f53b673affa2598cfd247ad14636
Author: Charles Plessy <plessy at debian.org>
Date: Sat Jul 4 13:12:31 2015 +0900
Logs for 0.7.12-1 on kfreebsd-amd64.
---
info | 12 +-
kfreebsd-amd64.log | 888 +++++++++++++++++++++++++----------------------------
2 files changed, 420 insertions(+), 480 deletions(-)
diff --git a/info b/info
index 5c74a5b..e216ec9 100644
--- a/info
+++ b/info
@@ -1,11 +1 @@
-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
+kfreebsd-amd64~1422548992~experimental~failed
diff --git a/kfreebsd-amd64.log b/kfreebsd-amd64.log
index 66eb4d2..cda1d1f 100644
--- a/kfreebsd-amd64.log
+++ b/kfreebsd-amd64.log
@@ -1,122 +1,92 @@
-From buildd at fano.debian.org Tue Nov 22 03:21:50 2011
+From buildd at fano.debian.org Thu Jan 29 16:29:52 2015
Return-path: <buildd at fano.debian.org>
-Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
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- 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 <buildd at fano.debian.org>)
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-MIME-Version: 1.0
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+ CN=muffat.debian.org, EMAIL=hostmaster at muffat.debian.org (verified)
+ by wuiet.debian.org with esmtps (TLS1.2:DHE_RSA_AES_128_CBC_SHA1:128)
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+ CN=fano.debian.org, EMAIL=hostmaster at fano.debian.org (verified)
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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
+MIME-Version: 1.0
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+Date: Thu, 29 Jan 2015 16:29:48 +0000
From: buildd on fano <buildd at fano.debian.org>
-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)
-Key-Id: D33FE1D8
+To: christoph at debian.org,logs at buildd.debian.org
+Subject: Log for attempted build of bwa_0.7.12-1 on kfreebsd-amd64
+ (dist=experimental)
+Key-Id: 8C5D26F3
+Message-Id: <E1YGryW-000Cei-Sl at fano.debian.org>
Delivered-To: logs at buildd.debian.org
-sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on fano.debian.org
+sbuild (Debian sbuild) 0.64.0 (17 May 2013) on fano.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bwa 0.6.0-2 (kfreebsd-amd64) 22 Nov 2011 03:19 ║
+║ bwa 0.7.12-1 (kfreebsd-amd64) 29 Jan 2015 16:27 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bwa
-Version: 0.6.0-2
-Source Version: 0.6.0-2
-Architecture: kfreebsd-amd64
-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
-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
-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
-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)
+Version: 0.7.12-1
+Source Version: 0.7.12-1
+Distribution: experimental
+Machine Architecture: kfreebsd-amd64
+Host Architecture: kfreebsd-amd64
+Build Architecture: kfreebsd-amd64
+
+I: NOTICE: Log filtering will replace 'build/bwa-Ac81kN/bwa-0.7.12' with '«PKGBUILDDIR»'
+I: NOTICE: Log filtering will replace 'build/bwa-Ac81kN' with '«BUILDDIR»'
+I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/sid-experimental-ka-sbuild-1422548873-47431' with '«CHROOT»'
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Update chroot │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Get:1 http://mirror-ubc.debian.org unstable InRelease [249 kB]
+Get:2 http://mirror-ubc.debian.org experimental InRelease [162 kB]
+Get:3 http://mirror-ubc.debian.org unstable/main Sources [9853 kB]
+Get:4 http://ftp.debian.org unstable InRelease [249 kB]
+Get:5 http://incoming.debian.org buildd-unstable InRelease [110 kB]
+Get:6 http://mirror-ubc.debian.org unstable/contrib Sources [66.6 kB]
+Get:7 http://mirror-ubc.debian.org unstable/non-free Sources [125 kB]
+Get:8 http://mirror-ubc.debian.org unstable/main kfreebsd-amd64 Packages [8806 kB]
+Get:9 http://incoming.debian.org buildd-experimental InRelease [110 kB]
+Get:10 http://mirror-ubc.debian.org unstable/contrib kfreebsd-amd64 Packages [46.6 kB]
+Get:11 http://mirror-ubc.debian.org experimental/main Sources [918 kB]
+Get:12 http://mirror-ubc.debian.org experimental/contrib Sources [5636 B]
+Get:13 http://mirror-ubc.debian.org experimental/non-free Sources [6263 B]
+Get:14 http://ftp.debian.org experimental InRelease [162 kB]
+Get:15 http://incoming.debian.org buildd-unstable/main Sources [44.1 kB]
+Get:16 http://mirror-ubc.debian.org experimental/main kfreebsd-amd64 Packages [1107 kB]
+Get:17 http://mirror-ubc.debian.org experimental/contrib kfreebsd-amd64 Packages [6602 B]
+Get:18 http://incoming.debian.org buildd-unstable/contrib Sources [20 B]
+Get:19 http://incoming.debian.org buildd-unstable/non-free Sources [20 B]
+Get:20 http://ftp.debian.org unstable/main Sources [9853 kB]
+Get:21 http://incoming.debian.org buildd-unstable/main kfreebsd-amd64 Packages [44.9 kB]
+Get:22 http://incoming.debian.org buildd-unstable/contrib kfreebsd-amd64 Packages [481 B]
+Get:23 http://incoming.debian.org buildd-experimental/main Sources [28.1 kB]
+Get:24 http://incoming.debian.org buildd-experimental/contrib Sources [20 B]
+Get:25 http://incoming.debian.org buildd-experimental/non-free Sources [20 B]
+Get:26 http://incoming.debian.org buildd-experimental/main kfreebsd-amd64 Packages [28.9 kB]
+Get:27 http://incoming.debian.org buildd-experimental/contrib kfreebsd-amd64 Packages [20 B]
+Get:28 http://ftp.debian.org unstable/contrib Sources [66.6 kB]
+Get:29 http://ftp.debian.org unstable/non-free Sources [125 kB]
+Get:30 http://ftp.debian.org unstable/main kfreebsd-amd64 Packages [8806 kB]
+Get:31 http://ftp.debian.org unstable/contrib kfreebsd-amd64 Packages [46.6 kB]
+Get:32 http://ftp.debian.org experimental/main Sources [918 kB]
+Get:33 http://ftp.debian.org experimental/contrib Sources [5636 B]
+Get:34 http://ftp.debian.org experimental/non-free Sources [6263 B]
+Get:35 http://ftp.debian.org experimental/main kfreebsd-amd64 Packages [1107 kB]
+Get:36 http://ftp.debian.org experimental/contrib kfreebsd-amd64 Packages [6602 B]
+Fetched 43.1 MB in 14s (2974 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -136,17 +106,20 @@ 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 (234 kB/s)
+git://anonscm.debian.org/debian-med/bwa.git
+Need to get 193 kB of source archives.
+Get:1 http://mirror-ubc.debian.org/debian/ experimental/main bwa 0.7.12-1 (dsc) [2013 B]
+Get:2 http://mirror-ubc.debian.org/debian/ experimental/main bwa 0.7.12-1 (tar) [185 kB]
+Get:3 http://mirror-ubc.debian.org/debian/ experimental/main bwa 0.7.12-1 (diff) [5956 B]
+Fetched 193 kB in 0s (2951 kB/s)
Download complete and in download only mode
Check arch
──────────
-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'.
+Merged Build-Depends: build-essential, fakeroot
+Filtered Build-Depends: build-essential, fakeroot
+dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/«BUILDDIR»/resolver-vEJtTq/apt_archive/sbuild-build-depends-core-dummy.deb'.
OK
Reading package lists...
@@ -157,24 +130,95 @@ Reading package lists...
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.
+The following extra packages will be installed:
+ aptitude-common libboost-iostreams1.55.0 libcwidget3 libncurses5
+ libncursesw5 libsigc++-2.0-0c2a libsqlite3-0 libtinfo5 libxapian22
+Suggested packages:
+ tasksel debtags apt-xapian-index libcwidget-dev xapian-tools
+Recommended packages:
+ aptitude-doc-en aptitude-doc libparse-debianchangelog-perl
+The following NEW packages will be installed:
+ aptitude aptitude-common libboost-iostreams1.55.0 libcwidget3 libncursesw5
+ libsigc++-2.0-0c2a libsqlite3-0 libxapian22
+The following packages will be upgraded:
+ libncurses5 libtinfo5
+2 upgraded, 8 newly installed, 0 to remove and 80 not upgraded.
+Need to get 5327 kB of archives.
+After this operation, 21.9 MB of additional disk space will be used.
+Get:1 http://mirror-ubc.debian.org/debian/ unstable/main libtinfo5 kfreebsd-amd64 5.9+20140913-1+b1 [282 kB]
+Get:2 http://mirror-ubc.debian.org/debian/ unstable/main libncurses5 kfreebsd-amd64 5.9+20140913-1+b1 [95.8 kB]
+Get:3 http://mirror-ubc.debian.org/debian/ unstable/main libboost-iostreams1.55.0 kfreebsd-amd64 1.55.0+dfsg-3 [49.4 kB]
+Get:4 http://mirror-ubc.debian.org/debian/ unstable/main libncursesw5 kfreebsd-amd64 5.9+20140913-1+b1 [122 kB]
+Get:5 http://mirror-ubc.debian.org/debian/ unstable/main libsigc++-2.0-0c2a kfreebsd-amd64 2.4.0-1 [51.0 kB]
+Get:6 http://mirror-ubc.debian.org/debian/ unstable/main libcwidget3 kfreebsd-amd64 0.5.17-2 [349 kB]
+Get:7 http://mirror-ubc.debian.org/debian/ unstable/main libsqlite3-0 kfreebsd-amd64 3.8.7.4-1 [437 kB]
+Get:8 http://mirror-ubc.debian.org/debian/ unstable/main aptitude-common all 0.6.11-1 [1576 kB]
+Get:9 http://mirror-ubc.debian.org/debian/ unstable/main libxapian22 kfreebsd-amd64 1.2.19-1 [984 kB]
+Get:10 http://mirror-ubc.debian.org/debian/ unstable/main aptitude kfreebsd-amd64 0.6.11-1+b1 [1381 kB]
+debconf: delaying package configuration, since apt-utils is not installed
+Fetched 5327 kB in 0s (21.4 MB/s)
+(Reading database ... 11502 files and directories currently installed.)
+Preparing to unpack .../libtinfo5_5.9+20140913-1+b1_kfreebsd-amd64.deb ...
+Unpacking libtinfo5:kfreebsd-amd64 (5.9+20140913-1+b1) over (5.9+20140913-1) ...
+Setting up libtinfo5:kfreebsd-amd64 (5.9+20140913-1+b1) ...
+Processing triggers for libc-bin (2.19-12) ...
+(Reading database ... 11503 files and directories currently installed.)
+Preparing to unpack .../libncurses5_5.9+20140913-1+b1_kfreebsd-amd64.deb ...
+Unpacking libncurses5:kfreebsd-amd64 (5.9+20140913-1+b1) over (5.9+20140913-1) ...
+Setting up libncurses5:kfreebsd-amd64 (5.9+20140913-1+b1) ...
+Processing triggers for libc-bin (2.19-12) ...
+Selecting previously unselected package libboost-iostreams1.55.0:kfreebsd-amd64.
+(Reading database ... 11503 files and directories currently installed.)
+Preparing to unpack .../libboost-iostreams1.55.0_1.55.0+dfsg-3_kfreebsd-amd64.deb ...
+Unpacking libboost-iostreams1.55.0:kfreebsd-amd64 (1.55.0+dfsg-3) ...
+Selecting previously unselected package libncursesw5:kfreebsd-amd64.
+Preparing to unpack .../libncursesw5_5.9+20140913-1+b1_kfreebsd-amd64.deb ...
+Unpacking libncursesw5:kfreebsd-amd64 (5.9+20140913-1+b1) ...
+Selecting previously unselected package libsigc++-2.0-0c2a:kfreebsd-amd64.
+Preparing to unpack .../libsigc++-2.0-0c2a_2.4.0-1_kfreebsd-amd64.deb ...
+Unpacking libsigc++-2.0-0c2a:kfreebsd-amd64 (2.4.0-1) ...
+Selecting previously unselected package libcwidget3:kfreebsd-amd64.
+Preparing to unpack .../libcwidget3_0.5.17-2_kfreebsd-amd64.deb ...
+Unpacking libcwidget3:kfreebsd-amd64 (0.5.17-2) ...
+Selecting previously unselected package libsqlite3-0:kfreebsd-amd64.
+Preparing to unpack .../libsqlite3-0_3.8.7.4-1_kfreebsd-amd64.deb ...
+Unpacking libsqlite3-0:kfreebsd-amd64 (3.8.7.4-1) ...
+Selecting previously unselected package aptitude-common.
+Preparing to unpack .../aptitude-common_0.6.11-1_all.deb ...
+Unpacking aptitude-common (0.6.11-1) ...
+Selecting previously unselected package libxapian22.
+Preparing to unpack .../libxapian22_1.2.19-1_kfreebsd-amd64.deb ...
+Unpacking libxapian22 (1.2.19-1) ...
+Selecting previously unselected package aptitude.
+Preparing to unpack .../aptitude_0.6.11-1+b1_kfreebsd-amd64.deb ...
+Unpacking aptitude (0.6.11-1+b1) ...
+Setting up libboost-iostreams1.55.0:kfreebsd-amd64 (1.55.0+dfsg-3) ...
+Setting up libncursesw5:kfreebsd-amd64 (5.9+20140913-1+b1) ...
+Setting up libsigc++-2.0-0c2a:kfreebsd-amd64 (2.4.0-1) ...
+Setting up libcwidget3:kfreebsd-amd64 (0.5.17-2) ...
+Setting up libsqlite3-0:kfreebsd-amd64 (3.8.7.4-1) ...
+Setting up aptitude-common (0.6.11-1) ...
+Setting up libxapian22 (1.2.19-1) ...
+Setting up aptitude (0.6.11-1+b1) ...
+update-alternatives: using /usr/bin/aptitude-curses to provide /usr/bin/aptitude (aptitude) in auto mode
+Processing triggers for libc-bin (2.19-12) ...
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...
-Reading extended state information...
Initializing package states...
Writing extended state information...
+Building tag database...
The following NEW packages will be installed:
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.
+0 packages upgraded, 1 newly installed, 0 to remove and 80 not upgraded.
+Need to get 0 B/828 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) ...
+(Reading database ... 11758 files and directories currently installed.)
+Preparing to unpack .../sbuild-build-depends-core-dummy.deb ...
+Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
Reading package lists...
Building dependency tree...
@@ -182,7 +226,10 @@ 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'.
+Building tag database...
+Merged Build-Depends: libc6-dev | libc-dev, gcc (>= 4:4.9.1), g++ (>= 4:4.9.1), make, dpkg-dev (>= 1.17.11), debhelper (>= 9), zlib1g-dev
+Filtered Build-Depends: libc6-dev | libc-dev, gcc (>= 4:4.9.1), g++ (>= 4:4.9.1), make, dpkg-dev (>= 1.17.11), debhelper (>= 9), zlib1g-dev
+dpkg-deb: building package `sbuild-build-depends-bwa-dummy' in `/«BUILDDIR»/resolver-vEJtTq/apt_archive/sbuild-build-depends-bwa-dummy.deb'.
OK
Reading package lists...
@@ -194,79 +241,148 @@ 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.
+0 upgraded, 0 newly installed, 0 to remove and 80 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...
+Building tag database...
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
+ bsdmainutils{a} debhelper{a} file{a} gettext{a} gettext-base{a}
+ groff-base{a} intltool-debian{a} libasprintf0c2{a} libcroco3{a}
+ libffi6{a} libglib2.0-0{a} libmagic1{a} libpipeline1{a} libunistring0{a}
+ libxml2{a} man-db{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.
+The following packages will be upgraded:
+ zlib1g
+1 packages upgraded, 19 newly installed, 0 to remove and 79 not upgraded.
+Need to get 9083 kB/9084 kB of archives. After unpacking 26.0 MB will be used.
Writing extended state information...
+Get: 1 http://mirror-ubc.debian.org/debian/ unstable/main zlib1g kfreebsd-amd64 1:1.2.8.dfsg-2+b1 [88.8 kB]
+Get: 2 http://mirror-ubc.debian.org/debian/ unstable/main libpipeline1 kfreebsd-amd64 1.4.0-1 [27.9 kB]
+Get: 3 http://mirror-ubc.debian.org/debian/ unstable/main groff-base kfreebsd-amd64 1.22.3-1 [1077 kB]
+Get: 4 http://mirror-ubc.debian.org/debian/ unstable/main bsdmainutils kfreebsd-amd64 9.0.6 [183 kB]
+Get: 5 http://mirror-ubc.debian.org/debian/ unstable/main man-db kfreebsd-amd64 2.7.0.2-5 [995 kB]
+Get: 6 http://mirror-ubc.debian.org/debian/ unstable/main libasprintf0c2 kfreebsd-amd64 0.19.3-2 [31.3 kB]
+Get: 7 http://mirror-ubc.debian.org/debian/ unstable/main libmagic1 kfreebsd-amd64 1:5.22+15-1 [249 kB]
+Get: 8 http://mirror-ubc.debian.org/debian/ unstable/main libxml2 kfreebsd-amd64 2.9.2+dfsg1-1+b1 [905 kB]
+Get: 9 http://mirror-ubc.debian.org/debian/ unstable/main libffi6 kfreebsd-amd64 3.1-2+b2 [19.5 kB]
+Get: 10 http://mirror-ubc.debian.org/debian/ unstable/main libglib2.0-0 kfreebsd-amd64 2.42.1-1 [2397 kB]
+Get: 11 http://mirror-ubc.debian.org/debian/ unstable/main libcroco3 kfreebsd-amd64 0.6.8-3+b1 [135 kB]
+Get: 12 http://mirror-ubc.debian.org/debian/ unstable/main libunistring0 kfreebsd-amd64 0.9.3-5.2+b1 [287 kB]
+Get: 13 http://mirror-ubc.debian.org/debian/ unstable/main file kfreebsd-amd64 1:5.22+15-1 [60.2 kB]
+Get: 14 http://mirror-ubc.debian.org/debian/ unstable/main gettext-base kfreebsd-amd64 0.19.3-2 [121 kB]
+Get: 15 http://mirror-ubc.debian.org/debian/ unstable/main gettext kfreebsd-amd64 0.19.3-2 [1236 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+nmu3 [220 kB]
+Get: 18 http://mirror-ubc.debian.org/debian/ unstable/main debhelper all 9.20150101 [813 kB]
+Get: 19 http://mirror-ubc.debian.org/debian/ unstable/main zlib1g-dev kfreebsd-amd64 1:1.2.8.dfsg-2+b1 [206 kB]
+Fetched 9083 kB in 0s (23.1 MB/s)
debconf: delaying package configuration, since apt-utils is not installed
-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) ...
+(Reading database ... 11758 files and directories currently installed.)
+Preparing to unpack .../zlib1g_1%3a1.2.8.dfsg-2+b1_kfreebsd-amd64.deb ...
+Unpacking zlib1g:kfreebsd-amd64 (1:1.2.8.dfsg-2+b1) over (1:1.2.8.dfsg-2) ...
+Setting up zlib1g:kfreebsd-amd64 (1:1.2.8.dfsg-2+b1) ...
+Processing triggers for libc-bin (2.19-12) ...
+Selecting previously unselected package libpipeline1:kfreebsd-amd64.
+(Reading database ... 11759 files and directories currently installed.)
+Preparing to unpack .../libpipeline1_1.4.0-1_kfreebsd-amd64.deb ...
+Unpacking libpipeline1:kfreebsd-amd64 (1.4.0-1) ...
+Selecting previously unselected package groff-base.
+Preparing to unpack .../groff-base_1.22.3-1_kfreebsd-amd64.deb ...
+Unpacking groff-base (1.22.3-1) ...
+Selecting previously unselected package bsdmainutils.
+Preparing to unpack .../bsdmainutils_9.0.6_kfreebsd-amd64.deb ...
+Unpacking bsdmainutils (9.0.6) ...
+Selecting previously unselected package man-db.
+Preparing to unpack .../man-db_2.7.0.2-5_kfreebsd-amd64.deb ...
+Unpacking man-db (2.7.0.2-5) ...
+Selecting previously unselected package libasprintf0c2:kfreebsd-amd64.
+Preparing to unpack .../libasprintf0c2_0.19.3-2_kfreebsd-amd64.deb ...
+Unpacking libasprintf0c2:kfreebsd-amd64 (0.19.3-2) ...
+Selecting previously unselected package libmagic1:kfreebsd-amd64.
+Preparing to unpack .../libmagic1_1%3a5.22+15-1_kfreebsd-amd64.deb ...
+Unpacking libmagic1:kfreebsd-amd64 (1:5.22+15-1) ...
+Selecting previously unselected package libxml2:kfreebsd-amd64.
+Preparing to unpack .../libxml2_2.9.2+dfsg1-1+b1_kfreebsd-amd64.deb ...
+Unpacking libxml2:kfreebsd-amd64 (2.9.2+dfsg1-1+b1) ...
+Selecting previously unselected package libffi6:kfreebsd-amd64.
+Preparing to unpack .../libffi6_3.1-2+b2_kfreebsd-amd64.deb ...
+Unpacking libffi6:kfreebsd-amd64 (3.1-2+b2) ...
+Selecting previously unselected package libglib2.0-0:kfreebsd-amd64.
+Preparing to unpack .../libglib2.0-0_2.42.1-1_kfreebsd-amd64.deb ...
+Unpacking libglib2.0-0:kfreebsd-amd64 (2.42.1-1) ...
+Selecting previously unselected package libcroco3:kfreebsd-amd64.
+Preparing to unpack .../libcroco3_0.6.8-3+b1_kfreebsd-amd64.deb ...
+Unpacking libcroco3:kfreebsd-amd64 (0.6.8-3+b1) ...
+Selecting previously unselected package libunistring0:kfreebsd-amd64.
+Preparing to unpack .../libunistring0_0.9.3-5.2+b1_kfreebsd-amd64.deb ...
+Unpacking libunistring0:kfreebsd-amd64 (0.9.3-5.2+b1) ...
Selecting previously unselected package file.
-Unpacking file (from .../file_5.09-2_kfreebsd-amd64.deb) ...
+Preparing to unpack .../file_1%3a5.22+15-1_kfreebsd-amd64.deb ...
+Unpacking file (1:5.22+15-1) ...
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) ...
+Preparing to unpack .../gettext-base_0.19.3-2_kfreebsd-amd64.deb ...
+Unpacking gettext-base (0.19.3-2) ...
Selecting previously unselected package gettext.
-Unpacking gettext (from .../gettext_0.18.1.1-5_kfreebsd-amd64.deb) ...
+Preparing to unpack .../gettext_0.19.3-2_kfreebsd-amd64.deb ...
+Unpacking gettext (0.19.3-2) ...
Selecting previously unselected package intltool-debian.
-Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ...
+Preparing to unpack .../intltool-debian_0.35.0+20060710.1_all.deb ...
+Unpacking intltool-debian (0.35.0+20060710.1) ...
Selecting previously unselected package po-debconf.
-Unpacking po-debconf (from .../po-debconf_1.0.16+nmu1_all.deb) ...
+Preparing to unpack .../po-debconf_1.0.16+nmu3_all.deb ...
+Unpacking po-debconf (1.0.16+nmu3) ...
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) ...
+Preparing to unpack .../debhelper_9.20150101_all.deb ...
+Unpacking debhelper (9.20150101) ...
+Selecting previously unselected package zlib1g-dev:kfreebsd-amd64.
+Preparing to unpack .../zlib1g-dev_1%3a1.2.8.dfsg-2+b1_kfreebsd-amd64.deb ...
+Unpacking zlib1g-dev:kfreebsd-amd64 (1:1.2.8.dfsg-2+b1) ...
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 ...
-Setting up libffi5 (3.0.10-3) ...
-Setting up libglib2.0-0 (2.30.2-4) ...
+Preparing to unpack .../sbuild-build-depends-bwa-dummy.deb ...
+Unpacking sbuild-build-depends-bwa-dummy (0.invalid.0) ...
+Setting up libpipeline1:kfreebsd-amd64 (1.4.0-1) ...
+Setting up groff-base (1.22.3-1) ...
+Setting up bsdmainutils (9.0.6) ...
+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 (2.7.0.2-5) ...
+Not building database; man-db/auto-update is not 'true'.
+Setting up libasprintf0c2:kfreebsd-amd64 (0.19.3-2) ...
+Setting up libmagic1:kfreebsd-amd64 (1:5.22+15-1) ...
+Setting up libxml2:kfreebsd-amd64 (2.9.2+dfsg1-1+b1) ...
+Setting up libffi6:kfreebsd-amd64 (3.1-2+b2) ...
+Setting up libglib2.0-0:kfreebsd-amd64 (2.42.1-1) ...
No schema files found: doing nothing.
-Setting up libxml2 (2.7.8.dfsg-5) ...
-Setting up libcroco3 (0.6.2-2) ...
-Setting up libunistring0 (0.9.3-5) ...
-Setting up libmagic1 (5.09-2) ...
-Setting up file (5.09-2) ...
-Setting up gettext-base (0.18.1.1-5) ...
-Setting up html2text (1.3.2a-15) ...
-Setting up gettext (0.18.1.1-5) ...
+Setting up libcroco3:kfreebsd-amd64 (0.6.8-3+b1) ...
+Setting up libunistring0:kfreebsd-amd64 (0.9.3-5.2+b1) ...
+Setting up file (1:5.22+15-1) ...
+Setting up gettext-base (0.19.3-2) ...
+Setting up gettext (0.19.3-2) ...
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 po-debconf (1.0.16+nmu3) ...
+Setting up debhelper (9.20150101) ...
+Setting up zlib1g-dev:kfreebsd-amd64 (1:1.2.8.dfsg-2+b1) ...
Setting up sbuild-build-depends-bwa-dummy (0.invalid.0) ...
+Processing triggers for libc-bin (2.19-12) ...
Reading package lists...
Building dependency tree...
Reading state information...
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: 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 fakero [...]
+Building tag database...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Build environment │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Kernel: GNU/kFreeBSD 9.0-2-amd64 kfreebsd-amd64 (x86_64)
+Toolchain package versions: binutils_2.24.90.20141014-1 dpkg-dev_1.17.20 g++-4.9_4.9.1-18 gcc-4.9_4.9.1-18 kfreebsd-kernel-headers_10.1~5 libc0.1-dev_2.19-12 libstdc++-4.9-dev_4.9.1-18 libstdc++6_4.9.1-18
+Package versions: apt_1.0.9.3 aptitude_0.6.11-1+b1 aptitude-common_0.6.11-1 base-files_7.8 base-passwd_3.5.36 bash_4.3-11 binutils_2.24.90.20141014-1 bsdmainutils_9.0.6 bsdutils_1:2.25.1-5 build-essential_11.7 bzip2_1.0.6-7 coreutils_8.23-2 cpp_4:4.9.1-5 cpp-4.9_4.9.1-18 dash_0.5.7-4 debconf_1.5.53 debconf-i18n_1.5.53 debfoster_2.7-2 debhelper_9.20150101 debian-archive-keyring_2014.1 debianutils_4.4 diffutils_1:3.3-1 dpkg_1.17.20 dpkg-dev_1.17.20 e2fslibs_1.42.12-1 e2fsprogs_1.42.12-1 fa [...]
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -276,337 +392,171 @@ Package versions: adduser_3.113 apt_0.8.15.9 aptitude_0.6.4-1.2 base-files_6.5 b
Unpack source
─────────────
-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: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Tue Jan 27 07:49:47 2015 UTC using RSA key ID D1C646D1
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
+dpkg-source: warning: failed to verify signature on ./bwa_0.7.12-1.dsc
+dpkg-source: info: extracting bwa in bwa-0.7.12
+dpkg-source: info: unpacking bwa_0.7.12.orig.tar.bz2
+dpkg-source: info: unpacking bwa_0.7.12-1.debian.tar.xz
Check disc space
────────────────
+Sufficient free space for build
+
+User Environment
+────────────────
+
+DEB_BUILD_OPTIONS=parallel=2
+HOME=/sbuild-nonexistent
+LOGNAME=buildd
+PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
+SCHROOT_ALIAS_NAME=experimental-kfreebsd-amd64-sbuild
+SCHROOT_CHROOT_NAME=sid-experimental-ka-sbuild
+SCHROOT_COMMAND=env
+SCHROOT_GID=1009
+SCHROOT_GROUP=buildd
+SCHROOT_SESSION_ID=sid-experimental-ka-sbuild-1422548873-47431
+SCHROOT_UID=2952
+SCHROOT_USER=buildd
+SHELL=/bin/sh
+USER=buildd
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: source version 0.7.12-1
+dpkg-buildpackage: source distribution experimental
+ dpkg-source --before-build bwa-0.7.12
dpkg-buildpackage: host architecture kfreebsd-amd64
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'
+make[1]: Entering directory '/«PKGBUILDDIR»'
rm -f gmon.out *.o a.out bwa *~ *.a
-make[1]: Leaving directory `/build/buildd-bwa_0.6.0-2-kfreebsd-amd64-2lhsBi/bwa-0.6.0'
+make[1]: Leaving directory '/«PKGBUILDDIR»'
dh_clean
- debian/rules build
-dh build
- dh_testdir
- dh_auto_configure
+ debian/rules build-arch
+dh build-arch
+ dh_testdir -a
+ dh_auto_configure -a
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
+make[1]: Entering directory '/«PKGBUILDDIR»'
+dh_auto_build -- CFLAGS="-Wall -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro" DFLAGS="-DHAVE_PTHREAD -D_NO_SSE2"
+make[2]: Entering directory '/«PKGBUILDDIR»'
+gcc -c -Wall -g -O2 -fstack-protector-strong -Wformat -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-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 kthread.c -o kthread.o
+gcc -c -Wall -g -O2 -fstack-protector-strong -Wformat -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-strong -Wformat -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-strong -Wformat -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-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bntseq.c -o bntseq.o
+gcc -c -Wall -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwa.c -o bwa.o
+gcc -c -Wall -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwamem.c -o bwamem.o
+gcc -c -Wall -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwamem_pair.c -o bwamem_pair.o
+gcc -c -Wall -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwamem_extra.c -o bwamem_extra.o
+gcc -c -Wall -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 malloc_wrap.c -o malloc_wrap.o
+ar -csru libbwa.a utils.o kthread.o kstring.o ksw.o bwt.o bntseq.o bwa.o bwamem.o bwamem_pair.o bwamem_extra.o malloc_wrap.o
+gcc -c -Wall -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 QSufSort.c -o QSufSort.o
+gcc -c -Wall -g -O2 -fstack-protector-strong -Wformat -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:878:10: warning: variable 'oldInverseSa0RelativeRank' set but not used [-Wunused-but-set-variable]
+ bgint_t oldInverseSa0RelativeRank = 0;
+ ^
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 -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-0.6.0
-dpkg-buildpackage: binary only upload (no source included)
+bwt_gen.c:952:15: warning: variable 'bitsInWordMinusBitPerChar' set but not used [-Wunused-but-set-variable]
+ unsigned int bitsInWordMinusBitPerChar;
+ ^
+gcc -c -Wall -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwashm.c -o bwashm.o
+bwashm.c: In function 'bwa_shm_stage':
+bwashm.c:29:2: warning: ignoring return value of 'ftruncate', declared with attribute warn_unused_result [-Wunused-result]
+ ftruncate(shmid, BWA_CTL_SIZE);
+ ^
+bwashm.c:66:2: warning: ignoring return value of 'ftruncate', declared with attribute warn_unused_result [-Wunused-result]
+ ftruncate(shmid, idx->l_mem);
+ ^
+gcc -c -Wall -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwase.c -o bwase.o
+gcc -c -Wall -g -O2 -fstack-protector-strong -Wformat -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-strong -Wformat -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-strong -Wformat -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-strong -Wformat -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-strong -Wformat -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-strong -Wformat -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-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwape.c -o bwape.o
+gcc -c -Wall -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 kopen.c -o kopen.o
+gcc -c -Wall -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 pemerge.c -o pemerge.o
+gcc -c -Wall -g -O2 -fstack-protector-strong -Wformat -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-strong -Wformat -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-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 bwtsw2_aux.c -o bwtsw2_aux.o
+gcc -c -Wall -g -O2 -fstack-protector-strong -Wformat -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-strong -Wformat -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-strong -Wformat -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-strong -Wformat -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-strong -Wformat -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-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DHAVE_PTHREAD -D_NO_SSE2 QSufSort.o bwt_gen.o bwashm.o bwase.o bwaseqio.o bwtgap.o bwtaln.o bamlite.o is.o bwtindex.o bwape.o kopen.o pemerge.o bwtsw2_core.o bwtsw2_main.o bwtsw2_aux.o bwt_lite.o bwtsw2_chain.o fastmap.o bwtsw2_pair.o main.o -o bwa -L. -lbwa -lm -lz -lpthread
+bwashm.o: In function `bwa_shm_test':
+/«PKGBUILDDIR»/bwashm.c:130: undefined reference to `shm_open'
+bwashm.o: In function `bwa_shm_stage':
+/«PKGBUILDDIR»/bwashm.c:24: undefined reference to `shm_open'
+/«PKGBUILDDIR»/bwashm.c:56: undefined reference to `shm_open'
+/«PKGBUILDDIR»/bwashm.c:57: undefined reference to `shm_unlink'
+/«PKGBUILDDIR»/bwashm.c:25: undefined reference to `shm_open'
+bwashm.o: In function `bwa_idx_load_from_shm':
+/«PKGBUILDDIR»/bwashm.c:100: undefined reference to `shm_open'
+/«PKGBUILDDIR»/bwashm.c:112: undefined reference to `shm_open'
+bwashm.o: In function `bwa_shm_list':
+/«PKGBUILDDIR»/bwashm.c:145: undefined reference to `shm_open'
+bwashm.o: In function `bwa_shm_destroy':
+/«PKGBUILDDIR»/bwashm.c:164: undefined reference to `shm_open'
+/«PKGBUILDDIR»/bwashm.c:171: undefined reference to `shm_unlink'
+/«PKGBUILDDIR»/bwashm.c:175: undefined reference to `shm_unlink'
+collect2: error: ld returned 1 exit status
+make[2]: *** [bwa] Error 1
+Makefile:29: recipe for target 'bwa' failed
+make[2]: Leaving directory '/«PKGBUILDDIR»'
+dh_auto_build: make -j1 CFLAGS=-Wall -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2 -Wl,-z,relro DFLAGS=-DHAVE_PTHREAD -D_NO_SSE2 returned exit code 2
+make[1]: *** [override_dh_auto_build] Error 2
+debian/rules:15: recipe for target 'override_dh_auto_build' failed
+make[1]: Leaving directory '/«PKGBUILDDIR»'
+make: *** [build-arch] Error 2
+debian/rules:4: recipe for target 'build-arch' failed
+dpkg-buildpackage: error: debian/rules build-arch gave error exit status 2
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20111122-0321
-
-bwa_0.6.0-2_kfreebsd-amd64.changes:
-Format: 1.8
-Date: Tue, 22 Nov 2011 11:32:11 +0900
-Source: bwa
-Binary: bwa
-Architecture: kfreebsd-amd64
-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 (0.6.0-2) 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:
- 40141db7501b702852a59f4f9a0adb83fee5ffbd 149368 bwa_0.6.0-2_kfreebsd-amd64.deb
-Checksums-Sha256:
- f6d8f4839af2e03695fa844294b07be15239390edaa8f51eadcf6cb70ffc7a54 149368 bwa_0.6.0-2_kfreebsd-amd64.deb
-Files:
- 92ce3c3f917767eaab8bc69c00053314 149368 science optional bwa_0.6.0-2_kfreebsd-amd64.deb
-
-┌──────────────────────────────────────────────────────────────────────────────┐
-│ Package contents │
-└──────────────────────────────────────────────────────────────────────────────┘
+Build finished at 20150129-1629
+Finished
+────────
-bwa_0.6.0-2_kfreebsd-amd64.deb
-──────────────────────────────
-
- new debian package, version 2.0.
- size 149368 bytes: control archive= 997 bytes.
- 785 bytes, 17 lines control
- 610 bytes, 10 lines md5sums
- Package: bwa
- Version: 0.6.0-2
- Architecture: kfreebsd-amd64
- Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 257
- Depends: libc0.1 (>= 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 03:21 ./
-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
-
+E: Build failure (dpkg-buildpackage died)
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Finished │
+│ Cleanup │
└──────────────────────────────────────────────────────────────────────────────┘
-Built successfully
-────────────────────────────────────────────────────────────────────────────────
-
-┌──────────────────────────────────────────────────────────────────────────────┐
-│ 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 debhelper ...
-Removing file ...
-Removing po-debconf ...
-Removing intltool-debian ...
-Removing gettext ...
-Removing gettext-base ...
-Removing html2text ...
-Purging configuration files for html2text ...
-Removing libcroco3 ...
-Purging configuration files for libcroco3 ...
-Removing libglib2.0-0 ...
-Purging configuration files for libglib2.0-0 ...
-Removing 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 sbuild-build-depends-core-dummy ...
-Removing zlib1g-dev ...
-Processing triggers for man-db ...
+Purging /«BUILDDIR»
+Not cleaning session: cloned chroot in use
┌──────────────────────────────────────────────────────────────────────────────┐
│ Summary │
└──────────────────────────────────────────────────────────────────────────────┘
-Architecture: kfreebsd-amd64
-Build-Space: 3176
-Build-Time: 25
+Build Architecture: kfreebsd-amd64
+Build-Space: 3798
+Build-Time: 27
Distribution: experimental
-Install-Time: 50
-Job: bwa_0.6.0-2
+Fail-Stage: build
+Host Architecture: kfreebsd-amd64
+Install-Time: 37
+Job: bwa_0.7.12-1
+Machine Architecture: kfreebsd-amd64
Package: bwa
-Package-Time: 96
-Source-Version: 0.6.0-2
-Space: 3176
-Status: successful
-Version: 0.6.0-2
+Package-Time: 108
+Source-Version: 0.7.12-1
+Space: 3798
+Status: attempted
+Version: 0.7.12-1
────────────────────────────────────────────────────────────────────────────────
-Finished at 20111122-0321
-Build needed 00:01:36, 3176k disc space
-Signature with key 'D33FE1D8' requested:
+Finished at 20150129-1629
+Build needed 00:01:48, 3798k disc space
--
Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/bwa.git
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