[med-svn] [SCM] BEDtools branch, meta, updated. 770f8d80d9d3ace6a85412ff46bd0e39e221666b
Charles Plessy
plessy at debian.org
Sat Sep 10 14:39:20 UTC 2011
The following commit has been merged in the meta branch:
commit 770f8d80d9d3ace6a85412ff46bd0e39e221666b
Author: Charles Plessy <plessy at debian.org>
Date: Sat Sep 10 22:53:01 2011 +0900
Collected build logs for version 2.12.0-1.
diff --git a/armel.log b/armel.log
new file mode 100644
index 0000000..c11f3c2
--- /dev/null
+++ b/armel.log
@@ -0,0 +1,803 @@
+From buildd at ancina.debian.org Wed Jun 08 11:58:26 2011
+Return-path: <buildd at ancina.debian.org>
+Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=merikanto.debian.org,
+ EMAIL=hostmaster at merikanto.debian.org (verified)
+ by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at ancina.debian.org>)
+ id 1QUHOz-0006po-VH
+ for logs at buildd.debian.org; Wed, 08 Jun 2011 11:58:26 +0000
+Received: from ancina.ugent.be ([157.193.39.13] helo=ancina.debian.org)
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=ancina.debian.org, EMAIL=hostmaster at ancina.debian.org (verified)
+ by merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at ancina.debian.org>)
+ id 1QUHOy-0003Se-Lp
+ for logs at buildd.debian.org; Wed, 08 Jun 2011 11:58:24 +0000
+Received: from buildd by ancina.debian.org with local (Exim 4.69)
+ (envelope-from <buildd at ancina.debian.org>)
+ id 1QUHOs-00089q-2W; Wed, 08 Jun 2011 11:58:18 +0000
+MIME-Version: 1.0
+Content-Transfer-Encoding: binary
+X-Mailer: MIME::Lite 3.021 (F2.76; B3.07_01; Q3.07)
+Date: Wed, 8 Jun 2011 11:58:17 +0000
+From: Build Daemon <buildd at ancina.debian.org>
+To: buildd-porters at ancina.debian.org,logs at buildd.debian.org
+Subject: Log for successful build of bedtools_2.12.0-1 on armel (dist=sid)
+Key-Id: A1EAA0BB
+Message-Id: <E1QUHOs-00089q-2W at ancina.debian.org>
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on ancina.debian.org
+
+╔══════════════════════════════════════════════════════════════════════════════╗
+║ bedtools 2.12.0-1 (armel) 08 Jun 2011 11:39 ║
+╚══════════════════════════════════════════════════════════════════════════════╝
+
+Package: bedtools
+Version: 2.12.0-1
+Source Version: 2.12.0-1
+Architecture: armel
+Hit http://ftp.de.debian.org sid InRelease
+Hit http://incoming.debian.org sid InRelease
+Ign http://incoming.debian.org InRelease
+Hit http://ftp.de.debian.org sid/main Sources/DiffIndex
+Get:1 http://incoming.debian.org Release.gpg [836 B]
+Hit http://ftp.de.debian.org sid/contrib Sources/DiffIndex
+Hit http://ftp.de.debian.org sid/main armel Packages/DiffIndex
+Hit http://ftp.de.debian.org sid/contrib armel Packages/DiffIndex
+Ign http://ftp.de.debian.org sid/contrib TranslationIndex
+Hit http://ftp.de.debian.org sid/main TranslationIndex
+Hit http://incoming.debian.org sid/main Sources/DiffIndex
+Hit http://incoming.debian.org sid/contrib Sources/DiffIndex
+Hit http://incoming.debian.org sid/main armel Packages/DiffIndex
+Hit http://incoming.debian.org sid/contrib armel Packages/DiffIndex
+Ign http://incoming.debian.org sid/contrib TranslationIndex
+Hit http://incoming.debian.org sid/main TranslationIndex
+Get:2 http://incoming.debian.org Release [1604 B]
+Ign http://ftp.de.debian.org sid/contrib Translation-en
+Get:3 http://incoming.debian.org Sources [50.0 kB]
+Get:4 http://incoming.debian.org Packages [458 kB]
+Ign http://incoming.debian.org sid/contrib Translation-en
+Ign http://incoming.debian.org Translation-en
+Fetched 510 kB in 10s (49.6 kB/s)
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Fetch source files │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Check APT
+─────────
+
+Checking available source versions...
+
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+NOTICE: 'bedtools' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/git/debian-med/bedtools.git
+Need to get 796 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.12.0-1 (dsc) [1924 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.12.0-1 (tar) [790 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.12.0-1 (diff) [4198 B]
+Fetched 796 kB in 1s (644 kB/s)
+Download complete and in download only mode
+
+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 (1.15.1-1)
+Checking for dependency conflicts...
+Installing positive dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded.
+Removing negative dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded.
+Checking correctness of dependencies...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install bedtools 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), quilt, zlib1g-dev
+Checking for already installed dependencies...
+base-files: already installed (6.4)
+base-passwd: already installed (3.5.22)
+bash: already installed (4.1-3)
+coreutils: already installed (8.5-1)
+dash: already installed (0.5.5.1-7.4)
+debianutils: already installed (4.0.1)
+diffutils: already installed (1:3.0-1)
+dpkg: already installed (1.16.0.3)
+e2fsprogs: already installed (1.41.12-4)
+findutils: already installed (4.4.2-1+b1)
+grep: already installed (2.8-2)
+gzip: already installed (1.3.12-9)
+hostname: already installed (3.06)
+ncurses-base: already installed (5.9-1)
+ncurses-bin: already installed (5.9-1)
+perl-base: already installed (5.12.3-7)
+sed: already installed (4.2.1-9)
+login: already installed (1:4.1.4.2+svn3283-3)
+sysvinit-utils: already installed (2.88dsf-13.7)
+sysvinit: already installed (2.88dsf-13.7)
+tar: already installed (1.25-3)
+bsdutils: already installed (1:2.17.2-9.1)
+mount: already installed (2.17.2-9.1)
+util-linux: already installed (2.17.2-9.1)
+libc6-dev: already installed (2.13-5)
+gcc: already installed (4:4.6.0-5 >= 4:4.4.3 is satisfied)
+g++: already installed (4:4.6.0-5 >= 4:4.4.3 is satisfied)
+make: already installed (3.81-8.1)
+dpkg-dev: already installed (1.16.0.3 >= 1.13.5 is satisfied)
+cdbs: missing
+debhelper: missing
+Using default version 8.1.6
+quilt: missing
+zlib1g-dev: missing
+Checking for dependency conflicts...
+Installing positive dependencies: cdbs debhelper quilt zlib1g-dev
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following extra packages will be installed:
+ diffstat file gettext gettext-base groff-base html2text intltool-debian
+ libcroco3 libglib2.0-0 libmagic1 libpipeline1 libunistring0 libxml2 man-db
+ po-debconf
+Suggested packages:
+ devscripts dh-make gettext-doc groff less www-browser libmail-box-perl
+ procmail graphviz
+Recommended packages:
+ autotools-dev autopoint libglib2.0-data shared-mime-info xml-core
+ libmail-sendmail-perl
+The following NEW packages will be installed:
+ cdbs debhelper diffstat file gettext gettext-base groff-base html2text
+ intltool-debian libcroco3 libglib2.0-0 libmagic1 libpipeline1 libunistring0
+ libxml2 man-db po-debconf quilt zlib1g-dev
+debconf: delaying package configuration, since apt-utils is not installed
+0 upgraded, 19 newly installed, 0 to remove and 1 not upgraded.
+Need to get 0 B/8915 kB of archives.
+After this operation, 26.6 MB of additional disk space will be used.
+Selecting previously deselected package groff-base.
+(Reading database ... 11248 files and directories currently installed.)
+Unpacking groff-base (from .../groff-base_1.21-6_armel.deb) ...
+Selecting previously deselected package libpipeline1.
+Unpacking libpipeline1 (from .../libpipeline1_1.2.0-2_armel.deb) ...
+Selecting previously deselected package man-db.
+Unpacking man-db (from .../man-db_2.6.0.2-1_armel.deb) ...
+Selecting previously deselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.04-5+b1_armel.deb) ...
+Selecting previously deselected package file.
+Unpacking file (from .../file_5.04-5+b1_armel.deb) ...
+Selecting previously deselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_armel.deb) ...
+Selecting previously deselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-3_armel.deb) ...
+Selecting previously deselected package html2text.
+Unpacking html2text (from .../html2text_1.3.2a-15_armel.deb) ...
+Selecting previously deselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.6-1_armel.deb) ...
+Selecting previously deselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-1_armel.deb) ...
+Selecting previously deselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-4_armel.deb) ...
+Selecting previously deselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-3_armel.deb) ...
+Selecting previously deselected package intltool-debian.
+Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ...
+Selecting previously deselected package po-debconf.
+Unpacking po-debconf (from .../po-debconf_1.0.16+nmu1_all.deb) ...
+Selecting previously deselected package debhelper.
+Unpacking debhelper (from .../debhelper_8.1.6_all.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.94_all.deb) ...
+Selecting previously deselected package diffstat.
+Unpacking diffstat (from .../diffstat_1.54-1_armel.deb) ...
+Selecting previously deselected package quilt.
+Unpacking quilt (from .../archives/quilt_0.48-7_all.deb) ...
+Selecting previously deselected package zlib1g-dev.
+Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_armel.deb) ...
+Setting up groff-base (1.21-6) ...
+Setting up libpipeline1 (1.2.0-2) ...
+Setting up man-db (2.6.0.2-1) ...
+Building database of manual pages ...
+Setting up libmagic1 (5.04-5+b1) ...
+Setting up file (5.04-5+b1) ...
+Setting up gettext-base (0.18.1.1-3) ...
+Setting up libxml2 (2.7.8.dfsg-3) ...
+Setting up html2text (1.3.2a-15) ...
+Setting up libglib2.0-0 (2.28.6-1) ...
+No schema files found: doing nothing.
+Setting up libcroco3 (0.6.2-1) ...
+Setting up libunistring0 (0.9.3-4) ...
+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 (8.1.6) ...
+Setting up cdbs (0.4.94) ...
+Setting up diffstat (1.54-1) ...
+Setting up quilt (0.48-7) ...
+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 1 not upgraded.
+Checking correctness of dependencies...
+Kernel: Linux 2.6.31-rc9 armel (armv5tel)
+Toolchain package versions: binutils_2.21.52.20110606-1 dpkg-dev_1.16.0.3 g++-4.6_4.6.0-11 gcc-4.6_4.6.0-11 libc6-dev_2.13-5 libstdc++6_4.6.0-11 libstdc++6-4.6-dev_4.6.0-11 linux-libc-dev_2.6.39-1
+Package versions: apt_0.8.14.1 base-files_6.4 base-passwd_3.5.22 bash_4.1-3 binutils_2.21.52.20110606-1 bsdmainutils_8.2.3 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.94 coreutils_8.5-1 cpio_2.11-7 cpp_4:4.6.0-5 cpp-4.6_4.6.0-11 dash_0.5.5.1-7.4 debconf_1.5.39 debfoster_2.7-1.1 debhelper_8.1.6 debian-archive-keyring_2010.08.28 debianutils_4.0.1 diffstat_1.54-1 diffutils_1:3.0-1 dmsetup_2:1.02.63-3 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.41.12-4 e2fsprogs_1.41.12-4 fakeroot_1.15.1-1 file_5.04-5+b1 findutils_4.4.2-1+b1 g++_4:4.6.0-5 g++-4.6_4.6.0-11 gawk_1:3.1.7.dfsg-5 gcc_4:4.6.0-5 gcc-4.2-base_4.2.4-6 gcc-4.4-base_4.4.6-3 gcc-4.5-base_4.5.3-1 gcc-4.6_4.6.0-11 gcc-4.6-base_4.6.0-11 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.8-2 groff-base_1.21-6 gzip_1.3.12-9 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.7 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-5 libattr1_1:2.4.44-3 libblkid1_2.17.2-9.1 libbz2-1.0_1.0.5-6 libc-bin_2.13-5 libc-dev-bin_2.13-5 libc6_2.13-5 libc6-dev_2.13-5 libcloog-ppl0_0.15.9-3 libcomerr2_1.41.12-4 libcroco3_0.6.2-1 libdb5.1_5.1.25-10 libdevmapper1.02.1_2:1.02.63-3 libdpkg-perl_1.16.0.3 libgc1c2_1:7.1-8 libgcc1_1:4.6.0-11 libgcrypt11_1.4.6-5 libgdbm3_1.8.3-9 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.1+dfsg-7 libgmpxx4ldbl_2:5.0.1+dfsg-7 libgnutls26_2.10.5-1+b1 libgomp1_4.6.0-11 libgpg-error0_1.10-0.3 libgpm2_1.20.4-3.4 libldap-2.4-2_2.4.25-1.1 liblzma2_5.0.0-2 libmagic1_5.04-5+b1 libmpc2_0.9-3 libmpfr4_3.0.1-3 libncurses5_5.9-1 libncursesw5_5.9-1 libpam-modules_1.1.3-1 libpam-runtime_1.1.3-1 libpam0g_1.1.3-1 libpcre3_8.12-3 libpipeline1_1.2.0-2 libpng12-0_1.2.44-2 libppl-c4_0.11.2-3 libppl9_0.11.2-3 libpwl5_0.11.2-3 libreadline6_6.2-2 libsasl2-2_2.1.24~rc1.dfsg1+cvs2011-05-23-3 libselinux1_2.0.98-1+b1 libsepol1_2.0.42-1 libslang2_2.2.4-2 libss2_1.41.12-4 libssl1.0.0_1.0.0d-2 libstdc++6_4.6.0-11 libstdc++6-4.6-dev_4.6.0-11 libtasn1-3_2.9-3 libtimedate-perl_1.2000-1 libudev0_170-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-17 libuuid1_2.17.2-9.1 libvolume-id1_0.141-2 libxml2_2.7.8.dfsg-3 linux-libc-dev_2.6.39-1 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-27 make_3.81-8.1 man-db_2.6.0.2-1 mawk_1.3.3-15 mount_2.17.2-9.1 ncurses-base_5.9-1 ncurses-bin_5.9-1 netbase_4.45 nullmailer_1:1.05-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.3-7 perl-base_5.12.3-7 perl-modules_5.12.3-7 po-debconf_1.0.16+nmu1 procps_1:3.2.8-10 psmisc_22.13-1 quilt_0.48-7 readline-common_6.2-2 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.7.4p6-1 sysv-rc_2.88dsf-13.7 sysvinit_2.88dsf-13.7 sysvinit-utils_2.88dsf-13.7 tar_1.25-3 tzdata_2011g-1 util-linux_2.17.2-9.1 wget_1.12-3.1 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Unpack source
+─────────────
+
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/Source/Package.pm line 258.
+gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Wed Jun 8 08:23:42 2011 UTC using RSA key ID 2295D502
+gpgv: Can't check signature: public key not found
+dpkg-source: warning: failed to verify signature on ./bedtools_2.12.0-1.dsc
+dpkg-source: info: extracting bedtools in bedtools-2.12.0
+dpkg-source: info: unpacking bedtools_2.12.0.orig.tar.bz2
+dpkg-source: info: unpacking bedtools_2.12.0-1.debian.tar.gz
+dpkg-source: info: applying gzstream.h.patch
+
+Check disc space
+────────────────
+
+
+dpkg-buildpackage
+─────────────────
+
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+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 bedtools
+dpkg-buildpackage: source version 2.12.0-1
+ dpkg-source --before-build bedtools-2.12.0
+dpkg-buildpackage: host architecture armel
+ fakeroot debian/rules clean
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+test -x debian/rules
+dh_testroot
+rm -f debian/stamp-makefile-build debian/stamp-makefile-install
+/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" CPPFLAGS="" LDFLAGS="" -k clean
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-armel-diKF8g/bedtools-2.12.0'
+Cleaning up.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-armel-diKF8g/bedtools-2.12.0'
+dh_clean
+/usr/bin/make -f debian/rules reverse-config
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-armel-diKF8g/bedtools-2.12.0'
+make[1]: Nothing to be done for `reverse-config'.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-armel-diKF8g/bedtools-2.12.0'
+if [ -d "." ]; then \
+ cd . && QUILT_PATCHES=/build/buildd-bedtools_2.12.0-1-armel-diKF8g/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
+ fi
+Removing patch gzstream.h.patch
+Restoring src/utils/gzstream/gzstream.C
+
+No patches applied
+rm -rf ./.pc
+rm -f debian/stamp-patch*
+ debian/rules build
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+test -x debian/rules
+mkdir -p "."
+/usr/bin/make -f debian/rules reverse-config
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-armel-diKF8g/bedtools-2.12.0'
+make[1]: Nothing to be done for `reverse-config'.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-armel-diKF8g/bedtools-2.12.0'
+cd . && QUILT_PATCHES=/build/buildd-bedtools_2.12.0-1-armel-diKF8g/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
+Applying patch gzstream.h.patch
+patching file src/utils/gzstream/gzstream.C
+
+Now at patch gzstream.h.patch
+touch debian/stamp-patched
+/usr/bin/make -f debian/rules update-config
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-armel-diKF8g/bedtools-2.12.0'
+make[1]: Nothing to be done for `update-config'.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-armel-diKF8g/bedtools-2.12.0'
+/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" CPPFLAGS="" LDFLAGS=""
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-armel-diKF8g/bedtools-2.12.0'
+[ -d obj ] || mkdir -p obj
+[ -d bin ] || mkdir -p bin
+Building BEDTools:
+=========================================================
+- Building in src/utils/lineFileUtilities
+ * compiling lineFileUtilities.cpp
+
+- Building in src/utils/bedFile
+ * compiling bedFile.cpp
+
+- Building in src/utils/bedGraphFile
+ * compiling bedGraphFile.cpp
+
+- Building in src/utils/tabFile
+ * compiling tabFile.cpp
+
+- Building in src/utils/genomeFile
+ * compiling genomeFile.cpp
+genomeFile.cpp: In member function 'void GenomeFile::loadGenomeFileIntoMap()':
+genomeFile.cpp:51:26: warning: variable 'c2' set but not used [-Wunused-but-set-variable]
+
+- Building in src/utils/gzstream
+g++ -g -O2 -g -O2 -Wall -c -o ../../../obj//gzstream.o gzstream.C -I.
+
+- Building in src/utils/fileType
+ * compiling fileType.cpp
+
+- Building in src/utils/bedFilePE
+ * compiling bedFilePE.cpp
+
+- Building in src/utils/sequenceUtilities
+ * compiling sequenceUtils.cpp
+
+- Building in src/utils/BamTools
+ * compiling BamReader.cpp
+ * compiling BamWriter.cpp
+ * compiling BGZF.cpp
+ * compiling BamAncillary.cpp
+ * compiling BamIndex.cpp
+BamIndex.cpp: In member function 'virtual bool BamTools::BamDefaultIndex::Load(const string&)':
+BamIndex.cpp:405:12: warning: variable 'elementsRead' set but not used [-Wunused-but-set-variable]
+BamIndex.cpp: In member function 'virtual bool BamTools::BamToolsIndex::Load(const string&)':
+BamIndex.cpp:818:12: warning: variable 'elementsRead' set but not used [-Wunused-but-set-variable]
+
+- Building in src/annotateBed
+ * compiling annotateMain.cpp
+annotateMain.cpp: In function 'int main(int, char**)':
+annotateMain.cpp:38:10: warning: variable 'haveTitles' set but not used [-Wunused-but-set-variable]
+ * compiling annotateBed.cpp
+ * linking annotateBed
+
+- Building in src/bamToBed
+ * compiling bamToBed.cpp
+bamToBed.cpp: In function 'int main(int, char**)':
+bamToBed.cpp:70:10: warning: variable 'useAlignmentScore' set but not used [-Wunused-but-set-variable]
+ * linking bamToBed
+
+- Building in src/bedToBam
+ * compiling bedToBam.cpp
+bedToBam.cpp: In function 'int main(int, char**)':
+bedToBam.cpp:59:10: warning: variable 'haveMapQual' set but not used [-Wunused-but-set-variable]
+ * linking bedToBam
+
+- Building in src/bedToIgv
+ * compiling bedToIgv.cpp
+ * linking bedToIgv
+
+- Building in src/bed12ToBed6
+ * compiling bed12ToBed6.cpp
+ * linking bed12ToBed6
+
+- Building in src/closestBed
+ * compiling closestMain.cpp
+ * compiling closestBed.cpp
+ * linking closestBed
+
+- Building in src/complementBed
+ * compiling complementMain.cpp
+ * compiling complementBed.cpp
+ * linking complementBed
+
+- Building in src/coverageBed
+ * compiling coverageMain.cpp
+ * compiling coverageBed.cpp
+ * linking coverageBed
+
+- Building in src/cuffToTrans
+ * compiling cuffToTransMain.cpp
+ * compiling cuffToTrans.cpp
+ * compiling Fasta.cpp
+Fasta.cpp: In member function 'void FastaIndexEntry::clear()':
+Fasta.cpp:28:14: warning: converting to non-pointer type 'int' from NULL [-Wconversion-null]
+Fasta.cpp:31:17: warning: converting to non-pointer type 'int' from NULL [-Wconversion-null]
+Fasta.cpp:32:16: warning: converting to non-pointer type 'int' from NULL [-Wconversion-null]
+ * compiling split.cpp
+ * linking cuffToTrans
+
+- Building in src/fastaFromBed
+ * compiling fastaFromBedMain.cpp
+ * compiling fastaFromBed.cpp
+ * linking fastaFromBed
+
+- Building in src/flankBed
+ * compiling flankBedMain.cpp
+ * compiling flankBed.cpp
+ * linking flankBed
+
+- Building in src/fjoin
+ * compiling fjoinMain.cpp
+ * compiling fjoin.cpp
+ * linking fjoin
+
+- Building in src/genomeCoverageBed
+ * compiling genomeCoverageMain.cpp
+ * compiling genomeCoverageBed.cpp
+ * linking genomeCoverageBed
+
+- Building in src/intersectBed
+ * compiling intersectMain.cpp
+ * compiling intersectBed.cpp
+ * linking intersectBed
+
+- Building in src/linksBed
+ * compiling linksMain.cpp
+ * compiling linksBed.cpp
+ * linking linksBed
+
+- Building in src/maskFastaFromBed
+ * compiling maskFastaFromBedMain.cpp
+ * compiling maskFastaFromBed.cpp
+ * linking maskFastaFromBed
+
+- Building in src/mergeBed
+ * compiling mergeMain.cpp
+mergeMain.cpp: In function 'int main(int, char**)':
+mergeMain.cpp:40:10: warning: variable 'haveMaxDistance' set but not used [-Wunused-but-set-variable]
+ * compiling mergeBed.cpp
+ * linking mergeBed
+
+- Building in src/overlap
+ * compiling overlap.cpp
+overlap.cpp: In function 'int main(int, char**)':
+overlap.cpp:44:10: warning: variable 'haveColumns' set but not used [-Wunused-but-set-variable]
+ * linking overlap
+
+- Building in src/pairToBed
+ * compiling pairToBedMain.cpp
+pairToBedMain.cpp: In function 'int main(int, char**)':
+pairToBedMain.cpp:43:10: warning: variable 'haveFraction' set but not used [-Wunused-but-set-variable]
+ * compiling pairToBed.cpp
+pairToBed.cpp: In member function 'void BedIntersectPE::FindSpanningOverlaps(const BEDPE&, std::vector<BED>&, const string&)':
+pairToBed.cpp:253:12: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp: In member function 'bool BedIntersectPE::FindOneOrMoreSpanningOverlaps(const BEDPE&, const string&)':
+pairToBed.cpp:305:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+ * linking pairToBed
+
+- Building in src/pairToPair
+ * compiling pairToPairMain.cpp
+pairToPairMain.cpp: In function 'int main(int, char**)':
+pairToPairMain.cpp:44:10: warning: variable 'haveFraction' set but not used [-Wunused-but-set-variable]
+ * compiling pairToPair.cpp
+pairToPair.cpp: In member function 'void PairToPair::FindOverlaps(const BEDPE&)':
+pairToPair.cpp:112:14: warning: variable 'found1' set but not used [-Wunused-but-set-variable]
+pairToPair.cpp:113:14: warning: variable 'found2' set but not used [-Wunused-but-set-variable]
+ * linking pairToPair
+
+- Building in src/shuffleBed
+ * compiling shuffleBedMain.cpp
+ * compiling shuffleBed.cpp
+ * linking shuffleBed
+
+- Building in src/slopBed
+ * compiling slopBedMain.cpp
+ * compiling slopBed.cpp
+ * linking slopBed
+
+- Building in src/sortBed
+ * compiling sortMain.cpp
+ * compiling sortBed.cpp
+ * linking sortBed
+
+- Building in src/subtractBed
+ * compiling subtractMain.cpp
+subtractMain.cpp: In function 'int main(int, char**)':
+subtractMain.cpp:41:10: warning: variable 'haveFraction' set but not used [-Wunused-but-set-variable]
+ * compiling subtractBed.cpp
+ * linking subtractBed
+
+- Building in src/unionBedGraphs
+ * compiling unionBedGraphs.cpp
+ * compiling unionBedGraphsMain.cpp
+unionBedGraphsMain.cpp: In function 'int main(int, char**)':
+unionBedGraphsMain.cpp:46:10: warning: variable 'haveFiles' set but not used [-Wunused-but-set-variable]
+unionBedGraphsMain.cpp:48:10: warning: variable 'haveGenome' set but not used [-Wunused-but-set-variable]
+unionBedGraphsMain.cpp:49:10: warning: variable 'haveFiller' set but not used [-Wunused-but-set-variable]
+ * linking unionBedGraphs
+
+- Building in src/windowBed
+ * compiling windowMain.cpp
+ * compiling windowBed.cpp
+ * linking windowBed
+
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-armel-diKF8g/bedtools-2.12.0'
+touch debian/stamp-makefile-build
+DEB_MAKE_CHECK_TARGET unset, not running checks
+ fakeroot debian/rules binary-arch
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+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/bedtools.substvars
+dh_installdirs -pbedtools
+dh_installdocs -pbedtools
+dh_installexamples -pbedtools
+dh_installman -pbedtools
+dh_installinfo -pbedtools
+dh_installmenu -pbedtools
+dh_installcron -pbedtools
+dh_installinit -pbedtools
+dh_installdebconf -pbedtools
+dh_installemacsen -pbedtools
+dh_installcatalogs -pbedtools
+dh_installpam -pbedtools
+dh_installlogrotate -pbedtools
+dh_installlogcheck -pbedtools
+dh_installchangelogs -pbedtools RELEASE_HISTORY
+dh_installudev -pbedtools
+dh_lintian -pbedtools
+dh_bugfiles -pbedtools
+dh_install -pbedtools
+dh_link -pbedtools
+dh_installmime -pbedtools
+dh_installgsettings -pbedtools
+dh_strip -pbedtools
+dh_compress -pbedtools
+dh_fixperms -pbedtools
+dh_makeshlibs -pbedtools
+dh_installdeb -pbedtools
+dh_perl -pbedtools
+dh_shlibdeps -pbedtools
+dpkg-shlibdeps: warning: debian/bedtools/usr/bin/flankBed contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
+dpkg-shlibdeps: warning: debian/bedtools/usr/bin/unionBedGraphs contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
+dpkg-shlibdeps: warning: debian/bedtools/usr/bin/bed12ToBed6 contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
+dpkg-shlibdeps: warning: debian/bedtools/usr/bin/pairToBed contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
+dpkg-shlibdeps: warning: debian/bedtools/usr/bin/bamToBed contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
+dpkg-shlibdeps: warning: debian/bedtools/usr/bin/fastaFromBed contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
+dpkg-shlibdeps: warning: debian/bedtools/usr/bin/coverageBed contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
+dpkg-shlibdeps: warning: debian/bedtools/usr/bin/closestBed contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
+dpkg-shlibdeps: warning: debian/bedtools/usr/bin/overlap contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
+dpkg-shlibdeps: warning: debian/bedtools/usr/bin/maskFastaFromBed contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
+dpkg-shlibdeps: warning: debian/bedtools/usr/bin/bedToBam contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
+dpkg-shlibdeps: warning: debian/bedtools/usr/bin/genomeCoverageBed contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
+dpkg-shlibdeps: warning: debian/bedtools/usr/bin/annotateBed contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
+dpkg-shlibdeps: warning: debian/bedtools/usr/bin/subtractBed contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
+dpkg-shlibdeps: warning: debian/bedtools/usr/bin/sortBed contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
+dpkg-shlibdeps: warning: debian/bedtools/usr/bin/cuffToTrans contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
+dpkg-shlibdeps: warning: debian/bedtools/usr/bin/pairToPair contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
+dpkg-shlibdeps: warning: debian/bedtools/usr/bin/shuffleBed contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
+dpkg-shlibdeps: warning: debian/bedtools/usr/bin/mergeBed contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
+dpkg-shlibdeps: warning: debian/bedtools/usr/bin/bedToIgv contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
+dpkg-shlibdeps: warning: debian/bedtools/usr/bin/windowBed contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
+dpkg-shlibdeps: warning: debian/bedtools/usr/bin/fjoin contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
+dpkg-shlibdeps: warning: debian/bedtools/usr/bin/linksBed contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
+dpkg-shlibdeps: warning: debian/bedtools/usr/bin/slopBed contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
+dpkg-shlibdeps: warning: debian/bedtools/usr/bin/intersectBed contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
+dpkg-shlibdeps: warning: debian/bedtools/usr/bin/complementBed contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
+dh_gencontrol -pbedtools
+dh_md5sums -pbedtools
+dh_builddeb -pbedtools
+dpkg-deb: building package `bedtools' in `../bedtools_2.12.0-1_armel.deb'.
+ dpkg-genchanges -B -marmel Build Daemon (ancina) <buildd_armel-ancina at buildd.debian.org> >../bedtools_2.12.0-1_armel.changes
+dpkg-genchanges: arch-specific upload - not including arch-independent packages
+dpkg-genchanges: binary-only upload - not including any source code
+ dpkg-source --after-build bedtools-2.12.0
+dpkg-buildpackage: binary only upload (no source included)
+────────────────────────────────────────────────────────────────────────────────
+Build finished at 20110608-1158
+
+bedtools_2.12.0-1_armel.changes:
+Format: 1.8
+Date: Wed, 08 Jun 2011 17:01:19 +0900
+Source: bedtools
+Binary: bedtools
+Architecture: armel
+Version: 2.12.0-1
+Distribution: sid
+Urgency: low
+Maintainer: armel Build Daemon (ancina) <buildd_armel-ancina at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ bedtools - suite of utilities for comparing genomic features
+Closes: 629597
+Changes:
+ bedtools (2.12.0-1) unstable; urgency=low
+ .
+ * Initial release (Closes: #629597)
+Checksums-Sha1:
+ 2b5a525b7acb98e8a6156ffc0ec4268999aca6f9 1434986 bedtools_2.12.0-1_armel.deb
+Checksums-Sha256:
+ ed65773182480cdce91aaf33e693841daf9e73d3c853284fb44e61fd87cf6bbe 1434986 bedtools_2.12.0-1_armel.deb
+Files:
+ 0b86bc52afa249351648c30b7fbe5f3a 1434986 science optional bedtools_2.12.0-1_armel.deb
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Package contents │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+bedtools_2.12.0-1_armel.deb
+───────────────────────────
+
+ new debian package, version 2.0.
+ size 1434986 bytes: control archive= 1650 bytes.
+ 761 bytes, 15 lines control
+ 1978 bytes, 34 lines md5sums
+ Package: bedtools
+ Version: 2.12.0-1
+ Architecture: armel
+ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+ Installed-Size: 3268
+ Depends: libc6 (>= 2.4), libgcc1 (>= 1:4.4.0), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
+ Section: science
+ Priority: optional
+ Homepage: http://code.google.com/p/bedtools/
+ Description: suite of utilities for comparing genomic features
+ The BEDTools utilities allow one to address common genomics tasks such as
+ finding feature overlaps and computing coverage. The utilities are largely
+ based on four widely-used file formats: BED, GFF/GTF, VCF, and SAM/BAM. Using
+ BEDTools, one can develop sophisticated pipelines that answer complicated
+ research questions by streaming several BEDTools together.
+
+drwxr-xr-x root/root 0 2011-06-08 11:57 ./
+drwxr-xr-x root/root 0 2011-06-08 11:57 ./usr/
+drwxr-xr-x root/root 0 2011-06-08 11:57 ./usr/bin/
+-rwxr-xr-x root/root 112908 2011-06-08 11:57 ./usr/bin/bedToBam
+-rwxr-xr-x root/root 219480 2011-06-08 11:57 ./usr/bin/pairToBed
+-rwxr-xr-x root/root 102812 2011-06-08 11:57 ./usr/bin/bedToIgv
+-rwxr-xr-x root/root 121068 2011-06-08 11:57 ./usr/bin/cuffToTrans
+-rwxr-xr-x root/root 94240 2011-06-08 11:57 ./usr/bin/mergeBed
+-rwxr-xr-x root/root 75904 2011-06-08 11:57 ./usr/bin/overlap
+-rwxr-xr-x root/root 94556 2011-06-08 11:57 ./usr/bin/maskFastaFromBed
+-rwxr-xr-x root/root 92308 2011-06-08 11:57 ./usr/bin/linksBed
+-rwxr-xr-x root/root 108772 2011-06-08 11:57 ./usr/bin/closestBed
+-rwxr-xr-x root/root 166188 2011-06-08 11:57 ./usr/bin/fjoin
+-rwxr-xr-x root/root 126536 2011-06-08 11:57 ./usr/bin/sortBed
+-rwxr-xr-x root/root 145676 2011-06-08 11:57 ./usr/bin/coverageBed
+-rwxr-xr-x root/root 141956 2011-06-08 11:57 ./usr/bin/annotateBed
+-rwxr-xr-x root/root 57116 2011-06-08 11:57 ./usr/bin/unionBedGraphs
+-rwxr-xr-x root/root 153880 2011-06-08 11:57 ./usr/bin/genomeCoverageBed
+-rwxr-xr-x root/root 100856 2011-06-08 11:57 ./usr/bin/flankBed
+-rwxr-xr-x root/root 90480 2011-06-08 11:57 ./usr/bin/complementBed
+-rwxr-xr-x root/root 86576 2011-06-08 11:57 ./usr/bin/bed12ToBed6
+-rwxr-xr-x root/root 147880 2011-06-08 11:57 ./usr/bin/windowBed
+-rwxr-xr-x root/root 162092 2011-06-08 11:57 ./usr/bin/intersectBed
+-rwxr-xr-x root/root 112816 2011-06-08 11:57 ./usr/bin/shuffleBed
+-rwxr-xr-x root/root 107184 2011-06-08 11:57 ./usr/bin/bamToBed
+-rwxr-xr-x root/root 93876 2011-06-08 11:57 ./usr/bin/slopBed
+-rwxr-xr-x root/root 160020 2011-06-08 11:57 ./usr/bin/pairToPair
+-rwxr-xr-x root/root 121068 2011-06-08 11:57 ./usr/bin/fastaFromBed
+-rwxr-xr-x root/root 104596 2011-06-08 11:57 ./usr/bin/subtractBed
+drwxr-xr-x root/root 0 2011-06-08 11:57 ./usr/share/
+drwxr-xr-x root/root 0 2011-06-08 11:57 ./usr/share/bedtools/
+drwxr-xr-x root/root 0 2011-06-08 11:40 ./usr/share/bedtools/genomes/
+-rwxr-xr-x root/root 856 2011-04-04 01:30 ./usr/share/bedtools/genomes/human.hg18.genome
+-rwxr-xr-x root/root 565 2011-04-04 01:30 ./usr/share/bedtools/genomes/mouse.mm8.genome
+-rwxr-xr-x root/root 585 2011-04-04 01:30 ./usr/share/bedtools/genomes/mouse.mm9.genome
+-rwxr-xr-x root/root 1972 2011-04-04 01:30 ./usr/share/bedtools/genomes/human.hg19.genome
+drwxr-xr-x root/root 0 2011-06-08 11:57 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-06-08 11:57 ./usr/share/doc/bedtools/
+-rw-r--r-- root/root 156 2011-06-08 08:01 ./usr/share/doc/bedtools/changelog.Debian.gz
+-rw-r--r-- root/root 8577 2011-04-04 01:30 ./usr/share/doc/bedtools/changelog.gz
+-rw-r--r-- root/root 1586 2011-04-04 01:30 ./usr/share/doc/bedtools/README.rst.gz
+-rw-r--r-- root/root 4611 2011-06-08 07:59 ./usr/share/doc/bedtools/copyright
+
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Finished │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /var/lib/schroot/mount/sid-armel-sbuild-eaea20a9-e9db-4eac-950b-101c8263e8cc/build/buildd-bedtools_2.12.0-1-armel-diKF8g
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded.
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following packages will be REMOVED:
+ cdbs* debhelper* diffstat* file* gettext* gettext-base* groff-base*
+ html2text* intltool-debian* libcroco3* libglib2.0-0* libmagic1*
+ libpipeline1* libunistring0* libxml2* man-db* po-debconf* quilt* zlib1g-dev*
+0 upgraded, 0 newly installed, 19 to remove and 1 not upgraded.
+After this operation, 26.6 MB disk space will be freed.
+(Reading database ... 12598 files and directories currently installed.)
+Removing cdbs ...
+Removing debhelper ...
+Removing quilt ...
+Purging configuration files for quilt ...
+Removing diffstat ...
+Removing file ...
+Removing po-debconf ...
+Removing intltool-debian ...
+Removing gettext ...
+Removing gettext-base ...
+Removing man-db ...
+Purging configuration files for man-db ...
+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 libpipeline1 ...
+Purging configuration files for libpipeline1 ...
+Removing libunistring0 ...
+Purging configuration files for libunistring0 ...
+Removing libxml2 ...
+Purging configuration files for libxml2 ...
+Removing zlib1g-dev ...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Architecture: armel
+Build-Space: 73216
+Build-Time: 1059
+Distribution: sid
+Install-Time: 33
+Job: bedtools_2.12.0-1
+Package: bedtools
+Package-Time: 1125
+Source-Version: 2.12.0-1
+Space: 73216
+Status: successful
+Version: 2.12.0-1
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20110608-1158
+Build needed 00:18:45, 73216k disc space
+Signature with key 'A1EAA0BB' requested:
diff --git a/hurd-i386.log b/hurd-i386.log
new file mode 100644
index 0000000..c9b7a39
--- /dev/null
+++ b/hurd-i386.log
@@ -0,0 +1,624 @@
+From buildd at rossini.debian.net Wed Jun 08 11:22:35 2011
+Return-path: <buildd at rossini.debian.net>
+Received: from io.ethz.ch ([129.132.80.17] helo=io.debian.net)
+ by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at rossini.debian.net>)
+ id 1QUGqI-0001Wo-2Y
+ for logs at buildd.debian.org; Wed, 08 Jun 2011 11:22:34 +0000
+Received: from hurd.ethz.ch ([192.33.98.55] helo=rossini.debian.net)
+ by io.debian.net with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at rossini.debian.net>)
+ id 1QUGqF-000Cne-VG; Wed, 08 Jun 2011 13:22:32 +0200
+Received: from buildd by rossini.debian.net with local (Exim 4.72)
+ (envelope-from <buildd at rossini.debian.net>)
+ id 1QUGqG-0001BU-I8; Wed, 08 Jun 2011 11:22:32 +0000
+Date: Wed, 08 Jun 2011 11:22:32 +0000
+Message-Id: <E1QUGqG-0001BU-I8 at rossini.debian.net>
+From: Build Daemon <buildd at rossini.debian.net>
+To: samuel.thibault at labri.fr, mbanck at gmx.net, logs at buildd.debian-ports.org,
+ logs at buildd.debian.org, debian-hurd-build-logs at lists.alioth.debian.org
+Subject: Log for successful build of bedtools_2.12.0-1 on hurd-i386 (dist=sid)
+Content-Type: text/plain; charset=UTF-8
+Content-Transfer-Encoding: 8bit
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.60.0 (23 Feb 2010) on rossini.debian.net
+
+╔══════════════════════════════════════════════════════════════════════════════╗
+║ bedtools 2.12.0-1 (hurd-i386) 08 Jun 2011 11:07 ║
+╚══════════════════════════════════════════════════════════════════════════════╝
+
+Package: bedtools
+Version: 2.12.0-1
+Architecture: hurd-i386
+Chroot Build Dir: /home/buildd/build/chroot-sid/build/buildd-bedtools_2.12.0-1-hurd-i386-W43v1Y
+Start Time: 20110608-1107
+Ign file: ./ InRelease
+Ign file: ./ Release.gpg
+Ign file: ./ Release
+Ign file: ./ Translation-en
+Hit http://ftp.ch.debian.org unstable InRelease
+Hit http://ftp.ch.debian.org experimental InRelease
+Ign http://incoming.debian.org InRelease
+Ign http://ftp.debian-ports.org unreleased InRelease
+Hit http://ftp.ch.debian.org unstable/main Sources/DiffIndex
+Get:1 http://incoming.debian.org Release.gpg [836 B]
+Hit http://ftp.ch.debian.org unstable/contrib Sources/DiffIndex
+Hit http://ftp.ch.debian.org unstable/non-free Sources/DiffIndex
+Hit http://ftp.ch.debian.org unstable/main hurd-i386 Packages/DiffIndex
+Hit http://ftp.ch.debian.org unstable/main TranslationIndex
+Hit http://ftp.ch.debian.org experimental/main Sources/DiffIndex
+Hit http://ftp.ch.debian.org experimental/contrib Sources/DiffIndex
+Hit http://ftp.ch.debian.org experimental/non-free Sources/DiffIndex
+Hit http://ftp.debian-ports.org unreleased Release.gpg
+Get:2 http://incoming.debian.org Release [1604 B]
+Get:3 http://incoming.debian.org Sources [48.8 kB]
+Hit http://ftp.debian-ports.org unreleased Release
+Hit http://ftp.debian-ports.org unreleased/main hurd-i386 Packages
+Ign http://ftp.debian-ports.org unreleased/main TranslationIndex
+Get:4 http://incoming.debian.org Packages [468 kB]
+Ign http://ftp.debian-ports.org unreleased/main Translation-en
+Ign http://incoming.debian.org Translation-en
+Fetched 519 kB in 1min 39s (5232 B/s)
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Fetch source files │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Check APT
+─────────
+
+Checking available source versions...
+
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+NOTICE: 'bedtools' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/git/debian-med/bedtools.git
+Need to get 796 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.12.0-1 (dsc) [1924 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.12.0-1 (tar) [790 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.12.0-1 (diff) [4198 B]
+Fetched 796 kB in 6s (124 kB/s)
+Download complete and in download only mode
+
+Check arch
+──────────
+
+** Using build dependencies supplied by package:
+Build-Depends: cdbs, debhelper (>= 8), quilt, zlib1g-dev
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install build dependencies (internal resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Checking for already installed source dependencies...
+cdbs: missing
+debhelper: missing
+Using default version 8.1.6
+quilt: missing
+zlib1g-dev: missing
+Checking for source dependency conflicts...
+Installing positive dependencies: cdbs debhelper quilt zlib1g-dev
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following package was automatically installed and is no longer required:
+ libboost-iostreams1.42.0
+Use 'apt-get autoremove' to remove them.
+The following extra packages will be installed:
+ diffstat file gettext gettext-base html2text intltool-debian libcroco3
+ libexpat1 libglib2.0-0 libmagic1 libunistring0 libxml2 po-debconf
+Suggested packages:
+ devscripts dh-make gettext-doc libmail-box-perl procmail graphviz
+Recommended packages:
+ autotools-dev autopoint libglib2.0-data shared-mime-info xml-core
+ libmail-sendmail-perl
+The following NEW packages will be installed:
+ cdbs debhelper diffstat file gettext gettext-base html2text intltool-debian
+ libcroco3 libexpat1 libglib2.0-0 libmagic1 libunistring0 libxml2 po-debconf
+ quilt zlib1g-dev
+0 upgraded, 17 newly installed, 0 to remove and 18 not upgraded.
+Need to get 0 B/7142 kB of archives.
+After this operation, 21.9 MB of additional disk space will be used.
+WARNING: The following packages cannot be authenticated!
+ libmagic1 file gettext-base libxml2 html2text libglib2.0-0 libcroco3
+ libexpat1 libunistring0 gettext intltool-debian po-debconf debhelper cdbs
+ diffstat quilt zlib1g-dev
+Authentication warning overridden.
+Selecting previously deselected package libmagic1.
+(Reading database ... 13452 files and directories currently installed.)
+Unpacking libmagic1 (from .../libmagic1_5.03-5+b1_hurd-i386.deb) ...
+Selecting previously deselected package file.
+Unpacking file (from .../file_5.03-5+b1_hurd-i386.deb) ...
+Selecting previously deselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_hurd-i386.deb) ...
+Selecting previously deselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-3_hurd-i386.deb) ...
+Selecting previously deselected package html2text.
+Unpacking html2text (from .../html2text_1.3.2a-15+b1_hurd-i386.deb) ...
+Selecting previously deselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.6-1_hurd-i386.deb) ...
+Selecting previously deselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-1_hurd-i386.deb) ...
+Selecting previously deselected package libexpat1.
+Unpacking libexpat1 (from .../libexpat1_2.0.1-7_hurd-i386.deb) ...
+Selecting previously deselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-4_hurd-i386.deb) ...
+Selecting previously deselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-3_hurd-i386.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_8.1.6_all.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.94_all.deb) ...
+Selecting previously deselected package diffstat.
+Unpacking diffstat (from .../diffstat_1.54-1_hurd-i386.deb) ...
+Selecting previously deselected package quilt.
+Unpacking quilt (from .../archives/quilt_0.48-7_all.deb) ...
+Selecting previously deselected package zlib1g-dev.
+Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_hurd-i386.deb) ...
+Processing triggers for man-db ...
+Processing triggers for install-info ...
+Setting up libmagic1 (5.03-5+b1) ...
+Setting up file (5.03-5+b1) ...
+Setting up gettext-base (0.18.1.1-3) ...
+Setting up libxml2 (2.7.8.dfsg-3) ...
+Setting up html2text (1.3.2a-15+b1) ...
+Setting up libglib2.0-0 (2.28.6-1) ...
+No schema files found: doing nothing.
+Setting up libcroco3 (0.6.2-1) ...
+Setting up libexpat1 (2.0.1-7) ...
+Setting up libunistring0 (0.9.3-4) ...
+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 (8.1.6) ...
+Setting up cdbs (0.4.94) ...
+Setting up diffstat (1.54-1) ...
+Setting up quilt (0.48-7) ...
+Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
+Removing negative dependencies:
+Checking correctness of source dependencies...
+Kernel: GNU 0.3 hurd-i386 (i686-AT386)
+Toolchain package versions: libc0.3-dev_2.13-4 dpkg-dev_1.16.0.3 hurd-dev_20110519-1 gnumach-dev_2:1.3.99.dfsg.git20110305-1 gcc-4.6_4.6.0-9 g++-4.6_4.6.0-9 binutils_2.21.51.20110523-1 libstdc++6-4.6-dev_4.6.0-9 libstdc++6_4.6.0-9
+Package versions: adduser_3.112+nmu2 apt_0.8.14.1 apt-utils_0.8.14.1 base-files_6.4 base-passwd_3.5.22 bash_4.1-3+hurd.1 binutils_2.21.51.20110523-1 bsdmainutils_8.2.2 bsdutils_1:2.16.2-0 build-essential_11.5 bzip2_1.0.5-6 ca-certificates_20110421 cdbs_0.4.94 coreutils_8.5-1 cpio_2.11-7 cpp_4:4.6.0-5 cpp-4.4_4.4.5-10 cpp-4.5_4.5.3-1 cpp-4.6_4.6.0-9 dash_0.5.5.1-7.4 debconf_1.5.39 debfoster_2.6-2 debhelper_8.1.6 debian-archive-keyring_2010.08.28 debian-ports-archive-keyring_2011.01.12 debianutils_4.0.1 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.41.12-4 e2fsprogs_1.41.12-4 fakeroot_1.15.1-1 file_5.03-5+b1 findutils_4.4.2-1+b1 g++_4:4.4.5-7 g++-4.4_4.4.5-10 g++-4.5_4.5.3-1 g++-4.6_4.6.0-9 gcc_4:4.4.5-7 gcc-4.2-base_4.2.4-6+b1 gcc-4.4_4.4.5-10 gcc-4.4-base_4.4.5-10 gcc-4.5_4.5.3-1 gcc-4.5-base_4.5.3-1 gcc-4.6_4.6.0-9 gcc-4.6-base_4.6.0-9 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gfortran-4.4_4.4.5-10 gnumach-dev_2:1.3.99.dfsg.git20110305-1 gnupg_1.4.11-3 gnupg-curl_1.4.11-3 gobjc-4.4_4.4.5-10 gpgv_1.4.11-3 grep_2.6.3-3 groff-base_1.21-6 gzip_1.3.12-9 hostname_3.06 html2text_1.3.2a-15+b1 hurd_20110519-1 hurd-dev_20110519-1 ifupdown_0.6.9+hurd.1 inetutils-tools_2:1.8-3 initscripts_2.88dsf-13.7 insserv_1.14.0-2.1 install-info_4.13a.dfsg.1-6 intltool-debian_0.35.0+20060710.1 libacl1_2.2.47-3 libattr1_1:2.4.44-3 libblkid1_2.16.2-0 libboost-iostreams1.42.0_1.42.0-4+b2 libboost-iostreams1.46.1_1.46.1-5 libbz2-1.0_1.0.5-6 libc-bin_2.13-4 libc-dev-bin_2.13-4 libc0.3_2.13-4 libc0.3-dev_2.13-4 libc0.3-xen_2.13-4 libcloog-ppl0_0.15.9-3 libcomerr2_1.41.12-4 libcroco3_0.6.2-1 libcurl3-gnutls_7.21.6-1 libdb5.1_5.1.25-10 libdpkg-perl_1.16.0.3 libelfg0_0.8.13-1 libexpat1_2.0.1-7 libfribidi0_0.19.2-1 libgcc1_1:4.6.0-9 libgcrypt11_1.4.6-5 libgdbm3_1.8.3-9 libgfortran3_4.6.0-9 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.1+dfsg-7 libgmp3c2_2:4.3.2+dfsg-2 libgmpxx4ldbl_2:5.0.1+dfsg-7 libgnutls26_2.10.4-2 libgomp1_4.6.0-9 libgpg-error0_1.10-0.3 libident_0.22-3 libidn11_1.20-1 libldap-2.4-2_2.4.25-1 liblocale-gettext-perl_1.05-6+b1 liblzma2_5.0.0-2 liblzo2-2_2.04-1 libmagic1_5.03-5+b1 libmpc2_0.9-3 libmpfr4_3.0.1-3 libncurses5_5.9-1 libncursesw5_5.9-1 libnewt0.52_0.52.11-2 libobjc2_4.5.3-1 libpam-modules_1.1.2-3 libpam-runtime_1.1.2-3 libpam0g_1.1.3-1 libparted0debian1_2.3-3+hurd.1 libpcre3_8.12-3+b1 libpipeline1_1.2.0-2 libpng12-0_1.2.44-2 libpopt0_1.16-1 libppl-c2_0.10.2-9 libppl-c4_0.11.2-3 libppl7_0.10.2-9 libppl9_0.11.2-3 libpthread-stubs0_0.3-2 libpthread-stubs0-dev_0.3-2 libpwl5_0.11.2-3 libquadmath0_4.6.0-9 libreadline6_6.2-2 librtmp0_2.3-2 libsasl2-2_2.1.24~rc1.dfsg1+cvs2011-05-23-2 libsasl2-modules_2.1.24~rc1.dfsg1+cvs2011-05-23-2 libslang2_2.2.4-2 libss2_1.41.12-4 libssl0.9.8_0.9.8o-7+b1 libssl1.0.0_1.0.0d-2 libstdc++6_4.6.0-9 libstdc++6-4.4-dev_4.4.5-10 libstdc++6-4.5-dev_4.5.3-1 libstdc++6-4.6-dev_4.6.0-9 libsysfs2_2.1.0+repack-1 libtasn1-3_2.9-3 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4p_2:0.1.12-13+hurd.1 libuuid1_2.16.2-0 libwrap0_7.6.dbs-14+hurd.2 libxdmcp-dev_1:1.1.0-1 libxdmcp6_1:1.1.0-1 libxml2_2.7.8.dfsg-3 lsb-base_3.2-27 make_3.81-8.1 man-db_2.6.0.2-1 mawk_1.3.3-15 ncurses-base_5.9-1 ncurses-bin_5.9-1 netbase_4.45 netcat-traditional_1.10-39 openssl_1.0.0d-2 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.3-6 perl-base_5.12.3-6 perl-modules_5.12.3-6 po-debconf_1.0.16+nmu1 procps_1:3.2.8-10 psmisc_22.3-1 quilt_0.48-7 readline-common_6.2-2 sed_4.2.1-9 sensible-utils_0.0.6 sysv-rc_2.88dsf-13.7 sysvinit_2.88dsf-13.7 sysvinit-utils_2.88dsf-13.7 tar_1.25-2 tzdata_2011g-1 util-linux_2.16.2-0 wget_1.11.4-4 whiptail_0.52.11-2 x11proto-core-dev_7.0.21-2 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: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
+gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Wed Jun 8 08:23:42 2011 UTC using RSA key ID 2295D502
+gpgv: Can't check signature: public key not found
+dpkg-source: warning: failed to verify signature on ./bedtools_2.12.0-1.dsc
+dpkg-source: info: extracting bedtools in bedtools-2.12.0
+dpkg-source: info: unpacking bedtools_2.12.0.orig.tar.bz2
+dpkg-source: info: unpacking bedtools_2.12.0-1.debian.tar.gz
+dpkg-source: info: applying gzstream.h.patch
+
+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 bedtools
+dpkg-buildpackage: source version 2.12.0-1
+ dpkg-source --before-build bedtools-2.12.0
+dpkg-buildpackage: host architecture hurd-i386
+ /usr/bin/fakeroot debian/rules clean
+test -x debian/rules
+dh_testroot
+rm -f debian/stamp-makefile-build debian/stamp-makefile-install
+/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" CPPFLAGS="" LDFLAGS="" -k clean
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-hurd-i386-W43v1Y/bedtools-2.12.0'
+Cleaning up.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-hurd-i386-W43v1Y/bedtools-2.12.0'
+dh_clean
+/usr/bin/make -f debian/rules reverse-config
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-hurd-i386-W43v1Y/bedtools-2.12.0'
+make[1]: Nothing to be done for `reverse-config'.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-hurd-i386-W43v1Y/bedtools-2.12.0'
+if [ -d "." ]; then \
+ cd . && QUILT_PATCHES=/build/buildd-bedtools_2.12.0-1-hurd-i386-W43v1Y/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
+ fi
+Removing patch gzstream.h.patch
+Restoring src/utils/gzstream/gzstream.C
+
+No patches applied
+rm -rf ./.pc
+ debian/rules build
+rm -f debian/stamp-patch*
+test -x debian/rules
+mkdir -p "."
+/usr/bin/make -f debian/rules reverse-config
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-hurd-i386-W43v1Y/bedtools-2.12.0'
+make[1]: Nothing to be done for `reverse-config'.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-hurd-i386-W43v1Y/bedtools-2.12.0'
+cd . && QUILT_PATCHES=/build/buildd-bedtools_2.12.0-1-hurd-i386-W43v1Y/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
+Applying patch gzstream.h.patch
+patching file src/utils/gzstream/gzstream.C
+
+Now at patch gzstream.h.patch
+touch debian/stamp-patched
+/usr/bin/make -f debian/rules update-config
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-hurd-i386-W43v1Y/bedtools-2.12.0'
+make[1]: Nothing to be done for `update-config'.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-hurd-i386-W43v1Y/bedtools-2.12.0'
+/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" CPPFLAGS="" LDFLAGS=""
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-hurd-i386-W43v1Y/bedtools-2.12.0'
+[ -d obj ] || mkdir -p obj
+[ -d bin ] || mkdir -p bin
+Building BEDTools:
+=========================================================
+- Building in src/utils/lineFileUtilities
+ * compiling lineFileUtilities.cpp
+
+- Building in src/utils/bedFile
+ * compiling bedFile.cpp
+
+- Building in src/utils/bedGraphFile
+ * compiling bedGraphFile.cpp
+
+- Building in src/utils/tabFile
+ * compiling tabFile.cpp
+
+- Building in src/utils/genomeFile
+ * compiling genomeFile.cpp
+
+- Building in src/utils/gzstream
+g++ -g -O2 -g -O2 -Wall -c -o ../../../obj//gzstream.o gzstream.C -I.
+
+- Building in src/utils/fileType
+ * compiling fileType.cpp
+
+- Building in src/utils/bedFilePE
+ * compiling bedFilePE.cpp
+
+- Building in src/utils/sequenceUtilities
+ * compiling sequenceUtils.cpp
+
+- Building in src/utils/BamTools
+ * compiling BamReader.cpp
+ * compiling BamWriter.cpp
+ * compiling BGZF.cpp
+ * compiling BamAncillary.cpp
+ * compiling BamIndex.cpp
+
+- Building in src/annotateBed
+ * compiling annotateMain.cpp
+ * compiling annotateBed.cpp
+ * linking annotateBed
+
+- Building in src/bamToBed
+ * compiling bamToBed.cpp
+ * linking bamToBed
+
+- Building in src/bedToBam
+ * compiling bedToBam.cpp
+ * linking bedToBam
+
+- Building in src/bedToIgv
+ * compiling bedToIgv.cpp
+ * linking bedToIgv
+
+- Building in src/bed12ToBed6
+ * compiling bed12ToBed6.cpp
+ * linking bed12ToBed6
+
+- Building in src/closestBed
+ * compiling closestMain.cpp
+ * compiling closestBed.cpp
+ * linking closestBed
+
+- Building in src/complementBed
+ * compiling complementMain.cpp
+ * compiling complementBed.cpp
+ * linking complementBed
+
+- Building in src/coverageBed
+ * compiling coverageMain.cpp
+ * compiling coverageBed.cpp
+ * linking coverageBed
+
+- Building in src/cuffToTrans
+ * compiling cuffToTransMain.cpp
+ * compiling cuffToTrans.cpp
+ * compiling Fasta.cpp
+ * compiling split.cpp
+ * linking cuffToTrans
+
+- Building in src/fastaFromBed
+ * compiling fastaFromBedMain.cpp
+ * compiling fastaFromBed.cpp
+ * linking fastaFromBed
+
+- Building in src/flankBed
+ * compiling flankBedMain.cpp
+ * compiling flankBed.cpp
+ * linking flankBed
+
+- Building in src/fjoin
+ * compiling fjoinMain.cpp
+ * compiling fjoin.cpp
+ * linking fjoin
+
+- Building in src/genomeCoverageBed
+ * compiling genomeCoverageMain.cpp
+ * compiling genomeCoverageBed.cpp
+ * linking genomeCoverageBed
+
+- Building in src/intersectBed
+ * compiling intersectMain.cpp
+ * compiling intersectBed.cpp
+ * linking intersectBed
+
+- Building in src/linksBed
+ * compiling linksMain.cpp
+ * compiling linksBed.cpp
+ * linking linksBed
+
+- Building in src/maskFastaFromBed
+ * compiling maskFastaFromBedMain.cpp
+ * compiling maskFastaFromBed.cpp
+ * linking maskFastaFromBed
+
+- Building in src/mergeBed
+ * compiling mergeMain.cpp
+ * compiling mergeBed.cpp
+ * linking mergeBed
+
+- Building in src/overlap
+ * compiling overlap.cpp
+ * linking overlap
+
+- Building in src/pairToBed
+ * compiling pairToBedMain.cpp
+ * compiling pairToBed.cpp
+ * linking pairToBed
+
+- Building in src/pairToPair
+ * compiling pairToPairMain.cpp
+ * compiling pairToPair.cpp
+ * linking pairToPair
+
+- Building in src/shuffleBed
+ * compiling shuffleBedMain.cpp
+ * compiling shuffleBed.cpp
+ * linking shuffleBed
+
+- Building in src/slopBed
+ * compiling slopBedMain.cpp
+ * compiling slopBed.cpp
+ * linking slopBed
+
+- Building in src/sortBed
+ * compiling sortMain.cpp
+ * compiling sortBed.cpp
+ * linking sortBed
+
+- Building in src/subtractBed
+ * compiling subtractMain.cpp
+ * compiling subtractBed.cpp
+ * linking subtractBed
+
+- Building in src/unionBedGraphs
+ * compiling unionBedGraphs.cpp
+ * compiling unionBedGraphsMain.cpp
+ * linking unionBedGraphs
+
+- Building in src/windowBed
+ * compiling windowMain.cpp
+ * compiling windowBed.cpp
+ * linking windowBed
+
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-hurd-i386-W43v1Y/bedtools-2.12.0'
+touch debian/stamp-makefile-build
+ /usr/bin/fakeroot debian/rules binary-arch
+DEB_MAKE_CHECK_TARGET unset, not running checks
+test -x debian/rules
+dh_testroot
+dh_prep
+dh_installdirs -A
+mkdir -p "."
+DEB_MAKE_CHECK_TARGET unset, not running checks
+DEB_MAKE_INSTALL_TARGET unset, skipping default makefile.mk common-install target
+Adding cdbs dependencies to debian/bedtools.substvars
+dh_installdirs -pbedtools
+dh_installdocs -pbedtools
+dh_installexamples -pbedtools
+dh_installman -pbedtools
+dh_installinfo -pbedtools
+dh_installmenu -pbedtools
+dh_installcron -pbedtools
+dh_installinit -pbedtools
+dh_installdebconf -pbedtools
+dh_installemacsen -pbedtools
+dh_installcatalogs -pbedtools
+dh_installpam -pbedtools
+dh_installlogrotate -pbedtools
+dh_installlogcheck -pbedtools
+dh_installchangelogs -pbedtools RELEASE_HISTORY
+dh_installudev -pbedtools
+dh_lintian -pbedtools
+dh_bugfiles -pbedtools
+dh_install -pbedtools
+dh_link -pbedtools
+dh_installmime -pbedtools
+dh_installgsettings -pbedtools
+dh_strip -pbedtools
+dh_compress -pbedtools
+dh_fixperms -pbedtools
+dh_makeshlibs -pbedtools
+dh_installdeb -pbedtools
+dh_perl -pbedtools
+dh_shlibdeps -pbedtools
+dh_gencontrol -pbedtools
+dh_md5sums -pbedtools
+dh_builddeb -pbedtools
+dpkg-deb: building package `bedtools' in `../bedtools_2.12.0-1_hurd-i386.deb'.
+ dpkg-genchanges -B -mDebian GNU/Hurd Build Daemon <buildd_hurd-i386-rossini at buildd.debian.org> >../bedtools_2.12.0-1_hurd-i386.changes
+dpkg-genchanges: arch-specific upload - not including arch-independent packages
+dpkg-genchanges: binary-only upload - not including any source code
+ dpkg-source --after-build bedtools-2.12.0
+dpkg-buildpackage: binary only upload (no source included)
+────────────────────────────────────────────────────────────────────────────────
+Build finished at 20110608-1122
+
+bedtools_2.12.0-1_hurd-i386.changes:
+Format: 1.8
+Date: Wed, 08 Jun 2011 17:01:19 +0900
+Source: bedtools
+Binary: bedtools
+Architecture: hurd-i386
+Version: 2.12.0-1
+Distribution: sid
+Urgency: low
+Maintainer: Debian GNU/Hurd Build Daemon <buildd_hurd-i386-rossini at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ bedtools - suite of utilities for comparing genomic features
+Closes: 629597
+Changes:
+ bedtools (2.12.0-1) unstable; urgency=low
+ .
+ * Initial release (Closes: #629597)
+Checksums-Sha1:
+ 7ff42ec7138f5b41d0052cd861b750eaf209c267 1413172 bedtools_2.12.0-1_hurd-i386.deb
+Checksums-Sha256:
+ 0876ac512bf01a4dabb4beb5967c4b80b4eb05bb05f0578e6c0afdc3bcd7674e 1413172 bedtools_2.12.0-1_hurd-i386.deb
+Files:
+ eaab6c2cc574668dc31c66a8760fdcc7 1413172 science optional bedtools_2.12.0-1_hurd-i386.deb
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Package contents │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+bedtools_2.12.0-1_hurd-i386.deb
+───────────────────────────────
+
+ new debian package, version 2.0.
+ size 1413172 bytes: control archive= 1662 bytes.
+ 766 bytes, 15 lines control
+ 1978 bytes, 34 lines md5sums
+ Package: bedtools
+ Version: 2.12.0-1
+ Architecture: hurd-i386
+ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+ Installed-Size: 3252
+ Depends: libc0.3 (>= 2.13), libgcc1 (>= 4.2.1), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
+ Section: science
+ Priority: optional
+ Homepage: http://code.google.com/p/bedtools/
+ Description: suite of utilities for comparing genomic features
+ The BEDTools utilities allow one to address common genomics tasks such as
+ finding feature overlaps and computing coverage. The utilities are largely
+ based on four widely-used file formats: BED, GFF/GTF, VCF, and SAM/BAM. Using
+ BEDTools, one can develop sophisticated pipelines that answer complicated
+ research questions by streaming several BEDTools together.
+
+drwxr-xr-x root/root 0 2011-06-08 11:19 ./
+drwxr-xr-x root/root 0 2011-06-08 11:19 ./usr/
+drwxr-xr-x root/root 0 2011-06-08 11:20 ./usr/share/
+drwxr-xr-x root/root 0 2011-06-08 11:19 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-06-08 11:20 ./usr/share/doc/bedtools/
+-rw-r--r-- root/root 8577 2011-04-04 01:30 ./usr/share/doc/bedtools/changelog.gz
+-rw-r--r-- root/root 4611 2011-06-08 07:59 ./usr/share/doc/bedtools/copyright
+-rw-r--r-- root/root 1586 2011-04-04 01:30 ./usr/share/doc/bedtools/README.rst.gz
+-rw-r--r-- root/root 156 2011-06-08 08:01 ./usr/share/doc/bedtools/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-06-08 11:20 ./usr/share/bedtools/
+drwxr-xr-x root/root 0 2011-06-08 11:10 ./usr/share/bedtools/genomes/
+-rwxr-xr-x root/root 856 2011-04-04 01:30 ./usr/share/bedtools/genomes/human.hg18.genome
+-rwxr-xr-x root/root 1972 2011-04-04 01:30 ./usr/share/bedtools/genomes/human.hg19.genome
+-rwxr-xr-x root/root 565 2011-04-04 01:30 ./usr/share/bedtools/genomes/mouse.mm8.genome
+-rwxr-xr-x root/root 585 2011-04-04 01:30 ./usr/share/bedtools/genomes/mouse.mm9.genome
+drwxr-xr-x root/root 0 2011-06-08 11:20 ./usr/bin/
+-rwxr-xr-x root/root 154992 2011-06-08 11:20 ./usr/bin/annotateBed
+-rwxr-xr-x root/root 92944 2011-06-08 11:20 ./usr/bin/bamToBed
+-rwxr-xr-x root/root 85044 2011-06-08 11:20 ./usr/bin/bed12ToBed6
+-rwxr-xr-x root/root 116936 2011-06-08 11:20 ./usr/bin/bedToBam
+-rwxr-xr-x root/root 104552 2011-06-08 11:20 ./usr/bin/bedToIgv
+-rwxr-xr-x root/root 100452 2011-06-08 11:20 ./usr/bin/closestBed
+-rwxr-xr-x root/root 97724 2011-06-08 11:20 ./usr/bin/complementBed
+-rwxr-xr-x root/root 157912 2011-06-08 11:20 ./usr/bin/coverageBed
+-rwxr-xr-x root/root 125116 2011-06-08 11:20 ./usr/bin/cuffToTrans
+-rwxr-xr-x root/root 125116 2011-06-08 11:20 ./usr/bin/fastaFromBed
+-rwxr-xr-x root/root 174308 2011-06-08 11:20 ./usr/bin/fjoin
+-rwxr-xr-x root/root 100540 2011-06-08 11:20 ./usr/bin/flankBed
+-rwxr-xr-x root/root 174708 2011-06-08 11:20 ./usr/bin/genomeCoverageBed
+-rwxr-xr-x root/root 174308 2011-06-08 11:20 ./usr/bin/intersectBed
+-rwxr-xr-x root/root 96356 2011-06-08 11:20 ./usr/bin/linksBed
+-rwxr-xr-x root/root 96368 2011-06-08 11:20 ./usr/bin/maskFastaFromBed
+-rwxr-xr-x root/root 100452 2011-06-08 11:20 ./usr/bin/mergeBed
+-rwxr-xr-x root/root 88460 2011-06-08 11:20 ./usr/bin/overlap
+-rwxr-xr-x root/root 190712 2011-06-08 11:20 ./usr/bin/pairToBed
+-rwxr-xr-x root/root 121644 2011-06-08 11:20 ./usr/bin/pairToPair
+-rwxr-xr-x root/root 109516 2011-06-08 11:20 ./usr/bin/shuffleBed
+-rwxr-xr-x root/root 97716 2011-06-08 11:20 ./usr/bin/slopBed
+-rwxr-xr-x root/root 101040 2011-06-08 11:20 ./usr/bin/sortBed
+-rwxr-xr-x root/root 92260 2011-06-08 11:20 ./usr/bin/subtractBed
+-rwxr-xr-x root/root 60992 2011-06-08 11:20 ./usr/bin/unionBedGraphs
+-rwxr-xr-x root/root 163144 2011-06-08 11:20 ./usr/bin/windowBed
+
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Finished │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
+Purging /home/buildd/build/chroot-sid/build/buildd-bedtools_2.12.0-1-hurd-i386-W43v1Y
+(Reading database ... 14424 files and directories currently installed.)
+Removing zlib1g-dev ...
+Removing cdbs ...
+Removing debhelper ...
+Removing po-debconf ...
+Removing quilt ...
+Purging configuration files for quilt ...
+Removing intltool-debian ...
+Removing gettext ...
+Removing file ...
+Purging configuration files for file ...
+Removing diffstat ...
+Removing html2text ...
+Purging configuration files for html2text ...
+Removing gettext-base ...
+Removing libunistring0 ...
+Purging configuration files for libunistring0 ...
+Removing libcroco3 ...
+Purging configuration files for libcroco3 ...
+Removing libmagic1 ...
+Purging configuration files for libmagic1 ...
+Removing libexpat1 ...
+Purging configuration files for libexpat1 ...
+Removing libxml2 ...
+Purging configuration files for libxml2 ...
+Removing libglib2.0-0 ...
+Purging configuration files for libglib2.0-0 ...
+Processing triggers for man-db ...
+Processing triggers for install-info ...
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20110608-1122
+Build needed 00:14:54, 56880k disc space
+
diff --git a/amd64.log b/i386.log
similarity index 59%
copy from amd64.log
copy to i386.log
index 36d4346..3aa96f9 100644
--- a/amd64.log
+++ b/i386.log
@@ -1,86 +1,168 @@
-sbuild (Debian sbuild) 0.62.2 (05 Apr 2011) on anx191
+From buildd at murphy.debian.org Wed Jun 08 12:15:53 2011
+Return-path: <buildd at murphy.debian.org>
+Received: from kokkonen.debian.org ([2001:41b8:202:deb:1a1a:0:52c3:4b61])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=kokkonen.debian.org,
+ EMAIL=hostmaster at kokkonen.debian.org (verified)
+ by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at murphy.debian.org>)
+ id 1QUHft-0000YX-3c
+ for logs at buildd.debian.org; Wed, 08 Jun 2011 12:15:53 +0000
+Received: from murphy.debian.org ([70.103.162.31])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=murphy.debian.org, EMAIL=hostmaster at murphy.debian.org (verified)
+ by kokkonen.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at murphy.debian.org>)
+ id 1QUHfs-0002CN-3E
+ for logs at buildd.debian.org; Wed, 08 Jun 2011 12:15:52 +0000
+Received: from buildd by murphy.debian.org with local (Exim 4.72)
+ (envelope-from <buildd at murphy.debian.org>)
+ id 1QUHfq-0001hr-BT; Wed, 08 Jun 2011 12:15:50 +0000
+Message-Id: <E1QUHfq-0001hr-BT at murphy.debian.org>
+MIME-Version: 1.0
+Content-Transfer-Encoding: binary
+X-Mailer: MIME::Lite 3.027 (F2.77; B3.08; Q3.08)
+Date: Wed, 8 Jun 2011 12:15:50 +0000
+From: buildd on murphy <buildd at murphy.debian.org>
+To: logs at buildd.debian.org,buildd-admin at murphy.debian.org
+Subject: Log for successful build of bedtools_2.12.0-1 on i386 (dist=sid)
+Key-Id: 1C3F1E5E
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on murphy.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bedtools 2.12.0-1 (amd64) 08 Jun 2011 17:20 ║
+║ bedtools 2.12.0-1 (i386) 08 Jun 2011 12:12 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bedtools
Version: 2.12.0-1
Source Version: 2.12.0-1
-Distribution: unstable
-Architecture: amd64
-
-I: NOTICE: Log filtering will replace 'build/bedtools-Ghn37g' with '«BUILDDIR»'
-I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/sid-amd64-sbuild-29088341-52c6-42fd-8a13-78bdff77cf92' with '«CHROOT»'
-
-┌──────────────────────────────────────────────────────────────────────────────┐
-│ Update chroot │
-└──────────────────────────────────────────────────────────────────────────────┘
-
-Hit http://ftp.jp.debian.org sid InRelease
-Hit http://ftp.jp.debian.org sid/main amd64 Packages/DiffIndex
-Hit http://ftp.jp.debian.org sid/main TranslationIndex
-Reading package lists...
+Architecture: i386
+Hit http://incoming.debian.org sid InRelease
+Ign http://incoming.debian.org InRelease
+Get:1 http://incoming.debian.org Release.gpg [836 B]
+Hit http://incoming.debian.org sid/main Sources/DiffIndex
+Hit http://ftp.us.debian.org sid InRelease
+Hit http://incoming.debian.org sid/contrib Sources/DiffIndex
+Hit http://incoming.debian.org sid/main i386 Packages/DiffIndex
+Hit http://incoming.debian.org sid/contrib i386 Packages/DiffIndex
+Ign http://incoming.debian.org sid/contrib TranslationIndex
+Hit http://incoming.debian.org sid/main TranslationIndex
+Get:2 http://incoming.debian.org Release [1604 B]
+Hit http://ftp.us.debian.org sid/main Sources/DiffIndex
+Hit http://ftp.us.debian.org sid/contrib Sources/DiffIndex
+Get:3 http://incoming.debian.org Sources [49.9 kB]
+Hit http://ftp.us.debian.org sid/main i386 Packages/DiffIndex
+Hit http://ftp.us.debian.org sid/contrib i386 Packages/DiffIndex
+Ign http://ftp.us.debian.org sid/contrib TranslationIndex
+Hit http://ftp.us.debian.org sid/main TranslationIndex
+Get:4 http://incoming.debian.org Packages [473 kB]
+Ign http://ftp.us.debian.org sid/contrib Translation-en
+Ign http://incoming.debian.org sid/contrib Translation-en
+Ign http://incoming.debian.org Translation-en
+Fetched 525 kB in 4s (115 kB/s)
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
-─────────────
+Check APT
+─────────
-bedtools_2.12.0-1.dsc exists in .; copying to chroot
+Checking available source versions...
+
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+NOTICE: 'bedtools' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/git/debian-med/bedtools.git
+Need to get 796 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.12.0-1 (dsc) [1924 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.12.0-1 (tar) [790 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.12.0-1 (diff) [4198 B]
+Fetched 796 kB in 2s (323 kB/s)
+Download complete and in download only mode
Check arch
──────────
-Merged Build-Depends: build-essential, fakeroot
-Filtered Build-Depends: build-essential, fakeroot
-dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/«BUILDDIR»/resolver-XV0Q8j/apt_archive/sbuild-build-depends-core-dummy.deb'.
-OK
-Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install core build dependencies (apt-based resolver) │
+│ Install core build dependencies (internal resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
-Installing build dependencies
+Build-Depends: build-essential, fakeroot
+Checking for already installed dependencies...
+build-essential: already installed (11.5)
+fakeroot: already installed (1.15.1-1)
+Checking for dependency conflicts...
+Installing positive dependencies:
Reading package lists...
Building dependency tree...
Reading state information...
-The following NEW packages will be installed:
- sbuild-build-depends-core-dummy
-debconf: delaying package configuration, since apt-utils is not installed
-0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded.
-Need to get 0 B/706 B of archives.
-After this operation, 0 B of additional disk space will be used.
-Selecting previously deselected package sbuild-build-depends-core-dummy.
-(Reading database ... 10807 files and directories currently installed.)
-Unpacking sbuild-build-depends-core-dummy (from .../sbuild-build-depends-core-dummy.deb) ...
-Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
-Merged Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), cdbs, debhelper (>= 8), quilt, zlib1g-dev
-Filtered Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), cdbs, debhelper (>= 8), quilt, zlib1g-dev
-dpkg-deb: building package `sbuild-build-depends-bedtools-dummy' in `/«BUILDDIR»/resolver-JPNhUl/apt_archive/sbuild-build-depends-bedtools-dummy.deb'.
-OK
+0 upgraded, 0 newly installed, 0 to remove and 3 not upgraded.
+Removing negative dependencies:
Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 3 not upgraded.
+Checking correctness of dependencies...
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install bedtools build dependencies (apt-based resolver) │
+│ Install bedtools build dependencies (internal resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
-Installing build dependencies
+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), quilt, zlib1g-dev
+Checking for already installed dependencies...
+base-files: already installed (6.4)
+base-passwd: already installed (3.5.22)
+bash: already installed (4.1-3)
+coreutils: already installed (8.5-1)
+dash: already installed (0.5.5.1-7.4)
+debianutils: already installed (4.0.1)
+diffutils: already installed (1:3.0-1)
+dpkg: already installed (1.16.0.3)
+e2fsprogs: already installed (1.41.12-4)
+findutils: already installed (4.4.2-1+b1)
+grep: already installed (2.8-2)
+gzip: already installed (1.3.12-9)
+hostname: already installed (3.06)
+ncurses-base: already installed (5.9-1)
+ncurses-bin: already installed (5.9-1)
+perl-base: already installed (5.12.3-7)
+sed: already installed (4.2.1-9)
+login: already installed (1:4.1.4.2+svn3283-3)
+sysvinit-utils: already installed (2.88dsf-13.7)
+sysvinit: already installed (2.88dsf-13.7)
+tar: already installed (1.25-3)
+bsdutils: already installed (1:2.17.2-9.1)
+mount: already installed (2.17.2-9.1)
+util-linux: already installed (2.17.2-9.1)
+libc6-dev: already installed (2.13-5)
+gcc: already installed (4:4.6.0-5 >= 4:4.4.3 is satisfied)
+g++: already installed (4:4.6.0-5 >= 4:4.4.3 is satisfied)
+make: already installed (3.81-8.1)
+dpkg-dev: already installed (1.16.0.3 >= 1.13.5 is satisfied)
+cdbs: missing
+debhelper: missing
+Using default version 8.1.6
+quilt: missing
+zlib1g-dev: missing
+Checking for dependency conflicts...
+Installing positive dependencies: cdbs debhelper quilt zlib1g-dev
Reading package lists...
Building dependency tree...
Reading state information...
The following extra packages will be installed:
- bsdmainutils cdbs debhelper diffstat file gettext gettext-base groff-base
- html2text intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3
- libpipeline1 libunistring0 libxml2 man-db po-debconf quilt zlib1g-dev
+ bsdmainutils diffstat file gettext gettext-base groff-base html2text
+ intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1
+ libunistring0 libxml2 man-db po-debconf
Suggested packages:
wamerican wordlist whois vacation devscripts dh-make gettext-doc groff less
www-browser libmail-box-perl procmail graphviz
@@ -90,45 +172,40 @@ Recommended packages:
The following NEW packages will be installed:
bsdmainutils cdbs debhelper diffstat file gettext gettext-base groff-base
html2text intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3
- libpipeline1 libunistring0 libxml2 man-db po-debconf quilt
- sbuild-build-depends-bedtools-dummy zlib1g-dev
-0 upgraded, 22 newly installed, 0 to remove and 0 not upgraded.
-Need to get 2248 kB/9858 kB of archives.
-After this operation, 28.8 MB of additional disk space will be used.
-Get:1 http://ftp.jp.debian.org/debian/ sid/main bsdmainutils amd64 8.2.3 [208 kB]
-Get:2 http://ftp.jp.debian.org/debian/ sid/main groff-base amd64 1.21-6 [1150 kB]
-Get:3 http://ftp.jp.debian.org/debian/ sid/main libxml2 amd64 2.7.8.dfsg-3 [890 kB]
+ libpipeline1 libunistring0 libxml2 man-db po-debconf quilt zlib1g-dev
debconf: delaying package configuration, since apt-utils is not installed
-Fetched 2248 kB in 0s (4582 kB/s)
+0 upgraded, 21 newly installed, 0 to remove and 3 not upgraded.
+Need to get 0 B/9487 kB of archives.
+After this operation, 28.3 MB of additional disk space will be used.
Selecting previously deselected package bsdmainutils.
-(Reading database ... 10807 files and directories currently installed.)
-Unpacking bsdmainutils (from .../bsdmainutils_8.2.3_amd64.deb) ...
+(Reading database ... 10855 files and directories currently installed.)
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.3_i386.deb) ...
Selecting previously deselected package groff-base.
-Unpacking groff-base (from .../groff-base_1.21-6_amd64.deb) ...
+Unpacking groff-base (from .../groff-base_1.21-6_i386.deb) ...
Selecting previously deselected package libpipeline1.
-Unpacking libpipeline1 (from .../libpipeline1_1.2.0-2_amd64.deb) ...
+Unpacking libpipeline1 (from .../libpipeline1_1.2.0-2_i386.deb) ...
Selecting previously deselected package man-db.
-Unpacking man-db (from .../man-db_2.6.0.2-1_amd64.deb) ...
+Unpacking man-db (from .../man-db_2.6.0.2-1_i386.deb) ...
Selecting previously deselected package libmagic1.
-Unpacking libmagic1 (from .../libmagic1_5.04-5+b1_amd64.deb) ...
+Unpacking libmagic1 (from .../libmagic1_5.04-5+b1_i386.deb) ...
Selecting previously deselected package file.
-Unpacking file (from .../file_5.04-5+b1_amd64.deb) ...
+Unpacking file (from .../file_5.04-5+b1_i386.deb) ...
Selecting previously deselected package gettext-base.
-Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_amd64.deb) ...
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_i386.deb) ...
Selecting previously deselected package libpcre3.
-Unpacking libpcre3 (from .../libpcre3_8.12-3_amd64.deb) ...
+Unpacking libpcre3 (from .../libpcre3_8.12-3_i386.deb) ...
Selecting previously deselected package libxml2.
-Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-3_amd64.deb) ...
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-3_i386.deb) ...
Selecting previously deselected package html2text.
-Unpacking html2text (from .../html2text_1.3.2a-15_amd64.deb) ...
+Unpacking html2text (from .../html2text_1.3.2a-15_i386.deb) ...
Selecting previously deselected package libglib2.0-0.
-Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.6-1_amd64.deb) ...
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.6-1_i386.deb) ...
Selecting previously deselected package libcroco3.
-Unpacking libcroco3 (from .../libcroco3_0.6.2-1_amd64.deb) ...
+Unpacking libcroco3 (from .../libcroco3_0.6.2-1_i386.deb) ...
Selecting previously deselected package libunistring0.
-Unpacking libunistring0 (from .../libunistring0_0.9.3-4_amd64.deb) ...
+Unpacking libunistring0 (from .../libunistring0_0.9.3-4_i386.deb) ...
Selecting previously deselected package gettext.
-Unpacking gettext (from .../gettext_0.18.1.1-3_amd64.deb) ...
+Unpacking gettext (from .../gettext_0.18.1.1-3_i386.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.
@@ -138,13 +215,11 @@ Unpacking debhelper (from .../debhelper_8.1.6_all.deb) ...
Selecting previously deselected package cdbs.
Unpacking cdbs (from .../archives/cdbs_0.4.94_all.deb) ...
Selecting previously deselected package diffstat.
-Unpacking diffstat (from .../diffstat_1.54-1_amd64.deb) ...
+Unpacking diffstat (from .../diffstat_1.54-1_i386.deb) ...
Selecting previously deselected package quilt.
Unpacking quilt (from .../archives/quilt_0.48-7_all.deb) ...
Selecting previously deselected package zlib1g-dev.
-Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_amd64.deb) ...
-Selecting previously deselected package sbuild-build-depends-bedtools-dummy.
-Unpacking sbuild-build-depends-bedtools-dummy (from .../sbuild-build-depends-bedtools-dummy.deb) ...
+Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_i386.deb) ...
Setting up bsdmainutils (8.2.3) ...
update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode.
update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode.
@@ -170,15 +245,15 @@ Setting up cdbs (0.4.94) ...
Setting up diffstat (1.54-1) ...
Setting up quilt (0.48-7) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
-Setting up sbuild-build-depends-bedtools-dummy (0.invalid.0) ...
-
-┌──────────────────────────────────────────────────────────────────────────────┐
-│ Build environment │
-└──────────────────────────────────────────────────────────────────────────────┘
-
-Kernel: Linux 2.6.32-5-amd64 amd64 (x86_64)
-Toolchain package versions: binutils_2.21.52.20110606-1 dpkg-dev_1.16.0.3 g++-4.6_4.6.0-11 gcc-4.6_4.6.0-11 libc6-dev_2.13-5 libstdc++6_4.6.0-11 libstdc++6-4.6-dev_4.6.0-11 linux-libc-dev_2.6.39-1+b1
-Package versions: apt_0.8.14.1 base-files_6.4 base-passwd_3.5.22 bash_4.1-3 binutils_2.21.52.20110606-1 bsdmainutils_8.2.3 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.94 coreutils_8.5-1 cpp_4:4.6.0-5 cpp-4.6_4.6.0-11 dash_0.5.5.1-7.4 debconf_1.5.39 debconf-i18n_1.5.39 debfoster_2.7-1.1 debhelper_8.1.6 debian-archive-keyring_2010.08.28 debianutils_4.0.1 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.41.12-4 e2fsprogs_1.41.12-4 fakeroot_1.15.1-1 file_5.04-5+b1 findutils_4.4.2-1+b1 g++_4:4.6.0-5 g++-4.6_4.6.0-11 gcc_4:4.6.0-5 gcc-4.6_4.6.0-11 gcc-4.6-base_4.6.0-11 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.8-2 groff-base_1.21-6 gzip_1.3.12-9 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.7 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-5 libattr1_1:2.4.44-3 libblkid1_2.17.2-9.1 libbz2-1.0_1.0.5-6 libc-bin_2.13-5 libc-dev-bin_2.13-5 libc6_2.13-5 libc6-dev_2.13-5 libclass-isa-perl_0.36-1 libcloog-ppl0_0.15.9-3 libcomerr2_1.41.12-4 libcroco3_0.6.2-1 libdb4.7_4.7.25-20 libdb4.8_4.8.30-8 libdb5.1_5.1.25-10 libdpkg-perl_1.16.0.3 libelfg0_0.8.13-1 libgc1c2_1:7.1-8 libgcc1_1:4.6.0-11 libgdbm3_1.8.3-9 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.1+dfsg-7 libgmpxx4ldbl_2:5.0.1+dfsg-7 libgomp1_4.6.0-11 liblocale-gettext-perl_1.05-6+b1 liblzma2_5.0.0-2 libmagic1_5.04-5+b1 libmpc2_0.9-3 libmpfr4_3.0.1-3 libncurses5_5.9-1 libpam-modules_1.1.3-1 libpam-runtime_1.1.3-1 libpam0g_1.1.3-1 libpcre3_8.12-3 libpipeline1_1.2.0-2 libpod-plainer-perl_1.03-1 libppl-c4_0.11.2-3 libppl9_0.11.2-3 libpwl5_0.11.2-3 libquadmath0_4.6.0-11 libreadline6_6.2-2 libselinux1_2.0.98-1+b1 libsepol1_2.0.42-1 libslang2_2.2.4-2 libss2_1.41.12-4 libstdc++6_4.6.0-11 libstdc++6-4.6-dev_4.6.0-11 libswitch-perl_2.16-1 libtext-charwidth-perl_0.04-6+b1 libtext-iconv-perl_1.7-2+b1 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-17 libuuid1_2.17.2-9.1 libxml2_2.7.8.dfsg-3 linux-libc-dev_2.6.39-1+b1 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-27 make_3.81-8.1 man-db_2.6.0.2-1 mawk_1.3.3-15 mount_2.17.2-9.1 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.3-7 perl-base_5.12.3-7 perl-modules_5.12.3-7 po-debconf_1.0.16+nmu1 quilt_0.48-7 readline-common_6.2-2 sbuild-build-depends-bedtools-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 sed_4.2.1-9 sensible-utils_0.0.6 sysv-rc_2.88dsf-13.7 sysvinit_2.88dsf-13.7 sysvinit-utils_2.88dsf-13.7 tar_1.25-3 tzdata_2011g-1 util-linux_2.17.2-9.1 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+Removing negative dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 3 not upgraded.
+Checking correctness of dependencies...
+Kernel: Linux 2.6.32-5-686-bigmem i386 (i686)
+Toolchain package versions: binutils_2.21.52.20110606-1 dpkg-dev_1.16.0.3 g++-4.6_4.6.0-11 gcc-4.6_4.6.0-11 libc6-dev_2.13-5 libstdc++6_4.6.0-11 libstdc++6-4.6-dev_4.6.0-11 linux-libc-dev_2.6.39-1
+Package versions: apt_0.8.14.1 base-files_6.4 base-passwd_3.5.22 bash_4.1-3 binutils_2.21.52.20110606-1 bsdmainutils_8.2.3 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.94 coreutils_8.5-1 cpp_4:4.6.0-5 cpp-4.6_4.6.0-11 dash_0.5.5.1-7.4 debconf_1.5.39 debfoster_2.7-1.1 debhelper_8.1.6 debian-archive-keyring_2010.08.28 debianutils_4.0.1 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.41.12-4 e2fsprogs_1.41.12-4 fakeroot_1.15.1-1 file_5.04-5+b1 findutils_4.4.2-1+b1 g++_4:4.6.0-5 g++-4.6_4.6.0-11 gawk_1:3.1.7.dfsg-5 gcc_4:4.6.0-5 gcc-4.6_4.6.0-11 gcc-4.6-base_4.6.0-11 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.8-2 groff-base_1.21-6 gzip_1.3.12-9 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.7 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-5 libattr1_1:2.4.44-3 libblkid1_2.17.2-9.1 libbz2-1.0_1.0.5-6 libc-bin_2.13-5 libc-dev-bin_2.13-5 libc6_2.13-5 libc6-dev_2.13-5 libcloog-ppl0_0.15.9-3 libcomerr2_1.41.12-4 libcroco3_0.6.2-1 libdb5.1_5.1.25-10 libdpkg-perl_1.16.0.3 libgc1c2_1:7.1-8 libgcc1_1:4.6.0-11 libgdbm3_1.8.3-9 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.1+dfsg-7 libgmpxx4ldbl_2:5.0.1+dfsg-7 libgomp1_4.6.0-11 liblzma2_5.0.0-2 libmagic1_5.04-5+b1 libmpc2_0.9-3 libmpfr4_3.0.1-3 libncurses5_5.9-1 libpam-modules_1.1.2-3 libpam-runtime_1.1.2-3 libpam0g_1.1.2-3 libpcre3_8.12-3 libpipeline1_1.2.0-2 libppl-c4_0.11.2-3 libppl9_0.11.2-3 libpwl5_0.11.2-3 libquadmath0_4.6.0-11 libreadline6_6.2-2 libselinux1_2.0.98-1+b1 libsepol1_2.0.42-1 libslang2_2.2.4-2 libss2_1.41.12-4 libstdc++6_4.6.0-11 libstdc++6-4.6-dev_4.6.0-11 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-17 libuuid1_2.17.2-9.1 libxml2_2.7.8.dfsg-3 linux-libc-dev_2.6.39-1 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-27 make_3.81-8.1 man-db_2.6.0.2-1 mawk_1.3.3-15 mount_2.17.2-9.1 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.3-7 perl-base_5.12.3-7 perl-modules_5.12.3-7 po-debconf_1.0.16+nmu1 quilt_0.48-7 readline-common_6.2-2 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.7.4p6-1 sysv-rc_2.88dsf-13.7 sysvinit_2.88dsf-13.7 sysvinit-utils_2.88dsf-13.7 tar_1.25-3 tzdata_2011g-1 util-linux_2.17.2-9.1 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -188,7 +263,10 @@ Package versions: apt_0.8.14.1 base-files_6.4 base-passwd_3.5.22 bash_4.1-3 binu
Unpack source
─────────────
-dpkg-source: warning: extracting unsigned source package (bedtools_2.12.0-1.dsc)
+gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Wed Jun 8 08:23:42 2011 UTC using RSA key ID 2295D502
+gpgv: Can't check signature: public key not found
+dpkg-source: warning: failed to verify signature on ./bedtools_2.12.0-1.dsc
dpkg-source: info: extracting bedtools in bedtools-2.12.0
dpkg-source: info: unpacking bedtools_2.12.0.orig.tar.bz2
dpkg-source: info: unpacking bedtools_2.12.0-1.debian.tar.gz
@@ -197,7 +275,6 @@ dpkg-source: info: applying gzstream.h.patch
Check disc space
────────────────
-Sufficient free space for build
dpkg-buildpackage
─────────────────
@@ -209,24 +286,23 @@ dpkg-buildpackage: export FFLAGS from dpkg-buildflags (origin: vendor): -g -O2
dpkg-buildpackage: export LDFLAGS from dpkg-buildflags (origin: vendor):
dpkg-buildpackage: source package bedtools
dpkg-buildpackage: source version 2.12.0-1
-dpkg-buildpackage: source changed by Charles Plessy <plessy at debian.org>
dpkg-source --before-build bedtools-2.12.0
-dpkg-buildpackage: host architecture amd64
+dpkg-buildpackage: host architecture i386
fakeroot debian/rules clean
test -x debian/rules
dh_testroot
rm -f debian/stamp-makefile-build debian/stamp-makefile-install
/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" CPPFLAGS="" LDFLAGS="" -k clean
-make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-i386-CoZuzJ/bedtools-2.12.0'
Cleaning up.
-make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-i386-CoZuzJ/bedtools-2.12.0'
dh_clean
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-i386-CoZuzJ/bedtools-2.12.0'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-i386-CoZuzJ/bedtools-2.12.0'
if [ -d "." ]; then \
- cd . && QUILT_PATCHES=/«BUILDDIR»/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
+ cd . && QUILT_PATCHES=/build/buildd-bedtools_2.12.0-1-i386-CoZuzJ/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
fi
Removing patch gzstream.h.patch
Restoring src/utils/gzstream/gzstream.C
@@ -234,29 +310,25 @@ Restoring src/utils/gzstream/gzstream.C
No patches applied
rm -rf ./.pc
rm -f debian/stamp-patch*
- dpkg-source -b bedtools-2.12.0
-dpkg-source: info: using source format `3.0 (quilt)'
-dpkg-source: warning: patches have not been applied, applying them now (use --no-preparation to override)
-dpkg-source: info: applying gzstream.h.patch
-dpkg-source: info: building bedtools using existing ./bedtools_2.12.0.orig.tar.bz2
-dpkg-source: info: building bedtools in bedtools_2.12.0-1.debian.tar.gz
-dpkg-source: info: building bedtools in bedtools_2.12.0-1.dsc
debian/rules build
test -x debian/rules
mkdir -p "."
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-i386-CoZuzJ/bedtools-2.12.0'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
-cd . && QUILT_PATCHES=/«BUILDDIR»/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
-File series fully applied, ends at patch gzstream.h.patch
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-i386-CoZuzJ/bedtools-2.12.0'
+cd . && QUILT_PATCHES=/build/buildd-bedtools_2.12.0-1-i386-CoZuzJ/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
+Applying patch gzstream.h.patch
+patching file src/utils/gzstream/gzstream.C
+
+Now at patch gzstream.h.patch
touch debian/stamp-patched
/usr/bin/make -f debian/rules update-config
-make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-i386-CoZuzJ/bedtools-2.12.0'
make[1]: Nothing to be done for `update-config'.
-make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-i386-CoZuzJ/bedtools-2.12.0'
/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" CPPFLAGS="" LDFLAGS=""
-make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-i386-CoZuzJ/bedtools-2.12.0'
[ -d obj ] || mkdir -p obj
[ -d bin ] || mkdir -p bin
Building BEDTools:
@@ -459,10 +531,10 @@ unionBedGraphsMain.cpp:49:10: warning: variable 'haveFiller' set but not used [-
* compiling windowBed.cpp
* linking windowBed
-make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-i386-CoZuzJ/bedtools-2.12.0'
touch debian/stamp-makefile-build
DEB_MAKE_CHECK_TARGET unset, not running checks
- fakeroot debian/rules binary
+ fakeroot debian/rules binary-arch
test -x debian/rules
dh_testroot
dh_prep
@@ -503,36 +575,25 @@ dh_shlibdeps -pbedtools
dh_gencontrol -pbedtools
dh_md5sums -pbedtools
dh_builddeb -pbedtools
-dpkg-deb: building package `bedtools' in `../bedtools_2.12.0-1_amd64.deb'.
- dpkg-genchanges >../bedtools_2.12.0-1_amd64.changes
-dpkg-genchanges: including full source code in upload
+dpkg-deb: building package `bedtools' in `../bedtools_2.12.0-1_i386.deb'.
+ dpkg-genchanges -B -mi386 Build Daemon (murphy) <buildd_i386-murphy at buildd.debian.org> >../bedtools_2.12.0-1_i386.changes
+dpkg-genchanges: arch-specific upload - not including arch-independent packages
+dpkg-genchanges: binary-only upload - not including any source code
dpkg-source --after-build bedtools-2.12.0
-dpkg-buildpackage: full upload (original source is included)
+dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110608-1722
-
-Finished
-────────
-
-I: Built successfully
-
-┌──────────────────────────────────────────────────────────────────────────────┐
-│ Changes │
-└──────────────────────────────────────────────────────────────────────────────┘
-
-
-bedtools_2.12.0-1_amd64.changes:
-────────────────────────────────
+Build finished at 20110608-1215
+bedtools_2.12.0-1_i386.changes:
Format: 1.8
Date: Wed, 08 Jun 2011 17:01:19 +0900
Source: bedtools
Binary: bedtools
-Architecture: source amd64
+Architecture: i386
Version: 2.12.0-1
-Distribution: unstable
+Distribution: sid
Urgency: low
-Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Maintainer: i386 Build Daemon (murphy) <buildd_i386-murphy at buildd.debian.org>
Changed-By: Charles Plessy <plessy at debian.org>
Description:
bedtools - suite of utilities for comparing genomic features
@@ -542,39 +603,30 @@ Changes:
.
* Initial release (Closes: #629597)
Checksums-Sha1:
- a9095eb961b38ca925d1f55e19f125f442acdbb6 1038 bedtools_2.12.0-1.dsc
- 2ba712dc9a2642ae2172402983811855309f7ae1 790069 bedtools_2.12.0.orig.tar.bz2
- e8fcc348a7548dd0aea5c53668420f8e91b089cb 4198 bedtools_2.12.0-1.debian.tar.gz
- 04880b3f2b1d8f0b640d65431a974f477b55dd28 1614122 bedtools_2.12.0-1_amd64.deb
+ 6315facc69b47d23b0221f3cd3629dbf5315533e 1615774 bedtools_2.12.0-1_i386.deb
Checksums-Sha256:
- 173926b694c984031b7c0a0f1230225aaa4440c59571c31e1e8589490bc607ba 1038 bedtools_2.12.0-1.dsc
- 9b57249d8891f2da2c6adc55b3088b3f5b10c35b01a106bbd129824c51290a98 790069 bedtools_2.12.0.orig.tar.bz2
- 82758e0c528cf60f44e4f4488a03b1aa4d0b65dbedc06216724152d460230c72 4198 bedtools_2.12.0-1.debian.tar.gz
- 5f7d3e1b741e860549fca03274bbe0036c64d94eb5032b941d42b7c56bd3966e 1614122 bedtools_2.12.0-1_amd64.deb
+ 4de8206917bc8706a2304dc3fd39d1dceeb67489449f032660e841424d202648 1615774 bedtools_2.12.0-1_i386.deb
Files:
- 1c725960544ec5f66c442b7db17331c3 1038 science optional bedtools_2.12.0-1.dsc
- cf6c7cd9d457605c7602005b9037abfd 790069 science optional bedtools_2.12.0.orig.tar.bz2
- 578d850a5a0439b34a4a407897b02dbb 4198 science optional bedtools_2.12.0-1.debian.tar.gz
- 3de472bdc6e0e95d969ac4b0bfc89482 1614122 science optional bedtools_2.12.0-1_amd64.deb
+ 68d0fd75888ab4a4da48b81c0ebfc17c 1615774 science optional bedtools_2.12.0-1_i386.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bedtools_2.12.0-1_amd64.deb
-───────────────────────────
+bedtools_2.12.0-1_i386.deb
+──────────────────────────
new debian package, version 2.0.
- size 1614122 bytes: control archive= 1651 bytes.
- 763 bytes, 15 lines control
+ size 1615774 bytes: control archive= 1651 bytes.
+ 761 bytes, 15 lines control
1978 bytes, 34 lines md5sums
Package: bedtools
Version: 2.12.0-1
- Architecture: amd64
+ Architecture: i386
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 3720
- Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
+ Installed-Size: 3712
+ Depends: libc6 (>= 2.13), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
Section: science
Priority: optional
Homepage: http://code.google.com/p/bedtools/
@@ -585,64 +637,66 @@ bedtools_2.12.0-1_amd64.deb
BEDTools, one can develop sophisticated pipelines that answer complicated
research questions by streaming several BEDTools together.
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/bin/
--rwxr-xr-x root/root 126456 2011-06-08 17:22 ./usr/bin/bedToIgv
--rwxr-xr-x root/root 138920 2011-06-08 17:22 ./usr/bin/bedToBam
--rwxr-xr-x root/root 69112 2011-06-08 17:22 ./usr/bin/unionBedGraphs
--rwxr-xr-x root/root 175808 2011-06-08 17:22 ./usr/bin/coverageBed
--rwxr-xr-x root/root 123024 2011-06-08 17:22 ./usr/bin/bamToBed
--rwxr-xr-x root/root 118496 2011-06-08 17:22 ./usr/bin/subtractBed
--rwxr-xr-x root/root 114136 2011-06-08 17:22 ./usr/bin/mergeBed
--rwxr-xr-x root/root 114280 2011-06-08 17:22 ./usr/bin/maskFastaFromBed
--rwxr-xr-x root/root 257792 2011-06-08 17:22 ./usr/bin/pairToBed
--rwxr-xr-x root/root 196320 2011-06-08 17:22 ./usr/bin/intersectBed
--rwxr-xr-x root/root 110752 2011-06-08 17:22 ./usr/bin/complementBed
--rwxr-xr-x root/root 200416 2011-06-08 17:22 ./usr/bin/fjoin
--rwxr-xr-x root/root 147088 2011-06-08 17:22 ./usr/bin/fastaFromBed
--rwxr-xr-x root/root 171728 2011-06-08 17:22 ./usr/bin/annotateBed
--rwxr-xr-x root/root 183800 2011-06-08 17:22 ./usr/bin/pairToPair
--rwxr-xr-x root/root 114160 2011-06-08 17:22 ./usr/bin/linksBed
--rwxr-xr-x root/root 118224 2011-06-08 17:22 ./usr/bin/flankBed
--rwxr-xr-x root/root 150976 2011-06-08 17:22 ./usr/bin/sortBed
--rwxr-xr-x root/root 110032 2011-06-08 17:22 ./usr/bin/slopBed
--rwxr-xr-x root/root 188128 2011-06-08 17:22 ./usr/bin/genomeCoverageBed
--rwxr-xr-x root/root 175800 2011-06-08 17:22 ./usr/bin/windowBed
--rwxr-xr-x root/root 101832 2011-06-08 17:22 ./usr/bin/bed12ToBed6
--rwxr-xr-x root/root 126424 2011-06-08 17:22 ./usr/bin/closestBed
--rwxr-xr-x root/root 93640 2011-06-08 17:22 ./usr/bin/overlap
--rwxr-xr-x root/root 147088 2011-06-08 17:22 ./usr/bin/cuffToTrans
--rwxr-xr-x root/root 134672 2011-06-08 17:22 ./usr/bin/shuffleBed
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/share/
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/share/bedtools/
-drwxr-xr-x root/root 0 2011-06-08 17:21 ./usr/share/bedtools/genomes/
--rwxr-xr-x root/root 585 2011-04-04 10:30 ./usr/share/bedtools/genomes/mouse.mm9.genome
--rwxr-xr-x root/root 856 2011-04-04 10:30 ./usr/share/bedtools/genomes/human.hg18.genome
--rwxr-xr-x root/root 565 2011-04-04 10:30 ./usr/share/bedtools/genomes/mouse.mm8.genome
--rwxr-xr-x root/root 1972 2011-04-04 10:30 ./usr/share/bedtools/genomes/human.hg19.genome
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/share/doc/bedtools/
--rw-r--r-- root/root 1586 2011-04-04 10:30 ./usr/share/doc/bedtools/README.rst.gz
--rw-r--r-- root/root 8577 2011-04-04 10:30 ./usr/share/doc/bedtools/changelog.gz
--rw-r--r-- root/root 4611 2011-06-08 16:59 ./usr/share/doc/bedtools/copyright
--rw-r--r-- root/root 156 2011-06-08 17:01 ./usr/share/doc/bedtools/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-06-08 12:15 ./
+drwxr-xr-x root/root 0 2011-06-08 12:15 ./usr/
+drwxr-xr-x root/root 0 2011-06-08 12:15 ./usr/bin/
+-rwxr-xr-x root/root 121144 2011-06-08 12:15 ./usr/bin/bedToIgv
+-rwxr-xr-x root/root 184216 2011-06-08 12:15 ./usr/bin/genomeCoverageBed
+-rwxr-xr-x root/root 96344 2011-06-08 12:15 ./usr/bin/bed12ToBed6
+-rwxr-xr-x root/root 143692 2011-06-08 12:15 ./usr/bin/sortBed
+-rwxr-xr-x root/root 174288 2011-06-08 12:15 ./usr/bin/windowBed
+-rwxr-xr-x root/root 120928 2011-06-08 12:15 ./usr/bin/closestBed
+-rwxr-xr-x root/root 171260 2011-06-08 12:15 ./usr/bin/coverageBed
+-rwxr-xr-x root/root 108664 2011-06-08 12:15 ./usr/bin/maskFastaFromBed
+-rwxr-xr-x root/root 166108 2011-06-08 12:15 ./usr/bin/annotateBed
+-rwxr-xr-x root/root 141500 2011-06-08 12:15 ./usr/bin/cuffToTrans
+-rwxr-xr-x root/root 141500 2011-06-08 12:15 ./usr/bin/fastaFromBed
+-rwxr-xr-x root/root 129276 2011-06-08 12:15 ./usr/bin/shuffleBed
+-rwxr-xr-x root/root 252384 2011-06-08 12:15 ./usr/bin/pairToBed
+-rwxr-xr-x root/root 108640 2011-06-08 12:15 ./usr/bin/mergeBed
+-rwxr-xr-x root/root 105324 2011-06-08 12:15 ./usr/bin/complementBed
+-rwxr-xr-x root/root 88152 2011-06-08 12:15 ./usr/bin/overlap
+-rwxr-xr-x root/root 176576 2011-06-08 12:15 ./usr/bin/pairToPair
+-rwxr-xr-x root/root 106372 2011-06-08 12:15 ./usr/bin/linksBed
+-rwxr-xr-x root/root 113488 2011-06-08 12:15 ./usr/bin/subtractBed
+-rwxr-xr-x root/root 196936 2011-06-08 12:15 ./usr/bin/fjoin
+-rwxr-xr-x root/root 130940 2011-06-08 12:15 ./usr/bin/bedToBam
+-rwxr-xr-x root/root 63600 2011-06-08 12:15 ./usr/bin/unionBedGraphs
+-rwxr-xr-x root/root 118492 2011-06-08 12:15 ./usr/bin/bamToBed
+-rwxr-xr-x root/root 113896 2011-06-08 12:15 ./usr/bin/flankBed
+-rwxr-xr-x root/root 190692 2011-06-08 12:15 ./usr/bin/intersectBed
+-rwxr-xr-x root/root 105036 2011-06-08 12:15 ./usr/bin/slopBed
+drwxr-xr-x root/root 0 2011-06-08 12:15 ./usr/share/
+drwxr-xr-x root/root 0 2011-06-08 12:15 ./usr/share/bedtools/
+drwxr-xr-x root/root 0 2011-06-08 12:12 ./usr/share/bedtools/genomes/
+-rwxr-xr-x root/root 565 2011-04-04 01:30 ./usr/share/bedtools/genomes/mouse.mm8.genome
+-rwxr-xr-x root/root 1972 2011-04-04 01:30 ./usr/share/bedtools/genomes/human.hg19.genome
+-rwxr-xr-x root/root 585 2011-04-04 01:30 ./usr/share/bedtools/genomes/mouse.mm9.genome
+-rwxr-xr-x root/root 856 2011-04-04 01:30 ./usr/share/bedtools/genomes/human.hg18.genome
+drwxr-xr-x root/root 0 2011-06-08 12:15 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-06-08 12:15 ./usr/share/doc/bedtools/
+-rw-r--r-- root/root 156 2011-06-08 08:01 ./usr/share/doc/bedtools/changelog.Debian.gz
+-rw-r--r-- root/root 4611 2011-06-08 07:59 ./usr/share/doc/bedtools/copyright
+-rw-r--r-- root/root 8577 2011-04-04 01:30 ./usr/share/doc/bedtools/changelog.gz
+-rw-r--r-- root/root 1586 2011-04-04 01:30 ./usr/share/doc/bedtools/README.rst.gz
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Post Build │
+│ Finished │
└──────────────────────────────────────────────────────────────────────────────┘
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Cleanup │
+│ Post Build │
└──────────────────────────────────────────────────────────────────────────────┘
-Purging /«CHROOT»/«BUILDDIR»
+Purging /var/lib/schroot/mount/sid-i386-sbuild-5b04930d-997f-4435-9442-a0f07b8f6bc8/build/buildd-bedtools_2.12.0-1-i386-CoZuzJ
Reading package lists...
Building dependency tree...
Reading state information...
-0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 3 not upgraded.
Reading package lists...
Building dependency tree...
Reading state information...
@@ -650,12 +704,10 @@ The following packages will be REMOVED:
bsdmainutils* cdbs* debhelper* diffstat* file* gettext* gettext-base*
groff-base* html2text* intltool-debian* libcroco3* libglib2.0-0* libmagic1*
libpcre3* libpipeline1* libunistring0* libxml2* man-db* po-debconf* quilt*
- sbuild-build-depends-bedtools-dummy* sbuild-build-depends-core-dummy*
zlib1g-dev*
-0 upgraded, 0 newly installed, 23 to remove and 0 not upgraded.
-After this operation, 28.8 MB disk space will be freed.
-(Reading database ... 12285 files and directories currently installed.)
-Removing sbuild-build-depends-bedtools-dummy ...
+0 upgraded, 0 newly installed, 21 to remove and 3 not upgraded.
+After this operation, 28.3 MB disk space will be freed.
+(Reading database ... 12328 files and directories currently installed.)
Removing cdbs ...
Removing debhelper ...
Removing man-db ...
@@ -688,25 +740,25 @@ Removing libunistring0 ...
Purging configuration files for libunistring0 ...
Removing libxml2 ...
Purging configuration files for libxml2 ...
-Removing sbuild-build-depends-core-dummy ...
Removing zlib1g-dev ...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Summary │
└──────────────────────────────────────────────────────────────────────────────┘
-Architecture: amd64
-Build-Space: 103228
-Build-Time: 67
-Distribution: unstable
-Install-Time: 27
-Job: bedtools_2.12.0-1.dsc
+Architecture: i386
+Build-Space: 71128
+Build-Time: 171
+Distribution: sid
+Install-Time: 10
+Job: bedtools_2.12.0-1
Package: bedtools
-Package-Time: 98
+Package-Time: 192
Source-Version: 2.12.0-1
-Space: 103228
+Space: 71128
Status: successful
Version: 2.12.0-1
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110608-1722
-Build needed 00:01:38, 103228k disc space
+Finished at 20110608-1215
+Build needed 00:03:12, 71128k disc space
+Signature with key '1C3F1E5E' requested:
diff --git a/ia64.log b/ia64.log
new file mode 100644
index 0000000..08b456f
--- /dev/null
+++ b/ia64.log
@@ -0,0 +1,752 @@
+From buildd at caballero.debian.org Wed Jun 08 16:06:29 2011
+Return-path: <buildd at caballero.debian.org>
+Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=merikanto.debian.org,
+ EMAIL=hostmaster at merikanto.debian.org (verified)
+ by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at caballero.debian.org>)
+ id 1QULH2-00024d-LA
+ for logs at buildd.debian.org; Wed, 08 Jun 2011 16:06:29 +0000
+Received: from caballero.debian.org ([193.201.200.200])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=caballero.debian.org,
+ EMAIL=hostmaster at caballero.debian.org (verified)
+ by merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at caballero.debian.org>)
+ id 1QULGy-0001jR-RA; Wed, 08 Jun 2011 16:06:25 +0000
+Received: from buildd by caballero.debian.org with local (Exim 4.69)
+ (envelope-from <buildd at caballero.debian.org>) id 1QULGx-00071L-MG
+ for buildd-porters at caballero.debian.org; Wed, 08 Jun 2011 16:06:23 +0000
+From: buildd on caballero <buildd at caballero.debian.org>
+To: buildd-porters at caballero.debian.org
+Subject: Log for successful build of bedtools_2.12.0-1 on ia64 (dist=sid)
+Content-Type: text/plain; charset=UTF-8
+Content-Transfer-Encoding: 8bit
+Message-Id: <E1QULGx-00071L-MG at caballero.debian.org>
+Date: Wed, 08 Jun 2011 16:06:23 +0000
+Delivered-To: buildd-porters at caballero.debian.org
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on caballero.debian.org
+
+╔══════════════════════════════════════════════════════════════════════════════╗
+║ bedtools 2.12.0-1 (ia64) 08 Jun 2011 16:01 ║
+╚══════════════════════════════════════════════════════════════════════════════╝
+
+Package: bedtools
+Version: 2.12.0-1
+Source Version: 2.12.0-1
+Architecture: ia64
+Hit http://mirror.positive-internet.com sid InRelease
+Hit http://mirror.positive-internet.com sid/main Sources/DiffIndex
+Hit http://incoming.debian.org sid InRelease
+Ign http://incoming.debian.org InRelease
+Hit http://mirror.positive-internet.com sid/contrib Sources/DiffIndex
+Hit http://mirror.positive-internet.com sid/main ia64 Packages/DiffIndex
+Hit http://mirror.positive-internet.com sid/contrib ia64 Packages/DiffIndex
+Ign http://mirror.positive-internet.com sid/contrib TranslationIndex
+Hit http://mirror.positive-internet.com sid/main TranslationIndex
+Hit http://incoming.debian.org Release.gpg
+Ign http://mirror.positive-internet.com sid/contrib Translation-en
+Hit http://incoming.debian.org sid/main Sources/DiffIndex
+Hit http://incoming.debian.org sid/contrib Sources/DiffIndex
+Hit http://incoming.debian.org sid/main ia64 Packages/DiffIndex
+Hit http://incoming.debian.org sid/contrib ia64 Packages/DiffIndex
+Ign http://incoming.debian.org sid/contrib TranslationIndex
+Hit http://incoming.debian.org sid/main TranslationIndex
+Hit http://incoming.debian.org Release
+Hit http://incoming.debian.org Sources
+Hit http://incoming.debian.org Packages
+Ign http://incoming.debian.org sid/contrib Translation-en
+Ign http://incoming.debian.org Translation-en
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Fetch source files │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Check APT
+─────────
+
+Checking available source versions...
+
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+NOTICE: 'bedtools' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/git/debian-med/bedtools.git
+Need to get 796 kB of source archives.
+Get:1 http://incoming.debian.org/debian/ sid/main bedtools 2.12.0-1 (dsc) [1924 B]
+Get:2 http://incoming.debian.org/debian/ sid/main bedtools 2.12.0-1 (tar) [790 kB]
+Get:3 http://incoming.debian.org/debian/ sid/main bedtools 2.12.0-1 (diff) [4198 B]
+Fetched 796 kB in 1s (610 kB/s)
+Download complete and in download only mode
+
+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 (1.15.1-1)
+Checking for dependency conflicts...
+Installing positive dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 22 not upgraded.
+Removing negative dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 22 not upgraded.
+Checking correctness of dependencies...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install bedtools build dependencies (internal resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6.1-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), cdbs, debhelper (>= 8), quilt, zlib1g-dev
+Checking for already installed dependencies...
+base-files: already installed (6.3)
+base-passwd: already installed (3.5.22)
+bash: already installed (4.1-3)
+coreutils: already installed (8.5-1)
+dash: already installed (0.5.5.1-7.4)
+debianutils: already installed (3.4.4)
+diffutils: already installed (1:3.0-1)
+dpkg: already installed (1.16.0.3)
+e2fsprogs: already installed (1.41.12-4)
+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 (3.06)
+ncurses-base: already installed (5.9-1)
+ncurses-bin: already installed (5.9-1)
+perl-base: already installed (5.12.3-7)
+sed: already installed (4.2.1-9)
+login: already installed (1:4.1.4.2+svn3283-3)
+sysvinit-utils: already installed (2.88dsf-13.2)
+sysvinit: already installed (2.88dsf-13.2)
+tar: already installed (1.25-3)
+bsdutils: already installed (1:2.17.2-9.1)
+mount: already installed (2.17.2-9.1)
+util-linux: already installed (2.17.2-9.1)
+libc6.1-dev: already installed (2.13-4)
+gcc: already installed (4:4.4.5-9 >= 4:4.4.3 is satisfied)
+g++: already installed (4:4.4.5-9 >= 4:4.4.3 is satisfied)
+make: already installed (3.81-8.1)
+dpkg-dev: already installed (1.16.0.3 >= 1.13.5 is satisfied)
+cdbs: missing
+debhelper: missing
+Using default version 8.1.6
+quilt: missing
+zlib1g-dev: missing
+Checking for dependency conflicts...
+Installing positive dependencies: cdbs debhelper quilt zlib1g-dev
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following extra packages will be installed:
+ bsdmainutils diffstat file gettext gettext-base groff-base html2text
+ intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1
+ libunistring0 libxml2 man-db po-debconf
+Suggested packages:
+ wamerican wordlist whois vacation devscripts dh-make gettext-doc groff less
+ www-browser libmail-box-perl procmail graphviz
+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 diffstat file gettext gettext-base groff-base
+ html2text intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3
+ libpipeline1 libunistring0 libxml2 man-db po-debconf quilt zlib1g-dev
+debconf: delaying package configuration, since apt-utils is not installed
+0 upgraded, 21 newly installed, 0 to remove and 22 not upgraded.
+Need to get 0 B/11.5 MB of archives.
+After this operation, 39.9 MB of additional disk space will be used.
+Selecting previously deselected package bsdmainutils.
+(Reading database ... 10487 files and directories currently installed.)
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.3_ia64.deb) ...
+Selecting previously deselected package groff-base.
+Unpacking groff-base (from .../groff-base_1.21-6_ia64.deb) ...
+Selecting previously deselected package libpipeline1.
+Unpacking libpipeline1 (from .../libpipeline1_1.2.0-2_ia64.deb) ...
+Selecting previously deselected package man-db.
+Unpacking man-db (from .../man-db_2.6.0.2-1_ia64.deb) ...
+Selecting previously deselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.04-5+b1_ia64.deb) ...
+Selecting previously deselected package file.
+Unpacking file (from .../file_5.04-5+b1_ia64.deb) ...
+Selecting previously deselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_ia64.deb) ...
+Selecting previously deselected package libpcre3.
+Unpacking libpcre3 (from .../libpcre3_8.12-3_ia64.deb) ...
+Selecting previously deselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-3_ia64.deb) ...
+Selecting previously deselected package html2text.
+Unpacking html2text (from .../html2text_1.3.2a-15_ia64.deb) ...
+Selecting previously deselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.6-1_ia64.deb) ...
+Selecting previously deselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-1_ia64.deb) ...
+Selecting previously deselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-4_ia64.deb) ...
+Selecting previously deselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-3_ia64.deb) ...
+Selecting previously deselected package intltool-debian.
+Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_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_8.1.6_all.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.94_all.deb) ...
+Selecting previously deselected package diffstat.
+Unpacking diffstat (from .../diffstat_1.54-1_ia64.deb) ...
+Selecting previously deselected package quilt.
+Unpacking quilt (from .../archives/quilt_0.48-7_all.deb) ...
+Selecting previously deselected package zlib1g-dev.
+Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_ia64.deb) ...
+Setting up bsdmainutils (8.2.3) ...
+update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode.
+update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode.
+Setting up groff-base (1.21-6) ...
+Setting up libpipeline1 (1.2.0-2) ...
+Setting up man-db (2.6.0.2-1) ...
+Building database of manual pages ...
+Setting up libmagic1 (5.04-5+b1) ...
+Setting up file (5.04-5+b1) ...
+Setting up gettext-base (0.18.1.1-3) ...
+Setting up libpcre3 (8.12-3) ...
+Setting up libxml2 (2.7.8.dfsg-3) ...
+Setting up html2text (1.3.2a-15) ...
+Setting up libglib2.0-0 (2.28.6-1) ...
+No schema files found: doing nothing.
+Setting up libcroco3 (0.6.2-1) ...
+Setting up libunistring0 (0.9.3-4) ...
+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 (8.1.6) ...
+Setting up cdbs (0.4.94) ...
+Setting up diffstat (1.54-1) ...
+Setting up quilt (0.48-7) ...
+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 22 not upgraded.
+Checking correctness of dependencies...
+Kernel: Linux 2.6.32-bpo.5-mckinley ia64 (ia64)
+Toolchain package versions: binutils_2.21.51.20110523-1 dpkg-dev_1.16.0.3 g++-4.4_4.4.6-3 gcc-4.4_4.4.6-3 libc6.1-dev_2.13-4 libstdc++6_4.6.0-11 libstdc++6-4.4-dev_4.4.6-3 linux-libc-dev_2.6.38-5
+Package versions: apt_0.8.14.1 base-files_6.3 base-passwd_3.5.22 bash_4.1-3 binutils_2.21.51.20110523-1 bsdmainutils_8.2.3 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.94 coreutils_8.5-1 cpp_4:4.4.5-9 cpp-4.4_4.4.6-3 dash_0.5.5.1-7.4 debconf_1.5.39 debfoster_2.7-1.1 debhelper_8.1.6 debian-archive-keyring_2010.08.28 debianutils_3.4.4 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.41.12-4 e2fsprogs_1.41.12-4 fakeroot_1.15.1-1 file_5.04-5+b1 findutils_4.4.2-1+b1 g++_4:4.4.5-9 g++-4.4_4.4.6-3 gcc_4:4.4.5-9 gcc-4.4_4.4.6-3 gcc-4.4-base_4.4.6-3 gcc-4.6-base_4.6.0-11 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.6.3-3 groff-base_1.21-6 gzip_1.3.12-9 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.2 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-5 libattr1_1:2.4.44-3 libblkid1_2.17.2-9.1 libbz2-1.0_1.0.5-6 libc-bin_2.13-4 libc-dev-bin_2.13-4 libc6.1_2.13-4 libc6.1-dev_2.13-4 libcomerr2_1.41.12-4 libcroco3_0.6.2-1 libdb5.1_5.1.25-10 libdpkg-perl_1.16.0.3 libgc1c2_1:7.1-8 libgcc1_1:4.6.0-11 libgdbm3_1.8.3-9 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.1+dfsg-7 libgomp1_4.6.0-11 liblzma2_5.0.0-2 libmagic1_5.04-5+b1 libmpfr4_3.0.1-3 libncurses5_5.9-1 libpam-modules_1.1.2-3 libpam-runtime_1.1.2-3 libpam0g_1.1.3-1 libpcre3_8.12-3 libpipeline1_1.2.0-2 libreadline6_6.2-2 libselinux1_2.0.98-1+b1 libsepol1_2.0.42-1 libslang2_2.2.4-2 libss2_1.41.12-4 libstdc++6_4.6.0-11 libstdc++6-4.4-dev_4.4.6-3 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libunwind7_0.99-0.2 libunwind7-dev_0.99-0.2 libusb-0.1-4_2:0.1.12-17 libuuid1_2.17.2-9.1 libxml2_2.7.8.dfsg-3 linux-libc-dev_2.6.38-5 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-27 make_3.81-8.1 man-db_2.6.0.2-1 mawk_1.3.3-15 mount_2.17.2-9.1 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-1 perl_5.12.3-7 perl-base_5.12.3-7 perl-modules_5.12.3-7 po-debconf_1.0.16+nmu1 quilt_0.48-7 readline-common_6.2-1 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.7.4p6-1 sysv-rc_2.88dsf-13.2 sysvinit_2.88dsf-13.2 sysvinit-utils_2.88dsf-13.2 tar_1.25-3 tzdata_2011g-1 util-linux_2.17.2-9.1 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Unpack source
+─────────────
+
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/Source/Package.pm line 258.
+gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Wed Jun 8 08:23:42 2011 UTC using RSA key ID 2295D502
+gpgv: Can't check signature: public key not found
+dpkg-source: warning: failed to verify signature on ./bedtools_2.12.0-1.dsc
+dpkg-source: info: extracting bedtools in bedtools-2.12.0
+dpkg-source: info: unpacking bedtools_2.12.0.orig.tar.bz2
+dpkg-source: info: unpacking bedtools_2.12.0-1.debian.tar.gz
+dpkg-source: info: applying gzstream.h.patch
+
+Check disc space
+────────────────
+
+
+dpkg-buildpackage
+─────────────────
+
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+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 bedtools
+dpkg-buildpackage: source version 2.12.0-1
+ dpkg-source --before-build bedtools-2.12.0
+dpkg-buildpackage: host architecture ia64
+ fakeroot debian/rules clean
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+test -x debian/rules
+dh_testroot
+rm -f debian/stamp-makefile-build debian/stamp-makefile-install
+/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" CPPFLAGS="" LDFLAGS="" -k clean
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-ia64-dMxw7B/bedtools-2.12.0'
+Cleaning up.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-ia64-dMxw7B/bedtools-2.12.0'
+dh_clean
+/usr/bin/make -f debian/rules reverse-config
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-ia64-dMxw7B/bedtools-2.12.0'
+make[1]: Nothing to be done for `reverse-config'.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-ia64-dMxw7B/bedtools-2.12.0'
+if [ -d "." ]; then \
+ cd . && QUILT_PATCHES=/build/buildd-bedtools_2.12.0-1-ia64-dMxw7B/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
+ fi
+Removing patch gzstream.h.patch
+Restoring src/utils/gzstream/gzstream.C
+
+No patches applied
+rm -rf ./.pc
+rm -f debian/stamp-patch*
+ debian/rules build
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+test -x debian/rules
+mkdir -p "."
+/usr/bin/make -f debian/rules reverse-config
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-ia64-dMxw7B/bedtools-2.12.0'
+make[1]: Nothing to be done for `reverse-config'.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-ia64-dMxw7B/bedtools-2.12.0'
+cd . && QUILT_PATCHES=/build/buildd-bedtools_2.12.0-1-ia64-dMxw7B/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
+Applying patch gzstream.h.patch
+patching file src/utils/gzstream/gzstream.C
+
+Now at patch gzstream.h.patch
+touch debian/stamp-patched
+/usr/bin/make -f debian/rules update-config
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-ia64-dMxw7B/bedtools-2.12.0'
+make[1]: Nothing to be done for `update-config'.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-ia64-dMxw7B/bedtools-2.12.0'
+/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" CPPFLAGS="" LDFLAGS=""
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-ia64-dMxw7B/bedtools-2.12.0'
+[ -d obj ] || mkdir -p obj
+[ -d bin ] || mkdir -p bin
+Building BEDTools:
+=========================================================
+- Building in src/utils/lineFileUtilities
+ * compiling lineFileUtilities.cpp
+
+- Building in src/utils/bedFile
+ * compiling bedFile.cpp
+
+- Building in src/utils/bedGraphFile
+ * compiling bedGraphFile.cpp
+
+- Building in src/utils/tabFile
+ * compiling tabFile.cpp
+
+- Building in src/utils/genomeFile
+ * compiling genomeFile.cpp
+
+- Building in src/utils/gzstream
+g++ -g -O2 -g -O2 -Wall -c -o ../../../obj//gzstream.o gzstream.C -I.
+
+- Building in src/utils/fileType
+ * compiling fileType.cpp
+
+- Building in src/utils/bedFilePE
+ * compiling bedFilePE.cpp
+
+- Building in src/utils/sequenceUtilities
+ * compiling sequenceUtils.cpp
+
+- Building in src/utils/BamTools
+ * compiling BamReader.cpp
+ * compiling BamWriter.cpp
+ * compiling BGZF.cpp
+ * compiling BamAncillary.cpp
+ * compiling BamIndex.cpp
+
+- Building in src/annotateBed
+ * compiling annotateMain.cpp
+ * compiling annotateBed.cpp
+ * linking annotateBed
+
+- Building in src/bamToBed
+ * compiling bamToBed.cpp
+ * linking bamToBed
+
+- Building in src/bedToBam
+ * compiling bedToBam.cpp
+ * linking bedToBam
+
+- Building in src/bedToIgv
+ * compiling bedToIgv.cpp
+ * linking bedToIgv
+
+- Building in src/bed12ToBed6
+ * compiling bed12ToBed6.cpp
+ * linking bed12ToBed6
+
+- Building in src/closestBed
+ * compiling closestMain.cpp
+ * compiling closestBed.cpp
+ * linking closestBed
+
+- Building in src/complementBed
+ * compiling complementMain.cpp
+ * compiling complementBed.cpp
+ * linking complementBed
+
+- Building in src/coverageBed
+ * compiling coverageMain.cpp
+ * compiling coverageBed.cpp
+ * linking coverageBed
+
+- Building in src/cuffToTrans
+ * compiling cuffToTransMain.cpp
+ * compiling cuffToTrans.cpp
+ * compiling Fasta.cpp
+ * compiling split.cpp
+ * linking cuffToTrans
+
+- Building in src/fastaFromBed
+ * compiling fastaFromBedMain.cpp
+ * compiling fastaFromBed.cpp
+ * linking fastaFromBed
+
+- Building in src/flankBed
+ * compiling flankBedMain.cpp
+ * compiling flankBed.cpp
+ * linking flankBed
+
+- Building in src/fjoin
+ * compiling fjoinMain.cpp
+ * compiling fjoin.cpp
+ * linking fjoin
+
+- Building in src/genomeCoverageBed
+ * compiling genomeCoverageMain.cpp
+ * compiling genomeCoverageBed.cpp
+ * linking genomeCoverageBed
+
+- Building in src/intersectBed
+ * compiling intersectMain.cpp
+ * compiling intersectBed.cpp
+ * linking intersectBed
+
+- Building in src/linksBed
+ * compiling linksMain.cpp
+ * compiling linksBed.cpp
+ * linking linksBed
+
+- Building in src/maskFastaFromBed
+ * compiling maskFastaFromBedMain.cpp
+ * compiling maskFastaFromBed.cpp
+ * linking maskFastaFromBed
+
+- Building in src/mergeBed
+ * compiling mergeMain.cpp
+ * compiling mergeBed.cpp
+ * linking mergeBed
+
+- Building in src/overlap
+ * compiling overlap.cpp
+ * linking overlap
+
+- Building in src/pairToBed
+ * compiling pairToBedMain.cpp
+ * compiling pairToBed.cpp
+ * linking pairToBed
+
+- Building in src/pairToPair
+ * compiling pairToPairMain.cpp
+ * compiling pairToPair.cpp
+ * linking pairToPair
+
+- Building in src/shuffleBed
+ * compiling shuffleBedMain.cpp
+ * compiling shuffleBed.cpp
+ * linking shuffleBed
+
+- Building in src/slopBed
+ * compiling slopBedMain.cpp
+ * compiling slopBed.cpp
+ * linking slopBed
+
+- Building in src/sortBed
+ * compiling sortMain.cpp
+ * compiling sortBed.cpp
+ * linking sortBed
+
+- Building in src/subtractBed
+ * compiling subtractMain.cpp
+ * compiling subtractBed.cpp
+ * linking subtractBed
+
+- Building in src/unionBedGraphs
+ * compiling unionBedGraphs.cpp
+ * compiling unionBedGraphsMain.cpp
+ * linking unionBedGraphs
+
+- Building in src/windowBed
+ * compiling windowMain.cpp
+ * compiling windowBed.cpp
+ * linking windowBed
+
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-ia64-dMxw7B/bedtools-2.12.0'
+touch debian/stamp-makefile-build
+DEB_MAKE_CHECK_TARGET unset, not running checks
+ fakeroot debian/rules binary-arch
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+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/bedtools.substvars
+dh_installdirs -pbedtools
+dh_installdocs -pbedtools
+dh_installexamples -pbedtools
+dh_installman -pbedtools
+dh_installinfo -pbedtools
+dh_installmenu -pbedtools
+dh_installcron -pbedtools
+dh_installinit -pbedtools
+dh_installdebconf -pbedtools
+dh_installemacsen -pbedtools
+dh_installcatalogs -pbedtools
+dh_installpam -pbedtools
+dh_installlogrotate -pbedtools
+dh_installlogcheck -pbedtools
+dh_installchangelogs -pbedtools RELEASE_HISTORY
+dh_installudev -pbedtools
+dh_lintian -pbedtools
+dh_bugfiles -pbedtools
+dh_install -pbedtools
+dh_link -pbedtools
+dh_installmime -pbedtools
+dh_installgsettings -pbedtools
+dh_strip -pbedtools
+dh_compress -pbedtools
+dh_fixperms -pbedtools
+dh_makeshlibs -pbedtools
+dh_installdeb -pbedtools
+dh_perl -pbedtools
+dh_shlibdeps -pbedtools
+dpkg-shlibdeps: warning: dependency on libm.so.6.1 could be avoided if "debian/bedtools/usr/bin/flankBed debian/bedtools/usr/bin/unionBedGraphs debian/bedtools/usr/bin/pairToBed debian/bedtools/usr/bin/bed12ToBed6 debian/bedtools/usr/bin/bamToBed debian/bedtools/usr/bin/overlap debian/bedtools/usr/bin/fastaFromBed debian/bedtools/usr/bin/closestBed debian/bedtools/usr/bin/coverageBed debian/bedtools/usr/bin/maskFastaFromBed debian/bedtools/usr/bin/bedToBam debian/bedtools/usr/bin/genomeCoverageBed debian/bedtools/usr/bin/annotateBed debian/bedtools/usr/bin/subtractBed debian/bedtools/usr/bin/sortBed debian/bedtools/usr/bin/cuffToTrans debian/bedtools/usr/bin/pairToPair debian/bedtools/usr/bin/shuffleBed debian/bedtools/usr/bin/mergeBed debian/bedtools/usr/bin/bedToIgv debian/bedtools/usr/bin/windowBed debian/bedtools/usr/bin/fjoin debian/bedtools/usr/bin/linksBed debian/bedtools/usr/bin/slopBed debian/bedtools/usr/bin/intersectBed debian/bedtools/usr/bin/complementBed" were not uselessly linked against it (they use none of its symbols).
+dh_gencontrol -pbedtools
+dh_md5sums -pbedtools
+dh_builddeb -pbedtools
+dpkg-deb: building package `bedtools' in `../bedtools_2.12.0-1_ia64.deb'.
+ dpkg-genchanges -B -mia64 Build Daemon (caballero) <buildd_ia64-caballero at buildd.debian.org> >../bedtools_2.12.0-1_ia64.changes
+dpkg-genchanges: arch-specific upload - not including arch-independent packages
+dpkg-genchanges: binary-only upload - not including any source code
+ dpkg-source --after-build bedtools-2.12.0
+dpkg-buildpackage: binary only upload (no source included)
+────────────────────────────────────────────────────────────────────────────────
+Build finished at 20110608-1606
+
+bedtools_2.12.0-1_ia64.changes:
+Format: 1.8
+Date: Wed, 08 Jun 2011 17:01:19 +0900
+Source: bedtools
+Binary: bedtools
+Architecture: ia64
+Version: 2.12.0-1
+Distribution: sid
+Urgency: low
+Maintainer: ia64 Build Daemon (caballero) <buildd_ia64-caballero at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ bedtools - suite of utilities for comparing genomic features
+Closes: 629597
+Changes:
+ bedtools (2.12.0-1) unstable; urgency=low
+ .
+ * Initial release (Closes: #629597)
+Checksums-Sha1:
+ 76cb7b80dbadfe77cee87f5c04432846375bd7c9 2106114 bedtools_2.12.0-1_ia64.deb
+Checksums-Sha256:
+ 32d93ebbe64f4365c78bb30626f73487b9060cd7ef04591df4864186969dfc7c 2106114 bedtools_2.12.0-1_ia64.deb
+Files:
+ 01fce0f7072c450390fa4c29f9057f0e 2106114 science optional bedtools_2.12.0-1_ia64.deb
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Package contents │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+bedtools_2.12.0-1_ia64.deb
+──────────────────────────
+
+ new debian package, version 2.0.
+ size 2106114 bytes: control archive= 1664 bytes.
+ 774 bytes, 15 lines control
+ 1978 bytes, 34 lines md5sums
+ Package: bedtools
+ Version: 2.12.0-1
+ Architecture: ia64
+ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+ Installed-Size: 6744
+ Depends: libc6.1 (>= 2.2), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0), libunwind7, zlib1g (>= 1:1.1.4)
+ Section: science
+ Priority: optional
+ Homepage: http://code.google.com/p/bedtools/
+ Description: suite of utilities for comparing genomic features
+ The BEDTools utilities allow one to address common genomics tasks such as
+ finding feature overlaps and computing coverage. The utilities are largely
+ based on four widely-used file formats: BED, GFF/GTF, VCF, and SAM/BAM. Using
+ BEDTools, one can develop sophisticated pipelines that answer complicated
+ research questions by streaming several BEDTools together.
+
+drwxr-xr-x root/root 0 2011-06-08 16:05 ./
+drwxr-xr-x root/root 0 2011-06-08 16:05 ./usr/
+drwxr-xr-x root/root 0 2011-06-08 16:05 ./usr/share/
+drwxr-xr-x root/root 0 2011-06-08 16:05 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-06-08 16:05 ./usr/share/doc/bedtools/
+-rw-r--r-- root/root 8577 2011-04-04 01:30 ./usr/share/doc/bedtools/changelog.gz
+-rw-r--r-- root/root 4611 2011-06-08 07:59 ./usr/share/doc/bedtools/copyright
+-rw-r--r-- root/root 1586 2011-04-04 01:30 ./usr/share/doc/bedtools/README.rst.gz
+-rw-r--r-- root/root 156 2011-06-08 08:01 ./usr/share/doc/bedtools/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-06-08 16:05 ./usr/share/bedtools/
+drwxr-xr-x root/root 0 2011-06-08 16:01 ./usr/share/bedtools/genomes/
+-rwxr-xr-x root/root 856 2011-04-04 01:30 ./usr/share/bedtools/genomes/human.hg18.genome
+-rwxr-xr-x root/root 1972 2011-04-04 01:30 ./usr/share/bedtools/genomes/human.hg19.genome
+-rwxr-xr-x root/root 565 2011-04-04 01:30 ./usr/share/bedtools/genomes/mouse.mm8.genome
+-rwxr-xr-x root/root 585 2011-04-04 01:30 ./usr/share/bedtools/genomes/mouse.mm9.genome
+drwxr-xr-x root/root 0 2011-06-08 16:05 ./usr/bin/
+-rwxr-xr-x root/root 335296 2011-06-08 16:05 ./usr/bin/annotateBed
+-rwxr-xr-x root/root 201528 2011-06-08 16:05 ./usr/bin/bamToBed
+-rwxr-xr-x root/root 183424 2011-06-08 16:05 ./usr/bin/bed12ToBed6
+-rwxr-xr-x root/root 249536 2011-06-08 16:05 ./usr/bin/bedToBam
+-rwxr-xr-x root/root 222800 2011-06-08 16:05 ./usr/bin/bedToIgv
+-rwxr-xr-x root/root 213472 2011-06-08 16:05 ./usr/bin/closestBed
+-rwxr-xr-x root/root 213040 2011-06-08 16:05 ./usr/bin/complementBed
+-rwxr-xr-x root/root 336184 2011-06-08 16:05 ./usr/bin/coverageBed
+-rwxr-xr-x root/root 269472 2011-06-08 16:05 ./usr/bin/cuffToTrans
+-rwxr-xr-x root/root 269472 2011-06-08 16:05 ./usr/bin/fastaFromBed
+-rwxr-xr-x root/root 369832 2011-06-08 16:05 ./usr/bin/fjoin
+-rwxr-xr-x root/root 213936 2011-06-08 16:05 ./usr/bin/flankBed
+-rwxr-xr-x root/root 373048 2011-06-08 16:05 ./usr/bin/genomeCoverageBed
+-rwxr-xr-x root/root 368392 2011-06-08 16:05 ./usr/bin/intersectBed
+-rwxr-xr-x root/root 205384 2011-06-08 16:05 ./usr/bin/linksBed
+-rwxr-xr-x root/root 206552 2011-06-08 16:05 ./usr/bin/maskFastaFromBed
+-rwxr-xr-x root/root 223584 2011-06-08 16:05 ./usr/bin/mergeBed
+-rwxr-xr-x root/root 192208 2011-06-08 16:05 ./usr/bin/overlap
+-rwxr-xr-x root/root 405504 2011-06-08 16:05 ./usr/bin/pairToBed
+-rwxr-xr-x root/root 266072 2011-06-08 16:05 ./usr/bin/pairToPair
+-rwxr-xr-x root/root 235424 2011-06-08 16:05 ./usr/bin/shuffleBed
+-rwxr-xr-x root/root 208192 2011-06-08 16:05 ./usr/bin/slopBed
+-rwxr-xr-x root/root 225320 2011-06-08 16:05 ./usr/bin/sortBed
+-rwxr-xr-x root/root 197528 2011-06-08 16:05 ./usr/bin/subtractBed
+-rwxr-xr-x root/root 129808 2011-06-08 16:05 ./usr/bin/unionBedGraphs
+-rwxr-xr-x root/root 350496 2011-06-08 16:05 ./usr/bin/windowBed
+
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Finished │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /var/lib/schroot/mount/sid-ia64-sbuild-14c4dfce-4ef8-4e62-9142-ce5f3132fd14/build/buildd-bedtools_2.12.0-1-ia64-dMxw7B
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 22 not upgraded.
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following packages will be REMOVED:
+ bsdmainutils* cdbs* debhelper* diffstat* file* gettext* gettext-base*
+ groff-base* html2text* intltool-debian* libcroco3* libglib2.0-0* libmagic1*
+ libpcre3* libpipeline1* libunistring0* libxml2* man-db* po-debconf* quilt*
+ zlib1g-dev*
+0 upgraded, 0 newly installed, 21 to remove and 22 not upgraded.
+After this operation, 39.9 MB disk space will be freed.
+(Reading database ... 11960 files and directories currently installed.)
+Removing cdbs ...
+Removing debhelper ...
+Removing man-db ...
+Purging configuration files for man-db ...
+Removing bsdmainutils ...
+Purging configuration files for bsdmainutils ...
+Removing quilt ...
+Purging configuration files for quilt ...
+Removing diffstat ...
+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 libpipeline1 ...
+Purging configuration files for libpipeline1 ...
+Removing libunistring0 ...
+Purging configuration files for libunistring0 ...
+Removing libxml2 ...
+Purging configuration files for libxml2 ...
+Removing zlib1g-dev ...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Architecture: ia64
+Build-Space: 81372
+Build-Time: 273
+Distribution: sid
+Install-Time: 22
+Job: bedtools_2.12.0-1
+Package: bedtools
+Package-Time: 306
+Source-Version: 2.12.0-1
+Space: 81372
+Status: successful
+Version: 2.12.0-1
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20110608-1606
+Build needed 00:05:06, 81372k disc space
+
diff --git a/info b/info
new file mode 100644
index 0000000..3bd1cd7
--- /dev/null
+++ b/info
@@ -0,0 +1,11 @@
+kfreebsd-amd64~1307530892~sid~successful
+powerpc~1307530966~sid~successful
+kfreebsd-i386~1307531039~sid~successful
+hurd-i386~1307532155~sid~successful
+mips~1307533004~sid~successful
+armel~1307534306~sid~successful
+i386~1307535353~sid~successful
+mipsel~1307536157~sid~successful
+ia64~1307549193~sid~successful
+sparc~1307587156~sid~successful
+s390~1307658598~sid~successful
diff --git a/amd64.log b/kfreebsd-amd64.log
similarity index 54%
copy from amd64.log
copy to kfreebsd-amd64.log
index 36d4346..fc0809f 100644
--- a/amd64.log
+++ b/kfreebsd-amd64.log
@@ -1,134 +1,218 @@
-sbuild (Debian sbuild) 0.62.2 (05 Apr 2011) on anx191
+From buildd at fano.debian.org Wed Jun 08 11:01:32 2011
+Return-path: <buildd at fano.debian.org>
+Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=merikanto.debian.org,
+ EMAIL=hostmaster at merikanto.debian.org (verified)
+ by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at fano.debian.org>)
+ id 1QUGVv-0007A2-UW
+ for logs at buildd.debian.org; Wed, 08 Jun 2011 11:01:32 +0000
+Received: from fano.debian.org ([206.12.19.110])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=fano.debian.org, EMAIL=hostmaster at fano.debian.org (verified)
+ by merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at fano.debian.org>)
+ id 1QUGVu-0001n5-D7; Wed, 08 Jun 2011 11:01:30 +0000
+Received: from buildd by fano.debian.org with local (Exim 4.72)
+ (envelope-from <buildd at fano.debian.org>)
+ id 1QUGVr-0009Dt-VQ; Wed, 08 Jun 2011 11:01:28 +0000
+Message-Id: <E1QUGVr-0009Dt-VQ at fano.debian.org>
+MIME-Version: 1.0
+Content-Transfer-Encoding: binary
+X-Mailer: MIME::Lite 3.027 (F2.77; B3.08; Q3.08)
+Date: Wed, 8 Jun 2011 11:01:27 +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 bedtools_2.12.0-1 on kfreebsd-amd64
+ (dist=sid)
+Key-Id: 91116966
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on fano.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bedtools 2.12.0-1 (amd64) 08 Jun 2011 17:20 ║
+║ bedtools 2.12.0-1 (kfreebsd-amd64) 08 Jun 2011 10:57 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bedtools
Version: 2.12.0-1
Source Version: 2.12.0-1
-Distribution: unstable
-Architecture: amd64
-
-I: NOTICE: Log filtering will replace 'build/bedtools-Ghn37g' with '«BUILDDIR»'
-I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/sid-amd64-sbuild-29088341-52c6-42fd-8a13-78bdff77cf92' with '«CHROOT»'
-
-┌──────────────────────────────────────────────────────────────────────────────┐
-│ Update chroot │
-└──────────────────────────────────────────────────────────────────────────────┘
-
-Hit http://ftp.jp.debian.org sid InRelease
-Hit http://ftp.jp.debian.org sid/main amd64 Packages/DiffIndex
-Hit http://ftp.jp.debian.org sid/main TranslationIndex
-Reading package lists...
+Architecture: kfreebsd-amd64
+Hit http://mirror-ubc.debian.org sid InRelease
+Hit http://mirror-ubc.debian.org sid/main Sources/DiffIndex
+Hit http://incoming.debian.org sid InRelease
+Ign http://incoming.debian.org InRelease
+Hit http://mirror-ubc.debian.org sid/contrib Sources/DiffIndex
+Hit http://mirror-ubc.debian.org sid/non-free Sources/DiffIndex
+Hit http://mirror-ubc.debian.org sid/main kfreebsd-amd64 Packages/DiffIndex
+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
+Hit http://mirror-ubc.debian.org sid/main TranslationIndex
+Ign http://mirror-ubc.debian.org sid/non-free TranslationIndex
+Hit http://mirror-ubc.debian.org sid/non-free kfreebsd-amd64 Packages
+Ign http://mirror-ubc.debian.org sid/contrib Translation-en
+Ign http://mirror-ubc.debian.org sid/non-free Translation-en
+Hit http://incoming.debian.org Release.gpg
+Hit http://incoming.debian.org sid/main Sources/DiffIndex
+Hit http://incoming.debian.org sid/contrib Sources/DiffIndex
+Hit http://incoming.debian.org sid/non-free Sources/DiffIndex
+Hit http://incoming.debian.org sid/main kfreebsd-amd64 Packages/DiffIndex
+Hit http://incoming.debian.org sid/contrib kfreebsd-amd64 Packages/DiffIndex
+Hit http://incoming.debian.org sid/non-free kfreebsd-amd64 Packages/DiffIndex
+Ign http://incoming.debian.org sid/contrib TranslationIndex
+Hit http://incoming.debian.org sid/main TranslationIndex
+Ign http://incoming.debian.org sid/non-free TranslationIndex
+Hit http://incoming.debian.org Release
+Hit http://incoming.debian.org sid/non-free kfreebsd-amd64 Packages
+Hit http://incoming.debian.org Sources
+Hit http://incoming.debian.org Packages
+Ign http://incoming.debian.org sid/contrib Translation-en
+Ign http://incoming.debian.org sid/non-free Translation-en
+Ign http://incoming.debian.org Translation-en
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
-─────────────
+Check APT
+─────────
-bedtools_2.12.0-1.dsc exists in .; copying to chroot
+Checking available source versions...
+
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+NOTICE: 'bedtools' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/git/debian-med/bedtools.git
+Need to get 796 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.12.0-1 (dsc) [1924 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.12.0-1 (tar) [790 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.12.0-1 (diff) [4198 B]
+Fetched 796 kB in 1s (483 kB/s)
+Download complete and in download only mode
Check arch
──────────
-Merged Build-Depends: build-essential, fakeroot
-Filtered Build-Depends: build-essential, fakeroot
-dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/«BUILDDIR»/resolver-XV0Q8j/apt_archive/sbuild-build-depends-core-dummy.deb'.
-OK
-Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install core build dependencies (apt-based resolver) │
+│ Install core build dependencies (internal resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
-Installing build dependencies
+Build-Depends: build-essential, fakeroot
+Checking for already installed dependencies...
+build-essential: already installed (11.5)
+fakeroot: already installed (1.15.1-1)
+Checking for dependency conflicts...
+Installing positive dependencies:
Reading package lists...
Building dependency tree...
Reading state information...
-The following NEW packages will be installed:
- sbuild-build-depends-core-dummy
-debconf: delaying package configuration, since apt-utils is not installed
-0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded.
-Need to get 0 B/706 B of archives.
-After this operation, 0 B of additional disk space will be used.
-Selecting previously deselected package sbuild-build-depends-core-dummy.
-(Reading database ... 10807 files and directories currently installed.)
-Unpacking sbuild-build-depends-core-dummy (from .../sbuild-build-depends-core-dummy.deb) ...
-Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
-Merged Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), cdbs, debhelper (>= 8), quilt, zlib1g-dev
-Filtered Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), cdbs, debhelper (>= 8), quilt, zlib1g-dev
-dpkg-deb: building package `sbuild-build-depends-bedtools-dummy' in `/«BUILDDIR»/resolver-JPNhUl/apt_archive/sbuild-build-depends-bedtools-dummy.deb'.
-OK
+0 upgraded, 0 newly installed, 0 to remove and 10 not upgraded.
+Removing negative dependencies:
Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 10 not upgraded.
+Checking correctness of dependencies...
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install bedtools build dependencies (apt-based resolver) │
+│ Install bedtools build dependencies (internal resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
-Installing build dependencies
+Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, freebsd-utils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), cdbs, debhelper (>= 8), quilt, zlib1g-dev
+Checking for already installed dependencies...
+base-files: already installed (6.4)
+base-passwd: already installed (3.5.22)
+bash: already installed (4.1-3)
+coreutils: already installed (8.5-1)
+dash: already installed (0.5.5.1-7.4)
+debianutils: already installed (4.0.1)
+diffutils: already installed (1:3.0-1)
+dpkg: already installed (1.16.0.3)
+e2fsprogs: already installed (1.41.12-4)
+findutils: already installed (4.4.2-1)
+freebsd-utils: already installed (8.1-4+b1)
+grep: already installed (2.8-2)
+gzip: already installed (1.3.12-9)
+hostname: already installed (3.06)
+ncurses-base: already installed (5.9-1)
+ncurses-bin: already installed (5.9-1)
+perl-base: already installed (5.12.3-7)
+sed: already installed (4.2.1-9)
+login: already installed (1:4.1.4.2+svn3283-3)
+sysvinit-utils: already installed (2.88dsf-13.7)
+sysvinit: already installed (2.88dsf-13.7)
+tar: already installed (1.25-3)
+bsdutils: already installed (1:2.17.2-9.1)
+util-linux: already installed (2.17.2-9.1)
+libc6-dev: already installed (~*=PROVIDED=*=)
+gcc: already installed (4:4.6.0-5 >= 4:4.4.3 is satisfied)
+g++: already installed (4:4.6.0-5 >= 4:4.4.3 is satisfied)
+make: already installed (3.81-8.1)
+dpkg-dev: already installed (1.16.0.3 >= 1.13.5 is satisfied)
+cdbs: missing
+debhelper: missing
+Using default version 8.1.6
+quilt: missing
+zlib1g-dev: missing
+Checking for dependency conflicts...
+Installing positive dependencies: cdbs debhelper quilt zlib1g-dev
Reading package lists...
Building dependency tree...
Reading state information...
The following extra packages will be installed:
- bsdmainutils cdbs debhelper diffstat file gettext gettext-base groff-base
- html2text intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3
- libpipeline1 libunistring0 libxml2 man-db po-debconf quilt zlib1g-dev
+ diffstat file gettext gettext-base groff-base html2text intltool-debian
+ libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1 libunistring0 libxml2
+ man-db po-debconf
Suggested packages:
- wamerican wordlist whois vacation devscripts dh-make gettext-doc groff less
- www-browser libmail-box-perl procmail graphviz
+ devscripts dh-make gettext-doc groff less www-browser libmail-box-perl
+ procmail graphviz
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 diffstat file gettext gettext-base groff-base
- html2text intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3
- libpipeline1 libunistring0 libxml2 man-db po-debconf quilt
- sbuild-build-depends-bedtools-dummy zlib1g-dev
-0 upgraded, 22 newly installed, 0 to remove and 0 not upgraded.
-Need to get 2248 kB/9858 kB of archives.
-After this operation, 28.8 MB of additional disk space will be used.
-Get:1 http://ftp.jp.debian.org/debian/ sid/main bsdmainutils amd64 8.2.3 [208 kB]
-Get:2 http://ftp.jp.debian.org/debian/ sid/main groff-base amd64 1.21-6 [1150 kB]
-Get:3 http://ftp.jp.debian.org/debian/ sid/main libxml2 amd64 2.7.8.dfsg-3 [890 kB]
+ cdbs debhelper diffstat file gettext gettext-base groff-base html2text
+ intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1
+ libunistring0 libxml2 man-db po-debconf quilt zlib1g-dev
debconf: delaying package configuration, since apt-utils is not installed
-Fetched 2248 kB in 0s (4582 kB/s)
-Selecting previously deselected package bsdmainutils.
-(Reading database ... 10807 files and directories currently installed.)
-Unpacking bsdmainutils (from .../bsdmainutils_8.2.3_amd64.deb) ...
+0 upgraded, 20 newly installed, 0 to remove and 10 not upgraded.
+Need to get 0 B/9591 kB of archives.
+After this operation, 26.8 MB of additional disk space will be used.
Selecting previously deselected package groff-base.
-Unpacking groff-base (from .../groff-base_1.21-6_amd64.deb) ...
+(Reading database ... 12251 files and directories currently installed.)
+Unpacking groff-base (from .../groff-base_1.21-6_kfreebsd-amd64.deb) ...
Selecting previously deselected package libpipeline1.
-Unpacking libpipeline1 (from .../libpipeline1_1.2.0-2_amd64.deb) ...
+Unpacking libpipeline1 (from .../libpipeline1_1.2.0-2_kfreebsd-amd64.deb) ...
Selecting previously deselected package man-db.
-Unpacking man-db (from .../man-db_2.6.0.2-1_amd64.deb) ...
+Unpacking man-db (from .../man-db_2.6.0.2-1_kfreebsd-amd64.deb) ...
Selecting previously deselected package libmagic1.
-Unpacking libmagic1 (from .../libmagic1_5.04-5+b1_amd64.deb) ...
+Unpacking libmagic1 (from .../libmagic1_5.04-5+b1_kfreebsd-amd64.deb) ...
Selecting previously deselected package file.
-Unpacking file (from .../file_5.04-5+b1_amd64.deb) ...
+Unpacking file (from .../file_5.04-5+b1_kfreebsd-amd64.deb) ...
Selecting previously deselected package gettext-base.
-Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_amd64.deb) ...
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_kfreebsd-amd64.deb) ...
Selecting previously deselected package libpcre3.
-Unpacking libpcre3 (from .../libpcre3_8.12-3_amd64.deb) ...
+Unpacking libpcre3 (from .../libpcre3_8.12-3_kfreebsd-amd64.deb) ...
Selecting previously deselected package libxml2.
-Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-3_amd64.deb) ...
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-3_kfreebsd-amd64.deb) ...
Selecting previously deselected package html2text.
-Unpacking html2text (from .../html2text_1.3.2a-15_amd64.deb) ...
+Unpacking html2text (from .../html2text_1.3.2a-15_kfreebsd-amd64.deb) ...
Selecting previously deselected package libglib2.0-0.
-Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.6-1_amd64.deb) ...
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.6-1_kfreebsd-amd64.deb) ...
Selecting previously deselected package libcroco3.
-Unpacking libcroco3 (from .../libcroco3_0.6.2-1_amd64.deb) ...
+Unpacking libcroco3 (from .../libcroco3_0.6.2-1_kfreebsd-amd64.deb) ...
Selecting previously deselected package libunistring0.
-Unpacking libunistring0 (from .../libunistring0_0.9.3-4_amd64.deb) ...
+Unpacking libunistring0 (from .../libunistring0_0.9.3-4_kfreebsd-amd64.deb) ...
Selecting previously deselected package gettext.
-Unpacking gettext (from .../gettext_0.18.1.1-3_amd64.deb) ...
+Unpacking gettext (from .../gettext_0.18.1.1-3_kfreebsd-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.
@@ -138,16 +222,11 @@ Unpacking debhelper (from .../debhelper_8.1.6_all.deb) ...
Selecting previously deselected package cdbs.
Unpacking cdbs (from .../archives/cdbs_0.4.94_all.deb) ...
Selecting previously deselected package diffstat.
-Unpacking diffstat (from .../diffstat_1.54-1_amd64.deb) ...
+Unpacking diffstat (from .../diffstat_1.54-1_kfreebsd-amd64.deb) ...
Selecting previously deselected package quilt.
Unpacking quilt (from .../archives/quilt_0.48-7_all.deb) ...
Selecting previously deselected package zlib1g-dev.
-Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_amd64.deb) ...
-Selecting previously deselected package sbuild-build-depends-bedtools-dummy.
-Unpacking sbuild-build-depends-bedtools-dummy (from .../sbuild-build-depends-bedtools-dummy.deb) ...
-Setting up bsdmainutils (8.2.3) ...
-update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode.
-update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode.
+Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_kfreebsd-amd64.deb) ...
Setting up groff-base (1.21-6) ...
Setting up libpipeline1 (1.2.0-2) ...
Setting up man-db (2.6.0.2-1) ...
@@ -170,15 +249,15 @@ Setting up cdbs (0.4.94) ...
Setting up diffstat (1.54-1) ...
Setting up quilt (0.48-7) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
-Setting up sbuild-build-depends-bedtools-dummy (0.invalid.0) ...
-
-┌──────────────────────────────────────────────────────────────────────────────┐
-│ Build environment │
-└──────────────────────────────────────────────────────────────────────────────┘
-
-Kernel: Linux 2.6.32-5-amd64 amd64 (x86_64)
-Toolchain package versions: binutils_2.21.52.20110606-1 dpkg-dev_1.16.0.3 g++-4.6_4.6.0-11 gcc-4.6_4.6.0-11 libc6-dev_2.13-5 libstdc++6_4.6.0-11 libstdc++6-4.6-dev_4.6.0-11 linux-libc-dev_2.6.39-1+b1
-Package versions: apt_0.8.14.1 base-files_6.4 base-passwd_3.5.22 bash_4.1-3 binutils_2.21.52.20110606-1 bsdmainutils_8.2.3 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.94 coreutils_8.5-1 cpp_4:4.6.0-5 cpp-4.6_4.6.0-11 dash_0.5.5.1-7.4 debconf_1.5.39 debconf-i18n_1.5.39 debfoster_2.7-1.1 debhelper_8.1.6 debian-archive-keyring_2010.08.28 debianutils_4.0.1 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.41.12-4 e2fsprogs_1.41.12-4 fakeroot_1.15.1-1 file_5.04-5+b1 findutils_4.4.2-1+b1 g++_4:4.6.0-5 g++-4.6_4.6.0-11 gcc_4:4.6.0-5 gcc-4.6_4.6.0-11 gcc-4.6-base_4.6.0-11 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.8-2 groff-base_1.21-6 gzip_1.3.12-9 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.7 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-5 libattr1_1:2.4.44-3 libblkid1_2.17.2-9.1 libbz2-1.0_1.0.5-6 libc-bin_2.13-5 libc-dev-bin_2.13-5 libc6_2.13-5 libc6-dev_2.13-5 libclass-isa-perl_0.36-1 libcloog-ppl0_0.15.9-3 libcomerr2_1.41.12-4 libcroco3_0.6.2-1 libdb4.7_4.7.25-20 libdb4.8_4.8.30-8 libdb5.1_5.1.25-10 libdpkg-perl_1.16.0.3 libelfg0_0.8.13-1 libgc1c2_1:7.1-8 libgcc1_1:4.6.0-11 libgdbm3_1.8.3-9 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.1+dfsg-7 libgmpxx4ldbl_2:5.0.1+dfsg-7 libgomp1_4.6.0-11 liblocale-gettext-perl_1.05-6+b1 liblzma2_5.0.0-2 libmagic1_5.04-5+b1 libmpc2_0.9-3 libmpfr4_3.0.1-3 libncurses5_5.9-1 libpam-modules_1.1.3-1 libpam-runtime_1.1.3-1 libpam0g_1.1.3-1 libpcre3_8.12-3 libpipeline1_1.2.0-2 libpod-plainer-perl_1.03-1 libppl-c4_0.11.2-3 libppl9_0.11.2-3 libpwl5_0.11.2-3 libquadmath0_4.6.0-11 libreadline6_6.2-2 libselinux1_2.0.98-1+b1 libsepol1_2.0.42-1 libslang2_2.2.4-2 libss2_1.41.12-4 libstdc++6_4.6.0-11 libstdc++6-4.6-dev_4.6.0-11 libswitch-perl_2.16-1 libtext-charwidth-perl_0.04-6+b1 libtext-iconv-perl_1.7-2+b1 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-17 libuuid1_2.17.2-9.1 libxml2_2.7.8.dfsg-3 linux-libc-dev_2.6.39-1+b1 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-27 make_3.81-8.1 man-db_2.6.0.2-1 mawk_1.3.3-15 mount_2.17.2-9.1 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.3-7 perl-base_5.12.3-7 perl-modules_5.12.3-7 po-debconf_1.0.16+nmu1 quilt_0.48-7 readline-common_6.2-2 sbuild-build-depends-bedtools-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 sed_4.2.1-9 sensible-utils_0.0.6 sysv-rc_2.88dsf-13.7 sysvinit_2.88dsf-13.7 sysvinit-utils_2.88dsf-13.7 tar_1.25-3 tzdata_2011g-1 util-linux_2.17.2-9.1 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+Removing negative dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 10 not upgraded.
+Checking correctness of dependencies...
+Kernel: GNU/kFreeBSD 8.1-1-amd64 kfreebsd-amd64 (x86_64)
+Toolchain package versions: binutils_2.21.52.20110606-1 dpkg-dev_1.16.0.3 g++-4.6_4.6.0-11 gcc-4.6_4.6.0-11 kfreebsd-kernel-headers_0.54 libc0.1-dev_2.13-5 libstdc++6_4.6.0-11 libstdc++6-4.6-dev_4.6.0-11
+Package versions: apt_0.8.14.1 base-files_6.4 base-passwd_3.5.22 bash_4.1-3 binutils_2.21.52.20110606-1 bsdmainutils_8.2.2 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.94 coreutils_8.5-1 cpio_2.11-7 cpp_4:4.6.0-5 cpp-4.6_4.6.0-11 dash_0.5.5.1-7.4 debconf_1.5.39 debfoster_2.7-1.1 debhelper_8.1.6 debian-archive-keyring_2010.08.28 debianutils_4.0.1 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.41.12-4 e2fsprogs_1.41.12-4 fakeroot_1.15.1-1 file_5.04-5+b1 findutils_4.4.2-1 freebsd-utils_8.1-4+b1 g++_4:4.6.0-5 g++-4.6_4.6.0-11 gcc_4:4.6.0-5 gcc-4.2-base_4.2.4-6 gcc-4.4-base_4.4.6-3 gcc-4.5-base_4.5.3-1 gcc-4.6_4.6.0-11 gcc-4.6-base_4.6.0-11 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.8-2 groff-base_1.21-6 gzip_1.3.12-9 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.7 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 kfreebsd-kernel-headers_0.54 libacl1_2.2.49-5 libattr1_1:2.4.44-3 libblkid1_2.17.2-9.1 libbsd0_0.3.0-1 libbz2-1.0_1.0.5-6 libc-bin_2.13-5 libc-dev-bin_2.13-5 libc0.1_2.13-5 libc0.1-dev_2.13-5 libcam0_8.2-1 libcloog-ppl0_0.15.9-3 libcomerr2_1.41.12-4 libcroco3_0.6.2-1 libdb5.1_5.1.25-10 libdpkg-perl_1.16.0.3 libedit2_2.11-20080614-2 libexpat1_2.0.1-7 libgc1c2_1:7.1-8 libgcc1_1:4.6.0-11 libgcrypt11_1.4.6-5 libgdbm3_1.8.3-9 libgeom0_8.1-5 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.1+dfsg-7 libgmpxx4ldbl_2:5.0.1+dfsg-7 libgnutls26_2.10.5-1+b1 libgomp1_4.6.0-11 libgpg-error0_1.10-0.3 libkiconv4_8.1-5 libkvm0_8.2-2 libldap-2.4-2_2.4.25-1.1 liblzma2_5.0.0-2 libmagic1_5.04-5+b1 libmpc2_0.9-3 libmpfr4_3.0.1-3 libncurses5_5.9-1 libncursesw5_5.9-1 libpam-modules_1.1.2-3 libpam-runtime_1.1.2-3 libpam0g_1.1.3-1 libpcre3_8.12-3 libpipeline1_1.2.0-2 libpng12-0_1.2.44-2 libppl-c4_0.11.2-3 libppl9_0.11.2-3 libpwl5_0.11.2-3 libquadmath0_4.6.0-11 libreadline6_6.2-2 libsasl2-2_2.1.24~rc1.dfsg1+cvs2011-05-23-2 libsbuf0_8.1-5 libslang2_2.2.4-2 libss2_1.41.12-4 libstdc++6_4.6.0-11 libstdc++6-4.6-dev_4.6.0-11 libtasn1-3_2.9-3 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-17 libuuid1_2.17.2-9.1 libxml2_2.7.8.dfsg-3 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-27 lzma_4.43-14 make_3.81-8.1 man-db_2.6.0.2-1 mawk_1.3.3-15 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.3-7 perl-base_5.12.3-7 perl-modules_5.12.3-7 po-debconf_1.0.16+nmu1 procps_1:3.2.8-10 psmisc_22.13-1 quilt_0.48-7 readline-common_6.2-2 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.7.4p6-1 sysv-rc_2.88dsf-13.7 sysvinit_2.88dsf-13.7 sysvinit-utils_2.88dsf-13.7 tar_1.25-3 type-handling_0.2.23 tzdata_2011g-1 ufsutils_8.2-1 util-linux_2.17.2-9.1 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -188,7 +267,10 @@ Package versions: apt_0.8.14.1 base-files_6.4 base-passwd_3.5.22 bash_4.1-3 binu
Unpack source
─────────────
-dpkg-source: warning: extracting unsigned source package (bedtools_2.12.0-1.dsc)
+gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Wed Jun 8 08:23:42 2011 UTC using RSA key ID 2295D502
+gpgv: Can't check signature: public key not found
+dpkg-source: warning: failed to verify signature on ./bedtools_2.12.0-1.dsc
dpkg-source: info: extracting bedtools in bedtools-2.12.0
dpkg-source: info: unpacking bedtools_2.12.0.orig.tar.bz2
dpkg-source: info: unpacking bedtools_2.12.0-1.debian.tar.gz
@@ -197,7 +279,6 @@ dpkg-source: info: applying gzstream.h.patch
Check disc space
────────────────
-Sufficient free space for build
dpkg-buildpackage
─────────────────
@@ -209,24 +290,23 @@ dpkg-buildpackage: export FFLAGS from dpkg-buildflags (origin: vendor): -g -O2
dpkg-buildpackage: export LDFLAGS from dpkg-buildflags (origin: vendor):
dpkg-buildpackage: source package bedtools
dpkg-buildpackage: source version 2.12.0-1
-dpkg-buildpackage: source changed by Charles Plessy <plessy at debian.org>
dpkg-source --before-build bedtools-2.12.0
-dpkg-buildpackage: host architecture amd64
+dpkg-buildpackage: host architecture kfreebsd-amd64
fakeroot debian/rules clean
test -x debian/rules
dh_testroot
rm -f debian/stamp-makefile-build debian/stamp-makefile-install
/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" CPPFLAGS="" LDFLAGS="" -k clean
-make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-kfreebsd-amd64-AKXwDc/bedtools-2.12.0'
Cleaning up.
-make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-kfreebsd-amd64-AKXwDc/bedtools-2.12.0'
dh_clean
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-kfreebsd-amd64-AKXwDc/bedtools-2.12.0'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-kfreebsd-amd64-AKXwDc/bedtools-2.12.0'
if [ -d "." ]; then \
- cd . && QUILT_PATCHES=/«BUILDDIR»/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
+ cd . && QUILT_PATCHES=/build/buildd-bedtools_2.12.0-1-kfreebsd-amd64-AKXwDc/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
fi
Removing patch gzstream.h.patch
Restoring src/utils/gzstream/gzstream.C
@@ -234,29 +314,25 @@ Restoring src/utils/gzstream/gzstream.C
No patches applied
rm -rf ./.pc
rm -f debian/stamp-patch*
- dpkg-source -b bedtools-2.12.0
-dpkg-source: info: using source format `3.0 (quilt)'
-dpkg-source: warning: patches have not been applied, applying them now (use --no-preparation to override)
-dpkg-source: info: applying gzstream.h.patch
-dpkg-source: info: building bedtools using existing ./bedtools_2.12.0.orig.tar.bz2
-dpkg-source: info: building bedtools in bedtools_2.12.0-1.debian.tar.gz
-dpkg-source: info: building bedtools in bedtools_2.12.0-1.dsc
debian/rules build
test -x debian/rules
mkdir -p "."
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-kfreebsd-amd64-AKXwDc/bedtools-2.12.0'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
-cd . && QUILT_PATCHES=/«BUILDDIR»/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
-File series fully applied, ends at patch gzstream.h.patch
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-kfreebsd-amd64-AKXwDc/bedtools-2.12.0'
+cd . && QUILT_PATCHES=/build/buildd-bedtools_2.12.0-1-kfreebsd-amd64-AKXwDc/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
+Applying patch gzstream.h.patch
+patching file src/utils/gzstream/gzstream.C
+
+Now at patch gzstream.h.patch
touch debian/stamp-patched
/usr/bin/make -f debian/rules update-config
-make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-kfreebsd-amd64-AKXwDc/bedtools-2.12.0'
make[1]: Nothing to be done for `update-config'.
-make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-kfreebsd-amd64-AKXwDc/bedtools-2.12.0'
/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" CPPFLAGS="" LDFLAGS=""
-make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-kfreebsd-amd64-AKXwDc/bedtools-2.12.0'
[ -d obj ] || mkdir -p obj
[ -d bin ] || mkdir -p bin
Building BEDTools:
@@ -459,10 +535,10 @@ unionBedGraphsMain.cpp:49:10: warning: variable 'haveFiller' set but not used [-
* compiling windowBed.cpp
* linking windowBed
-make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-kfreebsd-amd64-AKXwDc/bedtools-2.12.0'
touch debian/stamp-makefile-build
DEB_MAKE_CHECK_TARGET unset, not running checks
- fakeroot debian/rules binary
+ fakeroot debian/rules binary-arch
test -x debian/rules
dh_testroot
dh_prep
@@ -503,36 +579,25 @@ dh_shlibdeps -pbedtools
dh_gencontrol -pbedtools
dh_md5sums -pbedtools
dh_builddeb -pbedtools
-dpkg-deb: building package `bedtools' in `../bedtools_2.12.0-1_amd64.deb'.
- dpkg-genchanges >../bedtools_2.12.0-1_amd64.changes
-dpkg-genchanges: including full source code in upload
+dpkg-deb: building package `bedtools' in `../bedtools_2.12.0-1_kfreebsd-amd64.deb'.
+ dpkg-genchanges -B -mkfreebsd-amd64 Build Daemon (fano) <buildd_kfreebsd-amd64-fano at buildd.debian.org> >../bedtools_2.12.0-1_kfreebsd-amd64.changes
+dpkg-genchanges: arch-specific upload - not including arch-independent packages
+dpkg-genchanges: binary-only upload - not including any source code
dpkg-source --after-build bedtools-2.12.0
-dpkg-buildpackage: full upload (original source is included)
+dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110608-1722
-
-Finished
-────────
-
-I: Built successfully
-
-┌──────────────────────────────────────────────────────────────────────────────┐
-│ Changes │
-└──────────────────────────────────────────────────────────────────────────────┘
-
-
-bedtools_2.12.0-1_amd64.changes:
-────────────────────────────────
+Build finished at 20110608-1100
+bedtools_2.12.0-1_kfreebsd-amd64.changes:
Format: 1.8
Date: Wed, 08 Jun 2011 17:01:19 +0900
Source: bedtools
Binary: bedtools
-Architecture: source amd64
+Architecture: kfreebsd-amd64
Version: 2.12.0-1
-Distribution: unstable
+Distribution: sid
Urgency: low
-Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Maintainer: kfreebsd-amd64 Build Daemon (fano) <buildd_kfreebsd-amd64-fano at buildd.debian.org>
Changed-By: Charles Plessy <plessy at debian.org>
Description:
bedtools - suite of utilities for comparing genomic features
@@ -542,39 +607,30 @@ Changes:
.
* Initial release (Closes: #629597)
Checksums-Sha1:
- a9095eb961b38ca925d1f55e19f125f442acdbb6 1038 bedtools_2.12.0-1.dsc
- 2ba712dc9a2642ae2172402983811855309f7ae1 790069 bedtools_2.12.0.orig.tar.bz2
- e8fcc348a7548dd0aea5c53668420f8e91b089cb 4198 bedtools_2.12.0-1.debian.tar.gz
- 04880b3f2b1d8f0b640d65431a974f477b55dd28 1614122 bedtools_2.12.0-1_amd64.deb
+ 2d86301e3e4bed648b1a29743976c294acc19134 1614762 bedtools_2.12.0-1_kfreebsd-amd64.deb
Checksums-Sha256:
- 173926b694c984031b7c0a0f1230225aaa4440c59571c31e1e8589490bc607ba 1038 bedtools_2.12.0-1.dsc
- 9b57249d8891f2da2c6adc55b3088b3f5b10c35b01a106bbd129824c51290a98 790069 bedtools_2.12.0.orig.tar.bz2
- 82758e0c528cf60f44e4f4488a03b1aa4d0b65dbedc06216724152d460230c72 4198 bedtools_2.12.0-1.debian.tar.gz
- 5f7d3e1b741e860549fca03274bbe0036c64d94eb5032b941d42b7c56bd3966e 1614122 bedtools_2.12.0-1_amd64.deb
+ 3c6caacf7abf6d37f7d2e29c4d50b0080db459c99c0d81b007a86bb82b2e639a 1614762 bedtools_2.12.0-1_kfreebsd-amd64.deb
Files:
- 1c725960544ec5f66c442b7db17331c3 1038 science optional bedtools_2.12.0-1.dsc
- cf6c7cd9d457605c7602005b9037abfd 790069 science optional bedtools_2.12.0.orig.tar.bz2
- 578d850a5a0439b34a4a407897b02dbb 4198 science optional bedtools_2.12.0-1.debian.tar.gz
- 3de472bdc6e0e95d969ac4b0bfc89482 1614122 science optional bedtools_2.12.0-1_amd64.deb
+ 0bfeb3ce4572c6b4c34a449d7162d395 1614762 science optional bedtools_2.12.0-1_kfreebsd-amd64.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bedtools_2.12.0-1_amd64.deb
-───────────────────────────
+bedtools_2.12.0-1_kfreebsd-amd64.deb
+────────────────────────────────────
new debian package, version 2.0.
- size 1614122 bytes: control archive= 1651 bytes.
- 763 bytes, 15 lines control
+ size 1614762 bytes: control archive= 1656 bytes.
+ 772 bytes, 15 lines control
1978 bytes, 34 lines md5sums
Package: bedtools
Version: 2.12.0-1
- Architecture: amd64
+ Architecture: kfreebsd-amd64
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 3720
- Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
+ Installed-Size: 3730
+ Depends: libc0.1 (>= 2.3), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
Section: science
Priority: optional
Homepage: http://code.google.com/p/bedtools/
@@ -585,83 +641,78 @@ bedtools_2.12.0-1_amd64.deb
BEDTools, one can develop sophisticated pipelines that answer complicated
research questions by streaming several BEDTools together.
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/bin/
--rwxr-xr-x root/root 126456 2011-06-08 17:22 ./usr/bin/bedToIgv
--rwxr-xr-x root/root 138920 2011-06-08 17:22 ./usr/bin/bedToBam
--rwxr-xr-x root/root 69112 2011-06-08 17:22 ./usr/bin/unionBedGraphs
--rwxr-xr-x root/root 175808 2011-06-08 17:22 ./usr/bin/coverageBed
--rwxr-xr-x root/root 123024 2011-06-08 17:22 ./usr/bin/bamToBed
--rwxr-xr-x root/root 118496 2011-06-08 17:22 ./usr/bin/subtractBed
--rwxr-xr-x root/root 114136 2011-06-08 17:22 ./usr/bin/mergeBed
--rwxr-xr-x root/root 114280 2011-06-08 17:22 ./usr/bin/maskFastaFromBed
--rwxr-xr-x root/root 257792 2011-06-08 17:22 ./usr/bin/pairToBed
--rwxr-xr-x root/root 196320 2011-06-08 17:22 ./usr/bin/intersectBed
--rwxr-xr-x root/root 110752 2011-06-08 17:22 ./usr/bin/complementBed
--rwxr-xr-x root/root 200416 2011-06-08 17:22 ./usr/bin/fjoin
--rwxr-xr-x root/root 147088 2011-06-08 17:22 ./usr/bin/fastaFromBed
--rwxr-xr-x root/root 171728 2011-06-08 17:22 ./usr/bin/annotateBed
--rwxr-xr-x root/root 183800 2011-06-08 17:22 ./usr/bin/pairToPair
--rwxr-xr-x root/root 114160 2011-06-08 17:22 ./usr/bin/linksBed
--rwxr-xr-x root/root 118224 2011-06-08 17:22 ./usr/bin/flankBed
--rwxr-xr-x root/root 150976 2011-06-08 17:22 ./usr/bin/sortBed
--rwxr-xr-x root/root 110032 2011-06-08 17:22 ./usr/bin/slopBed
--rwxr-xr-x root/root 188128 2011-06-08 17:22 ./usr/bin/genomeCoverageBed
--rwxr-xr-x root/root 175800 2011-06-08 17:22 ./usr/bin/windowBed
--rwxr-xr-x root/root 101832 2011-06-08 17:22 ./usr/bin/bed12ToBed6
--rwxr-xr-x root/root 126424 2011-06-08 17:22 ./usr/bin/closestBed
--rwxr-xr-x root/root 93640 2011-06-08 17:22 ./usr/bin/overlap
--rwxr-xr-x root/root 147088 2011-06-08 17:22 ./usr/bin/cuffToTrans
--rwxr-xr-x root/root 134672 2011-06-08 17:22 ./usr/bin/shuffleBed
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/share/
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/share/bedtools/
-drwxr-xr-x root/root 0 2011-06-08 17:21 ./usr/share/bedtools/genomes/
--rwxr-xr-x root/root 585 2011-04-04 10:30 ./usr/share/bedtools/genomes/mouse.mm9.genome
--rwxr-xr-x root/root 856 2011-04-04 10:30 ./usr/share/bedtools/genomes/human.hg18.genome
--rwxr-xr-x root/root 565 2011-04-04 10:30 ./usr/share/bedtools/genomes/mouse.mm8.genome
--rwxr-xr-x root/root 1972 2011-04-04 10:30 ./usr/share/bedtools/genomes/human.hg19.genome
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/share/doc/bedtools/
--rw-r--r-- root/root 1586 2011-04-04 10:30 ./usr/share/doc/bedtools/README.rst.gz
--rw-r--r-- root/root 8577 2011-04-04 10:30 ./usr/share/doc/bedtools/changelog.gz
--rw-r--r-- root/root 4611 2011-06-08 16:59 ./usr/share/doc/bedtools/copyright
--rw-r--r-- root/root 156 2011-06-08 17:01 ./usr/share/doc/bedtools/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-06-08 11:00 ./
+drwxr-xr-x root/root 0 2011-06-08 11:00 ./usr/
+drwxr-xr-x root/root 0 2011-06-08 11:00 ./usr/share/
+drwxr-xr-x root/root 0 2011-06-08 11:00 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-06-08 11:00 ./usr/share/doc/bedtools/
+-rw-r--r-- root/root 4611 2011-06-08 07:59 ./usr/share/doc/bedtools/copyright
+-rw-r--r-- root/root 8577 2011-04-04 01:30 ./usr/share/doc/bedtools/changelog.gz
+-rw-r--r-- root/root 1586 2011-04-04 01:30 ./usr/share/doc/bedtools/README.rst.gz
+-rw-r--r-- root/root 156 2011-06-08 08:01 ./usr/share/doc/bedtools/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-06-08 11:00 ./usr/share/bedtools/
+drwxr-xr-x root/root 0 2011-06-08 10:58 ./usr/share/bedtools/genomes/
+-rwxr-xr-x root/root 856 2011-04-04 01:30 ./usr/share/bedtools/genomes/human.hg18.genome
+-rwxr-xr-x root/root 1972 2011-04-04 01:30 ./usr/share/bedtools/genomes/human.hg19.genome
+-rwxr-xr-x root/root 565 2011-04-04 01:30 ./usr/share/bedtools/genomes/mouse.mm8.genome
+-rwxr-xr-x root/root 585 2011-04-04 01:30 ./usr/share/bedtools/genomes/mouse.mm9.genome
+drwxr-xr-x root/root 0 2011-06-08 11:00 ./usr/bin/
+-rwxr-xr-x root/root 171728 2011-06-08 11:00 ./usr/bin/annotateBed
+-rwxr-xr-x root/root 123088 2011-06-08 11:00 ./usr/bin/bamToBed
+-rwxr-xr-x root/root 101832 2011-06-08 11:00 ./usr/bin/bed12ToBed6
+-rwxr-xr-x root/root 138920 2011-06-08 11:00 ./usr/bin/bedToBam
+-rwxr-xr-x root/root 126456 2011-06-08 11:00 ./usr/bin/bedToIgv
+-rwxr-xr-x root/root 126424 2011-06-08 11:00 ./usr/bin/closestBed
+-rwxr-xr-x root/root 110816 2011-06-08 11:00 ./usr/bin/complementBed
+-rwxr-xr-x root/root 175808 2011-06-08 11:00 ./usr/bin/coverageBed
+-rwxr-xr-x root/root 147088 2011-06-08 11:00 ./usr/bin/cuffToTrans
+-rwxr-xr-x root/root 147088 2011-06-08 11:00 ./usr/bin/fastaFromBed
+-rwxr-xr-x root/root 200416 2011-06-08 11:00 ./usr/bin/fjoin
+-rwxr-xr-x root/root 118224 2011-06-08 11:00 ./usr/bin/flankBed
+-rwxr-xr-x root/root 188128 2011-06-08 11:00 ./usr/bin/genomeCoverageBed
+-rwxr-xr-x root/root 196320 2011-06-08 11:00 ./usr/bin/intersectBed
+-rwxr-xr-x root/root 114160 2011-06-08 11:00 ./usr/bin/linksBed
+-rwxr-xr-x root/root 114312 2011-06-08 11:00 ./usr/bin/maskFastaFromBed
+-rwxr-xr-x root/root 114136 2011-06-08 11:00 ./usr/bin/mergeBed
+-rwxr-xr-x root/root 93640 2011-06-08 11:00 ./usr/bin/overlap
+-rwxr-xr-x root/root 257792 2011-06-08 11:00 ./usr/bin/pairToBed
+-rwxr-xr-x root/root 183800 2011-06-08 11:00 ./usr/bin/pairToPair
+-rwxr-xr-x root/root 134680 2011-06-08 11:00 ./usr/bin/shuffleBed
+-rwxr-xr-x root/root 110032 2011-06-08 11:00 ./usr/bin/slopBed
+-rwxr-xr-x root/root 150976 2011-06-08 11:00 ./usr/bin/sortBed
+-rwxr-xr-x root/root 118560 2011-06-08 11:00 ./usr/bin/subtractBed
+-rwxr-xr-x root/root 69112 2011-06-08 11:00 ./usr/bin/unionBedGraphs
+-rwxr-xr-x root/root 175800 2011-06-08 11:00 ./usr/bin/windowBed
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Post Build │
+│ Finished │
└──────────────────────────────────────────────────────────────────────────────┘
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Cleanup │
+│ Post Build │
└──────────────────────────────────────────────────────────────────────────────┘
-Purging /«CHROOT»/«BUILDDIR»
+Purging /var/lib/schroot/mount/sid-ka-sbuild-1307530651-33169/build/buildd-bedtools_2.12.0-1-kfreebsd-amd64-AKXwDc
Reading package lists...
Building dependency tree...
Reading state information...
-0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 10 not upgraded.
Reading package lists...
Building dependency tree...
Reading state information...
The following packages will be REMOVED:
- bsdmainutils* cdbs* debhelper* diffstat* file* gettext* gettext-base*
- groff-base* html2text* intltool-debian* libcroco3* libglib2.0-0* libmagic1*
- libpcre3* libpipeline1* libunistring0* libxml2* man-db* po-debconf* quilt*
- sbuild-build-depends-bedtools-dummy* sbuild-build-depends-core-dummy*
- zlib1g-dev*
-0 upgraded, 0 newly installed, 23 to remove and 0 not upgraded.
-After this operation, 28.8 MB disk space will be freed.
-(Reading database ... 12285 files and directories currently installed.)
-Removing sbuild-build-depends-bedtools-dummy ...
+ cdbs* debhelper* diffstat* file* gettext* gettext-base* groff-base*
+ html2text* intltool-debian* libcroco3* libglib2.0-0* libmagic1* libpcre3*
+ libpipeline1* libunistring0* libxml2* man-db* po-debconf* quilt* zlib1g-dev*
+0 upgraded, 0 newly installed, 20 to remove and 10 not upgraded.
+After this operation, 26.8 MB disk space will be freed.
+(Reading database ... 13616 files and directories currently installed.)
Removing cdbs ...
Removing debhelper ...
-Removing man-db ...
-Purging configuration files for man-db ...
-Removing bsdmainutils ...
-Purging configuration files for bsdmainutils ...
Removing quilt ...
Purging configuration files for quilt ...
Removing diffstat ...
@@ -670,6 +721,8 @@ Removing po-debconf ...
Removing intltool-debian ...
Removing gettext ...
Removing gettext-base ...
+Removing man-db ...
+Purging configuration files for man-db ...
Removing groff-base ...
Purging configuration files for groff-base ...
Removing html2text ...
@@ -688,25 +741,25 @@ Removing libunistring0 ...
Purging configuration files for libunistring0 ...
Removing libxml2 ...
Purging configuration files for libxml2 ...
-Removing sbuild-build-depends-core-dummy ...
Removing zlib1g-dev ...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Summary │
└──────────────────────────────────────────────────────────────────────────────┘
-Architecture: amd64
-Build-Space: 103228
-Build-Time: 67
-Distribution: unstable
-Install-Time: 27
-Job: bedtools_2.12.0-1.dsc
+Architecture: kfreebsd-amd64
+Build-Space: 103882
+Build-Time: 159
+Distribution: sid
+Install-Time: 36
+Job: bedtools_2.12.0-1
Package: bedtools
-Package-Time: 98
+Package-Time: 208
Source-Version: 2.12.0-1
-Space: 103228
+Space: 103882
Status: successful
Version: 2.12.0-1
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110608-1722
-Build needed 00:01:38, 103228k disc space
+Finished at 20110608-1100
+Build needed 00:03:28, 103882k disc space
+Signature with key '91116966' requested:
diff --git a/amd64.log b/kfreebsd-i386.log
similarity index 54%
copy from amd64.log
copy to kfreebsd-i386.log
index 36d4346..b07a8a3 100644
--- a/amd64.log
+++ b/kfreebsd-i386.log
@@ -1,134 +1,216 @@
-sbuild (Debian sbuild) 0.62.2 (05 Apr 2011) on anx191
+From buildd at field.debian.org Wed Jun 08 11:03:59 2011
+Return-path: <buildd at field.debian.org>
+Received: from kokkonen.debian.org ([2001:41b8:202:deb:1a1a:0:52c3:4b61])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=kokkonen.debian.org,
+ EMAIL=hostmaster at kokkonen.debian.org (verified)
+ by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at field.debian.org>)
+ id 1QUGYJ-0007Ig-9x
+ for logs at buildd.debian.org; Wed, 08 Jun 2011 11:03:59 +0000
+Received: from field.debian.org ([194.177.211.210])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=field.debian.org, EMAIL=hostmaster at field.debian.org (verified)
+ by kokkonen.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at field.debian.org>)
+ id 1QUGYI-0000Hn-Fw; Wed, 08 Jun 2011 11:03:58 +0000
+Received: from buildd by field.debian.org with local (Exim 4.72)
+ (envelope-from <buildd at field.debian.org>)
+ id 1QUGYH-0008Ek-NK; Wed, 08 Jun 2011 11:03:57 +0000
+Message-Id: <E1QUGYH-0008Ek-NK at field.debian.org>
+MIME-Version: 1.0
+Content-Transfer-Encoding: binary
+X-Mailer: MIME::Lite 3.027 (F2.77; B3.08; Q3.08)
+Date: Wed, 8 Jun 2011 11:03:57 +0000
+From: buildd on field <buildd at field.debian.org>
+To: logs at buildd.debian.org,aurelien at aurel32.net,christoph at debian.org
+Subject: Log for successful build of bedtools_2.12.0-1 on kfreebsd-i386
+ (dist=sid)
+Key-Id: 22C61858
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on field.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bedtools 2.12.0-1 (amd64) 08 Jun 2011 17:20 ║
+║ bedtools 2.12.0-1 (kfreebsd-i386) 08 Jun 2011 10:59 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bedtools
Version: 2.12.0-1
Source Version: 2.12.0-1
-Distribution: unstable
-Architecture: amd64
-
-I: NOTICE: Log filtering will replace 'build/bedtools-Ghn37g' with '«BUILDDIR»'
-I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/sid-amd64-sbuild-29088341-52c6-42fd-8a13-78bdff77cf92' with '«CHROOT»'
-
-┌──────────────────────────────────────────────────────────────────────────────┐
-│ Update chroot │
-└──────────────────────────────────────────────────────────────────────────────┘
-
-Hit http://ftp.jp.debian.org sid InRelease
-Hit http://ftp.jp.debian.org sid/main amd64 Packages/DiffIndex
-Hit http://ftp.jp.debian.org sid/main TranslationIndex
-Reading package lists...
+Architecture: kfreebsd-i386
+Hit http://ftp.gr.debian.org sid InRelease
+Hit http://ftp.gr.debian.org sid/main Sources/DiffIndex
+Hit http://incoming.debian.org sid InRelease
+Ign http://incoming.debian.org InRelease
+Hit http://ftp.gr.debian.org sid/contrib Sources/DiffIndex
+Hit http://ftp.gr.debian.org sid/non-free Sources/DiffIndex
+Hit http://ftp.gr.debian.org sid/main kfreebsd-i386 Packages/DiffIndex
+Hit http://ftp.gr.debian.org sid/contrib kfreebsd-i386 Packages/DiffIndex
+Hit http://ftp.gr.debian.org sid/non-free kfreebsd-i386 Packages/DiffIndex
+Ign http://ftp.gr.debian.org sid/contrib TranslationIndex
+Hit http://ftp.gr.debian.org sid/main TranslationIndex
+Ign http://ftp.gr.debian.org sid/non-free TranslationIndex
+Hit http://incoming.debian.org Release.gpg
+Ign http://ftp.gr.debian.org sid/contrib Translation-en
+Ign http://ftp.gr.debian.org sid/non-free Translation-en
+Hit http://incoming.debian.org sid/main Sources/DiffIndex
+Hit http://incoming.debian.org sid/contrib Sources/DiffIndex
+Hit http://incoming.debian.org sid/non-free Sources/DiffIndex
+Hit http://incoming.debian.org sid/main kfreebsd-i386 Packages/DiffIndex
+Hit http://incoming.debian.org sid/contrib kfreebsd-i386 Packages/DiffIndex
+Hit http://incoming.debian.org sid/non-free kfreebsd-i386 Packages/DiffIndex
+Ign http://incoming.debian.org sid/contrib TranslationIndex
+Hit http://incoming.debian.org sid/main TranslationIndex
+Ign http://incoming.debian.org sid/non-free TranslationIndex
+Hit http://incoming.debian.org Release
+Hit http://incoming.debian.org Sources
+Hit http://incoming.debian.org Packages
+Ign http://incoming.debian.org sid/contrib Translation-en
+Ign http://incoming.debian.org sid/non-free Translation-en
+Ign http://incoming.debian.org Translation-en
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
-─────────────
+Check APT
+─────────
-bedtools_2.12.0-1.dsc exists in .; copying to chroot
+Checking available source versions...
+
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+NOTICE: 'bedtools' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/git/debian-med/bedtools.git
+Need to get 796 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.12.0-1 (dsc) [1924 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.12.0-1 (tar) [790 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.12.0-1 (diff) [4198 B]
+Fetched 796 kB in 2s (284 kB/s)
+Download complete and in download only mode
Check arch
──────────
-Merged Build-Depends: build-essential, fakeroot
-Filtered Build-Depends: build-essential, fakeroot
-dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/«BUILDDIR»/resolver-XV0Q8j/apt_archive/sbuild-build-depends-core-dummy.deb'.
-OK
-Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install core build dependencies (apt-based resolver) │
+│ Install core build dependencies (internal resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
-Installing build dependencies
+Build-Depends: build-essential, fakeroot
+Checking for already installed dependencies...
+build-essential: already installed (11.5)
+fakeroot: already installed (1.15.1-1)
+Checking for dependency conflicts...
+Installing positive dependencies:
Reading package lists...
Building dependency tree...
Reading state information...
-The following NEW packages will be installed:
- sbuild-build-depends-core-dummy
-debconf: delaying package configuration, since apt-utils is not installed
-0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded.
-Need to get 0 B/706 B of archives.
-After this operation, 0 B of additional disk space will be used.
-Selecting previously deselected package sbuild-build-depends-core-dummy.
-(Reading database ... 10807 files and directories currently installed.)
-Unpacking sbuild-build-depends-core-dummy (from .../sbuild-build-depends-core-dummy.deb) ...
-Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
-Merged Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), cdbs, debhelper (>= 8), quilt, zlib1g-dev
-Filtered Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), cdbs, debhelper (>= 8), quilt, zlib1g-dev
-dpkg-deb: building package `sbuild-build-depends-bedtools-dummy' in `/«BUILDDIR»/resolver-JPNhUl/apt_archive/sbuild-build-depends-bedtools-dummy.deb'.
-OK
+0 upgraded, 0 newly installed, 0 to remove and 11 not upgraded.
+Removing negative dependencies:
Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 11 not upgraded.
+Checking correctness of dependencies...
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install bedtools build dependencies (apt-based resolver) │
+│ Install bedtools build dependencies (internal resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
-Installing build dependencies
+Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, freebsd-utils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), cdbs, debhelper (>= 8), quilt, zlib1g-dev
+Checking for already installed dependencies...
+base-files: already installed (6.4)
+base-passwd: already installed (3.5.22)
+bash: already installed (4.1-3)
+coreutils: already installed (8.5-1)
+dash: already installed (0.5.5.1-7.4)
+debianutils: already installed (4.0.1)
+diffutils: already installed (1:3.0-1)
+dpkg: already installed (1.16.0.3)
+e2fsprogs: already installed (1.41.12-4)
+findutils: already installed (4.4.2-1)
+freebsd-utils: already installed (8.1-4)
+grep: already installed (2.8-2)
+gzip: already installed (1.3.12-9)
+hostname: already installed (3.06)
+ncurses-base: already installed (5.9-1)
+ncurses-bin: already installed (5.9-1)
+perl-base: already installed (5.12.3-7)
+sed: already installed (4.2.1-9)
+login: already installed (1:4.1.4.2+svn3283-3)
+sysvinit-utils: already installed (2.88dsf-13.7)
+sysvinit: already installed (2.88dsf-13.7)
+tar: already installed (1.25-3)
+bsdutils: already installed (1:2.17.2-9.1)
+util-linux: already installed (2.17.2-9.1)
+libc6-dev: already installed (~*=PROVIDED=*=)
+gcc: already installed (4:4.6.0-5 >= 4:4.4.3 is satisfied)
+g++: already installed (4:4.6.0-5 >= 4:4.4.3 is satisfied)
+make: already installed (3.81-8.1)
+dpkg-dev: already installed (1.16.0.3 >= 1.13.5 is satisfied)
+cdbs: missing
+debhelper: missing
+Using default version 8.1.6
+quilt: missing
+zlib1g-dev: missing
+Checking for dependency conflicts...
+Installing positive dependencies: cdbs debhelper quilt zlib1g-dev
Reading package lists...
Building dependency tree...
Reading state information...
The following extra packages will be installed:
- bsdmainutils cdbs debhelper diffstat file gettext gettext-base groff-base
- html2text intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3
- libpipeline1 libunistring0 libxml2 man-db po-debconf quilt zlib1g-dev
+ diffstat file gettext gettext-base groff-base html2text intltool-debian
+ libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1 libunistring0 libxml2
+ man-db po-debconf
Suggested packages:
- wamerican wordlist whois vacation devscripts dh-make gettext-doc groff less
- www-browser libmail-box-perl procmail graphviz
+ devscripts dh-make gettext-doc groff less www-browser libmail-box-perl
+ procmail graphviz
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 diffstat file gettext gettext-base groff-base
- html2text intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3
- libpipeline1 libunistring0 libxml2 man-db po-debconf quilt
- sbuild-build-depends-bedtools-dummy zlib1g-dev
-0 upgraded, 22 newly installed, 0 to remove and 0 not upgraded.
-Need to get 2248 kB/9858 kB of archives.
-After this operation, 28.8 MB of additional disk space will be used.
-Get:1 http://ftp.jp.debian.org/debian/ sid/main bsdmainutils amd64 8.2.3 [208 kB]
-Get:2 http://ftp.jp.debian.org/debian/ sid/main groff-base amd64 1.21-6 [1150 kB]
-Get:3 http://ftp.jp.debian.org/debian/ sid/main libxml2 amd64 2.7.8.dfsg-3 [890 kB]
+ cdbs debhelper diffstat file gettext gettext-base groff-base html2text
+ intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1
+ libunistring0 libxml2 man-db po-debconf quilt zlib1g-dev
debconf: delaying package configuration, since apt-utils is not installed
-Fetched 2248 kB in 0s (4582 kB/s)
-Selecting previously deselected package bsdmainutils.
-(Reading database ... 10807 files and directories currently installed.)
-Unpacking bsdmainutils (from .../bsdmainutils_8.2.3_amd64.deb) ...
+0 upgraded, 20 newly installed, 0 to remove and 11 not upgraded.
+Need to get 0 B/9216 kB of archives.
+After this operation, 25.7 MB of additional disk space will be used.
Selecting previously deselected package groff-base.
-Unpacking groff-base (from .../groff-base_1.21-6_amd64.deb) ...
+(Reading database ... 12194 files and directories currently installed.)
+Unpacking groff-base (from .../groff-base_1.21-6_kfreebsd-i386.deb) ...
Selecting previously deselected package libpipeline1.
-Unpacking libpipeline1 (from .../libpipeline1_1.2.0-2_amd64.deb) ...
+Unpacking libpipeline1 (from .../libpipeline1_1.2.0-2_kfreebsd-i386.deb) ...
Selecting previously deselected package man-db.
-Unpacking man-db (from .../man-db_2.6.0.2-1_amd64.deb) ...
+Unpacking man-db (from .../man-db_2.6.0.2-1_kfreebsd-i386.deb) ...
Selecting previously deselected package libmagic1.
-Unpacking libmagic1 (from .../libmagic1_5.04-5+b1_amd64.deb) ...
+Unpacking libmagic1 (from .../libmagic1_5.04-5+b1_kfreebsd-i386.deb) ...
Selecting previously deselected package file.
-Unpacking file (from .../file_5.04-5+b1_amd64.deb) ...
+Unpacking file (from .../file_5.04-5+b1_kfreebsd-i386.deb) ...
Selecting previously deselected package gettext-base.
-Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_amd64.deb) ...
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_kfreebsd-i386.deb) ...
Selecting previously deselected package libpcre3.
-Unpacking libpcre3 (from .../libpcre3_8.12-3_amd64.deb) ...
+Unpacking libpcre3 (from .../libpcre3_8.12-3_kfreebsd-i386.deb) ...
Selecting previously deselected package libxml2.
-Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-3_amd64.deb) ...
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-3_kfreebsd-i386.deb) ...
Selecting previously deselected package html2text.
-Unpacking html2text (from .../html2text_1.3.2a-15_amd64.deb) ...
+Unpacking html2text (from .../html2text_1.3.2a-15_kfreebsd-i386.deb) ...
Selecting previously deselected package libglib2.0-0.
-Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.6-1_amd64.deb) ...
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.6-1_kfreebsd-i386.deb) ...
Selecting previously deselected package libcroco3.
-Unpacking libcroco3 (from .../libcroco3_0.6.2-1_amd64.deb) ...
+Unpacking libcroco3 (from .../libcroco3_0.6.2-1_kfreebsd-i386.deb) ...
Selecting previously deselected package libunistring0.
-Unpacking libunistring0 (from .../libunistring0_0.9.3-4_amd64.deb) ...
+Unpacking libunistring0 (from .../libunistring0_0.9.3-4_kfreebsd-i386.deb) ...
Selecting previously deselected package gettext.
-Unpacking gettext (from .../gettext_0.18.1.1-3_amd64.deb) ...
+Unpacking gettext (from .../gettext_0.18.1.1-3_kfreebsd-i386.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.
@@ -138,16 +220,11 @@ Unpacking debhelper (from .../debhelper_8.1.6_all.deb) ...
Selecting previously deselected package cdbs.
Unpacking cdbs (from .../archives/cdbs_0.4.94_all.deb) ...
Selecting previously deselected package diffstat.
-Unpacking diffstat (from .../diffstat_1.54-1_amd64.deb) ...
+Unpacking diffstat (from .../diffstat_1.54-1_kfreebsd-i386.deb) ...
Selecting previously deselected package quilt.
Unpacking quilt (from .../archives/quilt_0.48-7_all.deb) ...
Selecting previously deselected package zlib1g-dev.
-Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_amd64.deb) ...
-Selecting previously deselected package sbuild-build-depends-bedtools-dummy.
-Unpacking sbuild-build-depends-bedtools-dummy (from .../sbuild-build-depends-bedtools-dummy.deb) ...
-Setting up bsdmainutils (8.2.3) ...
-update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode.
-update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode.
+Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_kfreebsd-i386.deb) ...
Setting up groff-base (1.21-6) ...
Setting up libpipeline1 (1.2.0-2) ...
Setting up man-db (2.6.0.2-1) ...
@@ -170,15 +247,15 @@ Setting up cdbs (0.4.94) ...
Setting up diffstat (1.54-1) ...
Setting up quilt (0.48-7) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
-Setting up sbuild-build-depends-bedtools-dummy (0.invalid.0) ...
-
-┌──────────────────────────────────────────────────────────────────────────────┐
-│ Build environment │
-└──────────────────────────────────────────────────────────────────────────────┘
-
-Kernel: Linux 2.6.32-5-amd64 amd64 (x86_64)
-Toolchain package versions: binutils_2.21.52.20110606-1 dpkg-dev_1.16.0.3 g++-4.6_4.6.0-11 gcc-4.6_4.6.0-11 libc6-dev_2.13-5 libstdc++6_4.6.0-11 libstdc++6-4.6-dev_4.6.0-11 linux-libc-dev_2.6.39-1+b1
-Package versions: apt_0.8.14.1 base-files_6.4 base-passwd_3.5.22 bash_4.1-3 binutils_2.21.52.20110606-1 bsdmainutils_8.2.3 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.94 coreutils_8.5-1 cpp_4:4.6.0-5 cpp-4.6_4.6.0-11 dash_0.5.5.1-7.4 debconf_1.5.39 debconf-i18n_1.5.39 debfoster_2.7-1.1 debhelper_8.1.6 debian-archive-keyring_2010.08.28 debianutils_4.0.1 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.41.12-4 e2fsprogs_1.41.12-4 fakeroot_1.15.1-1 file_5.04-5+b1 findutils_4.4.2-1+b1 g++_4:4.6.0-5 g++-4.6_4.6.0-11 gcc_4:4.6.0-5 gcc-4.6_4.6.0-11 gcc-4.6-base_4.6.0-11 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.8-2 groff-base_1.21-6 gzip_1.3.12-9 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.7 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-5 libattr1_1:2.4.44-3 libblkid1_2.17.2-9.1 libbz2-1.0_1.0.5-6 libc-bin_2.13-5 libc-dev-bin_2.13-5 libc6_2.13-5 libc6-dev_2.13-5 libclass-isa-perl_0.36-1 libcloog-ppl0_0.15.9-3 libcomerr2_1.41.12-4 libcroco3_0.6.2-1 libdb4.7_4.7.25-20 libdb4.8_4.8.30-8 libdb5.1_5.1.25-10 libdpkg-perl_1.16.0.3 libelfg0_0.8.13-1 libgc1c2_1:7.1-8 libgcc1_1:4.6.0-11 libgdbm3_1.8.3-9 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.1+dfsg-7 libgmpxx4ldbl_2:5.0.1+dfsg-7 libgomp1_4.6.0-11 liblocale-gettext-perl_1.05-6+b1 liblzma2_5.0.0-2 libmagic1_5.04-5+b1 libmpc2_0.9-3 libmpfr4_3.0.1-3 libncurses5_5.9-1 libpam-modules_1.1.3-1 libpam-runtime_1.1.3-1 libpam0g_1.1.3-1 libpcre3_8.12-3 libpipeline1_1.2.0-2 libpod-plainer-perl_1.03-1 libppl-c4_0.11.2-3 libppl9_0.11.2-3 libpwl5_0.11.2-3 libquadmath0_4.6.0-11 libreadline6_6.2-2 libselinux1_2.0.98-1+b1 libsepol1_2.0.42-1 libslang2_2.2.4-2 libss2_1.41.12-4 libstdc++6_4.6.0-11 libstdc++6-4.6-dev_4.6.0-11 libswitch-perl_2.16-1 libtext-charwidth-perl_0.04-6+b1 libtext-iconv-perl_1.7-2+b1 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-17 libuuid1_2.17.2-9.1 libxml2_2.7.8.dfsg-3 linux-libc-dev_2.6.39-1+b1 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-27 make_3.81-8.1 man-db_2.6.0.2-1 mawk_1.3.3-15 mount_2.17.2-9.1 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.3-7 perl-base_5.12.3-7 perl-modules_5.12.3-7 po-debconf_1.0.16+nmu1 quilt_0.48-7 readline-common_6.2-2 sbuild-build-depends-bedtools-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 sed_4.2.1-9 sensible-utils_0.0.6 sysv-rc_2.88dsf-13.7 sysvinit_2.88dsf-13.7 sysvinit-utils_2.88dsf-13.7 tar_1.25-3 tzdata_2011g-1 util-linux_2.17.2-9.1 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+Removing negative dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 11 not upgraded.
+Checking correctness of dependencies...
+Kernel: GNU/kFreeBSD 8.1-1-686-smp kfreebsd-i386 (i686)
+Toolchain package versions: binutils_2.21.52.20110606-1 dpkg-dev_1.16.0.3 g++-4.6_4.6.0-11 gcc-4.6_4.6.0-11 kfreebsd-kernel-headers_0.54 libc0.1-dev_2.13-5 libstdc++6_4.6.0-11 libstdc++6-4.6-dev_4.6.0-11
+Package versions: apt_0.8.14.1 base-files_6.4 base-passwd_3.5.22 bash_4.1-3 binutils_2.21.52.20110606-1 bsdmainutils_8.2.2 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.94 coreutils_8.5-1 cpp_4:4.6.0-5 cpp-4.6_4.6.0-11 dash_0.5.5.1-7.4 debconf_1.5.39 debconf-english_1.5.38 debfoster_2.7-1.1 debhelper_8.1.6 debian-archive-keyring_2010.08.28 debianutils_4.0.1 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.41.12-4 e2fsprogs_1.41.12-4 fakeroot_1.15.1-1 file_5.04-5+b1 findutils_4.4.2-1 freebsd-utils_8.1-4 g++_4:4.6.0-5 g++-4.6_4.6.0-11 gcc_4:4.6.0-5 gcc-4.4-base_4.4.6-3 gcc-4.5-base_4.5.3-1 gcc-4.6_4.6.0-11 gcc-4.6-base_4.6.0-11 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.8-2 groff-base_1.21-6 gzip_1.3.12-9 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.7 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 kfreebsd-kernel-headers_0.54 libacl1_2.2.49-5 libattr1_1:2.4.44-3 libblkid1_2.17.2-9.1 libbsd0_0.3.0-1 libbz2-1.0_1.0.5-6 libc-bin_2.13-5 libc-dev-bin_2.13-5 libc0.1_2.13-5 libc0.1-dev_2.13-5 libcam0_8.2-1 libcloog-ppl0_0.15.9-3 libcomerr2_1.41.12-4 libcroco3_0.6.2-1 libdb5.1_5.1.25-10 libdpkg-perl_1.16.0.3 libedit2_2.11-20080614-2 libexpat1_2.0.1-7 libgc1c2_1:7.1-8 libgcc1_1:4.6.0-11 libgcrypt11_1.4.6-5 libgdbm3_1.8.3-9 libgeom0_8.2-1 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.1+dfsg-7 libgmpxx4ldbl_2:5.0.1+dfsg-7 libgnutls26_2.10.5-1+b1 libgomp1_4.6.0-11 libgpg-error0_1.10-0.3 libkiconv4_8.2-1 libkvm0_8.2-1 libldap-2.4-2_2.4.25-1.1 liblzma2_5.0.0-2 libmagic1_5.04-5+b1 libmpc2_0.9-3 libmpfr4_3.0.1-3 libncurses5_5.9-1 libncursesw5_5.9-1 libpam-modules_1.1.2-3 libpam-runtime_1.1.2-3 libpam0g_1.1.3-1 libpcre3_8.12-3 libpipeline1_1.2.0-2 libpng12-0_1.2.44-2 libppl-c4_0.11.2-3 libppl9_0.11.2-3 libpwl5_0.11.2-3 libquadmath0_4.6.0-11 libreadline6_6.2-2 libsasl2-2_2.1.24~rc1.dfsg1+cvs2011-05-23-2 libsbuf0_8.2-1 libslang2_2.2.4-2 libss2_1.41.12-4 libstdc++6_4.6.0-11 libstdc++6-4.6-dev_4.6.0-11 libtasn1-3_2.9-3 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-17 libuuid1_2.17.2-9.1 libxml2_2.7.8.dfsg-3 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-27 lzma_4.43-14 make_3.81-8.1 man-db_2.6.0.2-1 mawk_1.3.3-15 ncurses-base_5.9-1 ncurses-bin_5.9-1 netbase_4.45 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.3-7 perl-base_5.12.3-7 perl-modules_5.12.3-7 po-debconf_1.0.16+nmu1 procps_1:3.2.8-10 psmisc_22.13-1 quilt_0.48-7 readline-common_6.2-2 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.7.4p6-1 sysv-rc_2.88dsf-13.7 sysvinit_2.88dsf-13.7 sysvinit-utils_2.88dsf-13.7 tar_1.25-3 type-handling_0.2.23 tzdata_2011g-1 ufsutils_8.2-1 util-linux_2.17.2-9.1 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -188,7 +265,10 @@ Package versions: apt_0.8.14.1 base-files_6.4 base-passwd_3.5.22 bash_4.1-3 binu
Unpack source
─────────────
-dpkg-source: warning: extracting unsigned source package (bedtools_2.12.0-1.dsc)
+gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Wed Jun 8 08:23:42 2011 UTC using RSA key ID 2295D502
+gpgv: Can't check signature: public key not found
+dpkg-source: warning: failed to verify signature on ./bedtools_2.12.0-1.dsc
dpkg-source: info: extracting bedtools in bedtools-2.12.0
dpkg-source: info: unpacking bedtools_2.12.0.orig.tar.bz2
dpkg-source: info: unpacking bedtools_2.12.0-1.debian.tar.gz
@@ -197,7 +277,6 @@ dpkg-source: info: applying gzstream.h.patch
Check disc space
────────────────
-Sufficient free space for build
dpkg-buildpackage
─────────────────
@@ -209,24 +288,23 @@ dpkg-buildpackage: export FFLAGS from dpkg-buildflags (origin: vendor): -g -O2
dpkg-buildpackage: export LDFLAGS from dpkg-buildflags (origin: vendor):
dpkg-buildpackage: source package bedtools
dpkg-buildpackage: source version 2.12.0-1
-dpkg-buildpackage: source changed by Charles Plessy <plessy at debian.org>
dpkg-source --before-build bedtools-2.12.0
-dpkg-buildpackage: host architecture amd64
+dpkg-buildpackage: host architecture kfreebsd-i386
fakeroot debian/rules clean
test -x debian/rules
dh_testroot
rm -f debian/stamp-makefile-build debian/stamp-makefile-install
/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" CPPFLAGS="" LDFLAGS="" -k clean
-make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-kfreebsd-i386-GvXhl7/bedtools-2.12.0'
Cleaning up.
-make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-kfreebsd-i386-GvXhl7/bedtools-2.12.0'
dh_clean
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-kfreebsd-i386-GvXhl7/bedtools-2.12.0'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-kfreebsd-i386-GvXhl7/bedtools-2.12.0'
if [ -d "." ]; then \
- cd . && QUILT_PATCHES=/«BUILDDIR»/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
+ cd . && QUILT_PATCHES=/build/buildd-bedtools_2.12.0-1-kfreebsd-i386-GvXhl7/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
fi
Removing patch gzstream.h.patch
Restoring src/utils/gzstream/gzstream.C
@@ -234,29 +312,25 @@ Restoring src/utils/gzstream/gzstream.C
No patches applied
rm -rf ./.pc
rm -f debian/stamp-patch*
- dpkg-source -b bedtools-2.12.0
-dpkg-source: info: using source format `3.0 (quilt)'
-dpkg-source: warning: patches have not been applied, applying them now (use --no-preparation to override)
-dpkg-source: info: applying gzstream.h.patch
-dpkg-source: info: building bedtools using existing ./bedtools_2.12.0.orig.tar.bz2
-dpkg-source: info: building bedtools in bedtools_2.12.0-1.debian.tar.gz
-dpkg-source: info: building bedtools in bedtools_2.12.0-1.dsc
debian/rules build
test -x debian/rules
mkdir -p "."
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-kfreebsd-i386-GvXhl7/bedtools-2.12.0'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
-cd . && QUILT_PATCHES=/«BUILDDIR»/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
-File series fully applied, ends at patch gzstream.h.patch
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-kfreebsd-i386-GvXhl7/bedtools-2.12.0'
+cd . && QUILT_PATCHES=/build/buildd-bedtools_2.12.0-1-kfreebsd-i386-GvXhl7/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
+Applying patch gzstream.h.patch
+patching file src/utils/gzstream/gzstream.C
+
+Now at patch gzstream.h.patch
touch debian/stamp-patched
/usr/bin/make -f debian/rules update-config
-make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-kfreebsd-i386-GvXhl7/bedtools-2.12.0'
make[1]: Nothing to be done for `update-config'.
-make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-kfreebsd-i386-GvXhl7/bedtools-2.12.0'
/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" CPPFLAGS="" LDFLAGS=""
-make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-kfreebsd-i386-GvXhl7/bedtools-2.12.0'
[ -d obj ] || mkdir -p obj
[ -d bin ] || mkdir -p bin
Building BEDTools:
@@ -459,10 +533,10 @@ unionBedGraphsMain.cpp:49:10: warning: variable 'haveFiller' set but not used [-
* compiling windowBed.cpp
* linking windowBed
-make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-kfreebsd-i386-GvXhl7/bedtools-2.12.0'
touch debian/stamp-makefile-build
DEB_MAKE_CHECK_TARGET unset, not running checks
- fakeroot debian/rules binary
+ fakeroot debian/rules binary-arch
test -x debian/rules
dh_testroot
dh_prep
@@ -503,36 +577,25 @@ dh_shlibdeps -pbedtools
dh_gencontrol -pbedtools
dh_md5sums -pbedtools
dh_builddeb -pbedtools
-dpkg-deb: building package `bedtools' in `../bedtools_2.12.0-1_amd64.deb'.
- dpkg-genchanges >../bedtools_2.12.0-1_amd64.changes
-dpkg-genchanges: including full source code in upload
+dpkg-deb: building package `bedtools' in `../bedtools_2.12.0-1_kfreebsd-i386.deb'.
+ dpkg-genchanges -B -mkfreebsd-i386 Build Daemon (field) <buildd_kfreebsd-i386-field at buildd.debian.org> >../bedtools_2.12.0-1_kfreebsd-i386.changes
+dpkg-genchanges: arch-specific upload - not including arch-independent packages
+dpkg-genchanges: binary-only upload - not including any source code
dpkg-source --after-build bedtools-2.12.0
-dpkg-buildpackage: full upload (original source is included)
+dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110608-1722
-
-Finished
-────────
-
-I: Built successfully
-
-┌──────────────────────────────────────────────────────────────────────────────┐
-│ Changes │
-└──────────────────────────────────────────────────────────────────────────────┘
-
-
-bedtools_2.12.0-1_amd64.changes:
-────────────────────────────────
+Build finished at 20110608-1103
+bedtools_2.12.0-1_kfreebsd-i386.changes:
Format: 1.8
Date: Wed, 08 Jun 2011 17:01:19 +0900
Source: bedtools
Binary: bedtools
-Architecture: source amd64
+Architecture: kfreebsd-i386
Version: 2.12.0-1
-Distribution: unstable
+Distribution: sid
Urgency: low
-Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Maintainer: kfreebsd-i386 Build Daemon (field) <buildd_kfreebsd-i386-field at buildd.debian.org>
Changed-By: Charles Plessy <plessy at debian.org>
Description:
bedtools - suite of utilities for comparing genomic features
@@ -542,39 +605,30 @@ Changes:
.
* Initial release (Closes: #629597)
Checksums-Sha1:
- a9095eb961b38ca925d1f55e19f125f442acdbb6 1038 bedtools_2.12.0-1.dsc
- 2ba712dc9a2642ae2172402983811855309f7ae1 790069 bedtools_2.12.0.orig.tar.bz2
- e8fcc348a7548dd0aea5c53668420f8e91b089cb 4198 bedtools_2.12.0-1.debian.tar.gz
- 04880b3f2b1d8f0b640d65431a974f477b55dd28 1614122 bedtools_2.12.0-1_amd64.deb
+ e5fd8770a2d1ba023aa395c44a4904b8245c9a56 1616430 bedtools_2.12.0-1_kfreebsd-i386.deb
Checksums-Sha256:
- 173926b694c984031b7c0a0f1230225aaa4440c59571c31e1e8589490bc607ba 1038 bedtools_2.12.0-1.dsc
- 9b57249d8891f2da2c6adc55b3088b3f5b10c35b01a106bbd129824c51290a98 790069 bedtools_2.12.0.orig.tar.bz2
- 82758e0c528cf60f44e4f4488a03b1aa4d0b65dbedc06216724152d460230c72 4198 bedtools_2.12.0-1.debian.tar.gz
- 5f7d3e1b741e860549fca03274bbe0036c64d94eb5032b941d42b7c56bd3966e 1614122 bedtools_2.12.0-1_amd64.deb
+ 0af9565473d99b74de832662667d0c34abe97ec338ca8a9e5021c5728fe09c20 1616430 bedtools_2.12.0-1_kfreebsd-i386.deb
Files:
- 1c725960544ec5f66c442b7db17331c3 1038 science optional bedtools_2.12.0-1.dsc
- cf6c7cd9d457605c7602005b9037abfd 790069 science optional bedtools_2.12.0.orig.tar.bz2
- 578d850a5a0439b34a4a407897b02dbb 4198 science optional bedtools_2.12.0-1.debian.tar.gz
- 3de472bdc6e0e95d969ac4b0bfc89482 1614122 science optional bedtools_2.12.0-1_amd64.deb
+ b8e239a745721a790a6399ec653be0bf 1616430 science optional bedtools_2.12.0-1_kfreebsd-i386.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bedtools_2.12.0-1_amd64.deb
-───────────────────────────
+bedtools_2.12.0-1_kfreebsd-i386.deb
+───────────────────────────────────
new debian package, version 2.0.
- size 1614122 bytes: control archive= 1651 bytes.
- 763 bytes, 15 lines control
+ size 1616430 bytes: control archive= 1662 bytes.
+ 772 bytes, 15 lines control
1978 bytes, 34 lines md5sums
Package: bedtools
Version: 2.12.0-1
- Architecture: amd64
+ Architecture: kfreebsd-i386
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 3720
- Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
+ Installed-Size: 3622
+ Depends: libc0.1 (>= 2.13), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
Section: science
Priority: optional
Homepage: http://code.google.com/p/bedtools/
@@ -585,83 +639,78 @@ bedtools_2.12.0-1_amd64.deb
BEDTools, one can develop sophisticated pipelines that answer complicated
research questions by streaming several BEDTools together.
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/bin/
--rwxr-xr-x root/root 126456 2011-06-08 17:22 ./usr/bin/bedToIgv
--rwxr-xr-x root/root 138920 2011-06-08 17:22 ./usr/bin/bedToBam
--rwxr-xr-x root/root 69112 2011-06-08 17:22 ./usr/bin/unionBedGraphs
--rwxr-xr-x root/root 175808 2011-06-08 17:22 ./usr/bin/coverageBed
--rwxr-xr-x root/root 123024 2011-06-08 17:22 ./usr/bin/bamToBed
--rwxr-xr-x root/root 118496 2011-06-08 17:22 ./usr/bin/subtractBed
--rwxr-xr-x root/root 114136 2011-06-08 17:22 ./usr/bin/mergeBed
--rwxr-xr-x root/root 114280 2011-06-08 17:22 ./usr/bin/maskFastaFromBed
--rwxr-xr-x root/root 257792 2011-06-08 17:22 ./usr/bin/pairToBed
--rwxr-xr-x root/root 196320 2011-06-08 17:22 ./usr/bin/intersectBed
--rwxr-xr-x root/root 110752 2011-06-08 17:22 ./usr/bin/complementBed
--rwxr-xr-x root/root 200416 2011-06-08 17:22 ./usr/bin/fjoin
--rwxr-xr-x root/root 147088 2011-06-08 17:22 ./usr/bin/fastaFromBed
--rwxr-xr-x root/root 171728 2011-06-08 17:22 ./usr/bin/annotateBed
--rwxr-xr-x root/root 183800 2011-06-08 17:22 ./usr/bin/pairToPair
--rwxr-xr-x root/root 114160 2011-06-08 17:22 ./usr/bin/linksBed
--rwxr-xr-x root/root 118224 2011-06-08 17:22 ./usr/bin/flankBed
--rwxr-xr-x root/root 150976 2011-06-08 17:22 ./usr/bin/sortBed
--rwxr-xr-x root/root 110032 2011-06-08 17:22 ./usr/bin/slopBed
--rwxr-xr-x root/root 188128 2011-06-08 17:22 ./usr/bin/genomeCoverageBed
--rwxr-xr-x root/root 175800 2011-06-08 17:22 ./usr/bin/windowBed
--rwxr-xr-x root/root 101832 2011-06-08 17:22 ./usr/bin/bed12ToBed6
--rwxr-xr-x root/root 126424 2011-06-08 17:22 ./usr/bin/closestBed
--rwxr-xr-x root/root 93640 2011-06-08 17:22 ./usr/bin/overlap
--rwxr-xr-x root/root 147088 2011-06-08 17:22 ./usr/bin/cuffToTrans
--rwxr-xr-x root/root 134672 2011-06-08 17:22 ./usr/bin/shuffleBed
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/share/
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/share/bedtools/
-drwxr-xr-x root/root 0 2011-06-08 17:21 ./usr/share/bedtools/genomes/
--rwxr-xr-x root/root 585 2011-04-04 10:30 ./usr/share/bedtools/genomes/mouse.mm9.genome
--rwxr-xr-x root/root 856 2011-04-04 10:30 ./usr/share/bedtools/genomes/human.hg18.genome
--rwxr-xr-x root/root 565 2011-04-04 10:30 ./usr/share/bedtools/genomes/mouse.mm8.genome
--rwxr-xr-x root/root 1972 2011-04-04 10:30 ./usr/share/bedtools/genomes/human.hg19.genome
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/share/doc/bedtools/
--rw-r--r-- root/root 1586 2011-04-04 10:30 ./usr/share/doc/bedtools/README.rst.gz
--rw-r--r-- root/root 8577 2011-04-04 10:30 ./usr/share/doc/bedtools/changelog.gz
--rw-r--r-- root/root 4611 2011-06-08 16:59 ./usr/share/doc/bedtools/copyright
--rw-r--r-- root/root 156 2011-06-08 17:01 ./usr/share/doc/bedtools/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-06-08 11:03 ./
+drwxr-xr-x root/root 0 2011-06-08 11:03 ./usr/
+drwxr-xr-x root/root 0 2011-06-08 11:03 ./usr/share/
+drwxr-xr-x root/root 0 2011-06-08 11:03 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-06-08 11:03 ./usr/share/doc/bedtools/
+-rw-r--r-- root/root 4611 2011-06-08 07:59 ./usr/share/doc/bedtools/copyright
+-rw-r--r-- root/root 8577 2011-04-04 01:30 ./usr/share/doc/bedtools/changelog.gz
+-rw-r--r-- root/root 1586 2011-04-04 01:30 ./usr/share/doc/bedtools/README.rst.gz
+-rw-r--r-- root/root 156 2011-06-08 08:01 ./usr/share/doc/bedtools/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-06-08 11:03 ./usr/share/bedtools/
+drwxr-xr-x root/root 0 2011-06-08 11:00 ./usr/share/bedtools/genomes/
+-rwxr-xr-x root/root 856 2011-04-04 01:30 ./usr/share/bedtools/genomes/human.hg18.genome
+-rwxr-xr-x root/root 1972 2011-04-04 01:30 ./usr/share/bedtools/genomes/human.hg19.genome
+-rwxr-xr-x root/root 565 2011-04-04 01:30 ./usr/share/bedtools/genomes/mouse.mm8.genome
+-rwxr-xr-x root/root 585 2011-04-04 01:30 ./usr/share/bedtools/genomes/mouse.mm9.genome
+drwxr-xr-x root/root 0 2011-06-08 11:03 ./usr/bin/
+-rwxr-xr-x root/root 166108 2011-06-08 11:03 ./usr/bin/annotateBed
+-rwxr-xr-x root/root 118516 2011-06-08 11:03 ./usr/bin/bamToBed
+-rwxr-xr-x root/root 96344 2011-06-08 11:03 ./usr/bin/bed12ToBed6
+-rwxr-xr-x root/root 130964 2011-06-08 11:03 ./usr/bin/bedToBam
+-rwxr-xr-x root/root 121112 2011-06-08 11:03 ./usr/bin/bedToIgv
+-rwxr-xr-x root/root 120928 2011-06-08 11:03 ./usr/bin/closestBed
+-rwxr-xr-x root/root 105292 2011-06-08 11:03 ./usr/bin/complementBed
+-rwxr-xr-x root/root 171284 2011-06-08 11:03 ./usr/bin/coverageBed
+-rwxr-xr-x root/root 141500 2011-06-08 11:03 ./usr/bin/cuffToTrans
+-rwxr-xr-x root/root 141500 2011-06-08 11:03 ./usr/bin/fastaFromBed
+-rwxr-xr-x root/root 196960 2011-06-08 11:03 ./usr/bin/fjoin
+-rwxr-xr-x root/root 113864 2011-06-08 11:03 ./usr/bin/flankBed
+-rwxr-xr-x root/root 184240 2011-06-08 11:03 ./usr/bin/genomeCoverageBed
+-rwxr-xr-x root/root 190692 2011-06-08 11:03 ./usr/bin/intersectBed
+-rwxr-xr-x root/root 106340 2011-06-08 11:03 ./usr/bin/linksBed
+-rwxr-xr-x root/root 108664 2011-06-08 11:03 ./usr/bin/maskFastaFromBed
+-rwxr-xr-x root/root 108640 2011-06-08 11:03 ./usr/bin/mergeBed
+-rwxr-xr-x root/root 88152 2011-06-08 11:03 ./usr/bin/overlap
+-rwxr-xr-x root/root 252408 2011-06-08 11:03 ./usr/bin/pairToBed
+-rwxr-xr-x root/root 176544 2011-06-08 11:03 ./usr/bin/pairToPair
+-rwxr-xr-x root/root 129244 2011-06-08 11:03 ./usr/bin/shuffleBed
+-rwxr-xr-x root/root 105004 2011-06-08 11:03 ./usr/bin/slopBed
+-rwxr-xr-x root/root 143628 2011-06-08 11:03 ./usr/bin/sortBed
+-rwxr-xr-x root/root 113456 2011-06-08 11:03 ./usr/bin/subtractBed
+-rwxr-xr-x root/root 63600 2011-06-08 11:03 ./usr/bin/unionBedGraphs
+-rwxr-xr-x root/root 174288 2011-06-08 11:03 ./usr/bin/windowBed
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Post Build │
+│ Finished │
└──────────────────────────────────────────────────────────────────────────────┘
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Cleanup │
+│ Post Build │
└──────────────────────────────────────────────────────────────────────────────┘
-Purging /«CHROOT»/«BUILDDIR»
+Purging /var/lib/schroot/mount/sid-ki-sbuild-1307530744-28969/build/buildd-bedtools_2.12.0-1-kfreebsd-i386-GvXhl7
Reading package lists...
Building dependency tree...
Reading state information...
-0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 11 not upgraded.
Reading package lists...
Building dependency tree...
Reading state information...
The following packages will be REMOVED:
- bsdmainutils* cdbs* debhelper* diffstat* file* gettext* gettext-base*
- groff-base* html2text* intltool-debian* libcroco3* libglib2.0-0* libmagic1*
- libpcre3* libpipeline1* libunistring0* libxml2* man-db* po-debconf* quilt*
- sbuild-build-depends-bedtools-dummy* sbuild-build-depends-core-dummy*
- zlib1g-dev*
-0 upgraded, 0 newly installed, 23 to remove and 0 not upgraded.
-After this operation, 28.8 MB disk space will be freed.
-(Reading database ... 12285 files and directories currently installed.)
-Removing sbuild-build-depends-bedtools-dummy ...
+ cdbs* debhelper* diffstat* file* gettext* gettext-base* groff-base*
+ html2text* intltool-debian* libcroco3* libglib2.0-0* libmagic1* libpcre3*
+ libpipeline1* libunistring0* libxml2* man-db* po-debconf* quilt* zlib1g-dev*
+0 upgraded, 0 newly installed, 20 to remove and 11 not upgraded.
+After this operation, 25.7 MB disk space will be freed.
+(Reading database ... 13559 files and directories currently installed.)
Removing cdbs ...
Removing debhelper ...
-Removing man-db ...
-Purging configuration files for man-db ...
-Removing bsdmainutils ...
-Purging configuration files for bsdmainutils ...
Removing quilt ...
Purging configuration files for quilt ...
Removing diffstat ...
@@ -670,6 +719,8 @@ Removing po-debconf ...
Removing intltool-debian ...
Removing gettext ...
Removing gettext-base ...
+Removing man-db ...
+Purging configuration files for man-db ...
Removing groff-base ...
Purging configuration files for groff-base ...
Removing html2text ...
@@ -688,25 +739,25 @@ Removing libunistring0 ...
Purging configuration files for libunistring0 ...
Removing libxml2 ...
Purging configuration files for libxml2 ...
-Removing sbuild-build-depends-core-dummy ...
Removing zlib1g-dev ...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Summary │
└──────────────────────────────────────────────────────────────────────────────┘
-Architecture: amd64
-Build-Space: 103228
-Build-Time: 67
-Distribution: unstable
-Install-Time: 27
-Job: bedtools_2.12.0-1.dsc
+Architecture: kfreebsd-i386
+Build-Space: 72050
+Build-Time: 155
+Distribution: sid
+Install-Time: 77
+Job: bedtools_2.12.0-1
Package: bedtools
-Package-Time: 98
+Package-Time: 252
Source-Version: 2.12.0-1
-Space: 103228
+Space: 72050
Status: successful
Version: 2.12.0-1
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110608-1722
-Build needed 00:01:38, 103228k disc space
+Finished at 20110608-1103
+Build needed 00:04:12, 72050k disc space
+Signature with key '22C61858' requested:
diff --git a/mips.log b/mips.log
new file mode 100644
index 0000000..04e6fca
--- /dev/null
+++ b/mips.log
@@ -0,0 +1,1422 @@
+From buildd at lucatelli.debian.org Wed Jun 08 11:36:44 2011
+Return-path: <buildd at lucatelli.debian.org>
+Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=merikanto.debian.org,
+ EMAIL=hostmaster at merikanto.debian.org (verified)
+ by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at lucatelli.debian.org>)
+ id 1QUH3z-0003p6-RG
+ for logs at buildd.debian.org; Wed, 08 Jun 2011 11:36:44 +0000
+Received: from lucatelli.debian.org ([2607:f8f0:610:4000:2e0:98ff:fe00:4141])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=lucatelli.debian.org,
+ EMAIL=hostmaster at lucatelli.debian.org (verified)
+ by merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at lucatelli.debian.org>)
+ id 1QUH3x-0002ol-SH
+ for logs at buildd.debian.org; Wed, 08 Jun 2011 11:36:42 +0000
+Received: from buildd by lucatelli.debian.org with local (Exim 4.69)
+ (envelope-from <buildd at lucatelli.debian.org>) id 1QUH3n-0003re-SA
+ for logs at buildd.debian.org; Wed, 08 Jun 2011 11:36:31 +0000
+From: buildd on lucatelli <buildd at lucatelli.debian.org>
+To: logs at buildd.debian.org
+Subject: Log for successful build of bedtools_2.12.0-1 on mips (dist=sid)
+Content-Type: text/plain; charset=UTF-8
+Content-Transfer-Encoding: 8bit
+Message-Id: <E1QUH3n-0003re-SA at lucatelli.debian.org>
+Date: Wed, 08 Jun 2011 11:36:31 +0000
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on lucatelli.debian.org
+
+╔══════════════════════════════════════════════════════════════════════════════╗
+║ bedtools 2.12.0-1 (mips) 08 Jun 2011 11:04 ║
+╚══════════════════════════════════════════════════════════════════════════════╝
+
+Package: bedtools
+Version: 2.12.0-1
+Source Version: 2.12.0-1
+Architecture: mips
+Get:1 http://mirror-ubc.debian.org unstable InRelease [146 kB]
+Get:2 http://incoming.debian.org unstable InRelease [146 kB]
+Get:3 http://mirror-ubc.debian.org unstable/main Sources [5287 kB]
+Ign http://incoming.debian.org InRelease
+Get:4 http://incoming.debian.org Release.gpg [836 B]
+Get:5 http://incoming.debian.org unstable/main Sources [5287 kB]
+Get:6 http://mirror-ubc.debian.org unstable/contrib Sources [49.7 kB]
+Get:7 http://mirror-ubc.debian.org unstable/non-free Sources [92.0 kB]
+Get:8 http://mirror-ubc.debian.org unstable/main mips Packages [7164 kB]
+Get:9 http://mirror-ubc.debian.org unstable/contrib mips Packages [54.3 kB]
+Ign http://mirror-ubc.debian.org unstable/contrib TranslationIndex
+Get:10 http://mirror-ubc.debian.org unstable/main TranslationIndex [2264 B]
+Ign http://mirror-ubc.debian.org unstable/contrib Translation-en
+Get:11 http://incoming.debian.org unstable/contrib Sources [49.7 kB]
+Get:12 http://incoming.debian.org unstable/non-free Sources [92.0 kB]
+Get:13 http://incoming.debian.org unstable/main mips Packages [7164 kB]
+Get:14 http://incoming.debian.org unstable/contrib mips Packages [54.3 kB]
+Ign http://incoming.debian.org unstable/contrib TranslationIndex
+Get:15 http://incoming.debian.org unstable/main TranslationIndex [2264 B]
+Get:16 http://incoming.debian.org Release [1604 B]
+Get:17 http://incoming.debian.org Sources [48.8 kB]
+Get:18 http://incoming.debian.org Packages [468 kB]
+Ign http://incoming.debian.org unstable/contrib Translation-en
+Ign http://incoming.debian.org Translation-en
+Fetched 26.1 MB in 1min 15s (345 kB/s)
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Fetch source files │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Check APT
+─────────
+
+Checking available source versions...
+
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+NOTICE: 'bedtools' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/git/debian-med/bedtools.git
+Need to get 796 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.12.0-1 (dsc) [1924 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.12.0-1 (tar) [790 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.12.0-1 (diff) [4198 B]
+Fetched 796 kB in 1s (517 kB/s)
+Download complete and in download only mode
+
+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 (1.15.1-1)
+Checking for dependency conflicts...
+Installing positive dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 13 not upgraded.
+Removing negative dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 13 not upgraded.
+Checking correctness of dependencies...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install bedtools 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), quilt, zlib1g-dev
+Checking for already installed dependencies...
+base-files: already installed (6.4)
+base-passwd: already installed (3.5.22)
+bash: already installed (4.1-3)
+coreutils: already installed (8.5-1)
+dash: already installed (0.5.5.1-7.4)
+debianutils: already installed (4.0.1)
+diffutils: already installed (1:3.0-1)
+dpkg: already installed (1.16.0.3)
+e2fsprogs: already installed (1.41.12-4)
+findutils: already installed (4.4.2-1+b1)
+grep: already installed (2.8-2)
+gzip: already installed (1.3.12-9)
+hostname: already installed (3.06)
+ncurses-base: already installed (5.9-1)
+ncurses-bin: already installed (5.9-1)
+perl-base: already installed (5.12.3-7)
+sed: already installed (4.2.1-9)
+login: already installed (1:4.1.4.2+svn3283-3)
+sysvinit-utils: already installed (2.88dsf-13.7)
+sysvinit: already installed (2.88dsf-13.7)
+tar: already installed (1.25-3)
+bsdutils: already installed (1:2.17.2-9.1)
+mount: already installed (2.17.2-9.1)
+util-linux: already installed (2.17.2-9.1)
+libc6-dev: already installed (2.13-4)
+gcc: already installed (4:4.6.0-5 >= 4:4.4.3 is satisfied)
+g++: already installed (4:4.6.0-5 >= 4:4.4.3 is satisfied)
+make: already installed (3.81-8.1)
+dpkg-dev: already installed (1.16.0.3 >= 1.13.5 is satisfied)
+cdbs: missing
+debhelper: missing
+Using default version 8.1.6
+quilt: missing
+zlib1g-dev: missing
+Checking for dependency conflicts...
+Installing positive dependencies: cdbs debhelper quilt zlib1g-dev
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following extra packages will be installed:
+ bsdmainutils diffstat file gettext gettext-base groff-base html2text
+ intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1
+ libunistring0 libxml2 man-db po-debconf
+Suggested packages:
+ wamerican wordlist whois vacation devscripts dh-make gettext-doc groff less
+ www-browser libmail-box-perl procmail graphviz
+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 diffstat file gettext gettext-base groff-base
+ html2text intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3
+ libpipeline1 libunistring0 libxml2 man-db po-debconf quilt zlib1g-dev
+0 upgraded, 21 newly installed, 0 to remove and 13 not upgraded.
+Need to get 9596 kB of archives.
+After this operation, 30.2 MB of additional disk space will be used.
+Get:1 http://mirror-ubc.debian.org/debian/ unstable/main bsdmainutils mips 8.2.3 [206 kB]
+Get:2 http://mirror-ubc.debian.org/debian/ unstable/main groff-base mips 1.21-6 [1152 kB]
+Get:3 http://mirror-ubc.debian.org/debian/ unstable/main libpipeline1 mips 1.2.0-2 [35.5 kB]
+Get:4 http://mirror-ubc.debian.org/debian/ unstable/main man-db mips 2.6.0.2-1 [1005 kB]
+Get:5 http://mirror-ubc.debian.org/debian/ unstable/main libmagic1 mips 5.04-5+b1 [239 kB]
+Get:6 http://mirror-ubc.debian.org/debian/ unstable/main file mips 5.04-5+b1 [49.9 kB]
+Get:7 http://mirror-ubc.debian.org/debian/ unstable/main gettext-base mips 0.18.1.1-3 [153 kB]
+Get:8 http://mirror-ubc.debian.org/debian/ unstable/main libpcre3 mips 8.12-3 [262 kB]
+Get:9 http://mirror-ubc.debian.org/debian/ unstable/main libxml2 mips 2.7.8.dfsg-3 [859 kB]
+Get:10 http://mirror-ubc.debian.org/debian/ unstable/main html2text mips 1.3.2a-15 [103 kB]
+Get:11 http://mirror-ubc.debian.org/debian/ unstable/main libglib2.0-0 mips 2.28.6-1 [1509 kB]
+Get:12 http://mirror-ubc.debian.org/debian/ unstable/main libcroco3 mips 0.6.2-1 [110 kB]
+Get:13 http://mirror-ubc.debian.org/debian/ unstable/main libunistring0 mips 0.9.3-4 [415 kB]
+Get:14 http://mirror-ubc.debian.org/debian/ unstable/main gettext mips 0.18.1.1-3 [2037 kB]
+Get:15 http://mirror-ubc.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get:16 http://mirror-ubc.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get:17 http://mirror-ubc.debian.org/debian/ unstable/main debhelper all 8.1.6 [557 kB]
+Get:18 http://mirror-ubc.debian.org/debian/ unstable/main cdbs all 0.4.94 [75.5 kB]
+Get:19 http://mirror-ubc.debian.org/debian/ unstable/main diffstat mips 1.54-1 [28.8 kB]
+Get:20 http://mirror-ubc.debian.org/debian/ unstable/main quilt all 0.48-7 [354 kB]
+Get:21 http://mirror-ubc.debian.org/debian/ unstable/main zlib1g-dev mips 1:1.2.3.4.dfsg-3 [191 kB]
+debconf: delaying package configuration, since apt-utils is not installed
+Fetched 9596 kB in 1s (5627 kB/s)
+Selecting previously deselected package bsdmainutils.
+(Reading database ... 10619 files and directories currently installed.)
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.3_mips.deb) ...
+Selecting previously deselected package groff-base.
+Unpacking groff-base (from .../groff-base_1.21-6_mips.deb) ...
+Selecting previously deselected package libpipeline1.
+Unpacking libpipeline1 (from .../libpipeline1_1.2.0-2_mips.deb) ...
+Selecting previously deselected package man-db.
+Unpacking man-db (from .../man-db_2.6.0.2-1_mips.deb) ...
+Selecting previously deselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.04-5+b1_mips.deb) ...
+Selecting previously deselected package file.
+Unpacking file (from .../file_5.04-5+b1_mips.deb) ...
+Selecting previously deselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_mips.deb) ...
+Selecting previously deselected package libpcre3.
+Unpacking libpcre3 (from .../libpcre3_8.12-3_mips.deb) ...
+Selecting previously deselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-3_mips.deb) ...
+Selecting previously deselected package html2text.
+Unpacking html2text (from .../html2text_1.3.2a-15_mips.deb) ...
+Selecting previously deselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.6-1_mips.deb) ...
+Selecting previously deselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-1_mips.deb) ...
+Selecting previously deselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-4_mips.deb) ...
+Selecting previously deselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-3_mips.deb) ...
+Selecting previously deselected package intltool-debian.
+Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_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_8.1.6_all.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.94_all.deb) ...
+Selecting previously deselected package diffstat.
+Unpacking diffstat (from .../diffstat_1.54-1_mips.deb) ...
+Selecting previously deselected package quilt.
+Unpacking quilt (from .../archives/quilt_0.48-7_all.deb) ...
+Selecting previously deselected package zlib1g-dev.
+Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_mips.deb) ...
+Setting up bsdmainutils (8.2.3) ...
+update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode.
+update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode.
+Setting up groff-base (1.21-6) ...
+Setting up libpipeline1 (1.2.0-2) ...
+Setting up man-db (2.6.0.2-1) ...
+Building database of manual pages ...
+Setting up libmagic1 (5.04-5+b1) ...
+Setting up file (5.04-5+b1) ...
+Setting up gettext-base (0.18.1.1-3) ...
+Setting up libpcre3 (8.12-3) ...
+Setting up libxml2 (2.7.8.dfsg-3) ...
+Setting up html2text (1.3.2a-15) ...
+Setting up libglib2.0-0 (2.28.6-1) ...
+No schema files found: doing nothing.
+Setting up libcroco3 (0.6.2-1) ...
+Setting up libunistring0 (0.9.3-4) ...
+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 (8.1.6) ...
+Setting up cdbs (0.4.94) ...
+Setting up diffstat (1.54-1) ...
+Setting up quilt (0.48-7) ...
+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 13 not upgraded.
+Checking correctness of dependencies...
+Kernel: Linux 2.6.35.4-dsa-octeon mips (mips64)
+Toolchain package versions: binutils_2.21.51.20110523-1 dpkg-dev_1.16.0.3 g++-4.6_4.6.0-10 gcc-4.6_4.6.0-10 libc6-dev_2.13-4 libstdc++6_4.6.0-10 libstdc++6-4.6-dev_4.6.0-10 linux-libc-dev_2.6.39-1
+Package versions: apt_0.8.14.1 base-files_6.4 base-passwd_3.5.22 bash_4.1-3 binutils_2.21.51.20110523-1 bsdmainutils_8.2.3 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.94 coreutils_8.5-1 cpp_4:4.6.0-5 cpp-4.6_4.6.0-10 dash_0.5.5.1-7.4 debconf_1.5.39 debfoster_2.7-1.1 debhelper_8.1.6 debian-archive-keyring_2010.08.28 debianutils_4.0.1 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.41.12-4 e2fsprogs_1.41.12-4 fakeroot_1.15.1-1 file_5.04-5+b1 findutils_4.4.2-1+b1 g++_4:4.6.0-5 g++-4.6_4.6.0-10 gcc_4:4.6.0-5 gcc-4.4-base_4.4.6-3 gcc-4.5-base_4.5.3-1 gcc-4.6_4.6.0-10 gcc-4.6-base_4.6.0-10 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.8-2 groff-base_1.21-6 gzip_1.3.12-9 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.7 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-5 libattr1_1:2.4.44-3 libblkid1_2.17.2-9.1 libbz2-1.0_1.0.5-6 libc-bin_2.13-4 libc-dev-bin_2.13-4 libc6_2.13-4 libc6-dev_2.13-4 libcloog-ppl0_0.15.9-3 libcomerr2_1.41.12-4 libcroco3_0.6.2-1 libdb5.1_5.1.25-10 libdpkg-perl_1.16.0.3 libgc1c2_1:7.1-8 libgcc1_1:4.6.0-10 libgdbm3_1.8.3-9 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.1+dfsg-7 libgmpxx4ldbl_2:5.0.1+dfsg-7 libgomp1_4.6.0-10 liblzma2_5.0.0-2 libmagic1_5.04-5+b1 libmpc2_0.9-3 libmpfr4_3.0.1-3 libncurses5_5.9-1 libpam-modules_1.1.3-1 libpam-runtime_1.1.3-1 libpam0g_1.1.3-1 libpcre3_8.12-3 libpipeline1_1.2.0-2 libppl-c4_0.11.2-3 libppl9_0.11.2-3 libpwl5_0.11.2-3 libreadline6_6.2-2 libselinux1_2.0.98-1+b1 libsepol1_2.0.42-1 libslang2_2.2.4-2 libss2_1.41.12-4 libstdc++6_4.6.0-10 libstdc++6-4.6-dev_4.6.0-10 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-17 libuuid1_2.17.2-9.1 libxml2_2.7.8.dfsg-3 linux-libc-dev_2.6.39-1 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-27 make_3.81-8.1 man-db_2.6.0.2-1 mawk_1.3.3-15 mount_2.17.2-9.1 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.3-7 perl-base_5.12.3-7 perl-modules_5.12.3-7 po-debconf_1.0.16+nmu1 quilt_0.48-7 readline-common_6.2-2 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.7.4p6-1 sysv-rc_2.88dsf-13.7 sysvinit_2.88dsf-13.7 sysvinit-utils_2.88dsf-13.7 tar_1.25-3 tzdata_2011g-1 util-linux_2.17.2-9.1 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Unpack source
+─────────────
+
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/Source/Package.pm line 258.
+gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Wed Jun 8 08:23:42 2011 UTC using RSA key ID 2295D502
+gpgv: Can't check signature: public key not found
+dpkg-source: warning: failed to verify signature on ./bedtools_2.12.0-1.dsc
+dpkg-source: info: extracting bedtools in bedtools-2.12.0
+dpkg-source: info: unpacking bedtools_2.12.0.orig.tar.bz2
+dpkg-source: info: unpacking bedtools_2.12.0-1.debian.tar.gz
+dpkg-source: info: applying gzstream.h.patch
+
+Check disc space
+────────────────
+
+
+dpkg-buildpackage
+─────────────────
+
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+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 bedtools
+dpkg-buildpackage: source version 2.12.0-1
+ dpkg-source --before-build bedtools-2.12.0
+dpkg-buildpackage: host architecture mips
+ fakeroot debian/rules clean
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+test -x debian/rules
+dh_testroot
+rm -f debian/stamp-makefile-build debian/stamp-makefile-install
+/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" CPPFLAGS="" LDFLAGS="" -k clean
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-mips-LNLqjG/bedtools-2.12.0'
+Cleaning up.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-mips-LNLqjG/bedtools-2.12.0'
+dh_clean
+/usr/bin/make -f debian/rules reverse-config
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-mips-LNLqjG/bedtools-2.12.0'
+make[1]: Nothing to be done for `reverse-config'.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-mips-LNLqjG/bedtools-2.12.0'
+if [ -d "." ]; then \
+ cd . && QUILT_PATCHES=/build/buildd-bedtools_2.12.0-1-mips-LNLqjG/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
+ fi
+Removing patch gzstream.h.patch
+Restoring src/utils/gzstream/gzstream.C
+
+No patches applied
+rm -rf ./.pc
+rm -f debian/stamp-patch*
+ debian/rules build
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+test -x debian/rules
+mkdir -p "."
+/usr/bin/make -f debian/rules reverse-config
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-mips-LNLqjG/bedtools-2.12.0'
+make[1]: Nothing to be done for `reverse-config'.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-mips-LNLqjG/bedtools-2.12.0'
+cd . && QUILT_PATCHES=/build/buildd-bedtools_2.12.0-1-mips-LNLqjG/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
+Applying patch gzstream.h.patch
+patching file src/utils/gzstream/gzstream.C
+
+Now at patch gzstream.h.patch
+touch debian/stamp-patched
+/usr/bin/make -f debian/rules update-config
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-mips-LNLqjG/bedtools-2.12.0'
+make[1]: Nothing to be done for `update-config'.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-mips-LNLqjG/bedtools-2.12.0'
+/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" CPPFLAGS="" LDFLAGS=""
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-mips-LNLqjG/bedtools-2.12.0'
+[ -d obj ] || mkdir -p obj
+[ -d bin ] || mkdir -p bin
+Building BEDTools:
+=========================================================
+- Building in src/utils/lineFileUtilities
+ * compiling lineFileUtilities.cpp
+
+- Building in src/utils/bedFile
+ * compiling bedFile.cpp
+
+- Building in src/utils/bedGraphFile
+ * compiling bedGraphFile.cpp
+
+- Building in src/utils/tabFile
+ * compiling tabFile.cpp
+
+- Building in src/utils/genomeFile
+ * compiling genomeFile.cpp
+genomeFile.cpp: In member function 'void GenomeFile::loadGenomeFileIntoMap()':
+genomeFile.cpp:51:26: warning: variable 'c2' set but not used [-Wunused-but-set-variable]
+
+- Building in src/utils/gzstream
+g++ -g -O2 -g -O2 -Wall -c -o ../../../obj//gzstream.o gzstream.C -I.
+
+- Building in src/utils/fileType
+ * compiling fileType.cpp
+
+- Building in src/utils/bedFilePE
+ * compiling bedFilePE.cpp
+
+- Building in src/utils/sequenceUtilities
+ * compiling sequenceUtils.cpp
+
+- Building in src/utils/BamTools
+ * compiling BamReader.cpp
+ * compiling BamWriter.cpp
+ * compiling BGZF.cpp
+ * compiling BamAncillary.cpp
+ * compiling BamIndex.cpp
+BamIndex.cpp: In member function 'virtual bool BamTools::BamDefaultIndex::Load(const string&)':
+BamIndex.cpp:405:12: warning: variable 'elementsRead' set but not used [-Wunused-but-set-variable]
+BamIndex.cpp: In member function 'virtual bool BamTools::BamToolsIndex::Load(const string&)':
+BamIndex.cpp:818:12: warning: variable 'elementsRead' set but not used [-Wunused-but-set-variable]
+
+- Building in src/annotateBed
+ * compiling annotateMain.cpp
+annotateMain.cpp: In function 'int main(int, char**)':
+annotateMain.cpp:38:10: warning: variable 'haveTitles' set but not used [-Wunused-but-set-variable]
+ * compiling annotateBed.cpp
+ * linking annotateBed
+
+- Building in src/bamToBed
+ * compiling bamToBed.cpp
+bamToBed.cpp: In function 'int main(int, char**)':
+bamToBed.cpp:70:10: warning: variable 'useAlignmentScore' set but not used [-Wunused-but-set-variable]
+ * linking bamToBed
+
+- Building in src/bedToBam
+ * compiling bedToBam.cpp
+bedToBam.cpp: In function 'int main(int, char**)':
+bedToBam.cpp:59:10: warning: variable 'haveMapQual' set but not used [-Wunused-but-set-variable]
+ * linking bedToBam
+
+- Building in src/bedToIgv
+ * compiling bedToIgv.cpp
+ * linking bedToIgv
+
+- Building in src/bed12ToBed6
+ * compiling bed12ToBed6.cpp
+ * linking bed12ToBed6
+
+- Building in src/closestBed
+ * compiling closestMain.cpp
+ * compiling closestBed.cpp
+ * linking closestBed
+
+- Building in src/complementBed
+ * compiling complementMain.cpp
+ * compiling complementBed.cpp
+ * linking complementBed
+
+- Building in src/coverageBed
+ * compiling coverageMain.cpp
+ * compiling coverageBed.cpp
+ * linking coverageBed
+
+- Building in src/cuffToTrans
+ * compiling cuffToTransMain.cpp
+ * compiling cuffToTrans.cpp
+ * compiling Fasta.cpp
+Fasta.cpp: In member function 'void FastaIndexEntry::clear()':
+Fasta.cpp:28:14: warning: converting to non-pointer type 'int' from NULL [-Wconversion-null]
+Fasta.cpp:31:17: warning: converting to non-pointer type 'int' from NULL [-Wconversion-null]
+Fasta.cpp:32:16: warning: converting to non-pointer type 'int' from NULL [-Wconversion-null]
+ * compiling split.cpp
+ * linking cuffToTrans
+
+- Building in src/fastaFromBed
+ * compiling fastaFromBedMain.cpp
+ * compiling fastaFromBed.cpp
+ * linking fastaFromBed
+
+- Building in src/flankBed
+ * compiling flankBedMain.cpp
+ * compiling flankBed.cpp
+ * linking flankBed
+
+- Building in src/fjoin
+ * compiling fjoinMain.cpp
+ * compiling fjoin.cpp
+ * linking fjoin
+
+- Building in src/genomeCoverageBed
+ * compiling genomeCoverageMain.cpp
+ * compiling genomeCoverageBed.cpp
+ * linking genomeCoverageBed
+
+- Building in src/intersectBed
+ * compiling intersectMain.cpp
+ * compiling intersectBed.cpp
+ * linking intersectBed
+
+- Building in src/linksBed
+ * compiling linksMain.cpp
+ * compiling linksBed.cpp
+ * linking linksBed
+
+- Building in src/maskFastaFromBed
+ * compiling maskFastaFromBedMain.cpp
+ * compiling maskFastaFromBed.cpp
+ * linking maskFastaFromBed
+
+- Building in src/mergeBed
+ * compiling mergeMain.cpp
+mergeMain.cpp: In function 'int main(int, char**)':
+mergeMain.cpp:40:10: warning: variable 'haveMaxDistance' set but not used [-Wunused-but-set-variable]
+ * compiling mergeBed.cpp
+ * linking mergeBed
+
+- Building in src/overlap
+ * compiling overlap.cpp
+overlap.cpp: In function 'int main(int, char**)':
+overlap.cpp:44:10: warning: variable 'haveColumns' set but not used [-Wunused-but-set-variable]
+ * linking overlap
+
+- Building in src/pairToBed
+ * compiling pairToBedMain.cpp
+pairToBedMain.cpp: In function 'int main(int, char**)':
+pairToBedMain.cpp:43:10: warning: variable 'haveFraction' set but not used [-Wunused-but-set-variable]
+ * compiling pairToBed.cpp
+pairToBed.cpp: In member function 'void BedIntersectPE::FindSpanningOverlaps(const BEDPE&, std::vector<BED>&, const string&)':
+pairToBed.cpp:253:12: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp: In member function 'bool BedIntersectPE::FindOneOrMoreSpanningOverlaps(const BEDPE&, const string&)':
+pairToBed.cpp:305:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+ * linking pairToBed
+
+- Building in src/pairToPair
+ * compiling pairToPairMain.cpp
+pairToPairMain.cpp: In function 'int main(int, char**)':
+pairToPairMain.cpp:44:10: warning: variable 'haveFraction' set but not used [-Wunused-but-set-variable]
+ * compiling pairToPair.cpp
+pairToPair.cpp: In member function 'void PairToPair::FindOverlaps(const BEDPE&)':
+pairToPair.cpp:112:14: warning: variable 'found1' set but not used [-Wunused-but-set-variable]
+pairToPair.cpp:113:14: warning: variable 'found2' set but not used [-Wunused-but-set-variable]
+ * linking pairToPair
+
+- Building in src/shuffleBed
+ * compiling shuffleBedMain.cpp
+ * compiling shuffleBed.cpp
+ * linking shuffleBed
+
+- Building in src/slopBed
+ * compiling slopBedMain.cpp
+ * compiling slopBed.cpp
+ * linking slopBed
+
+- Building in src/sortBed
+ * compiling sortMain.cpp
+ * compiling sortBed.cpp
+ * linking sortBed
+
+- Building in src/subtractBed
+ * compiling subtractMain.cpp
+subtractMain.cpp: In function 'int main(int, char**)':
+subtractMain.cpp:41:10: warning: variable 'haveFraction' set but not used [-Wunused-but-set-variable]
+ * compiling subtractBed.cpp
+ * linking subtractBed
+
+- Building in src/unionBedGraphs
+ * compiling unionBedGraphs.cpp
+ * compiling unionBedGraphsMain.cpp
+unionBedGraphsMain.cpp: In function 'int main(int, char**)':
+unionBedGraphsMain.cpp:46:10: warning: variable 'haveFiles' set but not used [-Wunused-but-set-variable]
+unionBedGraphsMain.cpp:48:10: warning: variable 'haveGenome' set but not used [-Wunused-but-set-variable]
+unionBedGraphsMain.cpp:49:10: warning: variable 'haveFiller' set but not used [-Wunused-but-set-variable]
+ * linking unionBedGraphs
+
+- Building in src/windowBed
+ * compiling windowMain.cpp
+ * compiling windowBed.cpp
+ * linking windowBed
+
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-mips-LNLqjG/bedtools-2.12.0'
+touch debian/stamp-makefile-build
+DEB_MAKE_CHECK_TARGET unset, not running checks
+ fakeroot debian/rules binary-arch
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+Use of uninitialized value $ENV{"HOME"} in concatenation (.) or string at /usr/share/perl5/Dpkg/BuildFlags.pm line 109.
+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/bedtools.substvars
+dh_installdirs -pbedtools
+dh_installdocs -pbedtools
+dh_installexamples -pbedtools
+dh_installman -pbedtools
+dh_installinfo -pbedtools
+dh_installmenu -pbedtools
+dh_installcron -pbedtools
+dh_installinit -pbedtools
+dh_installdebconf -pbedtools
+dh_installemacsen -pbedtools
+dh_installcatalogs -pbedtools
+dh_installpam -pbedtools
+dh_installlogrotate -pbedtools
+dh_installlogcheck -pbedtools
+dh_installchangelogs -pbedtools RELEASE_HISTORY
+dh_installudev -pbedtools
+dh_lintian -pbedtools
+dh_bugfiles -pbedtools
+dh_install -pbedtools
+dh_link -pbedtools
+dh_installmime -pbedtools
+dh_installgsettings -pbedtools
+dh_strip -pbedtools
+dh_compress -pbedtools
+dh_fixperms -pbedtools
+dh_makeshlibs -pbedtools
+dh_installdeb -pbedtools
+dh_perl -pbedtools
+dh_shlibdeps -pbedtools
+dh_gencontrol -pbedtools
+dh_md5sums -pbedtools
+dh_builddeb -pbedtools
+dpkg-deb: building package `bedtools' in `../bedtools_2.12.0-1_mips.deb'.
+ dpkg-genchanges -B -mmips Build Daemon (lucatelli) <buildd_mips-lucatelli at buildd.debian.org> >../bedtools_2.12.0-1_mips.changes
+dpkg-genchanges: arch-specific upload - not including arch-independent packages
+dpkg-genchanges: binary-only upload - not including any source code
+ dpkg-source --after-build bedtools-2.12.0
+dpkg-buildpackage: binary only upload (no source included)
+────────────────────────────────────────────────────────────────────────────────
+Build finished at 20110608-1136
+
+bedtools_2.12.0-1_mips.changes:
+Format: 1.8
+Date: Wed, 08 Jun 2011 17:01:19 +0900
+Source: bedtools
+Binary: bedtools
+Architecture: mips
+Version: 2.12.0-1
+Distribution: sid
+Urgency: low
+Maintainer: mips Build Daemon (lucatelli) <buildd_mips-lucatelli at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ bedtools - suite of utilities for comparing genomic features
+Closes: 629597
+Changes:
+ bedtools (2.12.0-1) unstable; urgency=low
+ .
+ * Initial release (Closes: #629597)
+Checksums-Sha1:
+ 35a3355d4ad7585c016b303122e2848975548c1b 1540856 bedtools_2.12.0-1_mips.deb
+Checksums-Sha256:
+ e72e3a8c4f0dc0aba6acaac39dff50824358b440562a1d519f0b3d9931381a15 1540856 bedtools_2.12.0-1_mips.deb
+Files:
+ fb0db7c2aa9057fe902a3fd33da33b40 1540856 science optional bedtools_2.12.0-1_mips.deb
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Package contents │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+bedtools_2.12.0-1_mips.deb
+──────────────────────────
+
+ new debian package, version 2.0.
+ size 1540856 bytes: control archive= 1653 bytes.
+ 760 bytes, 15 lines control
+ 1978 bytes, 34 lines md5sums
+ Package: bedtools
+ Version: 2.12.0-1
+ Architecture: mips
+ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+ Installed-Size: 3976
+ Depends: libc6 (>= 2.2), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
+ Section: science
+ Priority: optional
+ Homepage: http://code.google.com/p/bedtools/
+ Description: suite of utilities for comparing genomic features
+ The BEDTools utilities allow one to address common genomics tasks such as
+ finding feature overlaps and computing coverage. The utilities are largely
+ based on four widely-used file formats: BED, GFF/GTF, VCF, and SAM/BAM. Using
+ BEDTools, one can develop sophisticated pipelines that answer complicated
+ research questions by streaming several BEDTools together.
+
+drwxr-xr-x root/root 0 2011-06-08 11:34 ./
+drwxr-xr-x root/root 0 2011-06-08 11:35 ./usr/
+drwxr-xr-x root/root 0 2011-06-08 11:35 ./usr/bin/
+-rwxr-xr-x root/root 66488 2011-06-08 11:35 ./usr/bin/unionBedGraphs
+-rwxr-xr-x root/root 188204 2011-06-08 11:35 ./usr/bin/coverageBed
+-rwxr-xr-x root/root 149804 2011-06-08 11:35 ./usr/bin/fastaFromBed
+-rwxr-xr-x root/root 206620 2011-06-08 11:35 ./usr/bin/intersectBed
+-rwxr-xr-x root/root 113176 2011-06-08 11:35 ./usr/bin/complementBed
+-rwxr-xr-x root/root 135656 2011-06-08 11:35 ./usr/bin/shuffleBed
+-rwxr-xr-x root/root 94344 2011-06-08 11:35 ./usr/bin/overlap
+-rwxr-xr-x root/root 115832 2011-06-08 11:35 ./usr/bin/maskFastaFromBed
+-rwxr-xr-x root/root 102648 2011-06-08 11:35 ./usr/bin/bed12ToBed6
+-rwxr-xr-x root/root 182092 2011-06-08 11:35 ./usr/bin/annotateBed
+-rwxr-xr-x root/root 129820 2011-06-08 11:35 ./usr/bin/bamToBed
+-rwxr-xr-x root/root 114168 2011-06-08 11:35 ./usr/bin/linksBed
+-rwxr-xr-x root/root 140556 2011-06-08 11:35 ./usr/bin/bedToBam
+-rwxr-xr-x root/root 149788 2011-06-08 11:35 ./usr/bin/cuffToTrans
+-rwxr-xr-x root/root 185400 2011-06-08 11:35 ./usr/bin/pairToPair
+-rwxr-xr-x root/root 126936 2011-06-08 11:35 ./usr/bin/bedToIgv
+-rwxr-xr-x root/root 271900 2011-06-08 11:35 ./usr/bin/pairToBed
+-rwxr-xr-x root/root 150232 2011-06-08 11:35 ./usr/bin/sortBed
+-rwxr-xr-x root/root 188812 2011-06-08 11:35 ./usr/bin/windowBed
+-rwxr-xr-x root/root 119544 2011-06-08 11:35 ./usr/bin/flankBed
+-rwxr-xr-x root/root 116696 2011-06-08 11:35 ./usr/bin/mergeBed
+-rwxr-xr-x root/root 112088 2011-06-08 11:35 ./usr/bin/slopBed
+-rwxr-xr-x root/root 119528 2011-06-08 11:35 ./usr/bin/subtractBed
+-rwxr-xr-x root/root 126712 2011-06-08 11:35 ./usr/bin/closestBed
+-rwxr-xr-x root/root 213580 2011-06-08 11:35 ./usr/bin/fjoin
+-rwxr-xr-x root/root 201452 2011-06-08 11:35 ./usr/bin/genomeCoverageBed
+drwxr-xr-x root/root 0 2011-06-08 11:35 ./usr/share/
+drwxr-xr-x root/root 0 2011-06-08 11:35 ./usr/share/bedtools/
+drwxr-xr-x root/root 0 2011-06-08 11:07 ./usr/share/bedtools/genomes/
+-rwxr-xr-x root/root 585 2011-04-04 01:30 ./usr/share/bedtools/genomes/mouse.mm9.genome
+-rwxr-xr-x root/root 856 2011-04-04 01:30 ./usr/share/bedtools/genomes/human.hg18.genome
+-rwxr-xr-x root/root 1972 2011-04-04 01:30 ./usr/share/bedtools/genomes/human.hg19.genome
+-rwxr-xr-x root/root 565 2011-04-04 01:30 ./usr/share/bedtools/genomes/mouse.mm8.genome
+drwxr-xr-x root/root 0 2011-06-08 11:34 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-06-08 11:35 ./usr/share/doc/bedtools/
+-rw-r--r-- root/root 156 2011-06-08 08:01 ./usr/share/doc/bedtools/changelog.Debian.gz
+-rw-r--r-- root/root 8577 2011-04-04 01:30 ./usr/share/doc/bedtools/changelog.gz
+-rw-r--r-- root/root 1586 2011-04-04 01:30 ./usr/share/doc/bedtools/README.rst.gz
+-rw-r--r-- root/root 4611 2011-06-08 07:59 ./usr/share/doc/bedtools/copyright
+
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Finished │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /var/lib/schroot/mount/sid-mips-sbuild-5e58fc61-1737-4c4b-b48c-af309415d0c5/build/buildd-bedtools_2.12.0-1-mips-LNLqjG
+Not cleaning session: cloned chroot in use
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Architecture: mips
+Build-Space: 75544
+Build-Time: 1707
+Distribution: sid
+Install-Time: 73
+Job: bedtools_2.12.0-1
+Package: bedtools
+Package-Time: 1903
+Source-Version: 2.12.0-1
+Space: 75544
+Status: successful
+Version: 2.12.0-1
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20110608-1136
+Build needed 00:31:43, 75544k disc space
+Signature with key 'F4C69470' requested:
+
+From buildd at monteverdi.ayous.org Wed Jun 08 12:29:17 2011
+Return-path: <buildd at monteverdi.ayous.org>
+Received: from monteverdi.ayous.org ([2001:a60:f006:deb:20a:1ff:fe00:987])
+ by grieg.debian.org with esmtp (Exim 4.72)
+ (envelope-from <buildd at monteverdi.ayous.org>) id 1QUHsp-0002Nh-G3
+ for logs at buildd.debian.org; Wed, 08 Jun 2011 12:29:17 +0000
+Received: from buildd by monteverdi.ayous.org with local (Exim 4.69)
+ (envelope-from <buildd at monteverdi.ayous.org>)
+ id 1QUHsj-000322-1o; Wed, 08 Jun 2011 12:29:09 +0000
+From: buildd on monteverdi <buildd at monteverdi.ayous.org>
+To: aba+buildd_monteverdi at not.so.argh.org,logs at buildd.debian.org
+Subject: Log for successful build of bedtools_2.12.0-1 on mipsel (dist=sid)
+Content-Type: text/plain; charset=UTF-8
+Content-Transfer-Encoding: 8bit
+Message-Id: <E1QUHsj-000322-1o at monteverdi.ayous.org>
+Date: Wed, 08 Jun 2011 12:29:09 +0000
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.60.5 (14 Nov 2010) on monteverdi.ayous.org
+
+╔══════════════════════════════════════════════════════════════════════════════╗
+║ bedtools 2.12.0-1 (mipsel) 08 Jun 2011 12:09 ║
+╚══════════════════════════════════════════════════════════════════════════════╝
+
+Package: bedtools
+Version: 2.12.0-1
+Architecture: mipsel
+Chroot Build Dir: /var/lib/schroot/mount/sid-mipsel-sbuild-e4f34d9d-65ac-453f-945e-44586074a8da/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT
+Start Time: 20110608-1209
+Get:1 http://incoming.debian.org unstable InRelease [146 kB]
+Ign http://incoming.debian.org InRelease
+Ign http://incoming.debian.org unstable/contrib TranslationIndex
+Get:2 http://incoming.debian.org unstable/main TranslationIndex [2264 B]
+Get:3 http://mirror.ayous.org unstable InRelease [146 kB]
+Ign http://mirror.ayous.org unstable/contrib TranslationIndex
+Get:4 http://mirror.ayous.org unstable/main TranslationIndex [2264 B]
+Get:5 http://incoming.debian.org Release.gpg [836 B]
+Get:6 http://incoming.debian.org unstable/main Sources [6666 kB]
+Get:7 http://mirror.ayous.org unstable/main Sources [6666 kB]
+Get:8 http://incoming.debian.org unstable/contrib Sources [58.8 kB]
+Get:9 http://incoming.debian.org unstable/non-free Sources [110 kB]
+Get:10 http://incoming.debian.org unstable/main mipsel Packages [9431 kB]
+Get:11 http://mirror.ayous.org unstable/contrib Sources [58.8 kB]
+Get:12 http://mirror.ayous.org unstable/non-free Sources [110 kB]
+Get:13 http://mirror.ayous.org unstable/main mipsel Packages [9431 kB]
+Get:14 http://incoming.debian.org unstable/contrib mipsel Packages [66.0 kB]
+Get:15 http://incoming.debian.org Release [1604 B]
+Get:16 http://incoming.debian.org Sources [59.9 kB]
+Get:17 http://incoming.debian.org Packages [680 kB]
+Ign http://incoming.debian.org unstable/contrib Translation-en
+Get:18 http://mirror.ayous.org unstable/contrib mipsel Packages [66.0 kB]
+Ign http://mirror.ayous.org unstable/contrib Translation-en
+Ign http://incoming.debian.org Translation-en
+Fetched 33.7 MB in 45s (738 kB/s)
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Fetch source files │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Check APT
+─────────
+
+Checking available source versions...
+
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+NOTICE: 'bedtools' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/git/debian-med/bedtools.git
+Need to get 796 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.12.0-1 (dsc) [1924 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.12.0-1 (tar) [790 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.12.0-1 (diff) [4198 B]
+Fetched 796 kB in 3s (243 kB/s)
+Download complete and in download only mode
+
+Check arch
+──────────
+
+** Using build dependencies supplied by package:
+Build-Depends: cdbs, debhelper (>= 8), quilt, zlib1g-dev
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install build dependencies (internal resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Checking for already installed source dependencies...
+cdbs: missing
+debhelper: missing
+Using default version 8.1.6
+quilt: missing
+zlib1g-dev: missing
+Checking for source dependency conflicts...
+Installing positive dependencies: cdbs debhelper quilt zlib1g-dev
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following extra packages will be installed:
+ bsdmainutils diffstat file gettext gettext-base groff-base html2text
+ intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1
+ libunistring0 libxml2 man-db po-debconf
+Suggested packages:
+ wamerican wordlist whois vacation devscripts dh-make gettext-doc groff less
+ www-browser libmail-box-perl procmail graphviz
+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 diffstat file gettext gettext-base groff-base
+ html2text intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3
+ libpipeline1 libunistring0 libxml2 man-db po-debconf quilt zlib1g-dev
+0 upgraded, 21 newly installed, 0 to remove and 49 not upgraded.
+Need to get 9564 kB of archives.
+After this operation, 30.2 MB of additional disk space will be used.
+Get:1 http://mirror.ayous.org/debian/ unstable/main bsdmainutils mipsel 8.2.3 [208 kB]
+Get:2 http://mirror.ayous.org/debian/ unstable/main groff-base mipsel 1.21-6 [1142 kB]
+Get:3 http://mirror.ayous.org/debian/ unstable/main libpipeline1 mipsel 1.2.0-2 [35.6 kB]
+Get:4 http://mirror.ayous.org/debian/ unstable/main man-db mipsel 2.6.0.2-1 [1008 kB]
+Get:5 http://mirror.ayous.org/debian/ unstable/main libmagic1 mipsel 5.04-5+b1 [238 kB]
+Get:6 http://mirror.ayous.org/debian/ unstable/main file mipsel 5.04-5+b1 [49.9 kB]
+Get:7 http://mirror.ayous.org/debian/ unstable/main gettext-base mipsel 0.18.1.1-3 [152 kB]
+Get:8 http://mirror.ayous.org/debian/ unstable/main libpcre3 mipsel 8.12-3 [262 kB]
+Get:9 http://mirror.ayous.org/debian/ unstable/main libxml2 mipsel 2.7.8.dfsg-3 [858 kB]
+Get:10 http://mirror.ayous.org/debian/ unstable/main html2text mipsel 1.3.2a-15 [103 kB]
+Get:11 http://mirror.ayous.org/debian/ unstable/main libglib2.0-0 mipsel 2.28.6-1 [1503 kB]
+Get:12 http://mirror.ayous.org/debian/ unstable/main libcroco3 mipsel 0.6.2-1 [110 kB]
+Get:13 http://mirror.ayous.org/debian/ unstable/main libunistring0 mipsel 0.9.3-4 [411 kB]
+Get:14 http://mirror.ayous.org/debian/ unstable/main gettext mipsel 0.18.1.1-3 [2023 kB]
+Get:15 http://mirror.ayous.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get:16 http://mirror.ayous.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get:17 http://mirror.ayous.org/debian/ unstable/main debhelper all 8.1.6 [557 kB]
+Get:18 http://mirror.ayous.org/debian/ unstable/main cdbs all 0.4.94 [75.5 kB]
+Get:19 http://mirror.ayous.org/debian/ unstable/main diffstat mipsel 1.54-1 [28.7 kB]
+Get:20 http://mirror.ayous.org/debian/ unstable/main quilt all 0.48-7 [354 kB]
+Get:21 http://mirror.ayous.org/debian/ unstable/main zlib1g-dev mipsel 1:1.2.3.4.dfsg-3 [192 kB]
+debconf: delaying package configuration, since apt-utils is not installed
+Fetched 9564 kB in 1s (4916 kB/s)
+Selecting previously deselected package bsdmainutils.
+(Reading database ... 11410 files and directories currently installed.)
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.3_mipsel.deb) ...
+Selecting previously deselected package groff-base.
+Unpacking groff-base (from .../groff-base_1.21-6_mipsel.deb) ...
+Selecting previously deselected package libpipeline1.
+Unpacking libpipeline1 (from .../libpipeline1_1.2.0-2_mipsel.deb) ...
+Selecting previously deselected package man-db.
+Unpacking man-db (from .../man-db_2.6.0.2-1_mipsel.deb) ...
+Selecting previously deselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.04-5+b1_mipsel.deb) ...
+Selecting previously deselected package file.
+Unpacking file (from .../file_5.04-5+b1_mipsel.deb) ...
+Selecting previously deselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_mipsel.deb) ...
+Selecting previously deselected package libpcre3.
+Unpacking libpcre3 (from .../libpcre3_8.12-3_mipsel.deb) ...
+Selecting previously deselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-3_mipsel.deb) ...
+Selecting previously deselected package html2text.
+Unpacking html2text (from .../html2text_1.3.2a-15_mipsel.deb) ...
+Selecting previously deselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.6-1_mipsel.deb) ...
+Selecting previously deselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-1_mipsel.deb) ...
+Selecting previously deselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-4_mipsel.deb) ...
+Selecting previously deselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-3_mipsel.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_8.1.6_all.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.94_all.deb) ...
+Selecting previously deselected package diffstat.
+Unpacking diffstat (from .../diffstat_1.54-1_mipsel.deb) ...
+Selecting previously deselected package quilt.
+Unpacking quilt (from .../archives/quilt_0.48-7_all.deb) ...
+Selecting previously deselected package zlib1g-dev.
+Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_mipsel.deb) ...
+Setting up bsdmainutils (8.2.3) ...
+update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode.
+update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode.
+Setting up groff-base (1.21-6) ...
+Setting up libpipeline1 (1.2.0-2) ...
+Setting up man-db (2.6.0.2-1) ...
+Building database of manual pages ...
+Setting up libmagic1 (5.04-5+b1) ...
+Setting up file (5.04-5+b1) ...
+Setting up gettext-base (0.18.1.1-3) ...
+Setting up libpcre3 (8.12-3) ...
+Setting up libxml2 (2.7.8.dfsg-3) ...
+Setting up html2text (1.3.2a-15) ...
+Setting up libglib2.0-0 (2.28.6-1) ...
+No schema files found: doing nothing.
+Setting up libcroco3 (0.6.2-1) ...
+Setting up libunistring0 (0.9.3-4) ...
+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 (8.1.6) ...
+Setting up cdbs (0.4.94) ...
+Setting up diffstat (1.54-1) ...
+Setting up quilt (0.48-7) ...
+Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
+Removing negative dependencies:
+Checking correctness of source dependencies...
+Kernel: Linux 2.6.33-rc7 mipsel (mips64)
+Toolchain package versions: libc6-dev_2.13-2 dpkg-dev_1.16.0.2 linux-libc-dev_2.6.38-4 gcc-4.6_4.6.0-6 g++-4.6_4.6.0-6 binutils_2.21.51.20110421-3 libstdc++6-4.6-dev_4.6.0-6 libstdc++6_4.6.0-6
+Package versions: apt_0.8.14.1 base-files_6.3 base-passwd_3.5.22 bash_4.1-3 binutils_2.21.51.20110421-3 bsdmainutils_8.2.3 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.94 coreutils_8.5-1 cpp_4:4.6.0-5 cpp-4.4_4.4.6-2 cpp-4.6_4.6.0-6 dash_0.5.5.1-7.4 debconf_1.5.39 debconf-english_1.5.38 debfoster_2.7-1.1 debhelper_8.1.6 debian-archive-keyring_2010.08.28 debianutils_3.4.4 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.2 dpkg-dev_1.16.0.2 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.15.1-1 file_5.04-5+b1 findutils_4.4.2-1+b1 g++_4:4.6.0-5 g++-4.4_4.4.6-2 g++-4.6_4.6.0-6 gcc_4:4.6.0-5 gcc-4.4_4.4.6-2 gcc-4.4-base_4.4.6-2 gcc-4.5-base_4.5.3-1 gcc-4.6_4.6.0-6 gcc-4.6-base_4.6.0-6 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.6.3-3 groff-base_1.21-6 gzip_1.3.12-9 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.2 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-4 libattr1_1:2.4.44-2 libblkid1_2.17.2-9.1 libbz2-1.0_1.0.5-6 libc-bin_2.13-2 libc-dev-bin_2.13-2 libc6_2.13-2 libc6-dev_2.13-2 libcloog-ppl0_0.15.9-3 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libdb4.7_4.7.25-18 libdb4.8_4.8.30-7 libdb5.1_5.1.25-10 libdpkg-perl_1.16.0.2 libgc1c2_1:7.1-7 libgcc1_1:4.6.0-6 libgdbm3_1.8.3-9 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.1+dfsg-7 libgmp3c2_2:4.3.2+dfsg-2 libgmpxx4ldbl_2:5.0.1+dfsg-7 libgomp1_4.6.0-6 liblzma2_5.0.0-2 libmagic1_5.04-5+b1 libmpc2_0.9-3 libmpfr1ldbl_2.4.2-3 libmpfr4_3.0.1-1 libncurses5_5.9-1 libpam-modules_1.1.2-3 libpam-runtime_1.1.2-3 libpam0g_1.1.2-3 libpcre3_8.12-3 libpipeline1_1.2.0-2 libppl-c4_0.11.2-3 libppl9_0.11.2-3 libpwl5_0.11.2-3 libreadline6_6.2-1 libselinux1_2.0.98-1 libsepol1_2.0.42-1 libslang2_2.2.4-2 libss2_1.41.12-2 libstdc++6_4.6.0-6 libstdc++6-4.4-dev_4.4.6-2 libstdc++6-4.6-dev_4.6.0-6 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-17 libuuid1_2.17.2-9.1 libxml2_2.7.8.dfsg-3 linux-libc-dev_2.6.38-4 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-27 make_3.81-8.1 man-db_2.6.0.2-1 mawk_1.3.3-15 mount_2.17.2-9.1 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-1 perl_5.12.3-6 perl-base_5.12.3-6 perl-modules_5.12.3-6 po-debconf_1.0.16+nmu1 quilt_0.48-7 readline-common_6.2-1 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.7.4p6-1 sysv-rc_2.88dsf-13.2 sysvinit_2.88dsf-13.2 sysvinit-utils_2.88dsf-13.2 tar_1.25-3 tzdata_2011g-1 util-linux_2.17.2-9.1 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Unpack source
+─────────────
+
+dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
+gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Wed Jun 8 08:23:42 2011 UTC using RSA key ID 2295D502
+gpgv: Can't check signature: public key not found
+dpkg-source: warning: failed to verify signature on ./bedtools_2.12.0-1.dsc
+dpkg-source: info: extracting bedtools in bedtools-2.12.0
+dpkg-source: info: unpacking bedtools_2.12.0.orig.tar.bz2
+dpkg-source: info: unpacking bedtools_2.12.0-1.debian.tar.gz
+dpkg-source: info: applying gzstream.h.patch
+
+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 bedtools
+dpkg-buildpackage: source version 2.12.0-1
+ dpkg-source --before-build bedtools-2.12.0
+dpkg-buildpackage: host architecture mipsel
+ /usr/bin/fakeroot debian/rules clean
+test -x debian/rules
+dh_testroot
+rm -f debian/stamp-makefile-build debian/stamp-makefile-install
+/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" CPPFLAGS="" LDFLAGS="" -k clean
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT/bedtools-2.12.0'
+Cleaning up.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT/bedtools-2.12.0'
+dh_clean
+/usr/bin/make -f debian/rules reverse-config
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT/bedtools-2.12.0'
+make[1]: Nothing to be done for `reverse-config'.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT/bedtools-2.12.0'
+if [ -d "." ]; then \
+ cd . && QUILT_PATCHES=/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
+ fi
+Removing patch gzstream.h.patch
+Restoring src/utils/gzstream/gzstream.C
+
+No patches applied
+rm -rf ./.pc
+rm -f debian/stamp-patch*
+ debian/rules build
+test -x debian/rules
+mkdir -p "."
+/usr/bin/make -f debian/rules reverse-config
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT/bedtools-2.12.0'
+make[1]: Nothing to be done for `reverse-config'.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT/bedtools-2.12.0'
+cd . && QUILT_PATCHES=/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
+Applying patch gzstream.h.patch
+patching file src/utils/gzstream/gzstream.C
+
+Now at patch gzstream.h.patch
+touch debian/stamp-patched
+/usr/bin/make -f debian/rules update-config
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT/bedtools-2.12.0'
+make[1]: Nothing to be done for `update-config'.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT/bedtools-2.12.0'
+/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" CPPFLAGS="" LDFLAGS=""
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT/bedtools-2.12.0'
+[ -d obj ] || mkdir -p obj
+[ -d bin ] || mkdir -p bin
+Building BEDTools:
+=========================================================
+- Building in src/utils/lineFileUtilities
+ * compiling lineFileUtilities.cpp
+
+- Building in src/utils/bedFile
+ * compiling bedFile.cpp
+
+- Building in src/utils/bedGraphFile
+ * compiling bedGraphFile.cpp
+
+- Building in src/utils/tabFile
+ * compiling tabFile.cpp
+
+- Building in src/utils/genomeFile
+ * compiling genomeFile.cpp
+genomeFile.cpp: In member function 'void GenomeFile::loadGenomeFileIntoMap()':
+genomeFile.cpp:51:26: warning: variable 'c2' set but not used [-Wunused-but-set-variable]
+
+- Building in src/utils/gzstream
+g++ -g -O2 -g -O2 -Wall -c -o ../../../obj//gzstream.o gzstream.C -I.
+
+- Building in src/utils/fileType
+ * compiling fileType.cpp
+
+- Building in src/utils/bedFilePE
+ * compiling bedFilePE.cpp
+
+- Building in src/utils/sequenceUtilities
+ * compiling sequenceUtils.cpp
+
+- Building in src/utils/BamTools
+ * compiling BamReader.cpp
+ * compiling BamWriter.cpp
+ * compiling BGZF.cpp
+ * compiling BamAncillary.cpp
+ * compiling BamIndex.cpp
+BamIndex.cpp: In member function 'virtual bool BamTools::BamDefaultIndex::Load(const string&)':
+BamIndex.cpp:405:12: warning: variable 'elementsRead' set but not used [-Wunused-but-set-variable]
+BamIndex.cpp: In member function 'virtual bool BamTools::BamToolsIndex::Load(const string&)':
+BamIndex.cpp:818:12: warning: variable 'elementsRead' set but not used [-Wunused-but-set-variable]
+
+- Building in src/annotateBed
+ * compiling annotateMain.cpp
+annotateMain.cpp: In function 'int main(int, char**)':
+annotateMain.cpp:38:10: warning: variable 'haveTitles' set but not used [-Wunused-but-set-variable]
+ * compiling annotateBed.cpp
+ * linking annotateBed
+
+- Building in src/bamToBed
+ * compiling bamToBed.cpp
+bamToBed.cpp: In function 'int main(int, char**)':
+bamToBed.cpp:70:10: warning: variable 'useAlignmentScore' set but not used [-Wunused-but-set-variable]
+ * linking bamToBed
+
+- Building in src/bedToBam
+ * compiling bedToBam.cpp
+bedToBam.cpp: In function 'int main(int, char**)':
+bedToBam.cpp:59:10: warning: variable 'haveMapQual' set but not used [-Wunused-but-set-variable]
+ * linking bedToBam
+
+- Building in src/bedToIgv
+ * compiling bedToIgv.cpp
+ * linking bedToIgv
+
+- Building in src/bed12ToBed6
+ * compiling bed12ToBed6.cpp
+ * linking bed12ToBed6
+
+- Building in src/closestBed
+ * compiling closestMain.cpp
+ * compiling closestBed.cpp
+ * linking closestBed
+
+- Building in src/complementBed
+ * compiling complementMain.cpp
+ * compiling complementBed.cpp
+ * linking complementBed
+
+- Building in src/coverageBed
+ * compiling coverageMain.cpp
+ * compiling coverageBed.cpp
+ * linking coverageBed
+
+- Building in src/cuffToTrans
+ * compiling cuffToTransMain.cpp
+ * compiling cuffToTrans.cpp
+ * compiling Fasta.cpp
+Fasta.cpp: In member function 'void FastaIndexEntry::clear()':
+Fasta.cpp:28:14: warning: converting to non-pointer type 'int' from NULL [-Wconversion-null]
+Fasta.cpp:31:17: warning: converting to non-pointer type 'int' from NULL [-Wconversion-null]
+Fasta.cpp:32:16: warning: converting to non-pointer type 'int' from NULL [-Wconversion-null]
+ * compiling split.cpp
+ * linking cuffToTrans
+
+- Building in src/fastaFromBed
+ * compiling fastaFromBedMain.cpp
+ * compiling fastaFromBed.cpp
+ * linking fastaFromBed
+
+- Building in src/flankBed
+ * compiling flankBedMain.cpp
+ * compiling flankBed.cpp
+ * linking flankBed
+
+- Building in src/fjoin
+ * compiling fjoinMain.cpp
+ * compiling fjoin.cpp
+ * linking fjoin
+
+- Building in src/genomeCoverageBed
+ * compiling genomeCoverageMain.cpp
+ * compiling genomeCoverageBed.cpp
+ * linking genomeCoverageBed
+
+- Building in src/intersectBed
+ * compiling intersectMain.cpp
+ * compiling intersectBed.cpp
+ * linking intersectBed
+
+- Building in src/linksBed
+ * compiling linksMain.cpp
+ * compiling linksBed.cpp
+ * linking linksBed
+
+- Building in src/maskFastaFromBed
+ * compiling maskFastaFromBedMain.cpp
+ * compiling maskFastaFromBed.cpp
+ * linking maskFastaFromBed
+
+- Building in src/mergeBed
+ * compiling mergeMain.cpp
+mergeMain.cpp: In function 'int main(int, char**)':
+mergeMain.cpp:40:10: warning: variable 'haveMaxDistance' set but not used [-Wunused-but-set-variable]
+ * compiling mergeBed.cpp
+ * linking mergeBed
+
+- Building in src/overlap
+ * compiling overlap.cpp
+overlap.cpp: In function 'int main(int, char**)':
+overlap.cpp:44:10: warning: variable 'haveColumns' set but not used [-Wunused-but-set-variable]
+ * linking overlap
+
+- Building in src/pairToBed
+ * compiling pairToBedMain.cpp
+pairToBedMain.cpp: In function 'int main(int, char**)':
+pairToBedMain.cpp:43:10: warning: variable 'haveFraction' set but not used [-Wunused-but-set-variable]
+ * compiling pairToBed.cpp
+pairToBed.cpp: In member function 'void BedIntersectPE::FindSpanningOverlaps(const BEDPE&, std::vector<BED>&, const string&)':
+pairToBed.cpp:253:12: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp: In member function 'bool BedIntersectPE::FindOneOrMoreSpanningOverlaps(const BEDPE&, const string&)':
+pairToBed.cpp:305:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+ * linking pairToBed
+
+- Building in src/pairToPair
+ * compiling pairToPairMain.cpp
+pairToPairMain.cpp: In function 'int main(int, char**)':
+pairToPairMain.cpp:44:10: warning: variable 'haveFraction' set but not used [-Wunused-but-set-variable]
+ * compiling pairToPair.cpp
+pairToPair.cpp: In member function 'void PairToPair::FindOverlaps(const BEDPE&)':
+pairToPair.cpp:112:14: warning: variable 'found1' set but not used [-Wunused-but-set-variable]
+pairToPair.cpp:113:14: warning: variable 'found2' set but not used [-Wunused-but-set-variable]
+ * linking pairToPair
+
+- Building in src/shuffleBed
+ * compiling shuffleBedMain.cpp
+ * compiling shuffleBed.cpp
+ * linking shuffleBed
+
+- Building in src/slopBed
+ * compiling slopBedMain.cpp
+ * compiling slopBed.cpp
+ * linking slopBed
+
+- Building in src/sortBed
+ * compiling sortMain.cpp
+ * compiling sortBed.cpp
+ * linking sortBed
+
+- Building in src/subtractBed
+ * compiling subtractMain.cpp
+subtractMain.cpp: In function 'int main(int, char**)':
+subtractMain.cpp:41:10: warning: variable 'haveFraction' set but not used [-Wunused-but-set-variable]
+ * compiling subtractBed.cpp
+ * linking subtractBed
+
+- Building in src/unionBedGraphs
+ * compiling unionBedGraphs.cpp
+ * compiling unionBedGraphsMain.cpp
+unionBedGraphsMain.cpp: In function 'int main(int, char**)':
+unionBedGraphsMain.cpp:46:10: warning: variable 'haveFiles' set but not used [-Wunused-but-set-variable]
+unionBedGraphsMain.cpp:48:10: warning: variable 'haveGenome' set but not used [-Wunused-but-set-variable]
+unionBedGraphsMain.cpp:49:10: warning: variable 'haveFiller' set but not used [-Wunused-but-set-variable]
+ * linking unionBedGraphs
+
+- Building in src/windowBed
+ * compiling windowMain.cpp
+ * compiling windowBed.cpp
+ * linking windowBed
+
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT/bedtools-2.12.0'
+touch debian/stamp-makefile-build
+DEB_MAKE_CHECK_TARGET unset, not running checks
+ /usr/bin/fakeroot debian/rules binary-arch
+test -x debian/rules
+dh_testroot
+dh_prep
+dh_installdirs -A
+mkdir -p "."
+DEB_MAKE_CHECK_TARGET unset, not running checks
+DEB_MAKE_INSTALL_TARGET unset, skipping default makefile.mk common-install target
+Adding cdbs dependencies to debian/bedtools.substvars
+dh_installdirs -pbedtools
+dh_installdocs -pbedtools
+dh_installexamples -pbedtools
+dh_installman -pbedtools
+dh_installinfo -pbedtools
+dh_installmenu -pbedtools
+dh_installcron -pbedtools
+dh_installinit -pbedtools
+dh_installdebconf -pbedtools
+dh_installemacsen -pbedtools
+dh_installcatalogs -pbedtools
+dh_installpam -pbedtools
+dh_installlogrotate -pbedtools
+dh_installlogcheck -pbedtools
+dh_installchangelogs -pbedtools RELEASE_HISTORY
+dh_installudev -pbedtools
+dh_lintian -pbedtools
+dh_bugfiles -pbedtools
+dh_install -pbedtools
+dh_link -pbedtools
+dh_installmime -pbedtools
+dh_installgsettings -pbedtools
+dh_strip -pbedtools
+dh_compress -pbedtools
+dh_fixperms -pbedtools
+dh_makeshlibs -pbedtools
+dh_installdeb -pbedtools
+dh_perl -pbedtools
+dh_shlibdeps -pbedtools
+dh_gencontrol -pbedtools
+dh_md5sums -pbedtools
+dh_builddeb -pbedtools
+dpkg-deb: building package `bedtools' in `../bedtools_2.12.0-1_mipsel.deb'.
+ dpkg-genchanges -B -mmipsel Build Daemon (monteverdi) <buildd_mipsel-monteverdi at buildd.debian.org> >../bedtools_2.12.0-1_mipsel.changes
+dpkg-genchanges: arch-specific upload - not including arch-independent packages
+dpkg-genchanges: binary-only upload - not including any source code
+ dpkg-source --after-build bedtools-2.12.0
+dpkg-buildpackage: binary only upload (no source included)
+────────────────────────────────────────────────────────────────────────────────
+Build finished at 20110608-1229
+
+bedtools_2.12.0-1_mipsel.changes:
+Format: 1.8
+Date: Wed, 08 Jun 2011 17:01:19 +0900
+Source: bedtools
+Binary: bedtools
+Architecture: mipsel
+Version: 2.12.0-1
+Distribution: sid
+Urgency: low
+Maintainer: mipsel Build Daemon (monteverdi) <buildd_mipsel-monteverdi at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ bedtools - suite of utilities for comparing genomic features
+Closes: 629597
+Changes:
+ bedtools (2.12.0-1) unstable; urgency=low
+ .
+ * Initial release (Closes: #629597)
+Checksums-Sha1:
+ 6491b7bbbcf537ca7f005000af431015f189a729 1533984 bedtools_2.12.0-1_mipsel.deb
+Checksums-Sha256:
+ 7de4efc2d8987deef32069517e5dd900b873564924861bf6365422cf3e2d690d 1533984 bedtools_2.12.0-1_mipsel.deb
+Files:
+ f3719e3f112a096cd6a4024aaf0a5159 1533984 science optional bedtools_2.12.0-1_mipsel.deb
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Package contents │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+bedtools_2.12.0-1_mipsel.deb
+────────────────────────────
+
+ new debian package, version 2.0.
+ size 1533984 bytes: control archive= 1654 bytes.
+ 762 bytes, 15 lines control
+ 1978 bytes, 34 lines md5sums
+ Package: bedtools
+ Version: 2.12.0-1
+ Architecture: mipsel
+ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+ Installed-Size: 3952
+ Depends: libc6 (>= 2.2), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
+ Section: science
+ Priority: optional
+ Homepage: http://code.google.com/p/bedtools/
+ Description: suite of utilities for comparing genomic features
+ The BEDTools utilities allow one to address common genomics tasks such as
+ finding feature overlaps and computing coverage. The utilities are largely
+ based on four widely-used file formats: BED, GFF/GTF, VCF, and SAM/BAM. Using
+ BEDTools, one can develop sophisticated pipelines that answer complicated
+ research questions by streaming several BEDTools together.
+
+drwxr-xr-x root/root 0 2011-06-08 12:28 ./
+drwxr-xr-x root/root 0 2011-06-08 12:28 ./usr/
+drwxr-xr-x root/root 0 2011-06-08 12:28 ./usr/share/
+drwxr-xr-x root/root 0 2011-06-08 12:28 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-06-08 12:28 ./usr/share/doc/bedtools/
+-rw-r--r-- root/root 8577 2011-04-04 01:30 ./usr/share/doc/bedtools/changelog.gz
+-rw-r--r-- root/root 156 2011-06-08 08:01 ./usr/share/doc/bedtools/changelog.Debian.gz
+-rw-r--r-- root/root 1586 2011-04-04 01:30 ./usr/share/doc/bedtools/README.rst.gz
+-rw-r--r-- root/root 4611 2011-06-08 07:59 ./usr/share/doc/bedtools/copyright
+drwxr-xr-x root/root 0 2011-06-08 12:28 ./usr/share/bedtools/
+drwxr-xr-x root/root 0 2011-06-08 12:12 ./usr/share/bedtools/genomes/
+-rwxr-xr-x root/root 856 2011-04-04 01:30 ./usr/share/bedtools/genomes/human.hg18.genome
+-rwxr-xr-x root/root 585 2011-04-04 01:30 ./usr/share/bedtools/genomes/mouse.mm9.genome
+-rwxr-xr-x root/root 1972 2011-04-04 01:30 ./usr/share/bedtools/genomes/human.hg19.genome
+-rwxr-xr-x root/root 565 2011-04-04 01:30 ./usr/share/bedtools/genomes/mouse.mm8.genome
+drwxr-xr-x root/root 0 2011-06-08 12:28 ./usr/bin/
+-rwxr-xr-x root/root 135400 2011-06-08 12:28 ./usr/bin/shuffleBed
+-rwxr-xr-x root/root 149164 2011-06-08 12:28 ./usr/bin/cuffToTrans
+-rwxr-xr-x root/root 181612 2011-06-08 12:28 ./usr/bin/annotateBed
+-rwxr-xr-x root/root 186188 2011-06-08 12:28 ./usr/bin/coverageBed
+-rwxr-xr-x root/root 126936 2011-06-08 12:28 ./usr/bin/bedToIgv
+-rwxr-xr-x root/root 126712 2011-06-08 12:28 ./usr/bin/closestBed
+-rwxr-xr-x root/root 115160 2011-06-08 12:28 ./usr/bin/maskFastaFromBed
+-rwxr-xr-x root/root 128508 2011-06-08 12:28 ./usr/bin/bamToBed
+-rwxr-xr-x root/root 118952 2011-06-08 12:28 ./usr/bin/flankBed
+-rwxr-xr-x root/root 205836 2011-06-08 12:28 ./usr/bin/intersectBed
+-rwxr-xr-x root/root 211580 2011-06-08 12:28 ./usr/bin/fjoin
+-rwxr-xr-x root/root 269036 2011-06-08 12:28 ./usr/bin/pairToBed
+-rwxr-xr-x root/root 188284 2011-06-08 12:28 ./usr/bin/windowBed
+-rwxr-xr-x root/root 201452 2011-06-08 12:28 ./usr/bin/genomeCoverageBed
+-rwxr-xr-x root/root 116200 2011-06-08 12:28 ./usr/bin/mergeBed
+-rwxr-xr-x root/root 66488 2011-06-08 12:28 ./usr/bin/unionBedGraphs
+-rwxr-xr-x root/root 112648 2011-06-08 12:28 ./usr/bin/complementBed
+-rwxr-xr-x root/root 149180 2011-06-08 12:28 ./usr/bin/fastaFromBed
+-rwxr-xr-x root/root 94200 2011-06-08 12:28 ./usr/bin/overlap
+-rwxr-xr-x root/root 112296 2011-06-08 12:28 ./usr/bin/linksBed
+-rwxr-xr-x root/root 111656 2011-06-08 12:28 ./usr/bin/slopBed
+-rwxr-xr-x root/root 149224 2011-06-08 12:28 ./usr/bin/sortBed
+-rwxr-xr-x root/root 182680 2011-06-08 12:28 ./usr/bin/pairToPair
+-rwxr-xr-x root/root 102168 2011-06-08 12:28 ./usr/bin/bed12ToBed6
+-rwxr-xr-x root/root 140556 2011-06-08 12:28 ./usr/bin/bedToBam
+-rwxr-xr-x root/root 119080 2011-06-08 12:28 ./usr/bin/subtractBed
+
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Finished │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
+Purging /var/lib/schroot/mount/sid-mipsel-sbuild-e4f34d9d-65ac-453f-945e-44586074a8da/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT
+Not removing build depends: cloned chroot in use
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20110608-1229
+Build needed 00:19:33, 75304k disc space
+
diff --git a/mipsel.log b/mipsel.log
new file mode 100644
index 0000000..941fb5a
--- /dev/null
+++ b/mipsel.log
@@ -0,0 +1,655 @@
+From buildd at monteverdi.ayous.org Wed Jun 08 12:29:17 2011
+Return-path: <buildd at monteverdi.ayous.org>
+Received: from monteverdi.ayous.org ([2001:a60:f006:deb:20a:1ff:fe00:987])
+ by grieg.debian.org with esmtp (Exim 4.72)
+ (envelope-from <buildd at monteverdi.ayous.org>) id 1QUHsp-0002Nh-G3
+ for logs at buildd.debian.org; Wed, 08 Jun 2011 12:29:17 +0000
+Received: from buildd by monteverdi.ayous.org with local (Exim 4.69)
+ (envelope-from <buildd at monteverdi.ayous.org>)
+ id 1QUHsj-000322-1o; Wed, 08 Jun 2011 12:29:09 +0000
+From: buildd on monteverdi <buildd at monteverdi.ayous.org>
+To: aba+buildd_monteverdi at not.so.argh.org,logs at buildd.debian.org
+Subject: Log for successful build of bedtools_2.12.0-1 on mipsel (dist=sid)
+Content-Type: text/plain; charset=UTF-8
+Content-Transfer-Encoding: 8bit
+Message-Id: <E1QUHsj-000322-1o at monteverdi.ayous.org>
+Date: Wed, 08 Jun 2011 12:29:09 +0000
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.60.5 (14 Nov 2010) on monteverdi.ayous.org
+
+╔══════════════════════════════════════════════════════════════════════════════╗
+║ bedtools 2.12.0-1 (mipsel) 08 Jun 2011 12:09 ║
+╚══════════════════════════════════════════════════════════════════════════════╝
+
+Package: bedtools
+Version: 2.12.0-1
+Architecture: mipsel
+Chroot Build Dir: /var/lib/schroot/mount/sid-mipsel-sbuild-e4f34d9d-65ac-453f-945e-44586074a8da/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT
+Start Time: 20110608-1209
+Get:1 http://incoming.debian.org unstable InRelease [146 kB]
+Ign http://incoming.debian.org InRelease
+Ign http://incoming.debian.org unstable/contrib TranslationIndex
+Get:2 http://incoming.debian.org unstable/main TranslationIndex [2264 B]
+Get:3 http://mirror.ayous.org unstable InRelease [146 kB]
+Ign http://mirror.ayous.org unstable/contrib TranslationIndex
+Get:4 http://mirror.ayous.org unstable/main TranslationIndex [2264 B]
+Get:5 http://incoming.debian.org Release.gpg [836 B]
+Get:6 http://incoming.debian.org unstable/main Sources [6666 kB]
+Get:7 http://mirror.ayous.org unstable/main Sources [6666 kB]
+Get:8 http://incoming.debian.org unstable/contrib Sources [58.8 kB]
+Get:9 http://incoming.debian.org unstable/non-free Sources [110 kB]
+Get:10 http://incoming.debian.org unstable/main mipsel Packages [9431 kB]
+Get:11 http://mirror.ayous.org unstable/contrib Sources [58.8 kB]
+Get:12 http://mirror.ayous.org unstable/non-free Sources [110 kB]
+Get:13 http://mirror.ayous.org unstable/main mipsel Packages [9431 kB]
+Get:14 http://incoming.debian.org unstable/contrib mipsel Packages [66.0 kB]
+Get:15 http://incoming.debian.org Release [1604 B]
+Get:16 http://incoming.debian.org Sources [59.9 kB]
+Get:17 http://incoming.debian.org Packages [680 kB]
+Ign http://incoming.debian.org unstable/contrib Translation-en
+Get:18 http://mirror.ayous.org unstable/contrib mipsel Packages [66.0 kB]
+Ign http://mirror.ayous.org unstable/contrib Translation-en
+Ign http://incoming.debian.org Translation-en
+Fetched 33.7 MB in 45s (738 kB/s)
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Fetch source files │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Check APT
+─────────
+
+Checking available source versions...
+
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+NOTICE: 'bedtools' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/git/debian-med/bedtools.git
+Need to get 796 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.12.0-1 (dsc) [1924 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.12.0-1 (tar) [790 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.12.0-1 (diff) [4198 B]
+Fetched 796 kB in 3s (243 kB/s)
+Download complete and in download only mode
+
+Check arch
+──────────
+
+** Using build dependencies supplied by package:
+Build-Depends: cdbs, debhelper (>= 8), quilt, zlib1g-dev
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install build dependencies (internal resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Checking for already installed source dependencies...
+cdbs: missing
+debhelper: missing
+Using default version 8.1.6
+quilt: missing
+zlib1g-dev: missing
+Checking for source dependency conflicts...
+Installing positive dependencies: cdbs debhelper quilt zlib1g-dev
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following extra packages will be installed:
+ bsdmainutils diffstat file gettext gettext-base groff-base html2text
+ intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1
+ libunistring0 libxml2 man-db po-debconf
+Suggested packages:
+ wamerican wordlist whois vacation devscripts dh-make gettext-doc groff less
+ www-browser libmail-box-perl procmail graphviz
+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 diffstat file gettext gettext-base groff-base
+ html2text intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3
+ libpipeline1 libunistring0 libxml2 man-db po-debconf quilt zlib1g-dev
+0 upgraded, 21 newly installed, 0 to remove and 49 not upgraded.
+Need to get 9564 kB of archives.
+After this operation, 30.2 MB of additional disk space will be used.
+Get:1 http://mirror.ayous.org/debian/ unstable/main bsdmainutils mipsel 8.2.3 [208 kB]
+Get:2 http://mirror.ayous.org/debian/ unstable/main groff-base mipsel 1.21-6 [1142 kB]
+Get:3 http://mirror.ayous.org/debian/ unstable/main libpipeline1 mipsel 1.2.0-2 [35.6 kB]
+Get:4 http://mirror.ayous.org/debian/ unstable/main man-db mipsel 2.6.0.2-1 [1008 kB]
+Get:5 http://mirror.ayous.org/debian/ unstable/main libmagic1 mipsel 5.04-5+b1 [238 kB]
+Get:6 http://mirror.ayous.org/debian/ unstable/main file mipsel 5.04-5+b1 [49.9 kB]
+Get:7 http://mirror.ayous.org/debian/ unstable/main gettext-base mipsel 0.18.1.1-3 [152 kB]
+Get:8 http://mirror.ayous.org/debian/ unstable/main libpcre3 mipsel 8.12-3 [262 kB]
+Get:9 http://mirror.ayous.org/debian/ unstable/main libxml2 mipsel 2.7.8.dfsg-3 [858 kB]
+Get:10 http://mirror.ayous.org/debian/ unstable/main html2text mipsel 1.3.2a-15 [103 kB]
+Get:11 http://mirror.ayous.org/debian/ unstable/main libglib2.0-0 mipsel 2.28.6-1 [1503 kB]
+Get:12 http://mirror.ayous.org/debian/ unstable/main libcroco3 mipsel 0.6.2-1 [110 kB]
+Get:13 http://mirror.ayous.org/debian/ unstable/main libunistring0 mipsel 0.9.3-4 [411 kB]
+Get:14 http://mirror.ayous.org/debian/ unstable/main gettext mipsel 0.18.1.1-3 [2023 kB]
+Get:15 http://mirror.ayous.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get:16 http://mirror.ayous.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get:17 http://mirror.ayous.org/debian/ unstable/main debhelper all 8.1.6 [557 kB]
+Get:18 http://mirror.ayous.org/debian/ unstable/main cdbs all 0.4.94 [75.5 kB]
+Get:19 http://mirror.ayous.org/debian/ unstable/main diffstat mipsel 1.54-1 [28.7 kB]
+Get:20 http://mirror.ayous.org/debian/ unstable/main quilt all 0.48-7 [354 kB]
+Get:21 http://mirror.ayous.org/debian/ unstable/main zlib1g-dev mipsel 1:1.2.3.4.dfsg-3 [192 kB]
+debconf: delaying package configuration, since apt-utils is not installed
+Fetched 9564 kB in 1s (4916 kB/s)
+Selecting previously deselected package bsdmainutils.
+(Reading database ... 11410 files and directories currently installed.)
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.3_mipsel.deb) ...
+Selecting previously deselected package groff-base.
+Unpacking groff-base (from .../groff-base_1.21-6_mipsel.deb) ...
+Selecting previously deselected package libpipeline1.
+Unpacking libpipeline1 (from .../libpipeline1_1.2.0-2_mipsel.deb) ...
+Selecting previously deselected package man-db.
+Unpacking man-db (from .../man-db_2.6.0.2-1_mipsel.deb) ...
+Selecting previously deselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.04-5+b1_mipsel.deb) ...
+Selecting previously deselected package file.
+Unpacking file (from .../file_5.04-5+b1_mipsel.deb) ...
+Selecting previously deselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_mipsel.deb) ...
+Selecting previously deselected package libpcre3.
+Unpacking libpcre3 (from .../libpcre3_8.12-3_mipsel.deb) ...
+Selecting previously deselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-3_mipsel.deb) ...
+Selecting previously deselected package html2text.
+Unpacking html2text (from .../html2text_1.3.2a-15_mipsel.deb) ...
+Selecting previously deselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.6-1_mipsel.deb) ...
+Selecting previously deselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-1_mipsel.deb) ...
+Selecting previously deselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-4_mipsel.deb) ...
+Selecting previously deselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-3_mipsel.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_8.1.6_all.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.94_all.deb) ...
+Selecting previously deselected package diffstat.
+Unpacking diffstat (from .../diffstat_1.54-1_mipsel.deb) ...
+Selecting previously deselected package quilt.
+Unpacking quilt (from .../archives/quilt_0.48-7_all.deb) ...
+Selecting previously deselected package zlib1g-dev.
+Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_mipsel.deb) ...
+Setting up bsdmainutils (8.2.3) ...
+update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode.
+update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode.
+Setting up groff-base (1.21-6) ...
+Setting up libpipeline1 (1.2.0-2) ...
+Setting up man-db (2.6.0.2-1) ...
+Building database of manual pages ...
+Setting up libmagic1 (5.04-5+b1) ...
+Setting up file (5.04-5+b1) ...
+Setting up gettext-base (0.18.1.1-3) ...
+Setting up libpcre3 (8.12-3) ...
+Setting up libxml2 (2.7.8.dfsg-3) ...
+Setting up html2text (1.3.2a-15) ...
+Setting up libglib2.0-0 (2.28.6-1) ...
+No schema files found: doing nothing.
+Setting up libcroco3 (0.6.2-1) ...
+Setting up libunistring0 (0.9.3-4) ...
+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 (8.1.6) ...
+Setting up cdbs (0.4.94) ...
+Setting up diffstat (1.54-1) ...
+Setting up quilt (0.48-7) ...
+Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
+Removing negative dependencies:
+Checking correctness of source dependencies...
+Kernel: Linux 2.6.33-rc7 mipsel (mips64)
+Toolchain package versions: libc6-dev_2.13-2 dpkg-dev_1.16.0.2 linux-libc-dev_2.6.38-4 gcc-4.6_4.6.0-6 g++-4.6_4.6.0-6 binutils_2.21.51.20110421-3 libstdc++6-4.6-dev_4.6.0-6 libstdc++6_4.6.0-6
+Package versions: apt_0.8.14.1 base-files_6.3 base-passwd_3.5.22 bash_4.1-3 binutils_2.21.51.20110421-3 bsdmainutils_8.2.3 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.94 coreutils_8.5-1 cpp_4:4.6.0-5 cpp-4.4_4.4.6-2 cpp-4.6_4.6.0-6 dash_0.5.5.1-7.4 debconf_1.5.39 debconf-english_1.5.38 debfoster_2.7-1.1 debhelper_8.1.6 debian-archive-keyring_2010.08.28 debianutils_3.4.4 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.2 dpkg-dev_1.16.0.2 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.15.1-1 file_5.04-5+b1 findutils_4.4.2-1+b1 g++_4:4.6.0-5 g++-4.4_4.4.6-2 g++-4.6_4.6.0-6 gcc_4:4.6.0-5 gcc-4.4_4.4.6-2 gcc-4.4-base_4.4.6-2 gcc-4.5-base_4.5.3-1 gcc-4.6_4.6.0-6 gcc-4.6-base_4.6.0-6 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.6.3-3 groff-base_1.21-6 gzip_1.3.12-9 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.2 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-4 libattr1_1:2.4.44-2 libblkid1_2.17.2-9.1 libbz2-1.0_1.0.5-6 libc-bin_2.13-2 libc-dev-bin_2.13-2 libc6_2.13-2 libc6-dev_2.13-2 libcloog-ppl0_0.15.9-3 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libdb4.7_4.7.25-18 libdb4.8_4.8.30-7 libdb5.1_5.1.25-10 libdpkg-perl_1.16.0.2 libgc1c2_1:7.1-7 libgcc1_1:4.6.0-6 libgdbm3_1.8.3-9 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.1+dfsg-7 libgmp3c2_2:4.3.2+dfsg-2 libgmpxx4ldbl_2:5.0.1+dfsg-7 libgomp1_4.6.0-6 liblzma2_5.0.0-2 libmagic1_5.04-5+b1 libmpc2_0.9-3 libmpfr1ldbl_2.4.2-3 libmpfr4_3.0.1-1 libncurses5_5.9-1 libpam-modules_1.1.2-3 libpam-runtime_1.1.2-3 libpam0g_1.1.2-3 libpcre3_8.12-3 libpipeline1_1.2.0-2 libppl-c4_0.11.2-3 libppl9_0.11.2-3 libpwl5_0.11.2-3 libreadline6_6.2-1 libselinux1_2.0.98-1 libsepol1_2.0.42-1 libslang2_2.2.4-2 libss2_1.41.12-2 libstdc++6_4.6.0-6 libstdc++6-4.4-dev_4.4.6-2 libstdc++6-4.6-dev_4.6.0-6 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-17 libuuid1_2.17.2-9.1 libxml2_2.7.8.dfsg-3 linux-libc-dev_2.6.38-4 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-27 make_3.81-8.1 man-db_2.6.0.2-1 mawk_1.3.3-15 mount_2.17.2-9.1 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-1 perl_5.12.3-6 perl-base_5.12.3-6 perl-modules_5.12.3-6 po-debconf_1.0.16+nmu1 quilt_0.48-7 readline-common_6.2-1 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.7.4p6-1 sysv-rc_2.88dsf-13.2 sysvinit_2.88dsf-13.2 sysvinit-utils_2.88dsf-13.2 tar_1.25-3 tzdata_2011g-1 util-linux_2.17.2-9.1 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Unpack source
+─────────────
+
+dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
+gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Wed Jun 8 08:23:42 2011 UTC using RSA key ID 2295D502
+gpgv: Can't check signature: public key not found
+dpkg-source: warning: failed to verify signature on ./bedtools_2.12.0-1.dsc
+dpkg-source: info: extracting bedtools in bedtools-2.12.0
+dpkg-source: info: unpacking bedtools_2.12.0.orig.tar.bz2
+dpkg-source: info: unpacking bedtools_2.12.0-1.debian.tar.gz
+dpkg-source: info: applying gzstream.h.patch
+
+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 bedtools
+dpkg-buildpackage: source version 2.12.0-1
+ dpkg-source --before-build bedtools-2.12.0
+dpkg-buildpackage: host architecture mipsel
+ /usr/bin/fakeroot debian/rules clean
+test -x debian/rules
+dh_testroot
+rm -f debian/stamp-makefile-build debian/stamp-makefile-install
+/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" CPPFLAGS="" LDFLAGS="" -k clean
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT/bedtools-2.12.0'
+Cleaning up.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT/bedtools-2.12.0'
+dh_clean
+/usr/bin/make -f debian/rules reverse-config
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT/bedtools-2.12.0'
+make[1]: Nothing to be done for `reverse-config'.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT/bedtools-2.12.0'
+if [ -d "." ]; then \
+ cd . && QUILT_PATCHES=/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
+ fi
+Removing patch gzstream.h.patch
+Restoring src/utils/gzstream/gzstream.C
+
+No patches applied
+rm -rf ./.pc
+rm -f debian/stamp-patch*
+ debian/rules build
+test -x debian/rules
+mkdir -p "."
+/usr/bin/make -f debian/rules reverse-config
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT/bedtools-2.12.0'
+make[1]: Nothing to be done for `reverse-config'.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT/bedtools-2.12.0'
+cd . && QUILT_PATCHES=/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
+Applying patch gzstream.h.patch
+patching file src/utils/gzstream/gzstream.C
+
+Now at patch gzstream.h.patch
+touch debian/stamp-patched
+/usr/bin/make -f debian/rules update-config
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT/bedtools-2.12.0'
+make[1]: Nothing to be done for `update-config'.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT/bedtools-2.12.0'
+/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" CPPFLAGS="" LDFLAGS=""
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT/bedtools-2.12.0'
+[ -d obj ] || mkdir -p obj
+[ -d bin ] || mkdir -p bin
+Building BEDTools:
+=========================================================
+- Building in src/utils/lineFileUtilities
+ * compiling lineFileUtilities.cpp
+
+- Building in src/utils/bedFile
+ * compiling bedFile.cpp
+
+- Building in src/utils/bedGraphFile
+ * compiling bedGraphFile.cpp
+
+- Building in src/utils/tabFile
+ * compiling tabFile.cpp
+
+- Building in src/utils/genomeFile
+ * compiling genomeFile.cpp
+genomeFile.cpp: In member function 'void GenomeFile::loadGenomeFileIntoMap()':
+genomeFile.cpp:51:26: warning: variable 'c2' set but not used [-Wunused-but-set-variable]
+
+- Building in src/utils/gzstream
+g++ -g -O2 -g -O2 -Wall -c -o ../../../obj//gzstream.o gzstream.C -I.
+
+- Building in src/utils/fileType
+ * compiling fileType.cpp
+
+- Building in src/utils/bedFilePE
+ * compiling bedFilePE.cpp
+
+- Building in src/utils/sequenceUtilities
+ * compiling sequenceUtils.cpp
+
+- Building in src/utils/BamTools
+ * compiling BamReader.cpp
+ * compiling BamWriter.cpp
+ * compiling BGZF.cpp
+ * compiling BamAncillary.cpp
+ * compiling BamIndex.cpp
+BamIndex.cpp: In member function 'virtual bool BamTools::BamDefaultIndex::Load(const string&)':
+BamIndex.cpp:405:12: warning: variable 'elementsRead' set but not used [-Wunused-but-set-variable]
+BamIndex.cpp: In member function 'virtual bool BamTools::BamToolsIndex::Load(const string&)':
+BamIndex.cpp:818:12: warning: variable 'elementsRead' set but not used [-Wunused-but-set-variable]
+
+- Building in src/annotateBed
+ * compiling annotateMain.cpp
+annotateMain.cpp: In function 'int main(int, char**)':
+annotateMain.cpp:38:10: warning: variable 'haveTitles' set but not used [-Wunused-but-set-variable]
+ * compiling annotateBed.cpp
+ * linking annotateBed
+
+- Building in src/bamToBed
+ * compiling bamToBed.cpp
+bamToBed.cpp: In function 'int main(int, char**)':
+bamToBed.cpp:70:10: warning: variable 'useAlignmentScore' set but not used [-Wunused-but-set-variable]
+ * linking bamToBed
+
+- Building in src/bedToBam
+ * compiling bedToBam.cpp
+bedToBam.cpp: In function 'int main(int, char**)':
+bedToBam.cpp:59:10: warning: variable 'haveMapQual' set but not used [-Wunused-but-set-variable]
+ * linking bedToBam
+
+- Building in src/bedToIgv
+ * compiling bedToIgv.cpp
+ * linking bedToIgv
+
+- Building in src/bed12ToBed6
+ * compiling bed12ToBed6.cpp
+ * linking bed12ToBed6
+
+- Building in src/closestBed
+ * compiling closestMain.cpp
+ * compiling closestBed.cpp
+ * linking closestBed
+
+- Building in src/complementBed
+ * compiling complementMain.cpp
+ * compiling complementBed.cpp
+ * linking complementBed
+
+- Building in src/coverageBed
+ * compiling coverageMain.cpp
+ * compiling coverageBed.cpp
+ * linking coverageBed
+
+- Building in src/cuffToTrans
+ * compiling cuffToTransMain.cpp
+ * compiling cuffToTrans.cpp
+ * compiling Fasta.cpp
+Fasta.cpp: In member function 'void FastaIndexEntry::clear()':
+Fasta.cpp:28:14: warning: converting to non-pointer type 'int' from NULL [-Wconversion-null]
+Fasta.cpp:31:17: warning: converting to non-pointer type 'int' from NULL [-Wconversion-null]
+Fasta.cpp:32:16: warning: converting to non-pointer type 'int' from NULL [-Wconversion-null]
+ * compiling split.cpp
+ * linking cuffToTrans
+
+- Building in src/fastaFromBed
+ * compiling fastaFromBedMain.cpp
+ * compiling fastaFromBed.cpp
+ * linking fastaFromBed
+
+- Building in src/flankBed
+ * compiling flankBedMain.cpp
+ * compiling flankBed.cpp
+ * linking flankBed
+
+- Building in src/fjoin
+ * compiling fjoinMain.cpp
+ * compiling fjoin.cpp
+ * linking fjoin
+
+- Building in src/genomeCoverageBed
+ * compiling genomeCoverageMain.cpp
+ * compiling genomeCoverageBed.cpp
+ * linking genomeCoverageBed
+
+- Building in src/intersectBed
+ * compiling intersectMain.cpp
+ * compiling intersectBed.cpp
+ * linking intersectBed
+
+- Building in src/linksBed
+ * compiling linksMain.cpp
+ * compiling linksBed.cpp
+ * linking linksBed
+
+- Building in src/maskFastaFromBed
+ * compiling maskFastaFromBedMain.cpp
+ * compiling maskFastaFromBed.cpp
+ * linking maskFastaFromBed
+
+- Building in src/mergeBed
+ * compiling mergeMain.cpp
+mergeMain.cpp: In function 'int main(int, char**)':
+mergeMain.cpp:40:10: warning: variable 'haveMaxDistance' set but not used [-Wunused-but-set-variable]
+ * compiling mergeBed.cpp
+ * linking mergeBed
+
+- Building in src/overlap
+ * compiling overlap.cpp
+overlap.cpp: In function 'int main(int, char**)':
+overlap.cpp:44:10: warning: variable 'haveColumns' set but not used [-Wunused-but-set-variable]
+ * linking overlap
+
+- Building in src/pairToBed
+ * compiling pairToBedMain.cpp
+pairToBedMain.cpp: In function 'int main(int, char**)':
+pairToBedMain.cpp:43:10: warning: variable 'haveFraction' set but not used [-Wunused-but-set-variable]
+ * compiling pairToBed.cpp
+pairToBed.cpp: In member function 'void BedIntersectPE::FindSpanningOverlaps(const BEDPE&, std::vector<BED>&, const string&)':
+pairToBed.cpp:253:12: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp: In member function 'bool BedIntersectPE::FindOneOrMoreSpanningOverlaps(const BEDPE&, const string&)':
+pairToBed.cpp:305:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+ * linking pairToBed
+
+- Building in src/pairToPair
+ * compiling pairToPairMain.cpp
+pairToPairMain.cpp: In function 'int main(int, char**)':
+pairToPairMain.cpp:44:10: warning: variable 'haveFraction' set but not used [-Wunused-but-set-variable]
+ * compiling pairToPair.cpp
+pairToPair.cpp: In member function 'void PairToPair::FindOverlaps(const BEDPE&)':
+pairToPair.cpp:112:14: warning: variable 'found1' set but not used [-Wunused-but-set-variable]
+pairToPair.cpp:113:14: warning: variable 'found2' set but not used [-Wunused-but-set-variable]
+ * linking pairToPair
+
+- Building in src/shuffleBed
+ * compiling shuffleBedMain.cpp
+ * compiling shuffleBed.cpp
+ * linking shuffleBed
+
+- Building in src/slopBed
+ * compiling slopBedMain.cpp
+ * compiling slopBed.cpp
+ * linking slopBed
+
+- Building in src/sortBed
+ * compiling sortMain.cpp
+ * compiling sortBed.cpp
+ * linking sortBed
+
+- Building in src/subtractBed
+ * compiling subtractMain.cpp
+subtractMain.cpp: In function 'int main(int, char**)':
+subtractMain.cpp:41:10: warning: variable 'haveFraction' set but not used [-Wunused-but-set-variable]
+ * compiling subtractBed.cpp
+ * linking subtractBed
+
+- Building in src/unionBedGraphs
+ * compiling unionBedGraphs.cpp
+ * compiling unionBedGraphsMain.cpp
+unionBedGraphsMain.cpp: In function 'int main(int, char**)':
+unionBedGraphsMain.cpp:46:10: warning: variable 'haveFiles' set but not used [-Wunused-but-set-variable]
+unionBedGraphsMain.cpp:48:10: warning: variable 'haveGenome' set but not used [-Wunused-but-set-variable]
+unionBedGraphsMain.cpp:49:10: warning: variable 'haveFiller' set but not used [-Wunused-but-set-variable]
+ * linking unionBedGraphs
+
+- Building in src/windowBed
+ * compiling windowMain.cpp
+ * compiling windowBed.cpp
+ * linking windowBed
+
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT/bedtools-2.12.0'
+touch debian/stamp-makefile-build
+DEB_MAKE_CHECK_TARGET unset, not running checks
+ /usr/bin/fakeroot debian/rules binary-arch
+test -x debian/rules
+dh_testroot
+dh_prep
+dh_installdirs -A
+mkdir -p "."
+DEB_MAKE_CHECK_TARGET unset, not running checks
+DEB_MAKE_INSTALL_TARGET unset, skipping default makefile.mk common-install target
+Adding cdbs dependencies to debian/bedtools.substvars
+dh_installdirs -pbedtools
+dh_installdocs -pbedtools
+dh_installexamples -pbedtools
+dh_installman -pbedtools
+dh_installinfo -pbedtools
+dh_installmenu -pbedtools
+dh_installcron -pbedtools
+dh_installinit -pbedtools
+dh_installdebconf -pbedtools
+dh_installemacsen -pbedtools
+dh_installcatalogs -pbedtools
+dh_installpam -pbedtools
+dh_installlogrotate -pbedtools
+dh_installlogcheck -pbedtools
+dh_installchangelogs -pbedtools RELEASE_HISTORY
+dh_installudev -pbedtools
+dh_lintian -pbedtools
+dh_bugfiles -pbedtools
+dh_install -pbedtools
+dh_link -pbedtools
+dh_installmime -pbedtools
+dh_installgsettings -pbedtools
+dh_strip -pbedtools
+dh_compress -pbedtools
+dh_fixperms -pbedtools
+dh_makeshlibs -pbedtools
+dh_installdeb -pbedtools
+dh_perl -pbedtools
+dh_shlibdeps -pbedtools
+dh_gencontrol -pbedtools
+dh_md5sums -pbedtools
+dh_builddeb -pbedtools
+dpkg-deb: building package `bedtools' in `../bedtools_2.12.0-1_mipsel.deb'.
+ dpkg-genchanges -B -mmipsel Build Daemon (monteverdi) <buildd_mipsel-monteverdi at buildd.debian.org> >../bedtools_2.12.0-1_mipsel.changes
+dpkg-genchanges: arch-specific upload - not including arch-independent packages
+dpkg-genchanges: binary-only upload - not including any source code
+ dpkg-source --after-build bedtools-2.12.0
+dpkg-buildpackage: binary only upload (no source included)
+────────────────────────────────────────────────────────────────────────────────
+Build finished at 20110608-1229
+
+bedtools_2.12.0-1_mipsel.changes:
+Format: 1.8
+Date: Wed, 08 Jun 2011 17:01:19 +0900
+Source: bedtools
+Binary: bedtools
+Architecture: mipsel
+Version: 2.12.0-1
+Distribution: sid
+Urgency: low
+Maintainer: mipsel Build Daemon (monteverdi) <buildd_mipsel-monteverdi at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ bedtools - suite of utilities for comparing genomic features
+Closes: 629597
+Changes:
+ bedtools (2.12.0-1) unstable; urgency=low
+ .
+ * Initial release (Closes: #629597)
+Checksums-Sha1:
+ 6491b7bbbcf537ca7f005000af431015f189a729 1533984 bedtools_2.12.0-1_mipsel.deb
+Checksums-Sha256:
+ 7de4efc2d8987deef32069517e5dd900b873564924861bf6365422cf3e2d690d 1533984 bedtools_2.12.0-1_mipsel.deb
+Files:
+ f3719e3f112a096cd6a4024aaf0a5159 1533984 science optional bedtools_2.12.0-1_mipsel.deb
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Package contents │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+bedtools_2.12.0-1_mipsel.deb
+────────────────────────────
+
+ new debian package, version 2.0.
+ size 1533984 bytes: control archive= 1654 bytes.
+ 762 bytes, 15 lines control
+ 1978 bytes, 34 lines md5sums
+ Package: bedtools
+ Version: 2.12.0-1
+ Architecture: mipsel
+ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+ Installed-Size: 3952
+ Depends: libc6 (>= 2.2), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
+ Section: science
+ Priority: optional
+ Homepage: http://code.google.com/p/bedtools/
+ Description: suite of utilities for comparing genomic features
+ The BEDTools utilities allow one to address common genomics tasks such as
+ finding feature overlaps and computing coverage. The utilities are largely
+ based on four widely-used file formats: BED, GFF/GTF, VCF, and SAM/BAM. Using
+ BEDTools, one can develop sophisticated pipelines that answer complicated
+ research questions by streaming several BEDTools together.
+
+drwxr-xr-x root/root 0 2011-06-08 12:28 ./
+drwxr-xr-x root/root 0 2011-06-08 12:28 ./usr/
+drwxr-xr-x root/root 0 2011-06-08 12:28 ./usr/share/
+drwxr-xr-x root/root 0 2011-06-08 12:28 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-06-08 12:28 ./usr/share/doc/bedtools/
+-rw-r--r-- root/root 8577 2011-04-04 01:30 ./usr/share/doc/bedtools/changelog.gz
+-rw-r--r-- root/root 156 2011-06-08 08:01 ./usr/share/doc/bedtools/changelog.Debian.gz
+-rw-r--r-- root/root 1586 2011-04-04 01:30 ./usr/share/doc/bedtools/README.rst.gz
+-rw-r--r-- root/root 4611 2011-06-08 07:59 ./usr/share/doc/bedtools/copyright
+drwxr-xr-x root/root 0 2011-06-08 12:28 ./usr/share/bedtools/
+drwxr-xr-x root/root 0 2011-06-08 12:12 ./usr/share/bedtools/genomes/
+-rwxr-xr-x root/root 856 2011-04-04 01:30 ./usr/share/bedtools/genomes/human.hg18.genome
+-rwxr-xr-x root/root 585 2011-04-04 01:30 ./usr/share/bedtools/genomes/mouse.mm9.genome
+-rwxr-xr-x root/root 1972 2011-04-04 01:30 ./usr/share/bedtools/genomes/human.hg19.genome
+-rwxr-xr-x root/root 565 2011-04-04 01:30 ./usr/share/bedtools/genomes/mouse.mm8.genome
+drwxr-xr-x root/root 0 2011-06-08 12:28 ./usr/bin/
+-rwxr-xr-x root/root 135400 2011-06-08 12:28 ./usr/bin/shuffleBed
+-rwxr-xr-x root/root 149164 2011-06-08 12:28 ./usr/bin/cuffToTrans
+-rwxr-xr-x root/root 181612 2011-06-08 12:28 ./usr/bin/annotateBed
+-rwxr-xr-x root/root 186188 2011-06-08 12:28 ./usr/bin/coverageBed
+-rwxr-xr-x root/root 126936 2011-06-08 12:28 ./usr/bin/bedToIgv
+-rwxr-xr-x root/root 126712 2011-06-08 12:28 ./usr/bin/closestBed
+-rwxr-xr-x root/root 115160 2011-06-08 12:28 ./usr/bin/maskFastaFromBed
+-rwxr-xr-x root/root 128508 2011-06-08 12:28 ./usr/bin/bamToBed
+-rwxr-xr-x root/root 118952 2011-06-08 12:28 ./usr/bin/flankBed
+-rwxr-xr-x root/root 205836 2011-06-08 12:28 ./usr/bin/intersectBed
+-rwxr-xr-x root/root 211580 2011-06-08 12:28 ./usr/bin/fjoin
+-rwxr-xr-x root/root 269036 2011-06-08 12:28 ./usr/bin/pairToBed
+-rwxr-xr-x root/root 188284 2011-06-08 12:28 ./usr/bin/windowBed
+-rwxr-xr-x root/root 201452 2011-06-08 12:28 ./usr/bin/genomeCoverageBed
+-rwxr-xr-x root/root 116200 2011-06-08 12:28 ./usr/bin/mergeBed
+-rwxr-xr-x root/root 66488 2011-06-08 12:28 ./usr/bin/unionBedGraphs
+-rwxr-xr-x root/root 112648 2011-06-08 12:28 ./usr/bin/complementBed
+-rwxr-xr-x root/root 149180 2011-06-08 12:28 ./usr/bin/fastaFromBed
+-rwxr-xr-x root/root 94200 2011-06-08 12:28 ./usr/bin/overlap
+-rwxr-xr-x root/root 112296 2011-06-08 12:28 ./usr/bin/linksBed
+-rwxr-xr-x root/root 111656 2011-06-08 12:28 ./usr/bin/slopBed
+-rwxr-xr-x root/root 149224 2011-06-08 12:28 ./usr/bin/sortBed
+-rwxr-xr-x root/root 182680 2011-06-08 12:28 ./usr/bin/pairToPair
+-rwxr-xr-x root/root 102168 2011-06-08 12:28 ./usr/bin/bed12ToBed6
+-rwxr-xr-x root/root 140556 2011-06-08 12:28 ./usr/bin/bedToBam
+-rwxr-xr-x root/root 119080 2011-06-08 12:28 ./usr/bin/subtractBed
+
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Finished │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
+Purging /var/lib/schroot/mount/sid-mipsel-sbuild-e4f34d9d-65ac-453f-945e-44586074a8da/build/buildd-bedtools_2.12.0-1-mipsel-qzsuKT
+Not removing build depends: cloned chroot in use
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20110608-1229
+Build needed 00:19:33, 75304k disc space
+
diff --git a/amd64.log b/powerpc.log
similarity index 53%
copy from amd64.log
copy to powerpc.log
index 36d4346..1446965 100644
--- a/amd64.log
+++ b/powerpc.log
@@ -1,86 +1,166 @@
-sbuild (Debian sbuild) 0.62.2 (05 Apr 2011) on anx191
+From buildd at porpora.debian.org Wed Jun 08 11:02:46 2011
+Return-path: <buildd at porpora.debian.org>
+Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=merikanto.debian.org,
+ EMAIL=hostmaster at merikanto.debian.org (verified)
+ by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at porpora.debian.org>)
+ id 1QUGX7-0007Ch-Pm
+ for logs at buildd.debian.org; Wed, 08 Jun 2011 11:02:46 +0000
+Received: from porpora.ynic.york.ac.uk ([144.32.168.78]
+ helo=porpora.debian.org)
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=porpora.debian.org, EMAIL=hostmaster at porpora.debian.org (verified)
+ by merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at porpora.debian.org>)
+ id 1QUGX6-0001nU-Fb; Wed, 08 Jun 2011 11:02:44 +0000
+Received: from buildd by porpora.debian.org with local (Exim 4.72)
+ (envelope-from <buildd at porpora.debian.org>)
+ id 1QUGX5-00051F-T2; Wed, 08 Jun 2011 11:02:43 +0000
+Message-Id: <E1QUGX5-00051F-T2 at porpora.debian.org>
+MIME-Version: 1.0
+Content-Transfer-Encoding: binary
+X-Mailer: MIME::Lite 3.027 (F2.77; B3.08; Q3.08)
+Date: Wed, 8 Jun 2011 11:02:43 +0000
+From: buildd on porpora <buildd at porpora.debian.org>
+To: phil+buildd at philkern.de,logs at buildd.debian.org
+Subject: Log for successful build of bedtools_2.12.0-1 on powerpc (dist=sid)
+Key-Id: CDFA0A89
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on porpora.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bedtools 2.12.0-1 (amd64) 08 Jun 2011 17:20 ║
+║ bedtools 2.12.0-1 (powerpc) 08 Jun 2011 10:57 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bedtools
Version: 2.12.0-1
Source Version: 2.12.0-1
-Distribution: unstable
-Architecture: amd64
-
-I: NOTICE: Log filtering will replace 'build/bedtools-Ghn37g' with '«BUILDDIR»'
-I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/sid-amd64-sbuild-29088341-52c6-42fd-8a13-78bdff77cf92' with '«CHROOT»'
-
-┌──────────────────────────────────────────────────────────────────────────────┐
-│ Update chroot │
-└──────────────────────────────────────────────────────────────────────────────┘
-
-Hit http://ftp.jp.debian.org sid InRelease
-Hit http://ftp.jp.debian.org sid/main amd64 Packages/DiffIndex
-Hit http://ftp.jp.debian.org sid/main TranslationIndex
-Reading package lists...
+Architecture: powerpc
+Get:1 http://ftp.uk.debian.org unstable InRelease [146 kB]
+Get:2 http://ftp.uk.debian.org unstable/main Sources [5287 kB]
+Get:3 http://incoming.debian.org unstable InRelease [146 kB]
+Ign http://incoming.debian.org InRelease
+Get:4 http://incoming.debian.org Release.gpg [836 B]
+Get:5 http://ftp.uk.debian.org unstable/contrib Sources [49.7 kB]
+Get:6 http://ftp.uk.debian.org unstable/non-free Sources [92.0 kB]
+Get:7 http://ftp.uk.debian.org unstable/main powerpc Packages [7275 kB]
+Get:8 http://incoming.debian.org unstable/main Sources [5287 kB]
+Get:9 http://ftp.uk.debian.org unstable/contrib powerpc Packages [54.1 kB]
+Ign http://ftp.uk.debian.org unstable/contrib TranslationIndex
+Get:10 http://ftp.uk.debian.org unstable/main TranslationIndex [2264 B]
+Ign http://ftp.uk.debian.org unstable/contrib Translation-en
+Get:11 http://incoming.debian.org unstable/contrib Sources [49.7 kB]
+Get:12 http://incoming.debian.org unstable/non-free Sources [92.0 kB]
+Get:13 http://incoming.debian.org unstable/main powerpc Packages [7275 kB]
+Get:14 http://incoming.debian.org unstable/contrib powerpc Packages [54.1 kB]
+Ign http://incoming.debian.org unstable/contrib TranslationIndex
+Get:15 http://incoming.debian.org unstable/main TranslationIndex [2264 B]
+Get:16 http://incoming.debian.org Release [1604 B]
+Get:17 http://incoming.debian.org Sources [49.4 kB]
+Get:18 http://incoming.debian.org Packages [473 kB]
+Ign http://incoming.debian.org unstable/contrib Translation-en
+Ign http://incoming.debian.org Translation-en
+Fetched 26.3 MB in 22s (1171 kB/s)
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
-─────────────
+Check APT
+─────────
+
+Checking available source versions...
-bedtools_2.12.0-1.dsc exists in .; copying to chroot
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+NOTICE: 'bedtools' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/git/debian-med/bedtools.git
+Need to get 796 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.12.0-1 (dsc) [1924 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.12.0-1 (tar) [790 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.12.0-1 (diff) [4198 B]
+Fetched 796 kB in 1s (518 kB/s)
+Download complete and in download only mode
Check arch
──────────
-Merged Build-Depends: build-essential, fakeroot
-Filtered Build-Depends: build-essential, fakeroot
-dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/«BUILDDIR»/resolver-XV0Q8j/apt_archive/sbuild-build-depends-core-dummy.deb'.
-OK
-Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install core build dependencies (apt-based resolver) │
+│ Install core build dependencies (internal resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
-Installing build dependencies
+Build-Depends: build-essential, fakeroot
+Checking for already installed dependencies...
+build-essential: already installed (11.5)
+fakeroot: already installed (1.15.1-1)
+Checking for dependency conflicts...
+Installing positive dependencies:
Reading package lists...
Building dependency tree...
-Reading state information...
-The following NEW packages will be installed:
- sbuild-build-depends-core-dummy
-debconf: delaying package configuration, since apt-utils is not installed
-0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded.
-Need to get 0 B/706 B of archives.
-After this operation, 0 B of additional disk space will be used.
-Selecting previously deselected package sbuild-build-depends-core-dummy.
-(Reading database ... 10807 files and directories currently installed.)
-Unpacking sbuild-build-depends-core-dummy (from .../sbuild-build-depends-core-dummy.deb) ...
-Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
-Merged Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), cdbs, debhelper (>= 8), quilt, zlib1g-dev
-Filtered Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), cdbs, debhelper (>= 8), quilt, zlib1g-dev
-dpkg-deb: building package `sbuild-build-depends-bedtools-dummy' in `/«BUILDDIR»/resolver-JPNhUl/apt_archive/sbuild-build-depends-bedtools-dummy.deb'.
-OK
+0 upgraded, 0 newly installed, 0 to remove and 18 not upgraded.
+Removing negative dependencies:
Reading package lists...
+Building dependency tree...
+0 upgraded, 0 newly installed, 0 to remove and 18 not upgraded.
+Checking correctness of dependencies...
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install bedtools build dependencies (apt-based resolver) │
+│ Install bedtools build dependencies (internal resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
-Installing build dependencies
+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), quilt, zlib1g-dev
+Checking for already installed dependencies...
+base-files: already installed (6.4)
+base-passwd: already installed (3.5.22)
+bash: already installed (4.1-3)
+coreutils: already installed (8.5-1)
+dash: already installed (0.5.5.1-7.4)
+debianutils: already installed (4.0.1)
+diffutils: already installed (1:3.0-1)
+dpkg: already installed (1.16.0.3)
+e2fsprogs: already installed (1.41.12-4)
+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 (3.06)
+ncurses-base: already installed (5.9-1)
+ncurses-bin: already installed (5.9-1)
+perl-base: already installed (5.12.3-7)
+sed: already installed (4.2.1-9)
+login: already installed (1:4.1.4.2+svn3283-3)
+sysvinit-utils: already installed (2.88dsf-13.7)
+sysvinit: already installed (2.88dsf-13.7)
+tar: already installed (1.25-3)
+bsdutils: already installed (1:2.17.2-9.1)
+mount: already installed (2.17.2-9.1)
+util-linux: already installed (2.17.2-9.1)
+libc6-dev: already installed (2.13-4)
+gcc: already installed (4:4.6.0-5 >= 4:4.4.3 is satisfied)
+g++: already installed (4:4.6.0-5 >= 4:4.4.3 is satisfied)
+make: already installed (3.81-8.1)
+dpkg-dev: already installed (1.16.0.3 >= 1.13.5 is satisfied)
+cdbs: missing
+debhelper: missing
+Using default version 8.1.6
+quilt: missing
+zlib1g-dev: missing
+Checking for dependency conflicts...
+Installing positive dependencies: cdbs debhelper quilt zlib1g-dev
Reading package lists...
Building dependency tree...
-Reading state information...
The following extra packages will be installed:
- bsdmainutils cdbs debhelper diffstat file gettext gettext-base groff-base
- html2text intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3
- libpipeline1 libunistring0 libxml2 man-db po-debconf quilt zlib1g-dev
+ bsdmainutils diffstat file gettext gettext-base groff-base html2text
+ intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1
+ libunistring0 libxml2 man-db po-debconf
Suggested packages:
wamerican wordlist whois vacation devscripts dh-make gettext-doc groff less
www-browser libmail-box-perl procmail graphviz
@@ -90,45 +170,62 @@ Recommended packages:
The following NEW packages will be installed:
bsdmainutils cdbs debhelper diffstat file gettext gettext-base groff-base
html2text intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3
- libpipeline1 libunistring0 libxml2 man-db po-debconf quilt
- sbuild-build-depends-bedtools-dummy zlib1g-dev
-0 upgraded, 22 newly installed, 0 to remove and 0 not upgraded.
-Need to get 2248 kB/9858 kB of archives.
-After this operation, 28.8 MB of additional disk space will be used.
-Get:1 http://ftp.jp.debian.org/debian/ sid/main bsdmainutils amd64 8.2.3 [208 kB]
-Get:2 http://ftp.jp.debian.org/debian/ sid/main groff-base amd64 1.21-6 [1150 kB]
-Get:3 http://ftp.jp.debian.org/debian/ sid/main libxml2 amd64 2.7.8.dfsg-3 [890 kB]
+ libpipeline1 libunistring0 libxml2 man-db po-debconf quilt zlib1g-dev
+0 upgraded, 21 newly installed, 0 to remove and 18 not upgraded.
+Need to get 9740 kB of archives.
+After this operation, 29.6 MB of additional disk space will be used.
+Get:1 http://ftp.uk.debian.org/debian/ unstable/main bsdmainutils powerpc 8.2.3 [207 kB]
+Get:2 http://ftp.uk.debian.org/debian/ unstable/main groff-base powerpc 1.21-6 [1179 kB]
+Get:3 http://ftp.uk.debian.org/debian/ unstable/main libpipeline1 powerpc 1.2.0-2 [37.3 kB]
+Get:4 http://ftp.uk.debian.org/debian/ unstable/main man-db powerpc 2.6.0.2-1 [1020 kB]
+Get:5 http://ftp.uk.debian.org/debian/ unstable/main libmagic1 powerpc 5.04-5+b1 [240 kB]
+Get:6 http://ftp.uk.debian.org/debian/ unstable/main file powerpc 5.04-5+b1 [49.9 kB]
+Get:7 http://ftp.uk.debian.org/debian/ unstable/main gettext-base powerpc 0.18.1.1-3 [141 kB]
+Get:8 http://ftp.uk.debian.org/debian/ unstable/main libpcre3 powerpc 8.12-3 [258 kB]
+Get:9 http://ftp.uk.debian.org/debian/ unstable/main libxml2 powerpc 2.7.8.dfsg-3 [837 kB]
+Get:10 http://ftp.uk.debian.org/debian/ unstable/main html2text powerpc 1.3.2a-15 [105 kB]
+Get:11 http://ftp.uk.debian.org/debian/ unstable/main libglib2.0-0 powerpc 2.28.6-1 [1611 kB]
+Get:12 http://ftp.uk.debian.org/debian/ unstable/main libcroco3 powerpc 0.6.2-1 [128 kB]
+Get:13 http://ftp.uk.debian.org/debian/ unstable/main libunistring0 powerpc 0.9.3-4 [422 kB]
+Get:14 http://ftp.uk.debian.org/debian/ unstable/main gettext powerpc 0.18.1.1-3 [2046 kB]
+Get:15 http://ftp.uk.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get:16 http://ftp.uk.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get:17 http://ftp.uk.debian.org/debian/ unstable/main debhelper all 8.1.6 [557 kB]
+Get:18 http://ftp.uk.debian.org/debian/ unstable/main cdbs all 0.4.94 [75.5 kB]
+Get:19 http://ftp.uk.debian.org/debian/ unstable/main diffstat powerpc 1.54-1 [28.4 kB]
+Get:20 http://ftp.uk.debian.org/debian/ unstable/main quilt all 0.48-7 [354 kB]
+Get:21 http://ftp.uk.debian.org/debian/ unstable/main zlib1g-dev powerpc 1:1.2.3.4.dfsg-3 [190 kB]
debconf: delaying package configuration, since apt-utils is not installed
-Fetched 2248 kB in 0s (4582 kB/s)
+Fetched 9740 kB in 1s (7688 kB/s)
Selecting previously deselected package bsdmainutils.
-(Reading database ... 10807 files and directories currently installed.)
-Unpacking bsdmainutils (from .../bsdmainutils_8.2.3_amd64.deb) ...
+(Reading database ... 11071 files and directories currently installed.)
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.3_powerpc.deb) ...
Selecting previously deselected package groff-base.
-Unpacking groff-base (from .../groff-base_1.21-6_amd64.deb) ...
+Unpacking groff-base (from .../groff-base_1.21-6_powerpc.deb) ...
Selecting previously deselected package libpipeline1.
-Unpacking libpipeline1 (from .../libpipeline1_1.2.0-2_amd64.deb) ...
+Unpacking libpipeline1 (from .../libpipeline1_1.2.0-2_powerpc.deb) ...
Selecting previously deselected package man-db.
-Unpacking man-db (from .../man-db_2.6.0.2-1_amd64.deb) ...
+Unpacking man-db (from .../man-db_2.6.0.2-1_powerpc.deb) ...
Selecting previously deselected package libmagic1.
-Unpacking libmagic1 (from .../libmagic1_5.04-5+b1_amd64.deb) ...
+Unpacking libmagic1 (from .../libmagic1_5.04-5+b1_powerpc.deb) ...
Selecting previously deselected package file.
-Unpacking file (from .../file_5.04-5+b1_amd64.deb) ...
+Unpacking file (from .../file_5.04-5+b1_powerpc.deb) ...
Selecting previously deselected package gettext-base.
-Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_amd64.deb) ...
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_powerpc.deb) ...
Selecting previously deselected package libpcre3.
-Unpacking libpcre3 (from .../libpcre3_8.12-3_amd64.deb) ...
+Unpacking libpcre3 (from .../libpcre3_8.12-3_powerpc.deb) ...
Selecting previously deselected package libxml2.
-Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-3_amd64.deb) ...
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-3_powerpc.deb) ...
Selecting previously deselected package html2text.
-Unpacking html2text (from .../html2text_1.3.2a-15_amd64.deb) ...
+Unpacking html2text (from .../html2text_1.3.2a-15_powerpc.deb) ...
Selecting previously deselected package libglib2.0-0.
-Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.6-1_amd64.deb) ...
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.6-1_powerpc.deb) ...
Selecting previously deselected package libcroco3.
-Unpacking libcroco3 (from .../libcroco3_0.6.2-1_amd64.deb) ...
+Unpacking libcroco3 (from .../libcroco3_0.6.2-1_powerpc.deb) ...
Selecting previously deselected package libunistring0.
-Unpacking libunistring0 (from .../libunistring0_0.9.3-4_amd64.deb) ...
+Unpacking libunistring0 (from .../libunistring0_0.9.3-4_powerpc.deb) ...
Selecting previously deselected package gettext.
-Unpacking gettext (from .../gettext_0.18.1.1-3_amd64.deb) ...
+Unpacking gettext (from .../gettext_0.18.1.1-3_powerpc.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.
@@ -138,13 +235,11 @@ Unpacking debhelper (from .../debhelper_8.1.6_all.deb) ...
Selecting previously deselected package cdbs.
Unpacking cdbs (from .../archives/cdbs_0.4.94_all.deb) ...
Selecting previously deselected package diffstat.
-Unpacking diffstat (from .../diffstat_1.54-1_amd64.deb) ...
+Unpacking diffstat (from .../diffstat_1.54-1_powerpc.deb) ...
Selecting previously deselected package quilt.
Unpacking quilt (from .../archives/quilt_0.48-7_all.deb) ...
Selecting previously deselected package zlib1g-dev.
-Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_amd64.deb) ...
-Selecting previously deselected package sbuild-build-depends-bedtools-dummy.
-Unpacking sbuild-build-depends-bedtools-dummy (from .../sbuild-build-depends-bedtools-dummy.deb) ...
+Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_powerpc.deb) ...
Setting up bsdmainutils (8.2.3) ...
update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode.
update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode.
@@ -170,15 +265,15 @@ Setting up cdbs (0.4.94) ...
Setting up diffstat (1.54-1) ...
Setting up quilt (0.48-7) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
-Setting up sbuild-build-depends-bedtools-dummy (0.invalid.0) ...
-
-┌──────────────────────────────────────────────────────────────────────────────┐
-│ Build environment │
-└──────────────────────────────────────────────────────────────────────────────┘
-
-Kernel: Linux 2.6.32-5-amd64 amd64 (x86_64)
-Toolchain package versions: binutils_2.21.52.20110606-1 dpkg-dev_1.16.0.3 g++-4.6_4.6.0-11 gcc-4.6_4.6.0-11 libc6-dev_2.13-5 libstdc++6_4.6.0-11 libstdc++6-4.6-dev_4.6.0-11 linux-libc-dev_2.6.39-1+b1
-Package versions: apt_0.8.14.1 base-files_6.4 base-passwd_3.5.22 bash_4.1-3 binutils_2.21.52.20110606-1 bsdmainutils_8.2.3 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.94 coreutils_8.5-1 cpp_4:4.6.0-5 cpp-4.6_4.6.0-11 dash_0.5.5.1-7.4 debconf_1.5.39 debconf-i18n_1.5.39 debfoster_2.7-1.1 debhelper_8.1.6 debian-archive-keyring_2010.08.28 debianutils_4.0.1 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.41.12-4 e2fsprogs_1.41.12-4 fakeroot_1.15.1-1 file_5.04-5+b1 findutils_4.4.2-1+b1 g++_4:4.6.0-5 g++-4.6_4.6.0-11 gcc_4:4.6.0-5 gcc-4.6_4.6.0-11 gcc-4.6-base_4.6.0-11 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.8-2 groff-base_1.21-6 gzip_1.3.12-9 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.7 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-5 libattr1_1:2.4.44-3 libblkid1_2.17.2-9.1 libbz2-1.0_1.0.5-6 libc-bin_2.13-5 libc-dev-bin_2.13-5 libc6_2.13-5 libc6-dev_2.13-5 libclass-isa-perl_0.36-1 libcloog-ppl0_0.15.9-3 libcomerr2_1.41.12-4 libcroco3_0.6.2-1 libdb4.7_4.7.25-20 libdb4.8_4.8.30-8 libdb5.1_5.1.25-10 libdpkg-perl_1.16.0.3 libelfg0_0.8.13-1 libgc1c2_1:7.1-8 libgcc1_1:4.6.0-11 libgdbm3_1.8.3-9 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.1+dfsg-7 libgmpxx4ldbl_2:5.0.1+dfsg-7 libgomp1_4.6.0-11 liblocale-gettext-perl_1.05-6+b1 liblzma2_5.0.0-2 libmagic1_5.04-5+b1 libmpc2_0.9-3 libmpfr4_3.0.1-3 libncurses5_5.9-1 libpam-modules_1.1.3-1 libpam-runtime_1.1.3-1 libpam0g_1.1.3-1 libpcre3_8.12-3 libpipeline1_1.2.0-2 libpod-plainer-perl_1.03-1 libppl-c4_0.11.2-3 libppl9_0.11.2-3 libpwl5_0.11.2-3 libquadmath0_4.6.0-11 libreadline6_6.2-2 libselinux1_2.0.98-1+b1 libsepol1_2.0.42-1 libslang2_2.2.4-2 libss2_1.41.12-4 libstdc++6_4.6.0-11 libstdc++6-4.6-dev_4.6.0-11 libswitch-perl_2.16-1 libtext-charwidth-perl_0.04-6+b1 libtext-iconv-perl_1.7-2+b1 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-17 libuuid1_2.17.2-9.1 libxml2_2.7.8.dfsg-3 linux-libc-dev_2.6.39-1+b1 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-27 make_3.81-8.1 man-db_2.6.0.2-1 mawk_1.3.3-15 mount_2.17.2-9.1 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.3-7 perl-base_5.12.3-7 perl-modules_5.12.3-7 po-debconf_1.0.16+nmu1 quilt_0.48-7 readline-common_6.2-2 sbuild-build-depends-bedtools-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 sed_4.2.1-9 sensible-utils_0.0.6 sysv-rc_2.88dsf-13.7 sysvinit_2.88dsf-13.7 sysvinit-utils_2.88dsf-13.7 tar_1.25-3 tzdata_2011g-1 util-linux_2.17.2-9.1 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+Removing negative dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 18 not upgraded.
+Checking correctness of dependencies...
+Kernel: Linux 2.6.32-5-powerpc64 powerpc (ppc64)
+Toolchain package versions: binutils_2.21.51.20110523-1 dpkg-dev_1.16.0.3 g++-4.6_4.6.0-10 gcc-4.6_4.6.0-10 libc6-dev_2.13-4 libstdc++6_4.6.0-10 libstdc++6-4.6-dev_4.6.0-10 linux-libc-dev_2.6.39-1
+Package versions: apt_0.8.14.1 base-files_6.4 base-passwd_3.5.22 bash_4.1-3 binutils_2.21.51.20110523-1 bsdmainutils_8.2.3 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.94 coreutils_8.5-1 cpp_4:4.6.0-5 cpp-4.6_4.6.0-10 dash_0.5.5.1-7.4 debconf_1.5.39 debconf-i18n_1.5.39 debfoster_2.7-1.1 debhelper_8.1.6 debian-archive-keyring_2010.08.28 debianutils_4.0.1 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.41.12-4 e2fsprogs_1.41.12-4 fakeroot_1.15.1-1 file_5.04-5+b1 findutils_4.4.2-1+b1 g++_4:4.6.0-5 g++-4.6_4.6.0-10 gcc_4:4.6.0-5 gcc-4.4-base_4.4.6-3 gcc-4.5-base_4.5.3-1 gcc-4.6_4.6.0-10 gcc-4.6-base_4.6.0-10 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.6.3-3 groff-base_1.21-6 gzip_1.3.12-9 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.7 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-5 libattr1_1:2.4.44-3 libblkid1_2.17.2-9.1 libbz2-1.0_1.0.5-6 libc-bin_2.13-4 libc-dev-bin_2.13-4 libc6_2.13-4 libc6-dev_2.13-4 libc6-ppc64_2.13-4 libcloog-ppl0_0.15.9-3 libcomerr2_1.41.12-4 libcroco3_0.6.2-1 libdb5.1_5.1.25-10 libdpkg-perl_1.16.0.3 libgc1c2_1:7.1-8 libgcc1_1:4.6.0-10 libgdbm3_1.8.3-9 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.1+dfsg-7 libgmpxx4ldbl_2:5.0.1+dfsg-7 libgomp1_4.6.0-10 liblocale-gettext-perl_1.05-6+b2 liblzma2_5.0.0-2 libmagic1_5.04-5+b1 libmpc2_0.9-3 libmpfr4_3.0.1-3 libncurses5_5.9-1 libpam-modules_1.1.2-3 libpam-runtime_1.1.2-3 libpam0g_1.1.2-3 libpcre3_8.12-3 libpipeline1_1.2.0-2 libppl-c4_0.11.2-3 libppl9_0.11.2-3 libpwl5_0.11.2-3 libreadline6_6.2-2 libselinux1_2.0.98-1+b1 libsepol1_2.0.42-1 libslang2_2.2.4-2 libss2_1.41.12-4 libstdc++6_4.6.0-10 libstdc++6-4.6-dev_4.6.0-10 libtext-charwidth-perl_0.04-6+b3 libtext-iconv-perl_1.7-2+b2 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-17 libuuid1_2.17.2-9.1 libxml2_2.7.8.dfsg-3 linux-libc-dev_2.6.39-1 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-27 make_3.81-8.1 man-db_2.6.0.2-1 mawk_1.3.3-15 mount_2.17.2-9.1 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.3-7 perl-base_5.12.3-7 perl-modules_5.12.3-7 po-debconf_1.0.16+nmu1 quilt_0.48-7 readline-common_6.2-2 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.7.4p6-1 sysv-rc_2.88dsf-13.7 sysvinit_2.88dsf-13.7 sysvinit-utils_2.88dsf-13.7 tar_1.25-3 tzdata_2011g-1 util-linux_2.17.2-9.1 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -188,7 +283,10 @@ Package versions: apt_0.8.14.1 base-files_6.4 base-passwd_3.5.22 bash_4.1-3 binu
Unpack source
─────────────
-dpkg-source: warning: extracting unsigned source package (bedtools_2.12.0-1.dsc)
+gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Wed Jun 8 08:23:42 2011 UTC using RSA key ID 2295D502
+gpgv: Can't check signature: public key not found
+dpkg-source: warning: failed to verify signature on ./bedtools_2.12.0-1.dsc
dpkg-source: info: extracting bedtools in bedtools-2.12.0
dpkg-source: info: unpacking bedtools_2.12.0.orig.tar.bz2
dpkg-source: info: unpacking bedtools_2.12.0-1.debian.tar.gz
@@ -197,7 +295,23 @@ dpkg-source: info: applying gzstream.h.patch
Check disc space
────────────────
-Sufficient free space for build
+
+User Environment
+────────────────
+
+HOME=/home/buildd
+LOGNAME=buildd
+PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
+SCHROOT_COMMAND=env
+SCHROOT_GID=1009
+SCHROOT_GROUP=buildd
+SCHROOT_SESSION_ID=sid-powerpc-sbuild-0da373a2-6d9c-4701-871e-8d4c0e6b85db
+SCHROOT_UID=2952
+SCHROOT_USER=buildd
+SHELL=/bin/sh
+TERM=screen
+USER=buildd
+USERNAME=buildd
dpkg-buildpackage
─────────────────
@@ -209,24 +323,23 @@ dpkg-buildpackage: export FFLAGS from dpkg-buildflags (origin: vendor): -g -O2
dpkg-buildpackage: export LDFLAGS from dpkg-buildflags (origin: vendor):
dpkg-buildpackage: source package bedtools
dpkg-buildpackage: source version 2.12.0-1
-dpkg-buildpackage: source changed by Charles Plessy <plessy at debian.org>
dpkg-source --before-build bedtools-2.12.0
-dpkg-buildpackage: host architecture amd64
+dpkg-buildpackage: host architecture powerpc
fakeroot debian/rules clean
test -x debian/rules
dh_testroot
rm -f debian/stamp-makefile-build debian/stamp-makefile-install
/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" CPPFLAGS="" LDFLAGS="" -k clean
-make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-powerpc-Xp8fmS/bedtools-2.12.0'
Cleaning up.
-make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-powerpc-Xp8fmS/bedtools-2.12.0'
dh_clean
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-powerpc-Xp8fmS/bedtools-2.12.0'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-powerpc-Xp8fmS/bedtools-2.12.0'
if [ -d "." ]; then \
- cd . && QUILT_PATCHES=/«BUILDDIR»/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
+ cd . && QUILT_PATCHES=/build/buildd-bedtools_2.12.0-1-powerpc-Xp8fmS/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
fi
Removing patch gzstream.h.patch
Restoring src/utils/gzstream/gzstream.C
@@ -234,29 +347,25 @@ Restoring src/utils/gzstream/gzstream.C
No patches applied
rm -rf ./.pc
rm -f debian/stamp-patch*
- dpkg-source -b bedtools-2.12.0
-dpkg-source: info: using source format `3.0 (quilt)'
-dpkg-source: warning: patches have not been applied, applying them now (use --no-preparation to override)
-dpkg-source: info: applying gzstream.h.patch
-dpkg-source: info: building bedtools using existing ./bedtools_2.12.0.orig.tar.bz2
-dpkg-source: info: building bedtools in bedtools_2.12.0-1.debian.tar.gz
-dpkg-source: info: building bedtools in bedtools_2.12.0-1.dsc
debian/rules build
test -x debian/rules
mkdir -p "."
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-powerpc-Xp8fmS/bedtools-2.12.0'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
-cd . && QUILT_PATCHES=/«BUILDDIR»/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
-File series fully applied, ends at patch gzstream.h.patch
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-powerpc-Xp8fmS/bedtools-2.12.0'
+cd . && QUILT_PATCHES=/build/buildd-bedtools_2.12.0-1-powerpc-Xp8fmS/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
+Applying patch gzstream.h.patch
+patching file src/utils/gzstream/gzstream.C
+
+Now at patch gzstream.h.patch
touch debian/stamp-patched
/usr/bin/make -f debian/rules update-config
-make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-powerpc-Xp8fmS/bedtools-2.12.0'
make[1]: Nothing to be done for `update-config'.
-make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-powerpc-Xp8fmS/bedtools-2.12.0'
/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" CPPFLAGS="" LDFLAGS=""
-make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-powerpc-Xp8fmS/bedtools-2.12.0'
[ -d obj ] || mkdir -p obj
[ -d bin ] || mkdir -p bin
Building BEDTools:
@@ -459,10 +568,10 @@ unionBedGraphsMain.cpp:49:10: warning: variable 'haveFiller' set but not used [-
* compiling windowBed.cpp
* linking windowBed
-make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-powerpc-Xp8fmS/bedtools-2.12.0'
touch debian/stamp-makefile-build
DEB_MAKE_CHECK_TARGET unset, not running checks
- fakeroot debian/rules binary
+ fakeroot debian/rules binary-arch
test -x debian/rules
dh_testroot
dh_prep
@@ -503,36 +612,25 @@ dh_shlibdeps -pbedtools
dh_gencontrol -pbedtools
dh_md5sums -pbedtools
dh_builddeb -pbedtools
-dpkg-deb: building package `bedtools' in `../bedtools_2.12.0-1_amd64.deb'.
- dpkg-genchanges >../bedtools_2.12.0-1_amd64.changes
-dpkg-genchanges: including full source code in upload
+dpkg-deb: building package `bedtools' in `../bedtools_2.12.0-1_powerpc.deb'.
+ dpkg-genchanges -B -mpowerpc Build Daemon (porpora) <buildd_powerpc-porpora at buildd.debian.org> >../bedtools_2.12.0-1_powerpc.changes
+dpkg-genchanges: arch-specific upload - not including arch-independent packages
+dpkg-genchanges: binary-only upload - not including any source code
dpkg-source --after-build bedtools-2.12.0
-dpkg-buildpackage: full upload (original source is included)
+dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110608-1722
-
-Finished
-────────
-
-I: Built successfully
-
-┌──────────────────────────────────────────────────────────────────────────────┐
-│ Changes │
-└──────────────────────────────────────────────────────────────────────────────┘
-
-
-bedtools_2.12.0-1_amd64.changes:
-────────────────────────────────
+Build finished at 20110608-1102
+bedtools_2.12.0-1_powerpc.changes:
Format: 1.8
Date: Wed, 08 Jun 2011 17:01:19 +0900
Source: bedtools
Binary: bedtools
-Architecture: source amd64
+Architecture: powerpc
Version: 2.12.0-1
-Distribution: unstable
+Distribution: sid
Urgency: low
-Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Maintainer: powerpc Build Daemon (porpora) <buildd_powerpc-porpora at buildd.debian.org>
Changed-By: Charles Plessy <plessy at debian.org>
Description:
bedtools - suite of utilities for comparing genomic features
@@ -542,39 +640,30 @@ Changes:
.
* Initial release (Closes: #629597)
Checksums-Sha1:
- a9095eb961b38ca925d1f55e19f125f442acdbb6 1038 bedtools_2.12.0-1.dsc
- 2ba712dc9a2642ae2172402983811855309f7ae1 790069 bedtools_2.12.0.orig.tar.bz2
- e8fcc348a7548dd0aea5c53668420f8e91b089cb 4198 bedtools_2.12.0-1.debian.tar.gz
- 04880b3f2b1d8f0b640d65431a974f477b55dd28 1614122 bedtools_2.12.0-1_amd64.deb
+ 5baf6163d3e10d91d947fe88a3725905f9396754 1665434 bedtools_2.12.0-1_powerpc.deb
Checksums-Sha256:
- 173926b694c984031b7c0a0f1230225aaa4440c59571c31e1e8589490bc607ba 1038 bedtools_2.12.0-1.dsc
- 9b57249d8891f2da2c6adc55b3088b3f5b10c35b01a106bbd129824c51290a98 790069 bedtools_2.12.0.orig.tar.bz2
- 82758e0c528cf60f44e4f4488a03b1aa4d0b65dbedc06216724152d460230c72 4198 bedtools_2.12.0-1.debian.tar.gz
- 5f7d3e1b741e860549fca03274bbe0036c64d94eb5032b941d42b7c56bd3966e 1614122 bedtools_2.12.0-1_amd64.deb
+ 9735011b07773aa9ee1f64a7a04f405b79589b2edee228746d439423c75a9b64 1665434 bedtools_2.12.0-1_powerpc.deb
Files:
- 1c725960544ec5f66c442b7db17331c3 1038 science optional bedtools_2.12.0-1.dsc
- cf6c7cd9d457605c7602005b9037abfd 790069 science optional bedtools_2.12.0.orig.tar.bz2
- 578d850a5a0439b34a4a407897b02dbb 4198 science optional bedtools_2.12.0-1.debian.tar.gz
- 3de472bdc6e0e95d969ac4b0bfc89482 1614122 science optional bedtools_2.12.0-1_amd64.deb
+ 75791f166ce89a4afdb21ec20d0bc6b6 1665434 science optional bedtools_2.12.0-1_powerpc.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bedtools_2.12.0-1_amd64.deb
-───────────────────────────
+bedtools_2.12.0-1_powerpc.deb
+─────────────────────────────
new debian package, version 2.0.
- size 1614122 bytes: control archive= 1651 bytes.
+ size 1665434 bytes: control archive= 1648 bytes.
763 bytes, 15 lines control
1978 bytes, 34 lines md5sums
Package: bedtools
Version: 2.12.0-1
- Architecture: amd64
+ Architecture: powerpc
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 3720
- Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
+ Installed-Size: 3852
+ Depends: libc6 (>= 2.4), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
Section: science
Priority: optional
Homepage: http://code.google.com/p/bedtools/
@@ -585,128 +674,81 @@ bedtools_2.12.0-1_amd64.deb
BEDTools, one can develop sophisticated pipelines that answer complicated
research questions by streaming several BEDTools together.
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/bin/
--rwxr-xr-x root/root 126456 2011-06-08 17:22 ./usr/bin/bedToIgv
--rwxr-xr-x root/root 138920 2011-06-08 17:22 ./usr/bin/bedToBam
--rwxr-xr-x root/root 69112 2011-06-08 17:22 ./usr/bin/unionBedGraphs
--rwxr-xr-x root/root 175808 2011-06-08 17:22 ./usr/bin/coverageBed
--rwxr-xr-x root/root 123024 2011-06-08 17:22 ./usr/bin/bamToBed
--rwxr-xr-x root/root 118496 2011-06-08 17:22 ./usr/bin/subtractBed
--rwxr-xr-x root/root 114136 2011-06-08 17:22 ./usr/bin/mergeBed
--rwxr-xr-x root/root 114280 2011-06-08 17:22 ./usr/bin/maskFastaFromBed
--rwxr-xr-x root/root 257792 2011-06-08 17:22 ./usr/bin/pairToBed
--rwxr-xr-x root/root 196320 2011-06-08 17:22 ./usr/bin/intersectBed
--rwxr-xr-x root/root 110752 2011-06-08 17:22 ./usr/bin/complementBed
--rwxr-xr-x root/root 200416 2011-06-08 17:22 ./usr/bin/fjoin
--rwxr-xr-x root/root 147088 2011-06-08 17:22 ./usr/bin/fastaFromBed
--rwxr-xr-x root/root 171728 2011-06-08 17:22 ./usr/bin/annotateBed
--rwxr-xr-x root/root 183800 2011-06-08 17:22 ./usr/bin/pairToPair
--rwxr-xr-x root/root 114160 2011-06-08 17:22 ./usr/bin/linksBed
--rwxr-xr-x root/root 118224 2011-06-08 17:22 ./usr/bin/flankBed
--rwxr-xr-x root/root 150976 2011-06-08 17:22 ./usr/bin/sortBed
--rwxr-xr-x root/root 110032 2011-06-08 17:22 ./usr/bin/slopBed
--rwxr-xr-x root/root 188128 2011-06-08 17:22 ./usr/bin/genomeCoverageBed
--rwxr-xr-x root/root 175800 2011-06-08 17:22 ./usr/bin/windowBed
--rwxr-xr-x root/root 101832 2011-06-08 17:22 ./usr/bin/bed12ToBed6
--rwxr-xr-x root/root 126424 2011-06-08 17:22 ./usr/bin/closestBed
--rwxr-xr-x root/root 93640 2011-06-08 17:22 ./usr/bin/overlap
--rwxr-xr-x root/root 147088 2011-06-08 17:22 ./usr/bin/cuffToTrans
--rwxr-xr-x root/root 134672 2011-06-08 17:22 ./usr/bin/shuffleBed
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/share/
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/share/bedtools/
-drwxr-xr-x root/root 0 2011-06-08 17:21 ./usr/share/bedtools/genomes/
--rwxr-xr-x root/root 585 2011-04-04 10:30 ./usr/share/bedtools/genomes/mouse.mm9.genome
--rwxr-xr-x root/root 856 2011-04-04 10:30 ./usr/share/bedtools/genomes/human.hg18.genome
--rwxr-xr-x root/root 565 2011-04-04 10:30 ./usr/share/bedtools/genomes/mouse.mm8.genome
--rwxr-xr-x root/root 1972 2011-04-04 10:30 ./usr/share/bedtools/genomes/human.hg19.genome
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/share/doc/bedtools/
--rw-r--r-- root/root 1586 2011-04-04 10:30 ./usr/share/doc/bedtools/README.rst.gz
--rw-r--r-- root/root 8577 2011-04-04 10:30 ./usr/share/doc/bedtools/changelog.gz
--rw-r--r-- root/root 4611 2011-06-08 16:59 ./usr/share/doc/bedtools/copyright
--rw-r--r-- root/root 156 2011-06-08 17:01 ./usr/share/doc/bedtools/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-06-08 11:02 ./
+drwxr-xr-x root/root 0 2011-06-08 11:02 ./usr/
+drwxr-xr-x root/root 0 2011-06-08 11:02 ./usr/bin/
+-rwxr-xr-x root/root 200940 2011-06-08 11:02 ./usr/bin/intersectBed
+-rwxr-xr-x root/root 113436 2011-06-08 11:02 ./usr/bin/mergeBed
+-rwxr-xr-x root/root 145652 2011-06-08 11:02 ./usr/bin/sortBed
+-rwxr-xr-x root/root 137580 2011-06-08 11:02 ./usr/bin/bedToBam
+-rwxr-xr-x root/root 121380 2011-06-08 11:02 ./usr/bin/closestBed
+-rwxr-xr-x root/root 146548 2011-06-08 11:02 ./usr/bin/cuffToTrans
+-rwxr-xr-x root/root 195780 2011-06-08 11:02 ./usr/bin/genomeCoverageBed
+-rwxr-xr-x root/root 178564 2011-06-08 11:02 ./usr/bin/annotateBed
+-rwxr-xr-x root/root 207244 2011-06-08 11:02 ./usr/bin/fjoin
+-rwxr-xr-x root/root 146548 2011-06-08 11:02 ./usr/bin/fastaFromBed
+-rwxr-xr-x root/root 109700 2011-06-08 11:02 ./usr/bin/complementBed
+-rwxr-xr-x root/root 265916 2011-06-08 11:02 ./usr/bin/pairToBed
+-rwxr-xr-x root/root 182652 2011-06-08 11:02 ./usr/bin/coverageBed
+-rwxr-xr-x root/root 100644 2011-06-08 11:02 ./usr/bin/bed12ToBed6
+-rwxr-xr-x root/root 109996 2011-06-08 11:02 ./usr/bin/linksBed
+-rwxr-xr-x root/root 109068 2011-06-08 11:02 ./usr/bin/slopBed
+-rwxr-xr-x root/root 115596 2011-06-08 11:02 ./usr/bin/subtractBed
+-rwxr-xr-x root/root 183572 2011-06-08 11:02 ./usr/bin/windowBed
+-rwxr-xr-x root/root 125812 2011-06-08 11:02 ./usr/bin/bamToBed
+-rwxr-xr-x root/root 133404 2011-06-08 11:02 ./usr/bin/shuffleBed
+-rwxr-xr-x root/root 64844 2011-06-08 11:02 ./usr/bin/unionBedGraphs
+-rwxr-xr-x root/root 179308 2011-06-08 11:02 ./usr/bin/pairToPair
+-rwxr-xr-x root/root 122780 2011-06-08 11:02 ./usr/bin/bedToIgv
+-rwxr-xr-x root/root 116988 2011-06-08 11:02 ./usr/bin/flankBed
+-rwxr-xr-x root/root 112916 2011-06-08 11:02 ./usr/bin/maskFastaFromBed
+-rwxr-xr-x root/root 92604 2011-06-08 11:02 ./usr/bin/overlap
+drwxr-xr-x root/root 0 2011-06-08 11:02 ./usr/share/
+drwxr-xr-x root/root 0 2011-06-08 11:02 ./usr/share/bedtools/
+drwxr-xr-x root/root 0 2011-06-08 10:58 ./usr/share/bedtools/genomes/
+-rwxr-xr-x root/root 856 2011-04-04 01:30 ./usr/share/bedtools/genomes/human.hg18.genome
+-rwxr-xr-x root/root 1972 2011-04-04 01:30 ./usr/share/bedtools/genomes/human.hg19.genome
+-rwxr-xr-x root/root 565 2011-04-04 01:30 ./usr/share/bedtools/genomes/mouse.mm8.genome
+-rwxr-xr-x root/root 585 2011-04-04 01:30 ./usr/share/bedtools/genomes/mouse.mm9.genome
+drwxr-xr-x root/root 0 2011-06-08 11:02 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-06-08 11:02 ./usr/share/doc/bedtools/
+-rw-r--r-- root/root 8577 2011-04-04 01:30 ./usr/share/doc/bedtools/changelog.gz
+-rw-r--r-- root/root 4611 2011-06-08 07:59 ./usr/share/doc/bedtools/copyright
+-rw-r--r-- root/root 156 2011-06-08 08:01 ./usr/share/doc/bedtools/changelog.Debian.gz
+-rw-r--r-- root/root 1586 2011-04-04 01:30 ./usr/share/doc/bedtools/README.rst.gz
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Post Build │
+│ Finished │
└──────────────────────────────────────────────────────────────────────────────┘
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Cleanup │
+│ Post Build │
└──────────────────────────────────────────────────────────────────────────────┘
-Purging /«CHROOT»/«BUILDDIR»
-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* diffstat* file* gettext* gettext-base*
- groff-base* html2text* intltool-debian* libcroco3* libglib2.0-0* libmagic1*
- libpcre3* libpipeline1* libunistring0* libxml2* man-db* po-debconf* quilt*
- sbuild-build-depends-bedtools-dummy* sbuild-build-depends-core-dummy*
- zlib1g-dev*
-0 upgraded, 0 newly installed, 23 to remove and 0 not upgraded.
-After this operation, 28.8 MB disk space will be freed.
-(Reading database ... 12285 files and directories currently installed.)
-Removing sbuild-build-depends-bedtools-dummy ...
-Removing cdbs ...
-Removing debhelper ...
-Removing man-db ...
-Purging configuration files for man-db ...
-Removing bsdmainutils ...
-Purging configuration files for bsdmainutils ...
-Removing quilt ...
-Purging configuration files for quilt ...
-Removing diffstat ...
-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 libpipeline1 ...
-Purging configuration files for libpipeline1 ...
-Removing libunistring0 ...
-Purging configuration files for libunistring0 ...
-Removing libxml2 ...
-Purging configuration files for libxml2 ...
-Removing sbuild-build-depends-core-dummy ...
-Removing zlib1g-dev ...
+Purging /var/lib/schroot/mount/sid-powerpc-sbuild-0da373a2-6d9c-4701-871e-8d4c0e6b85db/build/buildd-bedtools_2.12.0-1-powerpc-Xp8fmS
+Not cleaning session: cloned chroot in use
┌──────────────────────────────────────────────────────────────────────────────┐
│ Summary │
└──────────────────────────────────────────────────────────────────────────────┘
-Architecture: amd64
-Build-Space: 103228
-Build-Time: 67
-Distribution: unstable
-Install-Time: 27
-Job: bedtools_2.12.0-1.dsc
+Architecture: powerpc
+Build-Space: 79440
+Build-Time: 254
+Distribution: sid
+Install-Time: 41
+Job: bedtools_2.12.0-1
Package: bedtools
-Package-Time: 98
+Package-Time: 332
Source-Version: 2.12.0-1
-Space: 103228
+Space: 79440
Status: successful
Version: 2.12.0-1
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110608-1722
-Build needed 00:01:38, 103228k disc space
+Finished at 20110608-1102
+Build needed 00:05:32, 79440k disc space
+Signature with key 'CDFA0A89' requested:
diff --git a/amd64.log b/s390.log
similarity index 53%
copy from amd64.log
copy to s390.log
index 36d4346..462ed33 100644
--- a/amd64.log
+++ b/s390.log
@@ -1,86 +1,170 @@
-sbuild (Debian sbuild) 0.62.2 (05 Apr 2011) on anx191
+From buildd at zandonai.debian.org Thu Jun 09 22:29:57 2011
+Return-path: <buildd at zandonai.debian.org>
+Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=merikanto.debian.org,
+ EMAIL=hostmaster at merikanto.debian.org (verified)
+ by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at zandonai.debian.org>)
+ id 1QUnjh-0006ar-LE
+ for logs at buildd.debian.org; Thu, 09 Jun 2011 22:29:57 +0000
+Received: from zandonai.debian.org ([80.245.147.46])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=zandonai.debian.org,
+ EMAIL=hostmaster at zandonai.debian.org (verified)
+ by merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at zandonai.debian.org>)
+ id 1QUnjg-0002B1-Cm; Thu, 09 Jun 2011 22:29:56 +0000
+Received: from buildd by zandonai.debian.org with local (Exim 4.72)
+ (envelope-from <buildd at zandonai.debian.org>)
+ id 1QUnjf-00045C-Uu; Thu, 09 Jun 2011 22:29:55 +0000
+Message-Id: <E1QUnjf-00045C-Uu at zandonai.debian.org>
+MIME-Version: 1.0
+Content-Transfer-Encoding: binary
+X-Mailer: MIME::Lite 3.027 (F2.77; B3.08; Q3.08)
+Date: Thu, 9 Jun 2011 22:29:55 +0000
+From: buildd on zandonai <buildd at zandonai.debian.org>
+To: phil+buildd at philkern.de,logs at buildd.debian.org
+Subject: Log for successful build of bedtools_2.12.0-1 on s390 (dist=sid)
+Key-Id: 9BD94C88
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on zandonai.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bedtools 2.12.0-1 (amd64) 08 Jun 2011 17:20 ║
+║ bedtools 2.12.0-1 (s390) 09 Jun 2011 22:26 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bedtools
Version: 2.12.0-1
Source Version: 2.12.0-1
-Distribution: unstable
-Architecture: amd64
-
-I: NOTICE: Log filtering will replace 'build/bedtools-Ghn37g' with '«BUILDDIR»'
-I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/sid-amd64-sbuild-29088341-52c6-42fd-8a13-78bdff77cf92' with '«CHROOT»'
-
-┌──────────────────────────────────────────────────────────────────────────────┐
-│ Update chroot │
-└──────────────────────────────────────────────────────────────────────────────┘
-
-Hit http://ftp.jp.debian.org sid InRelease
-Hit http://ftp.jp.debian.org sid/main amd64 Packages/DiffIndex
-Hit http://ftp.jp.debian.org sid/main TranslationIndex
-Reading package lists...
+Architecture: s390
+Get:1 http://ftp.de.debian.org unstable InRelease [146 kB]
+Get:2 http://incoming.debian.org unstable InRelease [146 kB]
+Get:3 http://ftp.de.debian.org unstable/main Sources [5291 kB]
+Ign http://incoming.debian.org InRelease
+Get:4 http://incoming.debian.org Release.gpg [836 B]
+Get:5 http://incoming.debian.org unstable/main Sources [5291 kB]
+Get:6 http://ftp.de.debian.org unstable/contrib Sources [49.7 kB]
+Get:7 http://ftp.de.debian.org unstable/non-free Sources [92.5 kB]
+Get:8 http://ftp.de.debian.org unstable/main s390 Packages [7190 kB]
+Get:9 http://ftp.de.debian.org unstable/contrib s390 Packages [53.0 kB]
+Ign http://ftp.de.debian.org unstable/contrib TranslationIndex
+Get:10 http://ftp.de.debian.org unstable/main TranslationIndex [2264 B]
+Ign http://ftp.de.debian.org unstable/contrib Translation-en
+Get:11 http://incoming.debian.org unstable/contrib Sources [49.7 kB]
+Get:12 http://incoming.debian.org unstable/non-free Sources [92.5 kB]
+Get:13 http://incoming.debian.org unstable/main s390 Packages [7190 kB]
+Get:14 http://incoming.debian.org unstable/contrib s390 Packages [53.0 kB]
+Ign http://incoming.debian.org unstable/contrib TranslationIndex
+Get:15 http://incoming.debian.org unstable/main TranslationIndex [2264 B]
+Get:16 http://incoming.debian.org Release [1604 B]
+Get:17 http://incoming.debian.org Sources [33.7 kB]
+Get:18 http://incoming.debian.org Packages [383 kB]
+Ign http://incoming.debian.org unstable/contrib Translation-en
+Ign http://incoming.debian.org Translation-en
+Fetched 26.1 MB in 24s (1055 kB/s)
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
-─────────────
+Check APT
+─────────
-bedtools_2.12.0-1.dsc exists in .; copying to chroot
+Checking available source versions...
+
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+NOTICE: 'bedtools' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/git/debian-med/bedtools.git
+Need to get 796 kB of source archives.
+Get:1 http://ftp.de.debian.org/debian/ unstable/main bedtools 2.12.0-1 (dsc) [1924 B]
+Get:2 http://ftp.de.debian.org/debian/ unstable/main bedtools 2.12.0-1 (tar) [790 kB]
+Get:3 http://ftp.de.debian.org/debian/ unstable/main bedtools 2.12.0-1 (diff) [4198 B]
+Fetched 796 kB in 0s (2003 kB/s)
+Download complete and in download only mode
Check arch
──────────
-Merged Build-Depends: build-essential, fakeroot
-Filtered Build-Depends: build-essential, fakeroot
-dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/«BUILDDIR»/resolver-XV0Q8j/apt_archive/sbuild-build-depends-core-dummy.deb'.
-OK
-Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install core build dependencies (apt-based resolver) │
+│ Install core build dependencies (internal resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
-Installing build dependencies
+Build-Depends: build-essential, fakeroot
+Checking for already installed dependencies...
+build-essential: already installed (11.5)
+fakeroot: already installed (1.15.1-1)
+Checking for dependency conflicts...
+Installing positive dependencies:
Reading package lists...
Building dependency tree...
Reading state information...
-The following NEW packages will be installed:
- sbuild-build-depends-core-dummy
-debconf: delaying package configuration, since apt-utils is not installed
-0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded.
-Need to get 0 B/706 B of archives.
-After this operation, 0 B of additional disk space will be used.
-Selecting previously deselected package sbuild-build-depends-core-dummy.
-(Reading database ... 10807 files and directories currently installed.)
-Unpacking sbuild-build-depends-core-dummy (from .../sbuild-build-depends-core-dummy.deb) ...
-Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
-Merged Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), cdbs, debhelper (>= 8), quilt, zlib1g-dev
-Filtered Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), cdbs, debhelper (>= 8), quilt, zlib1g-dev
-dpkg-deb: building package `sbuild-build-depends-bedtools-dummy' in `/«BUILDDIR»/resolver-JPNhUl/apt_archive/sbuild-build-depends-bedtools-dummy.deb'.
-OK
+0 upgraded, 0 newly installed, 0 to remove and 29 not upgraded.
+Removing negative dependencies:
Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 29 not upgraded.
+Checking correctness of dependencies...
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install bedtools build dependencies (apt-based resolver) │
+│ Install bedtools build dependencies (internal resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
-Installing build dependencies
+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), quilt, zlib1g-dev
+Checking for already installed dependencies...
+base-files: already installed (6.3)
+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 (4)
+diffutils: already installed (1:3.0-1)
+dpkg: already installed (1.16.0.3)
+e2fsprogs: already installed (1.41.12-4)
+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 (3.06)
+ncurses-base: already installed (5.9-1)
+ncurses-bin: already installed (5.9-1)
+perl-base: already installed (5.12.3-7)
+sed: already installed (4.2.1-9)
+login: already installed (1:4.1.4.2+svn3283-3)
+sysvinit-utils: already installed (2.88dsf-13.7)
+sysvinit: already installed (2.88dsf-13.7)
+tar: already installed (1.25-3)
+bsdutils: already installed (1:2.17.2-9.1)
+mount: already installed (2.17.2-9.1)
+util-linux: already installed (2.17.2-9.1)
+libc6-dev: already installed (2.13-4)
+gcc: already installed (4:4.6.0-5 >= 4:4.4.3 is satisfied)
+g++: already installed (4:4.6.0-5 >= 4:4.4.3 is satisfied)
+make: already installed (3.81-8.1)
+dpkg-dev: already installed (1.16.0.3 >= 1.13.5 is satisfied)
+cdbs: missing
+debhelper: missing
+Using default version 8.1.6
+quilt: missing
+zlib1g-dev: missing
+Checking for dependency conflicts...
+Installing positive dependencies: cdbs debhelper quilt zlib1g-dev
Reading package lists...
Building dependency tree...
Reading state information...
The following extra packages will be installed:
- bsdmainutils cdbs debhelper diffstat file gettext gettext-base groff-base
- html2text intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3
- libpipeline1 libunistring0 libxml2 man-db po-debconf quilt zlib1g-dev
+ bsdmainutils diffstat file gettext gettext-base groff-base html2text
+ intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1
+ libunistring0 libxml2 man-db po-debconf
Suggested packages:
wamerican wordlist whois vacation devscripts dh-make gettext-doc groff less
www-browser libmail-box-perl procmail graphviz
@@ -90,45 +174,62 @@ Recommended packages:
The following NEW packages will be installed:
bsdmainutils cdbs debhelper diffstat file gettext gettext-base groff-base
html2text intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3
- libpipeline1 libunistring0 libxml2 man-db po-debconf quilt
- sbuild-build-depends-bedtools-dummy zlib1g-dev
-0 upgraded, 22 newly installed, 0 to remove and 0 not upgraded.
-Need to get 2248 kB/9858 kB of archives.
-After this operation, 28.8 MB of additional disk space will be used.
-Get:1 http://ftp.jp.debian.org/debian/ sid/main bsdmainutils amd64 8.2.3 [208 kB]
-Get:2 http://ftp.jp.debian.org/debian/ sid/main groff-base amd64 1.21-6 [1150 kB]
-Get:3 http://ftp.jp.debian.org/debian/ sid/main libxml2 amd64 2.7.8.dfsg-3 [890 kB]
+ libpipeline1 libunistring0 libxml2 man-db po-debconf quilt zlib1g-dev
+0 upgraded, 21 newly installed, 0 to remove and 29 not upgraded.
+Need to get 9828 kB of archives.
+After this operation, 29.4 MB of additional disk space will be used.
+Get:1 http://ftp.de.debian.org/debian/ unstable/main bsdmainutils s390 8.2.3 [209 kB]
+Get:2 http://ftp.de.debian.org/debian/ unstable/main groff-base s390 1.21-6 [1156 kB]
+Get:3 http://ftp.de.debian.org/debian/ unstable/main libpipeline1 s390 1.2.0-2 [38.9 kB]
+Get:4 http://ftp.de.debian.org/debian/ unstable/main man-db s390 2.6.0.2-1 [1017 kB]
+Get:5 http://ftp.de.debian.org/debian/ unstable/main libmagic1 s390 5.04-5+b1 [243 kB]
+Get:6 http://ftp.de.debian.org/debian/ unstable/main file s390 5.04-5+b1 [50.1 kB]
+Get:7 http://ftp.de.debian.org/debian/ unstable/main gettext-base s390 0.18.1.1-3 [142 kB]
+Get:8 http://ftp.de.debian.org/debian/ unstable/main libpcre3 s390 8.12-3 [262 kB]
+Get:9 http://ftp.de.debian.org/debian/ unstable/main libxml2 s390 2.7.8.dfsg-3 [881 kB]
+Get:10 http://ftp.de.debian.org/debian/ unstable/main html2text s390 1.3.2a-15 [101 kB]
+Get:11 http://ftp.de.debian.org/debian/ unstable/main libglib2.0-0 s390 2.28.6-1 [1639 kB]
+Get:12 http://ftp.de.debian.org/debian/ unstable/main libcroco3 s390 0.6.2-1 [128 kB]
+Get:13 http://ftp.de.debian.org/debian/ unstable/main libunistring0 s390 0.9.3-4 [431 kB]
+Get:14 http://ftp.de.debian.org/debian/ unstable/main gettext s390 0.18.1.1-3 [2068 kB]
+Get:15 http://ftp.de.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get:16 http://ftp.de.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get:17 http://ftp.de.debian.org/debian/ unstable/main debhelper all 8.1.6 [557 kB]
+Get:18 http://ftp.de.debian.org/debian/ unstable/main cdbs all 0.4.94 [75.5 kB]
+Get:19 http://ftp.de.debian.org/debian/ unstable/main diffstat s390 1.54-1 [28.4 kB]
+Get:20 http://ftp.de.debian.org/debian/ unstable/main quilt all 0.48-7 [354 kB]
+Get:21 http://ftp.de.debian.org/debian/ unstable/main zlib1g-dev s390 1:1.2.3.4.dfsg-3 [193 kB]
debconf: delaying package configuration, since apt-utils is not installed
-Fetched 2248 kB in 0s (4582 kB/s)
+Fetched 9828 kB in 2s (3535 kB/s)
Selecting previously deselected package bsdmainutils.
-(Reading database ... 10807 files and directories currently installed.)
-Unpacking bsdmainutils (from .../bsdmainutils_8.2.3_amd64.deb) ...
+(Reading database ... 10552 files and directories currently installed.)
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.3_s390.deb) ...
Selecting previously deselected package groff-base.
-Unpacking groff-base (from .../groff-base_1.21-6_amd64.deb) ...
+Unpacking groff-base (from .../groff-base_1.21-6_s390.deb) ...
Selecting previously deselected package libpipeline1.
-Unpacking libpipeline1 (from .../libpipeline1_1.2.0-2_amd64.deb) ...
+Unpacking libpipeline1 (from .../libpipeline1_1.2.0-2_s390.deb) ...
Selecting previously deselected package man-db.
-Unpacking man-db (from .../man-db_2.6.0.2-1_amd64.deb) ...
+Unpacking man-db (from .../man-db_2.6.0.2-1_s390.deb) ...
Selecting previously deselected package libmagic1.
-Unpacking libmagic1 (from .../libmagic1_5.04-5+b1_amd64.deb) ...
+Unpacking libmagic1 (from .../libmagic1_5.04-5+b1_s390.deb) ...
Selecting previously deselected package file.
-Unpacking file (from .../file_5.04-5+b1_amd64.deb) ...
+Unpacking file (from .../file_5.04-5+b1_s390.deb) ...
Selecting previously deselected package gettext-base.
-Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_amd64.deb) ...
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_s390.deb) ...
Selecting previously deselected package libpcre3.
-Unpacking libpcre3 (from .../libpcre3_8.12-3_amd64.deb) ...
+Unpacking libpcre3 (from .../libpcre3_8.12-3_s390.deb) ...
Selecting previously deselected package libxml2.
-Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-3_amd64.deb) ...
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-3_s390.deb) ...
Selecting previously deselected package html2text.
-Unpacking html2text (from .../html2text_1.3.2a-15_amd64.deb) ...
+Unpacking html2text (from .../html2text_1.3.2a-15_s390.deb) ...
Selecting previously deselected package libglib2.0-0.
-Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.6-1_amd64.deb) ...
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.6-1_s390.deb) ...
Selecting previously deselected package libcroco3.
-Unpacking libcroco3 (from .../libcroco3_0.6.2-1_amd64.deb) ...
+Unpacking libcroco3 (from .../libcroco3_0.6.2-1_s390.deb) ...
Selecting previously deselected package libunistring0.
-Unpacking libunistring0 (from .../libunistring0_0.9.3-4_amd64.deb) ...
+Unpacking libunistring0 (from .../libunistring0_0.9.3-4_s390.deb) ...
Selecting previously deselected package gettext.
-Unpacking gettext (from .../gettext_0.18.1.1-3_amd64.deb) ...
+Unpacking gettext (from .../gettext_0.18.1.1-3_s390.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.
@@ -138,13 +239,11 @@ Unpacking debhelper (from .../debhelper_8.1.6_all.deb) ...
Selecting previously deselected package cdbs.
Unpacking cdbs (from .../archives/cdbs_0.4.94_all.deb) ...
Selecting previously deselected package diffstat.
-Unpacking diffstat (from .../diffstat_1.54-1_amd64.deb) ...
+Unpacking diffstat (from .../diffstat_1.54-1_s390.deb) ...
Selecting previously deselected package quilt.
Unpacking quilt (from .../archives/quilt_0.48-7_all.deb) ...
Selecting previously deselected package zlib1g-dev.
-Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_amd64.deb) ...
-Selecting previously deselected package sbuild-build-depends-bedtools-dummy.
-Unpacking sbuild-build-depends-bedtools-dummy (from .../sbuild-build-depends-bedtools-dummy.deb) ...
+Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_s390.deb) ...
Setting up bsdmainutils (8.2.3) ...
update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode.
update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode.
@@ -170,15 +269,15 @@ Setting up cdbs (0.4.94) ...
Setting up diffstat (1.54-1) ...
Setting up quilt (0.48-7) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
-Setting up sbuild-build-depends-bedtools-dummy (0.invalid.0) ...
-
-┌──────────────────────────────────────────────────────────────────────────────┐
-│ Build environment │
-└──────────────────────────────────────────────────────────────────────────────┘
-
-Kernel: Linux 2.6.32-5-amd64 amd64 (x86_64)
-Toolchain package versions: binutils_2.21.52.20110606-1 dpkg-dev_1.16.0.3 g++-4.6_4.6.0-11 gcc-4.6_4.6.0-11 libc6-dev_2.13-5 libstdc++6_4.6.0-11 libstdc++6-4.6-dev_4.6.0-11 linux-libc-dev_2.6.39-1+b1
-Package versions: apt_0.8.14.1 base-files_6.4 base-passwd_3.5.22 bash_4.1-3 binutils_2.21.52.20110606-1 bsdmainutils_8.2.3 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.94 coreutils_8.5-1 cpp_4:4.6.0-5 cpp-4.6_4.6.0-11 dash_0.5.5.1-7.4 debconf_1.5.39 debconf-i18n_1.5.39 debfoster_2.7-1.1 debhelper_8.1.6 debian-archive-keyring_2010.08.28 debianutils_4.0.1 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.41.12-4 e2fsprogs_1.41.12-4 fakeroot_1.15.1-1 file_5.04-5+b1 findutils_4.4.2-1+b1 g++_4:4.6.0-5 g++-4.6_4.6.0-11 gcc_4:4.6.0-5 gcc-4.6_4.6.0-11 gcc-4.6-base_4.6.0-11 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.8-2 groff-base_1.21-6 gzip_1.3.12-9 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.7 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-5 libattr1_1:2.4.44-3 libblkid1_2.17.2-9.1 libbz2-1.0_1.0.5-6 libc-bin_2.13-5 libc-dev-bin_2.13-5 libc6_2.13-5 libc6-dev_2.13-5 libclass-isa-perl_0.36-1 libcloog-ppl0_0.15.9-3 libcomerr2_1.41.12-4 libcroco3_0.6.2-1 libdb4.7_4.7.25-20 libdb4.8_4.8.30-8 libdb5.1_5.1.25-10 libdpkg-perl_1.16.0.3 libelfg0_0.8.13-1 libgc1c2_1:7.1-8 libgcc1_1:4.6.0-11 libgdbm3_1.8.3-9 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.1+dfsg-7 libgmpxx4ldbl_2:5.0.1+dfsg-7 libgomp1_4.6.0-11 liblocale-gettext-perl_1.05-6+b1 liblzma2_5.0.0-2 libmagic1_5.04-5+b1 libmpc2_0.9-3 libmpfr4_3.0.1-3 libncurses5_5.9-1 libpam-modules_1.1.3-1 libpam-runtime_1.1.3-1 libpam0g_1.1.3-1 libpcre3_8.12-3 libpipeline1_1.2.0-2 libpod-plainer-perl_1.03-1 libppl-c4_0.11.2-3 libppl9_0.11.2-3 libpwl5_0.11.2-3 libquadmath0_4.6.0-11 libreadline6_6.2-2 libselinux1_2.0.98-1+b1 libsepol1_2.0.42-1 libslang2_2.2.4-2 libss2_1.41.12-4 libstdc++6_4.6.0-11 libstdc++6-4.6-dev_4.6.0-11 libswitch-perl_2.16-1 libtext-charwidth-perl_0.04-6+b1 libtext-iconv-perl_1.7-2+b1 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-17 libuuid1_2.17.2-9.1 libxml2_2.7.8.dfsg-3 linux-libc-dev_2.6.39-1+b1 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-27 make_3.81-8.1 man-db_2.6.0.2-1 mawk_1.3.3-15 mount_2.17.2-9.1 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.3-7 perl-base_5.12.3-7 perl-modules_5.12.3-7 po-debconf_1.0.16+nmu1 quilt_0.48-7 readline-common_6.2-2 sbuild-build-depends-bedtools-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 sed_4.2.1-9 sensible-utils_0.0.6 sysv-rc_2.88dsf-13.7 sysvinit_2.88dsf-13.7 sysvinit-utils_2.88dsf-13.7 tar_1.25-3 tzdata_2011g-1 util-linux_2.17.2-9.1 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+Removing negative dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 29 not upgraded.
+Checking correctness of dependencies...
+Kernel: Linux 2.6.32-5-s390x s390 (s390x)
+Toolchain package versions: binutils_2.21.51.20110421-6 dpkg-dev_1.16.0.3 g++-4.6_4.6.0-8 gcc-4.6_4.6.0-8 libc6-dev_2.13-4 libstdc++6_4.6.0-8 libstdc++6-4.6-dev_4.6.0-8 linux-libc-dev_2.6.39-1
+Package versions: apt_0.8.14.1 base-files_6.3 base-passwd_3.5.22 bash_4.1-3 binutils_2.21.51.20110421-6 bsdmainutils_8.2.3 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.94 coreutils_8.5-1 cpp_4:4.6.0-5 cpp-4.6_4.6.0-8 dash_0.5.5.1-7.4 debconf_1.5.39 debconf-english_1.5.38 debfoster_2.7-1.1 debhelper_8.1.6 debian-archive-keyring_2010.08.28 debianutils_4 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.41.12-4 e2fsprogs_1.41.12-4 fakeroot_1.15.1-1 file_5.04-5+b1 findutils_4.4.2-1+b1 g++_4:4.6.0-5 g++-4.6_4.6.0-8 gcc_4:4.6.0-5 gcc-4.4-base_4.4.6-3 gcc-4.5-base_4.5.3-1 gcc-4.6_4.6.0-8 gcc-4.6-base_4.6.0-8 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.6.3-3 groff-base_1.21-6 gzip_1.3.12-9 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.7 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-4 libattr1_1:2.4.44-2 libblkid1_2.17.2-9.1 libbz2-1.0_1.0.5-6 libc-bin_2.13-4 libc-dev-bin_2.13-4 libc6_2.13-4 libc6-dev_2.13-4 libcloog-ppl0_0.15.9-3 libcomerr2_1.41.12-4 libcroco3_0.6.2-1 libdb5.1_5.1.25-10 libdpkg-perl_1.16.0.3 libgc1c2_1:7.1-7 libgcc1_1:4.6.0-8 libgdbm3_1.8.3-9 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.1+dfsg-7 libgmpxx4ldbl_2:5.0.1+dfsg-7 libgomp1_4.6.0-8 liblzma2_5.0.0-2 libmagic1_5.04-5+b1 libmpc2_0.9-3 libmpfr4_3.0.1-3 libncurses5_5.9-1 libpam-modules_1.1.2-3 libpam-runtime_1.1.2-3 libpam0g_1.1.2-3 libpcre3_8.12-3 libpipeline1_1.2.0-2 libppl-c4_0.11.2-3 libppl9_0.11.2-3 libpwl5_0.11.2-3 libreadline6_6.2-2 libselinux1_2.0.98-1+b1 libsepol1_2.0.42-1 libslang2_2.2.4-2 libss2_1.41.12-4 libstdc++6_4.6.0-8 libstdc++6-4.6-dev_4.6.0-8 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-17 libuuid1_2.17.2-9.1 libxml2_2.7.8.dfsg-3 linux-libc-dev_2.6.39-1 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-27 make_3.81-8.1 man-db_2.6.0.2-1 mawk_1.3.3-15 mount_2.17.2-9.1 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.3-7 perl-base_5.12.3-7 perl-modules_5.12.3-7 po-debconf_1.0.16+nmu1 quilt_0.48-7 readline-common_6.2-2 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.7.4p6-1 sysv-rc_2.88dsf-13.7 sysvinit_2.88dsf-13.7 sysvinit-utils_2.88dsf-13.7 tar_1.25-3 tzdata_2011g-1 util-linux_2.17.2-9.1 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -188,7 +287,10 @@ Package versions: apt_0.8.14.1 base-files_6.4 base-passwd_3.5.22 bash_4.1-3 binu
Unpack source
─────────────
-dpkg-source: warning: extracting unsigned source package (bedtools_2.12.0-1.dsc)
+gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Wed Jun 8 08:23:42 2011 UTC using RSA key ID 2295D502
+gpgv: Can't check signature: public key not found
+dpkg-source: warning: failed to verify signature on ./bedtools_2.12.0-1.dsc
dpkg-source: info: extracting bedtools in bedtools-2.12.0
dpkg-source: info: unpacking bedtools_2.12.0.orig.tar.bz2
dpkg-source: info: unpacking bedtools_2.12.0-1.debian.tar.gz
@@ -197,7 +299,6 @@ dpkg-source: info: applying gzstream.h.patch
Check disc space
────────────────
-Sufficient free space for build
dpkg-buildpackage
─────────────────
@@ -209,24 +310,23 @@ dpkg-buildpackage: export FFLAGS from dpkg-buildflags (origin: vendor): -g -O2
dpkg-buildpackage: export LDFLAGS from dpkg-buildflags (origin: vendor):
dpkg-buildpackage: source package bedtools
dpkg-buildpackage: source version 2.12.0-1
-dpkg-buildpackage: source changed by Charles Plessy <plessy at debian.org>
dpkg-source --before-build bedtools-2.12.0
-dpkg-buildpackage: host architecture amd64
+dpkg-buildpackage: host architecture s390
fakeroot debian/rules clean
test -x debian/rules
dh_testroot
rm -f debian/stamp-makefile-build debian/stamp-makefile-install
/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" CPPFLAGS="" LDFLAGS="" -k clean
-make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-s390-3rG7yH/bedtools-2.12.0'
Cleaning up.
-make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-s390-3rG7yH/bedtools-2.12.0'
dh_clean
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-s390-3rG7yH/bedtools-2.12.0'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-s390-3rG7yH/bedtools-2.12.0'
if [ -d "." ]; then \
- cd . && QUILT_PATCHES=/«BUILDDIR»/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
+ cd . && QUILT_PATCHES=/build/buildd-bedtools_2.12.0-1-s390-3rG7yH/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
fi
Removing patch gzstream.h.patch
Restoring src/utils/gzstream/gzstream.C
@@ -234,29 +334,25 @@ Restoring src/utils/gzstream/gzstream.C
No patches applied
rm -rf ./.pc
rm -f debian/stamp-patch*
- dpkg-source -b bedtools-2.12.0
-dpkg-source: info: using source format `3.0 (quilt)'
-dpkg-source: warning: patches have not been applied, applying them now (use --no-preparation to override)
-dpkg-source: info: applying gzstream.h.patch
-dpkg-source: info: building bedtools using existing ./bedtools_2.12.0.orig.tar.bz2
-dpkg-source: info: building bedtools in bedtools_2.12.0-1.debian.tar.gz
-dpkg-source: info: building bedtools in bedtools_2.12.0-1.dsc
debian/rules build
test -x debian/rules
mkdir -p "."
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-s390-3rG7yH/bedtools-2.12.0'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
-cd . && QUILT_PATCHES=/«BUILDDIR»/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
-File series fully applied, ends at patch gzstream.h.patch
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-s390-3rG7yH/bedtools-2.12.0'
+cd . && QUILT_PATCHES=/build/buildd-bedtools_2.12.0-1-s390-3rG7yH/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
+Applying patch gzstream.h.patch
+patching file src/utils/gzstream/gzstream.C
+
+Now at patch gzstream.h.patch
touch debian/stamp-patched
/usr/bin/make -f debian/rules update-config
-make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-s390-3rG7yH/bedtools-2.12.0'
make[1]: Nothing to be done for `update-config'.
-make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-s390-3rG7yH/bedtools-2.12.0'
/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" CPPFLAGS="" LDFLAGS=""
-make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-s390-3rG7yH/bedtools-2.12.0'
[ -d obj ] || mkdir -p obj
[ -d bin ] || mkdir -p bin
Building BEDTools:
@@ -459,10 +555,10 @@ unionBedGraphsMain.cpp:49:10: warning: variable 'haveFiller' set but not used [-
* compiling windowBed.cpp
* linking windowBed
-make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-s390-3rG7yH/bedtools-2.12.0'
touch debian/stamp-makefile-build
DEB_MAKE_CHECK_TARGET unset, not running checks
- fakeroot debian/rules binary
+ fakeroot debian/rules binary-arch
test -x debian/rules
dh_testroot
dh_prep
@@ -503,36 +599,25 @@ dh_shlibdeps -pbedtools
dh_gencontrol -pbedtools
dh_md5sums -pbedtools
dh_builddeb -pbedtools
-dpkg-deb: building package `bedtools' in `../bedtools_2.12.0-1_amd64.deb'.
- dpkg-genchanges >../bedtools_2.12.0-1_amd64.changes
-dpkg-genchanges: including full source code in upload
+dpkg-deb: building package `bedtools' in `../bedtools_2.12.0-1_s390.deb'.
+ dpkg-genchanges -B -ms390 Build Daemon (zandonai) <buildd_s390-zandonai at buildd.debian.org> >../bedtools_2.12.0-1_s390.changes
+dpkg-genchanges: arch-specific upload - not including arch-independent packages
+dpkg-genchanges: binary-only upload - not including any source code
dpkg-source --after-build bedtools-2.12.0
-dpkg-buildpackage: full upload (original source is included)
+dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110608-1722
-
-Finished
-────────
-
-I: Built successfully
-
-┌──────────────────────────────────────────────────────────────────────────────┐
-│ Changes │
-└──────────────────────────────────────────────────────────────────────────────┘
-
-
-bedtools_2.12.0-1_amd64.changes:
-────────────────────────────────
+Build finished at 20110609-2229
+bedtools_2.12.0-1_s390.changes:
Format: 1.8
Date: Wed, 08 Jun 2011 17:01:19 +0900
Source: bedtools
Binary: bedtools
-Architecture: source amd64
+Architecture: s390
Version: 2.12.0-1
-Distribution: unstable
+Distribution: sid
Urgency: low
-Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Maintainer: s390 Build Daemon (zandonai) <buildd_s390-zandonai at buildd.debian.org>
Changed-By: Charles Plessy <plessy at debian.org>
Description:
bedtools - suite of utilities for comparing genomic features
@@ -542,39 +627,30 @@ Changes:
.
* Initial release (Closes: #629597)
Checksums-Sha1:
- a9095eb961b38ca925d1f55e19f125f442acdbb6 1038 bedtools_2.12.0-1.dsc
- 2ba712dc9a2642ae2172402983811855309f7ae1 790069 bedtools_2.12.0.orig.tar.bz2
- e8fcc348a7548dd0aea5c53668420f8e91b089cb 4198 bedtools_2.12.0-1.debian.tar.gz
- 04880b3f2b1d8f0b640d65431a974f477b55dd28 1614122 bedtools_2.12.0-1_amd64.deb
+ 984e4f68d94e37b8556b01d5726cc9e575702193 1607392 bedtools_2.12.0-1_s390.deb
Checksums-Sha256:
- 173926b694c984031b7c0a0f1230225aaa4440c59571c31e1e8589490bc607ba 1038 bedtools_2.12.0-1.dsc
- 9b57249d8891f2da2c6adc55b3088b3f5b10c35b01a106bbd129824c51290a98 790069 bedtools_2.12.0.orig.tar.bz2
- 82758e0c528cf60f44e4f4488a03b1aa4d0b65dbedc06216724152d460230c72 4198 bedtools_2.12.0-1.debian.tar.gz
- 5f7d3e1b741e860549fca03274bbe0036c64d94eb5032b941d42b7c56bd3966e 1614122 bedtools_2.12.0-1_amd64.deb
+ eec7dcafea2fd18ca7a42e62a532fb86423b0dd11ff6fe6716c95fd4a759914a 1607392 bedtools_2.12.0-1_s390.deb
Files:
- 1c725960544ec5f66c442b7db17331c3 1038 science optional bedtools_2.12.0-1.dsc
- cf6c7cd9d457605c7602005b9037abfd 790069 science optional bedtools_2.12.0.orig.tar.bz2
- 578d850a5a0439b34a4a407897b02dbb 4198 science optional bedtools_2.12.0-1.debian.tar.gz
- 3de472bdc6e0e95d969ac4b0bfc89482 1614122 science optional bedtools_2.12.0-1_amd64.deb
+ 41026305f770e4169300adbe39b998e7 1607392 science optional bedtools_2.12.0-1_s390.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bedtools_2.12.0-1_amd64.deb
-───────────────────────────
+bedtools_2.12.0-1_s390.deb
+──────────────────────────
new debian package, version 2.0.
- size 1614122 bytes: control archive= 1651 bytes.
- 763 bytes, 15 lines control
+ size 1607392 bytes: control archive= 1642 bytes.
+ 760 bytes, 15 lines control
1978 bytes, 34 lines md5sums
Package: bedtools
Version: 2.12.0-1
- Architecture: amd64
+ Architecture: s390
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 3720
- Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
+ Installed-Size: 3768
+ Depends: libc6 (>= 2.4), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
Section: science
Priority: optional
Homepage: http://code.google.com/p/bedtools/
@@ -585,128 +661,81 @@ bedtools_2.12.0-1_amd64.deb
BEDTools, one can develop sophisticated pipelines that answer complicated
research questions by streaming several BEDTools together.
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/bin/
--rwxr-xr-x root/root 126456 2011-06-08 17:22 ./usr/bin/bedToIgv
--rwxr-xr-x root/root 138920 2011-06-08 17:22 ./usr/bin/bedToBam
--rwxr-xr-x root/root 69112 2011-06-08 17:22 ./usr/bin/unionBedGraphs
--rwxr-xr-x root/root 175808 2011-06-08 17:22 ./usr/bin/coverageBed
--rwxr-xr-x root/root 123024 2011-06-08 17:22 ./usr/bin/bamToBed
--rwxr-xr-x root/root 118496 2011-06-08 17:22 ./usr/bin/subtractBed
--rwxr-xr-x root/root 114136 2011-06-08 17:22 ./usr/bin/mergeBed
--rwxr-xr-x root/root 114280 2011-06-08 17:22 ./usr/bin/maskFastaFromBed
--rwxr-xr-x root/root 257792 2011-06-08 17:22 ./usr/bin/pairToBed
--rwxr-xr-x root/root 196320 2011-06-08 17:22 ./usr/bin/intersectBed
--rwxr-xr-x root/root 110752 2011-06-08 17:22 ./usr/bin/complementBed
--rwxr-xr-x root/root 200416 2011-06-08 17:22 ./usr/bin/fjoin
--rwxr-xr-x root/root 147088 2011-06-08 17:22 ./usr/bin/fastaFromBed
--rwxr-xr-x root/root 171728 2011-06-08 17:22 ./usr/bin/annotateBed
--rwxr-xr-x root/root 183800 2011-06-08 17:22 ./usr/bin/pairToPair
--rwxr-xr-x root/root 114160 2011-06-08 17:22 ./usr/bin/linksBed
--rwxr-xr-x root/root 118224 2011-06-08 17:22 ./usr/bin/flankBed
--rwxr-xr-x root/root 150976 2011-06-08 17:22 ./usr/bin/sortBed
--rwxr-xr-x root/root 110032 2011-06-08 17:22 ./usr/bin/slopBed
--rwxr-xr-x root/root 188128 2011-06-08 17:22 ./usr/bin/genomeCoverageBed
--rwxr-xr-x root/root 175800 2011-06-08 17:22 ./usr/bin/windowBed
--rwxr-xr-x root/root 101832 2011-06-08 17:22 ./usr/bin/bed12ToBed6
--rwxr-xr-x root/root 126424 2011-06-08 17:22 ./usr/bin/closestBed
--rwxr-xr-x root/root 93640 2011-06-08 17:22 ./usr/bin/overlap
--rwxr-xr-x root/root 147088 2011-06-08 17:22 ./usr/bin/cuffToTrans
--rwxr-xr-x root/root 134672 2011-06-08 17:22 ./usr/bin/shuffleBed
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/share/
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/share/bedtools/
-drwxr-xr-x root/root 0 2011-06-08 17:21 ./usr/share/bedtools/genomes/
--rwxr-xr-x root/root 585 2011-04-04 10:30 ./usr/share/bedtools/genomes/mouse.mm9.genome
--rwxr-xr-x root/root 856 2011-04-04 10:30 ./usr/share/bedtools/genomes/human.hg18.genome
--rwxr-xr-x root/root 565 2011-04-04 10:30 ./usr/share/bedtools/genomes/mouse.mm8.genome
--rwxr-xr-x root/root 1972 2011-04-04 10:30 ./usr/share/bedtools/genomes/human.hg19.genome
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/share/doc/bedtools/
--rw-r--r-- root/root 1586 2011-04-04 10:30 ./usr/share/doc/bedtools/README.rst.gz
--rw-r--r-- root/root 8577 2011-04-04 10:30 ./usr/share/doc/bedtools/changelog.gz
--rw-r--r-- root/root 4611 2011-06-08 16:59 ./usr/share/doc/bedtools/copyright
--rw-r--r-- root/root 156 2011-06-08 17:01 ./usr/share/doc/bedtools/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-06-09 22:29 ./
+drwxr-xr-x root/root 0 2011-06-09 22:29 ./usr/
+drwxr-xr-x root/root 0 2011-06-09 22:29 ./usr/bin/
+-rwxr-xr-x root/root 142208 2011-06-09 22:29 ./usr/bin/cuffToTrans
+-rwxr-xr-x root/root 175096 2011-06-09 22:29 ./usr/bin/coverageBed
+-rwxr-xr-x root/root 106260 2011-06-09 22:29 ./usr/bin/linksBed
+-rwxr-xr-x root/root 178328 2011-06-09 22:29 ./usr/bin/windowBed
+-rwxr-xr-x root/root 114272 2011-06-09 22:29 ./usr/bin/subtractBed
+-rwxr-xr-x root/root 113584 2011-06-09 22:29 ./usr/bin/flankBed
+-rwxr-xr-x root/root 88372 2011-06-09 22:29 ./usr/bin/overlap
+-rwxr-xr-x root/root 125312 2011-06-09 22:29 ./usr/bin/bamToBed
+-rwxr-xr-x root/root 108592 2011-06-09 22:29 ./usr/bin/complementBed
+-rwxr-xr-x root/root 190636 2011-06-09 22:29 ./usr/bin/genomeCoverageBed
+-rwxr-xr-x root/root 110676 2011-06-09 22:29 ./usr/bin/maskFastaFromBed
+-rwxr-xr-x root/root 142208 2011-06-09 22:29 ./usr/bin/fastaFromBed
+-rwxr-xr-x root/root 65220 2011-06-09 22:29 ./usr/bin/unionBedGraphs
+-rwxr-xr-x root/root 260284 2011-06-09 22:29 ./usr/bin/pairToBed
+-rwxr-xr-x root/root 134392 2011-06-09 22:29 ./usr/bin/bedToBam
+-rwxr-xr-x root/root 96936 2011-06-09 22:29 ./usr/bin/bed12ToBed6
+-rwxr-xr-x root/root 109616 2011-06-09 22:29 ./usr/bin/mergeBed
+-rwxr-xr-x root/root 120888 2011-06-09 22:29 ./usr/bin/bedToIgv
+-rwxr-xr-x root/root 179692 2011-06-09 22:29 ./usr/bin/pairToPair
+-rwxr-xr-x root/root 170776 2011-06-09 22:29 ./usr/bin/annotateBed
+-rwxr-xr-x root/root 131016 2011-06-09 22:29 ./usr/bin/shuffleBed
+-rwxr-xr-x root/root 120876 2011-06-09 22:29 ./usr/bin/closestBed
+-rwxr-xr-x root/root 194732 2011-06-09 22:29 ./usr/bin/intersectBed
+-rwxr-xr-x root/root 202924 2011-06-09 22:29 ./usr/bin/fjoin
+-rwxr-xr-x root/root 145864 2011-06-09 22:29 ./usr/bin/sortBed
+-rwxr-xr-x root/root 105832 2011-06-09 22:29 ./usr/bin/slopBed
+drwxr-xr-x root/root 0 2011-06-09 22:29 ./usr/share/
+drwxr-xr-x root/root 0 2011-06-09 22:29 ./usr/share/bedtools/
+drwxr-xr-x root/root 0 2011-06-09 22:27 ./usr/share/bedtools/genomes/
+-rwxr-xr-x root/root 856 2011-04-04 01:30 ./usr/share/bedtools/genomes/human.hg18.genome
+-rwxr-xr-x root/root 565 2011-04-04 01:30 ./usr/share/bedtools/genomes/mouse.mm8.genome
+-rwxr-xr-x root/root 1972 2011-04-04 01:30 ./usr/share/bedtools/genomes/human.hg19.genome
+-rwxr-xr-x root/root 585 2011-04-04 01:30 ./usr/share/bedtools/genomes/mouse.mm9.genome
+drwxr-xr-x root/root 0 2011-06-09 22:29 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-06-09 22:29 ./usr/share/doc/bedtools/
+-rw-r--r-- root/root 1586 2011-04-04 01:30 ./usr/share/doc/bedtools/README.rst.gz
+-rw-r--r-- root/root 8577 2011-04-04 01:30 ./usr/share/doc/bedtools/changelog.gz
+-rw-r--r-- root/root 156 2011-06-08 08:01 ./usr/share/doc/bedtools/changelog.Debian.gz
+-rw-r--r-- root/root 4611 2011-06-08 07:59 ./usr/share/doc/bedtools/copyright
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Post Build │
+│ Finished │
└──────────────────────────────────────────────────────────────────────────────┘
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Cleanup │
+│ Post Build │
└──────────────────────────────────────────────────────────────────────────────┘
-Purging /«CHROOT»/«BUILDDIR»
-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* diffstat* file* gettext* gettext-base*
- groff-base* html2text* intltool-debian* libcroco3* libglib2.0-0* libmagic1*
- libpcre3* libpipeline1* libunistring0* libxml2* man-db* po-debconf* quilt*
- sbuild-build-depends-bedtools-dummy* sbuild-build-depends-core-dummy*
- zlib1g-dev*
-0 upgraded, 0 newly installed, 23 to remove and 0 not upgraded.
-After this operation, 28.8 MB disk space will be freed.
-(Reading database ... 12285 files and directories currently installed.)
-Removing sbuild-build-depends-bedtools-dummy ...
-Removing cdbs ...
-Removing debhelper ...
-Removing man-db ...
-Purging configuration files for man-db ...
-Removing bsdmainutils ...
-Purging configuration files for bsdmainutils ...
-Removing quilt ...
-Purging configuration files for quilt ...
-Removing diffstat ...
-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 libpipeline1 ...
-Purging configuration files for libpipeline1 ...
-Removing libunistring0 ...
-Purging configuration files for libunistring0 ...
-Removing libxml2 ...
-Purging configuration files for libxml2 ...
-Removing sbuild-build-depends-core-dummy ...
-Removing zlib1g-dev ...
+Purging /var/lib/schroot/mount/sid-s390-sbuild-9d0daa96-45ed-4e50-8953-2eff183d5a08/build/buildd-bedtools_2.12.0-1-s390-3rG7yH
+Not cleaning session: cloned chroot in use
┌──────────────────────────────────────────────────────────────────────────────┐
│ Summary │
└──────────────────────────────────────────────────────────────────────────────┘
-Architecture: amd64
-Build-Space: 103228
-Build-Time: 67
-Distribution: unstable
-Install-Time: 27
-Job: bedtools_2.12.0-1.dsc
+Architecture: s390
+Build-Space: 81684
+Build-Time: 139
+Distribution: sid
+Install-Time: 17
+Job: bedtools_2.12.0-1
Package: bedtools
-Package-Time: 98
+Package-Time: 188
Source-Version: 2.12.0-1
-Space: 103228
+Space: 81684
Status: successful
Version: 2.12.0-1
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110608-1722
-Build needed 00:01:38, 103228k disc space
+Finished at 20110609-2229
+Build needed 00:03:08, 81684k disc space
+Signature with key '9BD94C88' requested:
diff --git a/sparc.log b/sparc.log
new file mode 100644
index 0000000..f91615a
--- /dev/null
+++ b/sparc.log
@@ -0,0 +1,706 @@
+From buildd at spontini.debian.org Thu Jun 09 02:39:16 2011
+Return-path: <buildd at spontini.debian.org>
+Received: from kokkonen.debian.org ([2001:41b8:202:deb:1a1a:0:52c3:4b61])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=kokkonen.debian.org,
+ EMAIL=hostmaster at kokkonen.debian.org (verified)
+ by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at spontini.debian.org>)
+ id 1QUV9Q-0003Gr-Bz
+ for logs at buildd.debian.org; Thu, 09 Jun 2011 02:39:16 +0000
+Received: from spontini.debian.org ([2607:f8f0:610:4000:a00:20ff:fea0:918b])
+ from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
+ CN=spontini.debian.org,
+ EMAIL=hostmaster at spontini.debian.org (verified)
+ by kokkonen.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at spontini.debian.org>)
+ id 1QUV9P-0002Rm-9B
+ for logs at buildd.debian.org; Thu, 09 Jun 2011 02:39:15 +0000
+Received: from buildd by spontini.debian.org with local (Exim 4.72)
+ (envelope-from <buildd at spontini.debian.org>)
+ id 1QUV9L-0006Qa-Hd; Thu, 09 Jun 2011 02:39:11 +0000
+Message-Id: <E1QUV9L-0006Qa-Hd at spontini.debian.org>
+MIME-Version: 1.0
+Content-Transfer-Encoding: binary
+X-Mailer: MIME::Lite 3.027 (F2.77; B3.08; Q3.08)
+Date: Thu, 9 Jun 2011 02:39:11 +0000
+From: buildd on spontini <buildd at spontini.debian.org>
+To: logs at buildd.debian.org,buildd-admin at spontini.debian.org
+Subject: Log for successful build of bedtools_2.12.0-1 on sparc (dist=sid)
+Key-Id: 3B3DF88C
+Delivered-To: logs at buildd.debian.org
+
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on spontini.debian.org
+
+╔══════════════════════════════════════════════════════════════════════════════╗
+║ bedtools 2.12.0-1 (sparc) 09 Jun 2011 02:20 ║
+╚══════════════════════════════════════════════════════════════════════════════╝
+
+Package: bedtools
+Version: 2.12.0-1
+Source Version: 2.12.0-1
+Architecture: sparc
+Get:1 http://mirror-ubc.debian.org unstable InRelease [146 kB]
+Get:2 http://incoming.debian.org unstable InRelease [146 kB]
+Get:3 http://mirror-ubc.debian.org unstable/main Sources [5289 kB]
+Ign http://incoming.debian.org InRelease
+Get:4 http://incoming.debian.org Release.gpg [836 B]
+Get:5 http://incoming.debian.org Release [1604 B]
+Get:6 http://incoming.debian.org unstable/main Sources [5289 kB]
+Get:7 http://mirror-ubc.debian.org unstable/contrib Sources [49.7 kB]
+Get:8 http://mirror-ubc.debian.org unstable/non-free Sources [92.0 kB]
+Get:9 http://mirror-ubc.debian.org unstable/main sparc Packages [7229 kB]
+Get:10 http://mirror-ubc.debian.org unstable/contrib sparc Packages [54.0 kB]
+Ign http://mirror-ubc.debian.org unstable/contrib TranslationIndex
+Get:11 http://mirror-ubc.debian.org unstable/main TranslationIndex [2264 B]
+Ign http://mirror-ubc.debian.org unstable/contrib Translation-en
+Get:12 http://incoming.debian.org unstable/contrib Sources [49.7 kB]
+Get:13 http://incoming.debian.org unstable/non-free Sources [92.0 kB]
+Get:14 http://incoming.debian.org unstable/main sparc Packages [7229 kB]
+Get:15 http://incoming.debian.org unstable/contrib sparc Packages [54.0 kB]
+Ign http://incoming.debian.org unstable/contrib TranslationIndex
+Get:16 http://incoming.debian.org unstable/main TranslationIndex [2264 B]
+Get:17 http://incoming.debian.org Sources [47.0 kB]
+Get:18 http://incoming.debian.org Packages [473 kB]
+Ign http://incoming.debian.org Translation-en
+Ign http://incoming.debian.org unstable/contrib Translation-en
+Fetched 26.2 MB in 1min 6s (398 kB/s)
+Reading package lists...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Fetch source files │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Check APT
+─────────
+
+Checking available source versions...
+
+Download source files with APT
+──────────────────────────────
+
+Reading package lists...
+Building dependency tree...
+Reading state information...
+NOTICE: 'bedtools' packaging is maintained in the 'Git' version control system at:
+git://git.debian.org/git/debian-med/bedtools.git
+Need to get 796 kB of source archives.
+Get:1 http://mirror-ubc.debian.org/debian/ unstable/main bedtools 2.12.0-1 (dsc) [1924 B]
+Get:2 http://mirror-ubc.debian.org/debian/ unstable/main bedtools 2.12.0-1 (tar) [790 kB]
+Get:3 http://mirror-ubc.debian.org/debian/ unstable/main bedtools 2.12.0-1 (diff) [4198 B]
+Fetched 796 kB in 0s (3344 kB/s)
+Download complete and in download only mode
+
+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 (1.15.1-1)
+Checking for dependency conflicts...
+Installing positive dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 19 not upgraded.
+Removing negative dependencies:
+Reading package lists...
+Building dependency tree...
+Reading state information...
+0 upgraded, 0 newly installed, 0 to remove and 19 not upgraded.
+Checking correctness of dependencies...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Install bedtools build dependencies (internal resolver) │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev | libc-dev, libc6-dev-sparc64, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), cdbs, debhelper (>= 8), quilt, zlib1g-dev
+Checking for already installed dependencies...
+base-files: already installed (6.4)
+base-passwd: already installed (3.5.22+b1)
+bash: already installed (4.1-3)
+coreutils: already installed (8.5-1)
+dash: already installed (0.5.5.1-7.4)
+debianutils: already installed (4.0.1)
+diffutils: already installed (1:3.0-1)
+dpkg: already installed (1.16.0.3)
+e2fsprogs: already installed (1.41.12-4)
+findutils: already installed (4.4.2-1+b2)
+grep: already installed (2.8-2)
+gzip: already installed (1.3.12-9)
+hostname: already installed (3.06)
+ncurses-base: already installed (5.9-1)
+ncurses-bin: already installed (5.9-1)
+perl-base: already installed (5.12.3-7)
+sed: already installed (4.2.1-9)
+login: already installed (1:4.1.4.2+svn3283-3)
+sysvinit-utils: already installed (2.88dsf-13.7)
+sysvinit: already installed (2.88dsf-13.7)
+tar: already installed (1.25-3)
+bsdutils: already installed (1:2.17.2-9.1)
+mount: already installed (2.17.2-9.1)
+util-linux: already installed (2.17.2-9.1)
+libc6-dev: already installed (2.13-4)
+libc6-dev-sparc64: already installed (2.13-4)
+gcc: already installed (4:4.4.5-9 >= 4:4.4.3 is satisfied)
+g++: already installed (4:4.4.5-9 >= 4:4.4.3 is satisfied)
+make: already installed (3.81-8.1)
+dpkg-dev: already installed (1.16.0.3 >= 1.13.5 is satisfied)
+cdbs: missing
+debhelper: missing
+Using default version 8.1.6
+quilt: missing
+zlib1g-dev: missing
+Checking for dependency conflicts...
+Installing positive dependencies: cdbs debhelper quilt zlib1g-dev
+Reading package lists...
+Building dependency tree...
+Reading state information...
+The following extra packages will be installed:
+ bsdmainutils diffstat file gettext gettext-base groff-base html2text
+ intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3 libpipeline1
+ libunistring0 libxml2 man-db po-debconf
+Suggested packages:
+ wamerican wordlist whois vacation devscripts dh-make gettext-doc groff less
+ www-browser libmail-box-perl procmail graphviz
+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 diffstat file gettext gettext-base groff-base
+ html2text intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3
+ libpipeline1 libunistring0 libxml2 man-db po-debconf quilt zlib1g-dev
+0 upgraded, 21 newly installed, 0 to remove and 19 not upgraded.
+Need to get 9607 kB of archives.
+After this operation, 29.2 MB of additional disk space will be used.
+Get:1 http://mirror-ubc.debian.org/debian/ unstable/main bsdmainutils sparc 8.2.3 [206 kB]
+Get:2 http://mirror-ubc.debian.org/debian/ unstable/main groff-base sparc 1.21-6 [1155 kB]
+Get:3 http://mirror-ubc.debian.org/debian/ unstable/main libpipeline1 sparc 1.2.0-2 [35.9 kB]
+Get:4 http://mirror-ubc.debian.org/debian/ unstable/main man-db sparc 2.6.0.2-1 [1013 kB]
+Get:5 http://mirror-ubc.debian.org/debian/ unstable/main libmagic1 sparc 5.04-5+b1 [239 kB]
+Get:6 http://mirror-ubc.debian.org/debian/ unstable/main file sparc 5.04-5+b1 [49.6 kB]
+Get:7 http://mirror-ubc.debian.org/debian/ unstable/main gettext-base sparc 0.18.1.1-3 [140 kB]
+Get:8 http://mirror-ubc.debian.org/debian/ unstable/main libpcre3 sparc 8.12-3 [265 kB]
+Get:9 http://mirror-ubc.debian.org/debian/ unstable/main libxml2 sparc 2.7.8.dfsg-3 [841 kB]
+Get:10 http://mirror-ubc.debian.org/debian/ unstable/main html2text sparc 1.3.2a-15 [100 kB]
+Get:11 http://mirror-ubc.debian.org/debian/ unstable/main libglib2.0-0 sparc 2.28.6-1 [1556 kB]
+Get:12 http://mirror-ubc.debian.org/debian/ unstable/main libcroco3 sparc 0.6.2-1 [119 kB]
+Get:13 http://mirror-ubc.debian.org/debian/ unstable/main libunistring0 sparc 0.9.3-4 [424 kB]
+Get:14 http://mirror-ubc.debian.org/debian/ unstable/main gettext sparc 0.18.1.1-3 [2006 kB]
+Get:15 http://mirror-ubc.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get:16 http://mirror-ubc.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get:17 http://mirror-ubc.debian.org/debian/ unstable/main debhelper all 8.1.6 [557 kB]
+Get:18 http://mirror-ubc.debian.org/debian/ unstable/main cdbs all 0.4.94 [75.5 kB]
+Get:19 http://mirror-ubc.debian.org/debian/ unstable/main diffstat sparc 1.54-1 [28.3 kB]
+Get:20 http://mirror-ubc.debian.org/debian/ unstable/main quilt all 0.48-7 [354 kB]
+Get:21 http://mirror-ubc.debian.org/debian/ unstable/main zlib1g-dev sparc 1:1.2.3.4.dfsg-3 [189 kB]
+debconf: delaying package configuration, since apt-utils is not installed
+Fetched 9607 kB in 2s (4398 kB/s)
+Selecting previously deselected package bsdmainutils.
+(Reading database ... 10815 files and directories currently installed.)
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.3_sparc.deb) ...
+Selecting previously deselected package groff-base.
+Unpacking groff-base (from .../groff-base_1.21-6_sparc.deb) ...
+Selecting previously deselected package libpipeline1.
+Unpacking libpipeline1 (from .../libpipeline1_1.2.0-2_sparc.deb) ...
+Selecting previously deselected package man-db.
+Unpacking man-db (from .../man-db_2.6.0.2-1_sparc.deb) ...
+Selecting previously deselected package libmagic1.
+Unpacking libmagic1 (from .../libmagic1_5.04-5+b1_sparc.deb) ...
+Selecting previously deselected package file.
+Unpacking file (from .../file_5.04-5+b1_sparc.deb) ...
+Selecting previously deselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_sparc.deb) ...
+Selecting previously deselected package libpcre3.
+Unpacking libpcre3 (from .../libpcre3_8.12-3_sparc.deb) ...
+Selecting previously deselected package libxml2.
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-3_sparc.deb) ...
+Selecting previously deselected package html2text.
+Unpacking html2text (from .../html2text_1.3.2a-15_sparc.deb) ...
+Selecting previously deselected package libglib2.0-0.
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.6-1_sparc.deb) ...
+Selecting previously deselected package libcroco3.
+Unpacking libcroco3 (from .../libcroco3_0.6.2-1_sparc.deb) ...
+Selecting previously deselected package libunistring0.
+Unpacking libunistring0 (from .../libunistring0_0.9.3-4_sparc.deb) ...
+Selecting previously deselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-3_sparc.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_8.1.6_all.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.94_all.deb) ...
+Selecting previously deselected package diffstat.
+Unpacking diffstat (from .../diffstat_1.54-1_sparc.deb) ...
+Selecting previously deselected package quilt.
+Unpacking quilt (from .../archives/quilt_0.48-7_all.deb) ...
+Selecting previously deselected package zlib1g-dev.
+Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_sparc.deb) ...
+Setting up bsdmainutils (8.2.3) ...
+update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode.
+update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode.
+Setting up groff-base (1.21-6) ...
+Setting up libpipeline1 (1.2.0-2) ...
+Setting up man-db (2.6.0.2-1) ...
+Building database of manual pages ...
+Setting up libmagic1 (5.04-5+b1) ...
+Setting up file (5.04-5+b1) ...
+Setting up gettext-base (0.18.1.1-3) ...
+Setting up libpcre3 (8.12-3) ...
+Setting up libxml2 (2.7.8.dfsg-3) ...
+Setting up html2text (1.3.2a-15) ...
+Setting up libglib2.0-0 (2.28.6-1) ...
+No schema files found: doing nothing.
+Setting up libcroco3 (0.6.2-1) ...
+Setting up libunistring0 (0.9.3-4) ...
+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 (8.1.6) ...
+Setting up cdbs (0.4.94) ...
+Setting up diffstat (1.54-1) ...
+Setting up quilt (0.48-7) ...
+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 19 not upgraded.
+Checking correctness of dependencies...
+Kernel: Linux 2.6.32-5-sparc64-smp sparc (sparc64)
+Toolchain package versions: binutils_2.21.51.20110523-1 dpkg-dev_1.16.0.3 g++-4.4_4.4.6-3 gcc-4.4_4.4.6-3 libc6-dev_2.13-4 libstdc++6_4.6.0-10 libstdc++6-4.4-dev_4.4.6-3 linux-libc-dev_2.6.39-1
+Package versions: apt_0.8.14.1 base-files_6.4 base-passwd_3.5.22+b1 bash_4.1-3 binutils_2.21.51.20110523-1 bsdmainutils_8.2.3 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.94 coreutils_8.5-1 cpp_4:4.4.5-9 cpp-4.4_4.4.6-3 dash_0.5.5.1-7.4 debconf_1.5.39 debfoster_2.7-1.1 debhelper_8.1.6 debian-archive-keyring_2010.08.28 debianutils_4.0.1 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.41.12-4 e2fsprogs_1.41.12-4 fakeroot_1.15.1-1 file_5.04-5+b1 findutils_4.4.2-1+b2 g++_4:4.4.5-9 g++-4.4_4.4.6-3 gcc_4:4.4.5-9 gcc-4.4_4.4.6-3 gcc-4.4-base_4.4.6-3 gcc-4.6-base_4.6.0-10 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.8-2 groff-base_1.21-6 gzip_1.3.12-9 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.7 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-5 libattr1_1:2.4.44-3 libblkid1_2.17.2-9.1 libbz2-1.0_1.0.5-6 libc-bin_2.13-4 libc-dev-bin_2.13-4 libc6_2.13-4 libc6-dev_2.13-4 libc6-dev-sparc64_2.13-4 libc6-sparc64_2.13-4 libcomerr2_1.41.12-4 libcroco3_0.6.2-1 libdb5.1_5.1.25-10 libdpkg-perl_1.16.0.3 libgc1c2_1:7.1-8 libgcc1_1:4.6.0-10 libgdbm3_1.8.3-9+b1 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.1+dfsg-7 libgomp1_4.6.0-10 liblzma2_5.0.0-2 libmagic1_5.04-5+b1 libmpfr4_3.0.1-3 libncurses5_5.9-1 libpam-modules_1.1.2-3 libpam-runtime_1.1.2-3 libpam0g_1.1.2-3 libpcre3_8.12-3 libpipeline1_1.2.0-2 libreadline6_6.2-2 libselinux1_2.0.98-1+b1 libsepol1_2.0.42-1 libss2_1.41.12-4 libstdc++6_4.6.0-10 libstdc++6-4.4-dev_4.4.6-3 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-17 libuuid1_2.17.2-9.1 libxml2_2.7.8.dfsg-3 linux-libc-dev_2.6.39-1 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-27 make_3.81-8.1 man-db_2.6.0.2-1 mawk_1.3.3-15+b1 mount_2.17.2-9.1 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.3-7 perl-base_5.12.3-7 perl-modules_5.12.3-7 po-debconf_1.0.16+nmu1 quilt_0.48-7 readline-common_6.2-2 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.7.4p6-1 sysv-rc_2.88dsf-13.7 sysvinit_2.88dsf-13.7 sysvinit-utils_2.88dsf-13.7 tar_1.25-3 tzdata_2011g-1 util-linux_2.17.2-9.1 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+Unpack source
+─────────────
+
+gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Wed Jun 8 08:23:42 2011 UTC using RSA key ID 2295D502
+gpgv: Can't check signature: public key not found
+dpkg-source: warning: failed to verify signature on ./bedtools_2.12.0-1.dsc
+dpkg-source: info: extracting bedtools in bedtools-2.12.0
+dpkg-source: info: unpacking bedtools_2.12.0.orig.tar.bz2
+dpkg-source: info: unpacking bedtools_2.12.0-1.debian.tar.gz
+dpkg-source: info: applying gzstream.h.patch
+
+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 bedtools
+dpkg-buildpackage: source version 2.12.0-1
+ dpkg-source --before-build bedtools-2.12.0
+dpkg-buildpackage: host architecture sparc
+ fakeroot debian/rules clean
+test -x debian/rules
+dh_testroot
+rm -f debian/stamp-makefile-build debian/stamp-makefile-install
+/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" CPPFLAGS="" LDFLAGS="" -k clean
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-sparc-AgSgRU/bedtools-2.12.0'
+Cleaning up.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-sparc-AgSgRU/bedtools-2.12.0'
+dh_clean
+/usr/bin/make -f debian/rules reverse-config
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-sparc-AgSgRU/bedtools-2.12.0'
+make[1]: Nothing to be done for `reverse-config'.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-sparc-AgSgRU/bedtools-2.12.0'
+if [ -d "." ]; then \
+ cd . && QUILT_PATCHES=/build/buildd-bedtools_2.12.0-1-sparc-AgSgRU/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
+ fi
+Removing patch gzstream.h.patch
+Restoring src/utils/gzstream/gzstream.C
+
+No patches applied
+rm -rf ./.pc
+rm -f debian/stamp-patch*
+ debian/rules build
+test -x debian/rules
+mkdir -p "."
+/usr/bin/make -f debian/rules reverse-config
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-sparc-AgSgRU/bedtools-2.12.0'
+make[1]: Nothing to be done for `reverse-config'.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-sparc-AgSgRU/bedtools-2.12.0'
+cd . && QUILT_PATCHES=/build/buildd-bedtools_2.12.0-1-sparc-AgSgRU/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
+Applying patch gzstream.h.patch
+patching file src/utils/gzstream/gzstream.C
+
+Now at patch gzstream.h.patch
+touch debian/stamp-patched
+/usr/bin/make -f debian/rules update-config
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-sparc-AgSgRU/bedtools-2.12.0'
+make[1]: Nothing to be done for `update-config'.
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-sparc-AgSgRU/bedtools-2.12.0'
+/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" CPPFLAGS="" LDFLAGS=""
+make[1]: Entering directory `/build/buildd-bedtools_2.12.0-1-sparc-AgSgRU/bedtools-2.12.0'
+[ -d obj ] || mkdir -p obj
+[ -d bin ] || mkdir -p bin
+Building BEDTools:
+=========================================================
+- Building in src/utils/lineFileUtilities
+ * compiling lineFileUtilities.cpp
+
+- Building in src/utils/bedFile
+ * compiling bedFile.cpp
+
+- Building in src/utils/bedGraphFile
+ * compiling bedGraphFile.cpp
+
+- Building in src/utils/tabFile
+ * compiling tabFile.cpp
+
+- Building in src/utils/genomeFile
+ * compiling genomeFile.cpp
+
+- Building in src/utils/gzstream
+g++ -g -O2 -g -O2 -Wall -c -o ../../../obj//gzstream.o gzstream.C -I.
+
+- Building in src/utils/fileType
+ * compiling fileType.cpp
+
+- Building in src/utils/bedFilePE
+ * compiling bedFilePE.cpp
+
+- Building in src/utils/sequenceUtilities
+ * compiling sequenceUtils.cpp
+
+- Building in src/utils/BamTools
+ * compiling BamReader.cpp
+ * compiling BamWriter.cpp
+ * compiling BGZF.cpp
+ * compiling BamAncillary.cpp
+ * compiling BamIndex.cpp
+
+- Building in src/annotateBed
+ * compiling annotateMain.cpp
+ * compiling annotateBed.cpp
+ * linking annotateBed
+
+- Building in src/bamToBed
+ * compiling bamToBed.cpp
+ * linking bamToBed
+
+- Building in src/bedToBam
+ * compiling bedToBam.cpp
+ * linking bedToBam
+
+- Building in src/bedToIgv
+ * compiling bedToIgv.cpp
+ * linking bedToIgv
+
+- Building in src/bed12ToBed6
+ * compiling bed12ToBed6.cpp
+ * linking bed12ToBed6
+
+- Building in src/closestBed
+ * compiling closestMain.cpp
+ * compiling closestBed.cpp
+ * linking closestBed
+
+- Building in src/complementBed
+ * compiling complementMain.cpp
+ * compiling complementBed.cpp
+ * linking complementBed
+
+- Building in src/coverageBed
+ * compiling coverageMain.cpp
+ * compiling coverageBed.cpp
+ * linking coverageBed
+
+- Building in src/cuffToTrans
+ * compiling cuffToTransMain.cpp
+ * compiling cuffToTrans.cpp
+ * compiling Fasta.cpp
+ * compiling split.cpp
+ * linking cuffToTrans
+
+- Building in src/fastaFromBed
+ * compiling fastaFromBedMain.cpp
+ * compiling fastaFromBed.cpp
+ * linking fastaFromBed
+
+- Building in src/flankBed
+ * compiling flankBedMain.cpp
+ * compiling flankBed.cpp
+ * linking flankBed
+
+- Building in src/fjoin
+ * compiling fjoinMain.cpp
+ * compiling fjoin.cpp
+ * linking fjoin
+
+- Building in src/genomeCoverageBed
+ * compiling genomeCoverageMain.cpp
+ * compiling genomeCoverageBed.cpp
+ * linking genomeCoverageBed
+
+- Building in src/intersectBed
+ * compiling intersectMain.cpp
+ * compiling intersectBed.cpp
+ * linking intersectBed
+
+- Building in src/linksBed
+ * compiling linksMain.cpp
+ * compiling linksBed.cpp
+ * linking linksBed
+
+- Building in src/maskFastaFromBed
+ * compiling maskFastaFromBedMain.cpp
+ * compiling maskFastaFromBed.cpp
+ * linking maskFastaFromBed
+
+- Building in src/mergeBed
+ * compiling mergeMain.cpp
+ * compiling mergeBed.cpp
+ * linking mergeBed
+
+- Building in src/overlap
+ * compiling overlap.cpp
+ * linking overlap
+
+- Building in src/pairToBed
+ * compiling pairToBedMain.cpp
+ * compiling pairToBed.cpp
+ * linking pairToBed
+
+- Building in src/pairToPair
+ * compiling pairToPairMain.cpp
+ * compiling pairToPair.cpp
+ * linking pairToPair
+
+- Building in src/shuffleBed
+ * compiling shuffleBedMain.cpp
+ * compiling shuffleBed.cpp
+ * linking shuffleBed
+
+- Building in src/slopBed
+ * compiling slopBedMain.cpp
+ * compiling slopBed.cpp
+ * linking slopBed
+
+- Building in src/sortBed
+ * compiling sortMain.cpp
+ * compiling sortBed.cpp
+ * linking sortBed
+
+- Building in src/subtractBed
+ * compiling subtractMain.cpp
+ * compiling subtractBed.cpp
+ * linking subtractBed
+
+- Building in src/unionBedGraphs
+ * compiling unionBedGraphs.cpp
+ * compiling unionBedGraphsMain.cpp
+ * linking unionBedGraphs
+
+- Building in src/windowBed
+ * compiling windowMain.cpp
+ * compiling windowBed.cpp
+ * linking windowBed
+
+make[1]: Leaving directory `/build/buildd-bedtools_2.12.0-1-sparc-AgSgRU/bedtools-2.12.0'
+touch debian/stamp-makefile-build
+DEB_MAKE_CHECK_TARGET unset, not running checks
+ fakeroot debian/rules binary-arch
+test -x debian/rules
+dh_testroot
+dh_prep
+dh_installdirs -A
+mkdir -p "."
+DEB_MAKE_CHECK_TARGET unset, not running checks
+DEB_MAKE_INSTALL_TARGET unset, skipping default makefile.mk common-install target
+Adding cdbs dependencies to debian/bedtools.substvars
+dh_installdirs -pbedtools
+dh_installdocs -pbedtools
+dh_installexamples -pbedtools
+dh_installman -pbedtools
+dh_installinfo -pbedtools
+dh_installmenu -pbedtools
+dh_installcron -pbedtools
+dh_installinit -pbedtools
+dh_installdebconf -pbedtools
+dh_installemacsen -pbedtools
+dh_installcatalogs -pbedtools
+dh_installpam -pbedtools
+dh_installlogrotate -pbedtools
+dh_installlogcheck -pbedtools
+dh_installchangelogs -pbedtools RELEASE_HISTORY
+dh_installudev -pbedtools
+dh_lintian -pbedtools
+dh_bugfiles -pbedtools
+dh_install -pbedtools
+dh_link -pbedtools
+dh_installmime -pbedtools
+dh_installgsettings -pbedtools
+dh_strip -pbedtools
+dh_compress -pbedtools
+dh_fixperms -pbedtools
+dh_makeshlibs -pbedtools
+dh_installdeb -pbedtools
+dh_perl -pbedtools
+dh_shlibdeps -pbedtools
+dh_gencontrol -pbedtools
+dh_md5sums -pbedtools
+dh_builddeb -pbedtools
+dpkg-deb: building package `bedtools' in `../bedtools_2.12.0-1_sparc.deb'.
+ dpkg-genchanges -B -msparc Build Daemon (spontini) <buildd_sparc-spontini at buildd.debian.org> >../bedtools_2.12.0-1_sparc.changes
+dpkg-genchanges: arch-specific upload - not including arch-independent packages
+dpkg-genchanges: binary-only upload - not including any source code
+ dpkg-source --after-build bedtools-2.12.0
+dpkg-buildpackage: binary only upload (no source included)
+────────────────────────────────────────────────────────────────────────────────
+Build finished at 20110609-0238
+
+bedtools_2.12.0-1_sparc.changes:
+Format: 1.8
+Date: Wed, 08 Jun 2011 17:01:19 +0900
+Source: bedtools
+Binary: bedtools
+Architecture: sparc
+Version: 2.12.0-1
+Distribution: sid
+Urgency: low
+Maintainer: sparc Build Daemon (spontini) <buildd_sparc-spontini at buildd.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ bedtools - suite of utilities for comparing genomic features
+Closes: 629597
+Changes:
+ bedtools (2.12.0-1) unstable; urgency=low
+ .
+ * Initial release (Closes: #629597)
+Checksums-Sha1:
+ 873375cd0de121b66f403f3d7d80192e1f797abb 1406044 bedtools_2.12.0-1_sparc.deb
+Checksums-Sha256:
+ 3a6555ede825633617973c396aef78acedb89f2019fdd6cfdb94ca3e5fcd5328 1406044 bedtools_2.12.0-1_sparc.deb
+Files:
+ 508115a6b733070b696018d5e9197794 1406044 science optional bedtools_2.12.0-1_sparc.deb
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Package contents │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+bedtools_2.12.0-1_sparc.deb
+───────────────────────────
+
+ new debian package, version 2.0.
+ size 1406044 bytes: control archive= 1648 bytes.
+ 761 bytes, 15 lines control
+ 1978 bytes, 34 lines md5sums
+ Package: bedtools
+ Version: 2.12.0-1
+ Architecture: sparc
+ Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+ Installed-Size: 3404
+ Depends: libc6 (>= 2.6), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
+ Section: science
+ Priority: optional
+ Homepage: http://code.google.com/p/bedtools/
+ Description: suite of utilities for comparing genomic features
+ The BEDTools utilities allow one to address common genomics tasks such as
+ finding feature overlaps and computing coverage. The utilities are largely
+ based on four widely-used file formats: BED, GFF/GTF, VCF, and SAM/BAM. Using
+ BEDTools, one can develop sophisticated pipelines that answer complicated
+ research questions by streaming several BEDTools together.
+
+drwxr-xr-x root/root 0 2011-06-09 02:37 ./
+drwxr-xr-x root/root 0 2011-06-09 02:38 ./usr/
+drwxr-xr-x root/root 0 2011-06-09 02:38 ./usr/share/
+drwxr-xr-x root/root 0 2011-06-09 02:37 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-06-09 02:38 ./usr/share/doc/bedtools/
+-rw-r--r-- root/root 4611 2011-06-08 07:59 ./usr/share/doc/bedtools/copyright
+-rw-r--r-- root/root 1586 2011-04-04 01:30 ./usr/share/doc/bedtools/README.rst.gz
+-rw-r--r-- root/root 156 2011-06-08 08:01 ./usr/share/doc/bedtools/changelog.Debian.gz
+-rw-r--r-- root/root 8577 2011-04-04 01:30 ./usr/share/doc/bedtools/changelog.gz
+drwxr-xr-x root/root 0 2011-06-09 02:38 ./usr/share/bedtools/
+drwxr-xr-x root/root 0 2011-06-09 02:24 ./usr/share/bedtools/genomes/
+-rwxr-xr-x root/root 856 2011-04-04 01:30 ./usr/share/bedtools/genomes/human.hg18.genome
+-rwxr-xr-x root/root 1972 2011-04-04 01:30 ./usr/share/bedtools/genomes/human.hg19.genome
+-rwxr-xr-x root/root 565 2011-04-04 01:30 ./usr/share/bedtools/genomes/mouse.mm8.genome
+-rwxr-xr-x root/root 585 2011-04-04 01:30 ./usr/share/bedtools/genomes/mouse.mm9.genome
+drwxr-xr-x root/root 0 2011-06-09 02:38 ./usr/bin/
+-rwxr-xr-x root/root 106456 2011-06-09 02:38 ./usr/bin/sortBed
+-rwxr-xr-x root/root 93000 2011-06-09 02:38 ./usr/bin/overlap
+-rwxr-xr-x root/root 109412 2011-06-09 02:38 ./usr/bin/mergeBed
+-rwxr-xr-x root/root 168424 2011-06-09 02:38 ./usr/bin/coverageBed
+-rwxr-xr-x root/root 186120 2011-06-09 02:38 ./usr/bin/genomeCoverageBed
+-rwxr-xr-x root/root 88412 2011-06-09 02:38 ./usr/bin/bed12ToBed6
+-rwxr-xr-x root/root 102060 2011-06-09 02:38 ./usr/bin/complementBed
+-rwxr-xr-x root/root 200520 2011-06-09 02:38 ./usr/bin/pairToBed
+-rwxr-xr-x root/root 95360 2011-06-09 02:38 ./usr/bin/subtractBed
+-rwxr-xr-x root/root 103688 2011-06-09 02:38 ./usr/bin/flankBed
+-rwxr-xr-x root/root 126504 2011-06-09 02:38 ./usr/bin/pairToPair
+-rwxr-xr-x root/root 126892 2011-06-09 02:38 ./usr/bin/cuffToTrans
+-rwxr-xr-x root/root 64284 2011-06-09 02:38 ./usr/bin/unionBedGraphs
+-rwxr-xr-x root/root 101256 2011-06-09 02:38 ./usr/bin/maskFastaFromBed
+-rwxr-xr-x root/root 183512 2011-06-09 02:38 ./usr/bin/intersectBed
+-rwxr-xr-x root/root 184096 2011-06-09 02:38 ./usr/bin/fjoin
+-rwxr-xr-x root/root 103000 2011-06-09 02:38 ./usr/bin/closestBed
+-rwxr-xr-x root/root 104520 2011-06-09 02:38 ./usr/bin/bamToBed
+-rwxr-xr-x root/root 126892 2011-06-09 02:38 ./usr/bin/fastaFromBed
+-rwxr-xr-x root/root 101224 2011-06-09 02:38 ./usr/bin/slopBed
+-rwxr-xr-x root/root 113412 2011-06-09 02:38 ./usr/bin/shuffleBed
+-rwxr-xr-x root/root 109412 2011-06-09 02:38 ./usr/bin/bedToIgv
+-rwxr-xr-x root/root 167124 2011-06-09 02:38 ./usr/bin/annotateBed
+-rwxr-xr-x root/root 101220 2011-06-09 02:38 ./usr/bin/linksBed
+-rwxr-xr-x root/root 121860 2011-06-09 02:38 ./usr/bin/bedToBam
+-rwxr-xr-x root/root 175304 2011-06-09 02:38 ./usr/bin/windowBed
+
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Finished │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Built successfully
+────────────────────────────────────────────────────────────────────────────────
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Post Build │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Purging /var/lib/schroot/mount/sid-sparc-sbuild-6924978a-4237-4228-95c7-9be5dd0cbd10/build/buildd-bedtools_2.12.0-1-sparc-AgSgRU
+Not cleaning session: cloned chroot in use
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Summary │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Architecture: sparc
+Build-Space: 57984
+Build-Time: 857
+Distribution: sid
+Install-Time: 124
+Job: bedtools_2.12.0-1
+Package: bedtools
+Package-Time: 1097
+Source-Version: 2.12.0-1
+Space: 57984
+Status: successful
+Version: 2.12.0-1
+────────────────────────────────────────────────────────────────────────────────
+Finished at 20110609-0238
+Build needed 00:18:17, 57984k disc space
+Signature with key '3B3DF88C' requested:
--
Suite of utilities for comparing genomic features.
More information about the debian-med-commit
mailing list