[med-svn] [SCM] bwa branch, meta, updated. a29b5ceb40c231db8b4b47ca2c5a5b3cd510c900
Charles Plessy
plessy at debian.org
Tue Feb 8 10:10:54 UTC 2011
The following commit has been merged in the meta branch:
commit a29b5ceb40c231db8b4b47ca2c5a5b3cd510c900
Author: Charles Plessy <plessy at debian.org>
Date: Tue Feb 8 19:10:29 2011 +0900
# Built 0.5.9-1 locally and uploaded to Sid.
diff --git a/amd64.log b/amd64.log
new file mode 100644
index 0000000..ceba5b6
--- /dev/null
+++ b/amd64.log
@@ -0,0 +1,495 @@
+sbuild (Debian sbuild) 0.60.8 (12 Dec 2010) on anx178.gsc.riken.jp
+
+╔══════════════════════════════════════════════════════════════════════════════╗
+║ bwa 0.5.9-1 (amd64) 08 Feb 2011 16:16 ║
+╚══════════════════════════════════════════════════════════════════════════════╝
+
+Package: bwa
+Version: 0.5.9-1
+Source Version: 0.5.9-1
+Architecture: amd64
+Hit http://ftp.riken.jp unstable Release.gpg
+Ign http://ftp.riken.jp/Linux/debian/debian/ unstable/main Translation-en
+Hit http://ftp.riken.jp unstable Release
+Hit http://ftp.riken.jp unstable/main Sources/DiffIndex
+Hit http://ftp.riken.jp unstable/main amd64 Packages/DiffIndex
+Ign http://ftp.riken.jp unstable/main 2011-02-07-0555.44.pdiff
+Hit http://ftp.riken.jp unstable/main
+Reading package lists...
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Fetch source files │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Local sources
+─────────────
+
+bwa_0.5.9-1.dsc exists in .; copying to chroot
+
+Check arch
+──────────
+
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ 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 (1.14.5-1)
+Checking for dependency conflicts...
+Installing positive dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
+Removing negative dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
+Checking correctness of dependencies...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install bwa build dependencies (internal resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), cdbs, debhelper (>= 8), zlib1g-dev
+Checking for already installed dependencies...
+base-files: already installed (6.0)
+base-passwd: already installed (3.5.22)
+bash: already installed (4.1-3)
+coreutils: already installed (8.5-1)
+dash: already installed (0.5.5.1-7.4)
+debianutils: already installed (3.4.3)
+diffutils: already installed (1:3.0-1)
+dpkg: already installed (1.15.8.10)
+e2fsprogs: already installed (1.41.12-2)
+findutils: already installed (4.4.2-1+b1)
+grep: already installed (2.6.3-3)
+gzip: already installed (1.3.12-9)
+hostname: already installed (3.05)
+ncurses-base: already installed (5.7+20100313-5)
+ncurses-bin: already installed (5.7+20100313-5)
+perl-base: already installed (5.10.1-17)
+sed: already installed (4.2.1-8)
+login: already installed (1:4.1.4.2+svn3283-2)
+sysvinit-utils: already installed (2.88dsf-13.1)
+sysvinit: already installed (2.88dsf-13.1)
+tar: already installed (1.25-3)
+bsdutils: already installed (1:2.17.2-9)
+mount: already installed (2.17.2-9)
+util-linux: already installed (2.17.2-9)
+libc6-dev: already installed (2.11.2-11)
+gcc: already installed (4:4.4.5-2 >= 4:4.4.3 is satisfied)
+g++: already installed (4:4.4.5-2 >= 4:4.4.3 is satisfied)
+make: already installed (3.81-8)
+dpkg-dev: already installed (1.15.8.10 >= 1.13.5 is satisfied)
+cdbs: missing
+debhelper: missing
+Using default version 8.1.0
+zlib1g-dev: missing
+Checking for dependency conflicts...
+Installing positive dependencies: cdbs debhelper zlib1g-dev
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following extra packages will be installed:
+ bsdmainutils file gettext gettext-base groff-base html2text intltool-debian
+ libcroco3 libglib2.0-0 libmagic1 libpcre3 libunistring0 libxml2 man-db
+ po-debconf
+Suggested packages:
+ wamerican wordlist whois vacation devscripts doc-base dh-make gettext-doc
+ groff less www-browser libmail-box-perl
+Recommended packages:
+ autotools-dev curl wget lynx-cur autopoint libglib2.0-data shared-mime-info
+ xml-core libmail-sendmail-perl
+The following NEW packages will be installed:
+ bsdmainutils cdbs debhelper file gettext gettext-base groff-base html2text
+ intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3 libunistring0
+ libxml2 man-db po-debconf zlib1g-dev
+0 upgraded, 18 newly installed, 0 to remove and 0 not upgraded.
+Need to get 552 kB/10.5 MB of archives.
+After this operation, 28.7 MB of additional disk space will be used.
+Get:1 http://ftp.riken.jp/Linux/debian/debian/ unstable/main debhelper all 8.1.0 [552 kB]
+debconf: delaying package configuration, since apt-utils is not installed
+Fetched 552 kB in 0s (2049 kB/s)
+Selecting previously deselected package bsdmainutils.
+(Reading database ... 10134 files and directories currently installed.)
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.2_amd64.deb) ...
+Selecting previously deselected package groff-base.
+Unpacking groff-base (from .../groff-base_1.20.1-10_amd64.deb) ...
+Selecting previously deselected package man-db.
+Unpacking man-db (from .../man-db_2.5.7-8_amd64.deb) ...
+Selecting previously deselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.04-5_amd64.deb) ...
+Selecting previously deselected package file.
+Unpacking file (from .../archives/file_5.04-5_amd64.deb) ...
+Selecting previously deselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_amd64.deb) ...
+Selecting previously deselected package libpcre3.
+Unpacking libpcre3 (from .../libpcre3_8.02-1.1_amd64.deb) ...
+Selecting previously deselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_amd64.deb) ...
+Selecting previously deselected package html2text.
+Unpacking html2text (from .../html2text_1.3.2a-15_amd64.deb) ...
+Selecting previously deselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.24.2-1_amd64.deb) ...
+Selecting previously deselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-1_amd64.deb) ...
+Selecting previously deselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-3_amd64.deb) ...
+Selecting previously deselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-3_amd64.deb) ...
+Selecting previously deselected package intltool-debian.
+Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ...
+Selecting previously deselected package po-debconf.
+Unpacking po-debconf (from .../po-debconf_1.0.16+nmu1_all.deb) ...
+Selecting previously deselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.1.0_all.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.89_all.deb) ...
+Selecting previously deselected package zlib1g-dev.
+Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_amd64.deb) ...
+Setting up bsdmainutils (8.2.2) ...
+update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode.
+update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode.
+Setting up groff-base (1.20.1-10) ...
+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
+Building database of manual pages ...
+Setting up libmagic1 (5.04-5) ...
+Setting up file (5.04-5) ...
+Setting up gettext-base (0.18.1.1-3) ...
+Setting up libpcre3 (8.02-1.1) ...
+Setting up libxml2 (2.7.8.dfsg-2) ...
+Setting up html2text (1.3.2a-15) ...
+Setting up libglib2.0-0 (2.24.2-1) ...
+Setting up libcroco3 (0.6.2-1) ...
+Setting up libunistring0 (0.9.3-3) ...
+Setting up gettext (0.18.1.1-3) ...
+Setting up intltool-debian (0.35.0+20060710.1) ...
+Setting up po-debconf (1.0.16+nmu1) ...
+Setting up debhelper (8.1.0) ...
+Setting up cdbs (0.4.89) ...
+Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
+Removing negative dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
+Checking correctness of dependencies...
+Kernel: Linux 2.6.32-trunk-vserver-amd64 amd64 (x86_64)
+Toolchain package versions: binutils_2.20.1-16 dpkg-dev_1.15.8.10 g++-4.4_4.4.5-10 gcc-4.4_4.4.5-10 libc6-dev_2.11.2-11 libstdc++6_4.4.5-10 libstdc++6-4.4-dev_4.4.5-10 linux-libc-dev_2.6.32-30
+Package versions: apt_0.8.10.3 base-files_6.0 base-passwd_3.5.22 bash_4.1-3 binutils_2.20.1-16 bsdmainutils_8.2.2 bsdutils_1:2.17.2-9 build-essential_11.5 bzip2_1.0.5-6 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_8.1.0 debian-archive-keyring_2010.08.28 debianutils_3.4.3 diffutils_1:3.0-1 dpkg_1.15.8.10 dpkg-dev_1.15.8.10 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.14.5-1 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_2.17.2-9 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-11 libc-dev-bin_2.11.2-11 libc6_2.11.2-11 libc6-dev_2.11.2-11 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libdb4.7_4.7.25-12 libdb4.8_4.8.30-4 libdpkg-perl_1.15.8.10 libgc1c2_1:6.8-1.2 libgcc1_1:4.4.5-10 libgdbm3_1.8.3-9 libglib2.0-0_2.24.2-1 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 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 libslang2_2.2.2-4 libss2_1.41.12-2 libstdc++6_4.4.5-10 libstdc++6-4.4-dev_4.4.5-10 libtext-charwidth-perl_0.04-6 libtext-iconv-perl_1.7-2 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-3 libusb-0.1-4_2:0.1.12-17 libuuid1_2.17.2-9 libxml2_2.7.8.dfsg-2 linux-libc-dev_2.6.32-30 login_1:4.1.4.2+svn3283-2 lsb-base_3.2-27 make_3.81-8 man-db_2.5.7-8 mawk_1.3.3-15 mount_2.17.2-9 ncurses-base_5.7+20100313-5 ncurses-bin_5.7+20100313-5 passwd_1:4.1.4.2+svn3283-2 patch_2.6-3 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 sed_4.2.1-8 sensible-utils_0.0.6 sysv-rc_2.88dsf-13.1 sysvinit_2.88dsf-13.1 sysvinit-utils_2.88dsf-13.1 tar_1.25-3 tzdata_2011a-1 util-linux_2.17.2-9 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Unpack source
+─────────────
+
+dpkg-source: warning: extracting unsigned source package (bwa_0.5.9-1.dsc)
+dpkg-source: info: extracting bwa in bwa-0.5.9
+dpkg-source: info: unpacking bwa_0.5.9.orig.tar.bz2
+dpkg-source: info: unpacking bwa_0.5.9-1.debian.tar.gz
+
+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 0.5.9-1
+dpkg-buildpackage: source changed by Charles Plessy <plessy at debian.org>
+ dpkg-source --before-build bwa-0.5.9
+dpkg-buildpackage: host architecture amd64
+ fakeroot debian/rules clean
+test -x debian/rules
+dh_testroot
+rm -f debian/stamp-makefile-build debian/stamp-makefile-install
+/usr/bin/make -C . CFLAGS="-g -O2 -g -Wall -O2" CXXFLAGS="-g -O2 -g -Wall -O2" CPPFLAGS="" LDFLAGS="" -k clean
+make[1]: Entering directory `/build/charles-bwa_0.5.9-1-amd64-5EGPGI/bwa-0.5.9'
+make[2]: Entering directory `/build/charles-bwa_0.5.9-1-amd64-5EGPGI/bwa-0.5.9'
+rm -f gmon.out *.o a.out bwa *~ *.a
+make[2]: Leaving directory `/build/charles-bwa_0.5.9-1-amd64-5EGPGI/bwa-0.5.9'
+make[2]: Entering directory `/build/charles-bwa_0.5.9-1-amd64-5EGPGI/bwa-0.5.9/bwt_gen'
+rm -f gmon.out *.o a.out *~ *.a
+make[2]: Leaving directory `/build/charles-bwa_0.5.9-1-amd64-5EGPGI/bwa-0.5.9/bwt_gen'
+make[1]: Leaving directory `/build/charles-bwa_0.5.9-1-amd64-5EGPGI/bwa-0.5.9'
+dh_clean
+ dpkg-source -b bwa-0.5.9
+dpkg-source: info: using source format `3.0 (quilt)'
+dpkg-source: info: building bwa using existing ./bwa_0.5.9.orig.tar.bz2
+dpkg-source: info: building bwa in bwa_0.5.9-1.debian.tar.gz
+dpkg-source: info: building bwa in bwa_0.5.9-1.dsc
+ 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/charles-bwa_0.5.9-1-amd64-5EGPGI/bwa-0.5.9'
+make[2]: Entering directory `/build/charles-bwa_0.5.9-1-amd64-5EGPGI/bwa-0.5.9'
+make[2]: Nothing to be done for `lib'.
+make[2]: Leaving directory `/build/charles-bwa_0.5.9-1-amd64-5EGPGI/bwa-0.5.9'
+make[2]: Entering directory `/build/charles-bwa_0.5.9-1-amd64-5EGPGI/bwa-0.5.9/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/charles-bwa_0.5.9-1-amd64-5EGPGI/bwa-0.5.9/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/charles-bwa_0.5.9-1-amd64-5EGPGI/bwa-0.5.9'
+touch debian/stamp-makefile-build
+DEB_MAKE_CHECK_TARGET unset, not running checks
+ fakeroot debian/rules binary
+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 ./README ./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
+dpkg-gencontrol: warning: package bwa: unused substitution variable ${perl:Depends}
+dh_md5sums -pbwa
+dh_builddeb -pbwa
+dpkg-deb: building package `bwa' in `../bwa_0.5.9-1_amd64.deb'.
+ dpkg-genchanges >../bwa_0.5.9-1_amd64.changes
+dpkg-genchanges: including full source code in upload
+ dpkg-source --after-build bwa-0.5.9
+dpkg-buildpackage: full upload (original source is included)
+────────────────────────────────────────────────────────────────────────────────
+Build finished at 20110208-1616
+
+bwa_0.5.9-1_amd64.changes:
+Format: 1.8
+Date: Tue, 08 Feb 2011 16:11:12 +0900
+Source: bwa
+Binary: bwa
+Architecture: source amd64
+Version: 0.5.9-1
+Distribution: unstable
+Urgency: low
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ bwa - Burrows-Wheeler Aligner
+Changes:
+ bwa (0.5.9-1) unstable; urgency=low
+ .
+ * New usptream release
+ - Upstream moved to GitHub (debian/upstream-metadata.yaml).
+ - Checked copyright; one file was removed (debian/copyright).
+ * Migrated the Debian source package to Git (debian/control).
+ * Use Debhelper 8 (debian/control, debian/compat).
+Checksums-Sha1:
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+Files:
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+ 27facf40c92e9af40def844b245ed7db 113890 science optional bwa_0.5.9.orig.tar.bz2
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+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Package contents │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+bwa_0.5.9-1_amd64.deb
+─────────────────────
+
+ new debian package, version 2.0.
+ size 138154 bytes: control archive= 975 bytes.
+ 774 bytes, 17 lines control
+ 615 bytes, 10 lines md5sums
+ Package: bwa
+ Version: 0.5.9-1
+ Architecture: amd64
+ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+ Installed-Size: 312
+ 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 2011-02-08 16:16 ./
+drwxr-xr-x root/root 0 2011-02-08 16:16 ./usr/
+drwxr-xr-x root/root 0 2011-02-08 16:16 ./usr/bin/
+-rwxr-xr-x root/root 195688 2011-02-08 16:16 ./usr/bin/bwa
+drwxr-xr-x root/root 0 2011-02-08 16:16 ./usr/share/
+drwxr-xr-x root/root 0 2011-02-08 16:16 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-02-08 16:16 ./usr/share/doc/bwa/
+-rw-r--r-- root/root 881 2011-02-08 16:11 ./usr/share/doc/bwa/changelog.Debian.gz
+-rw-r--r-- root/root 634 2011-01-25 09:00 ./usr/share/doc/bwa/README
+-rw-r--r-- root/root 17912 2011-01-25 09:00 ./usr/share/doc/bwa/changelog.gz
+-rw-r--r-- root/root 17912 2011-01-25 09:00 ./usr/share/doc/bwa/ChangeLog.gz
+-rw-r--r-- root/root 5857 2011-01-25 09:00 ./usr/share/doc/bwa/NEWS.gz
+-rw-r--r-- root/root 2676 2011-02-08 16:09 ./usr/share/doc/bwa/copyright
+drwxr-xr-x root/root 0 2011-02-08 16:16 ./usr/share/bwa/
+-rwxr-xr-x root/root 3176 2011-01-25 09:00 ./usr/share/bwa/solid2fastq.pl
+-rwxr-xr-x root/root 616 2011-01-25 09:00 ./usr/share/bwa/qualfa2fq.pl
+drwxr-xr-x root/root 0 2011-02-08 16:16 ./usr/share/man/
+drwxr-xr-x root/root 0 2011-02-08 16:16 ./usr/share/man/man1/
+-rw-r--r-- root/root 7554 2011-02-08 16:16 ./usr/share/man/man1/bwa.1.gz
+
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Finished │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /var/lib/schroot/mount/unstable-amd64-sbuild-eace34cd-8a4b-4eb3-a059-52a65b4217d1/build/charles-bwa_0.5.9-1-amd64-5EGPGI
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following packages will be REMOVED:
+ bsdmainutils* cdbs* debhelper* file* gettext* gettext-base* groff-base*
+ html2text* intltool-debian* libcroco3* libglib2.0-0* libmagic1* libpcre3*
+ libunistring0* libxml2* man-db* po-debconf* zlib1g-dev*
+0 upgraded, 0 newly installed, 18 to remove and 0 not upgraded.
+After this operation, 28.7 MB disk space will be freed.
+(Reading database ... 11498 files and directories currently installed.)
+Removing cdbs ...
+Removing debhelper ...
+Removing man-db ...
+Purging configuration files for man-db ...
+debconf: unable to initialize frontend: Dialog
+debconf: (TERM is not set, so the dialog frontend is not usable.)
+debconf: falling back to frontend: Readline
+Removing bsdmainutils ...
+Purging configuration files for bsdmainutils ...
+Removing file ...
+Removing po-debconf ...
+Removing intltool-debian ...
+Removing gettext ...
+Removing gettext-base ...
+Removing groff-base ...
+Purging configuration files for groff-base ...
+Removing html2text ...
+Purging configuration files for html2text ...
+Removing libcroco3 ...
+Purging configuration files for libcroco3 ...
+Removing libglib2.0-0 ...
+Purging configuration files for libglib2.0-0 ...
+Removing libmagic1 ...
+Purging configuration files for libmagic1 ...
+Removing libpcre3 ...
+Purging configuration files for libpcre3 ...
+Removing libunistring0 ...
+Purging configuration files for libunistring0 ...
+Removing libxml2 ...
+Purging configuration files for libxml2 ...
+Removing zlib1g-dev ...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Architecture: amd64
+Build-Space: 2996
+Build-Time: 15
+Distribution: unstable
+Install-Time: 20
+Job: bwa_0.5.9-1.dsc
+Package: bwa
+Package-Time: 45
+Source-Version: 0.5.9-1
+Space: 2996
+Status: successful
+Version: 0.5.9-1
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20110208-1616
+Build needed 00:00:45, 2996k disc space
diff --git a/changes b/changes
new file mode 100644
index 0000000..bd03e38
--- /dev/null
+++ b/changes
@@ -0,0 +1,52 @@
+-----BEGIN PGP SIGNED MESSAGE-----
+Hash: SHA256
+
+Format: 1.8
+Date: Thu, 20 Jan 2011 21:42:55 +0900
+Source: bwa
+Binary: bwa
+Architecture: source amd64
+Version: 0.5.9~rc-1
+Distribution: experimental
+Urgency: low
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ bwa - Burrows-Wheeler Aligner
+Changes:
+ bwa (0.5.9~rc-1) experimental; urgency=low
+ .
+ * New usptream release candidate.
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diff --git a/dsc b/dsc
index 26f4ba9..d37dbf3 100644
--- a/dsc
+++ b/dsc
@@ -5,39 +5,39 @@ Format: 3.0 (quilt)
Source: bwa
Binary: bwa
Architecture: any
-Version: 0.5.8c-1
+Version: 0.5.9-1
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
Uploaders: Charles Plessy <plessy at debian.org>
Dm-Upload-Allowed: yes
Homepage: http://bio-bwa.sourceforge.net/
Standards-Version: 3.9.1
-Vcs-Browser: http://svn.debian.org/viewsvn/debian-med/trunk/packages/bwa/trunk/
-Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/bwa/trunk/
-Build-Depends: cdbs, debhelper (>= 7), zlib1g-dev
+Vcs-Browser: http://git.debian.org/?p=debian-med/bwa.git;a=shortlog;h=refs/heads/experimental
+Vcs-Git: git://git.debian.org/git/debian-med/bwa.git
+Build-Depends: cdbs, debhelper (>= 8), zlib1g-dev
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--
Burrows-Wheeler Aligner
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