[med-svn] [SCM] BEDtools branch, meta, updated. meta/2.13.1-1-3-g08984c5
Charles Plessy
plessy at debian.org
Wed Oct 5 08:48:48 UTC 2011
The following commit has been merged in the meta branch:
commit bd14208eeeda64c439cf0e9ccba5a825ed90aeca
Author: Charles Plessy <plessy at debian.org>
Date: Wed Oct 5 17:44:28 2011 +0900
Collected build logs for 2.13.2-1
diff --git a/armel.log b/armel.log
index 6a0c6c5..81e8b39 100644
--- a/armel.log
+++ b/armel.log
@@ -1,67 +1,68 @@
-From buildd at alain.debian.org Sun Sep 11 01:33:58 2011
-Return-path: <buildd at alain.debian.org>
-Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
+From buildd at antheil.debian.org Sat Sep 24 04:06:10 2011
+Return-path: <buildd at antheil.debian.org>
+Received: from kokkonen.debian.org ([2001:41b8:202:deb:1a1a:0:52c3:4b61])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
- CN=merikanto.debian.org,
- EMAIL=hostmaster at merikanto.debian.org (verified)
+ CN=kokkonen.debian.org,
+ EMAIL=hostmaster at kokkonen.debian.org (verified)
by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.72) (envelope-from <buildd at alain.debian.org>)
- id 1R2Yvm-0000JA-Bp
- for logs at buildd.debian.org; Sun, 11 Sep 2011 01:33:58 +0000
-Received: from alain.islands.arm.com ([217.140.96.58] helo=alain.debian.org)
+ (Exim 4.72) (envelope-from <buildd at antheil.debian.org>)
+ id 1R7JVC-0006r0-4K
+ for logs at buildd.debian.org; Sat, 24 Sep 2011 04:06:10 +0000
+Received: from antheil.islands.arm.com ([217.140.96.60]
+ helo=antheil.debian.org)
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
- CN=alain.debian.org, EMAIL=hostmaster at alain.debian.org (verified)
- by merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.72) (envelope-from <buildd at alain.debian.org>)
- id 1R2Yvk-00006S-T8
- for logs at buildd.debian.org; Sun, 11 Sep 2011 01:33:57 +0000
-Received: from buildd by alain.debian.org with local (Exim 4.72)
- (envelope-from <buildd at alain.debian.org>)
- id 1R2Yvj-0002pv-Mf; Sun, 11 Sep 2011 01:33:55 +0000
-Date: Sun, 11 Sep 2011 01:33:55 +0000
-Message-Id: <E1R2Yvj-0002pv-Mf at alain.debian.org>
-From: buildd on alain <buildd at alain.debian.org>
-To: buildd-porters at alain.debian.org,logs at buildd.debian.org
-Subject: Log for successful build of bedtools_2.13.1-1 on armel (dist=sid)
+ CN=antheil.debian.org, EMAIL=hostmaster at antheil.debian.org (verified)
+ by kokkonen.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at antheil.debian.org>)
+ id 1R7JVB-0003yv-7A
+ for logs at buildd.debian.org; Sat, 24 Sep 2011 04:06:09 +0000
+Received: from buildd by antheil.debian.org with local (Exim 4.72)
+ (envelope-from <buildd at antheil.debian.org>)
+ id 1R7JV9-0003re-N0; Sat, 24 Sep 2011 04:06:08 +0000
+Date: Sat, 24 Sep 2011 04:06:07 +0000
+Message-Id: <E1R7JV9-0003re-N0 at antheil.debian.org>
+From: buildd on antheil <buildd at antheil.debian.org>
+To: buildd-porters at antheil.debian.org,logs at buildd.debian.org
+Subject: Log for successful build of bedtools_2.13.2-1 on armel (dist=sid)
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit
Delivered-To: logs at buildd.debian.org
-sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on alain.debian.org
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on antheil.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bedtools 2.13.1-1 (armel) 11 Sep 2011 01:07 ║
+║ bedtools 2.13.2-1 (armel) 24 Sep 2011 03:39 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bedtools
-Version: 2.13.1-1
-Source Version: 2.13.1-1
+Version: 2.13.2-1
+Source Version: 2.13.2-1
Architecture: armel
-Get:1 http://ftp.uk.debian.org unstable InRelease [146 kB]
-Get:2 http://incoming.debian.org unstable InRelease [146 kB]
-Get:3 http://ftp.uk.debian.org unstable/main Sources [5755 kB]
+Get:1 http://incoming.debian.org unstable InRelease [146 kB]
+Get:2 http://ftp.uk.debian.org unstable InRelease [146 kB]
+Get:3 http://ftp.uk.debian.org unstable/main Sources [5773 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 [5755 kB]
-Get:6 http://incoming.debian.org unstable/contrib Sources [57.4 kB]
+Get:5 http://incoming.debian.org unstable/main Sources [5783 kB]
+Get:6 http://incoming.debian.org unstable/contrib Sources [56.5 kB]
Get:7 http://incoming.debian.org unstable/non-free Sources [102 kB]
-Get:8 http://incoming.debian.org unstable/main armel Packages [7516 kB]
-Get:9 http://ftp.uk.debian.org unstable/contrib Sources [57.4 kB]
+Get:8 http://incoming.debian.org unstable/main armel Packages [7567 kB]
+Get:9 http://ftp.uk.debian.org unstable/contrib Sources [56.5 kB]
Get:10 http://ftp.uk.debian.org unstable/non-free Sources [102 kB]
-Get:11 http://ftp.uk.debian.org unstable/main armel Packages [7516 kB]
-Get:12 http://incoming.debian.org unstable/contrib armel Packages [55.6 kB]
+Get:11 http://ftp.uk.debian.org unstable/main armel Packages [7559 kB]
+Get:12 http://incoming.debian.org unstable/contrib armel Packages [54.7 kB]
Ign http://incoming.debian.org unstable/contrib TranslationIndex
Get:13 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
Get:14 http://incoming.debian.org Release [1604 B]
-Get:15 http://incoming.debian.org Sources [32.0 kB]
-Get:16 http://incoming.debian.org Packages [290 kB]
-Get:17 http://ftp.uk.debian.org unstable/contrib armel Packages [55.6 kB]
+Get:15 http://incoming.debian.org Sources [32.8 kB]
+Get:16 http://incoming.debian.org Packages [562 kB]
+Ign http://incoming.debian.org unstable/contrib Translation-en
+Ign http://incoming.debian.org Translation-en
+Get:17 http://ftp.uk.debian.org unstable/contrib armel Packages [54.7 kB]
Ign http://ftp.uk.debian.org unstable/contrib TranslationIndex
Get:18 http://ftp.uk.debian.org unstable/main TranslationIndex [2045 B]
Ign http://ftp.uk.debian.org unstable/contrib Translation-en
-Ign http://incoming.debian.org unstable/contrib Translation-en
-Ign http://incoming.debian.org Translation-en
-Fetched 27.6 MB in 1min 2s (445 kB/s)
+Fetched 28.0 MB in 1min 20s (346 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -82,11 +83,11 @@ 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 664 kB of source archives.
-Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (dsc) [1921 B]
-Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (tar) [658 kB]
-Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (diff) [4254 B]
-Fetched 664 kB in 1s (604 kB/s)
+Need to get 666 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (dsc) [1967 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (tar) [659 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (diff) [4285 B]
+Fetched 666 kB in 1s (624 kB/s)
Download complete and in download only mode
Check arch
@@ -106,12 +107,12 @@ Installing positive dependencies:
Reading package lists...
Building dependency tree...
Reading state information...
-0 upgraded, 0 newly installed, 0 to remove and 6 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 26 not upgraded.
Removing negative dependencies:
Reading package lists...
Building dependency tree...
Reading state information...
-0 upgraded, 0 newly installed, 0 to remove and 6 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 26 not upgraded.
Checking correctness of dependencies...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -151,7 +152,7 @@ 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 8.9.6
+Using default version 8.9.7
quilt: missing
zlib1g-dev: missing
Checking for dependency conflicts...
@@ -173,9 +174,9 @@ 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 6 not upgraded.
-Need to get 9375 kB of archives.
-After this operation, 28.2 MB of additional disk space will be used.
+0 upgraded, 21 newly installed, 0 to remove and 26 not upgraded.
+Need to get 9369 kB of archives.
+After this operation, 28.1 MB of additional disk space will be used.
Get:1 http://ftp.uk.debian.org/debian/ unstable/main libpipeline1 armel 1.2.0-3 [33.8 kB]
Get:2 http://ftp.uk.debian.org/debian/ unstable/main libpcre3 armel 8.12-4 [223 kB]
Get:3 http://ftp.uk.debian.org/debian/ unstable/main bsdmainutils armel 8.2.3 [207 kB]
@@ -185,20 +186,20 @@ Get:6 http://ftp.uk.debian.org/debian/ unstable/main libmagic1 armel 5.08-1 [245
Get:7 http://ftp.uk.debian.org/debian/ unstable/main file armel 5.08-1 [51.2 kB]
Get:8 http://ftp.uk.debian.org/debian/ unstable/main gettext-base armel 0.18.1.1-4 [139 kB]
Get:9 http://ftp.uk.debian.org/debian/ unstable/main libxml2 armel 2.7.8.dfsg-4 [815 kB]
-Get:10 http://ftp.uk.debian.org/debian/ unstable/main html2text armel 1.3.2a-15 [97.0 kB]
-Get:11 http://ftp.uk.debian.org/debian/ unstable/main libglib2.0-0 armel 2.28.6-1 [1535 kB]
-Get:12 http://ftp.uk.debian.org/debian/ unstable/main libcroco3 armel 0.6.2-1 [113 kB]
-Get:13 http://ftp.uk.debian.org/debian/ unstable/main libunistring0 armel 0.9.3-4 [409 kB]
-Get:14 http://ftp.uk.debian.org/debian/ unstable/main gettext armel 0.18.1.1-4 [1984 kB]
-Get:15 http://ftp.uk.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
-Get:16 http://ftp.uk.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
-Get:17 http://ftp.uk.debian.org/debian/ unstable/main debhelper all 8.9.6 [562 kB]
-Get:18 http://ftp.uk.debian.org/debian/ unstable/main cdbs all 0.4.96 [75.8 kB]
+Get:10 http://ftp.uk.debian.org/debian/ unstable/main cdbs all 0.4.99 [77.1 kB]
+Get:11 http://ftp.uk.debian.org/debian/ unstable/main html2text armel 1.3.2a-15 [97.0 kB]
+Get:12 http://ftp.uk.debian.org/debian/ unstable/main libglib2.0-0 armel 2.28.6-1 [1535 kB]
+Get:13 http://ftp.uk.debian.org/debian/ unstable/main libcroco3 armel 0.6.2-1 [113 kB]
+Get:14 http://ftp.uk.debian.org/debian/ unstable/main libunistring0 armel 0.9.3-4 [409 kB]
+Get:15 http://ftp.uk.debian.org/debian/ unstable/main gettext armel 0.18.1.1-4 [1984 kB]
+Get:16 http://ftp.uk.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get:17 http://ftp.uk.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get:18 http://ftp.uk.debian.org/debian/ unstable/main debhelper all 8.9.7 [552 kB]
Get:19 http://ftp.uk.debian.org/debian/ unstable/main diffstat armel 1.54-1 [27.7 kB]
-Get:20 http://ftp.uk.debian.org/debian/ unstable/main quilt all 0.48-7 [354 kB]
+Get:20 http://ftp.uk.debian.org/debian/ unstable/main quilt all 0.48-8 [357 kB]
Get:21 http://ftp.uk.debian.org/debian/ unstable/main zlib1g-dev armel 1:1.2.3.4.dfsg-3 [190 kB]
debconf: delaying package configuration, since apt-utils is not installed
-Fetched 9375 kB in 3s (3026 kB/s)
+Fetched 9369 kB in 5s (1846 kB/s)
Selecting previously deselected package libpipeline1.
(Reading database ... 10521 files and directories currently installed.)
Unpacking libpipeline1 (from .../libpipeline1_1.2.0-3_armel.deb) ...
@@ -218,6 +219,8 @@ Selecting previously deselected package gettext-base.
Unpacking gettext-base (from .../gettext-base_0.18.1.1-4_armel.deb) ...
Selecting previously deselected package libxml2.
Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-4_armel.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.99_all.deb) ...
Selecting previously deselected package html2text.
Unpacking html2text (from .../html2text_1.3.2a-15_armel.deb) ...
Selecting previously deselected package libglib2.0-0.
@@ -233,13 +236,11 @@ 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_8.9.6_all.deb) ...
-Selecting previously deselected package cdbs.
-Unpacking cdbs (from .../archives/cdbs_0.4.96_all.deb) ...
+Unpacking debhelper (from .../debhelper_8.9.7_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) ...
+Unpacking quilt (from .../archives/quilt_0.48-8_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 libpipeline1 (1.2.0-3) ...
@@ -254,6 +255,7 @@ Setting up libmagic1 (5.08-1) ...
Setting up file (5.08-1) ...
Setting up gettext-base (0.18.1.1-4) ...
Setting up libxml2 (2.7.8.dfsg-4) ...
+Setting up cdbs (0.4.99) ...
Setting up html2text (1.3.2a-15) ...
Setting up libglib2.0-0 (2.28.6-1) ...
No schema files found: doing nothing.
@@ -262,20 +264,19 @@ Setting up libunistring0 (0.9.3-4) ...
Setting up gettext (0.18.1.1-4) ...
Setting up intltool-debian (0.35.0+20060710.1) ...
Setting up po-debconf (1.0.16+nmu1) ...
-Setting up debhelper (8.9.6) ...
-Setting up cdbs (0.4.96) ...
+Setting up debhelper (8.9.7) ...
Setting up diffstat (1.54-1) ...
-Setting up quilt (0.48-7) ...
+Setting up quilt (0.48-8) ...
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 6 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 26 not upgraded.
Checking correctness of dependencies...
Kernel: Linux 2.6.32 armel (armv5tel)
Toolchain package versions: binutils_2.21.53.20110823-3 dpkg-dev_1.16.0.3 g++-4.6_4.6.1-9 gcc-4.6_4.6.1-9 libc6-dev_2.13-18 libstdc++6_4.6.1-9 libstdc++6-4.6-dev_4.6.1-9 linux-libc-dev_3.0.0-3
-Package versions: apt_0.8.15.6 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.53.20110823-3 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 cdbs_0.4.96 coreutils_8.5-1 cpp_4:4.6.1-2 cpp-4.6_4.6.1-9 dash_0.5.7-1 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.6 debian-archive-keyring_2010.08.28 debianutils_4.0.2 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.42~WIP-2011-07-02-1 e2fsprogs_1.42~WIP-2011-07-02-1 fakeroot_1.18-1 file_5.08-1 findutils_4.4.2-1+b1 g++_4:4.6.1-2 g++-4.6_4.6.1-9 gcc_4:4.6.1-2 gcc-4.4-base_4.4.6-10 gcc-4.5-base_4.5.3-8 gcc-4.6_4.6.1-9 gcc-4.6-base_4.6.1-9 gettext_0.18.1.1-4 gettext-base_0.18.1.1-4 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.11 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-3 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbz2-1.0_1.0.5-7 libc-bin_2.13-18 libc-dev-bin_2.13-18 libc6_2.13-18 libc6-dev_2.13-18 libcomerr2_1.42~WIP-2011-07-02-1 libcroco3_0.6.2-1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.0.3 libgc1c2_1:7.1-8 libgcc1_1:4.6.1-9 libgdbm3_1.8.3-10 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.2+dfsg-1 libgomp1_4.6.1-9 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.08-1 libmount1_2.19.1-5 libmpc2_0.9-3 libmpfr4_3.0.1-6 libncurses5_5.9-1 libpam-modules_1.1.3-2 libpam-modules-bin_1.1.3-2 libpam-runtime_1.1.3-2 libpam0g_1.1.3-2 libpcre3_8.12-4 libpipeline1_1.2.0-3 libreadline6_6.2-4 libselinux1_2.1.0-1 libsepol1_2.1.0-1.1 libslang2_2.2.4-3 libss2_1.42~WIP-2011-07-02-1 libstdc++6_4.6.1-9 libstdc++6-4.6-dev_4.6.1-9 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-4 linux-libc-dev_3.0.0-3 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-15 mount_2.19.1-5 multiarch-support_2.13-18 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-4 perl-base_5.12.4-4 perl-modules_5.12.4-4 po-debconf_1.0.16+nmu1 quilt_0.48-7 readline-common_6.2-4 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.2-1 sysv-rc_2.88dsf-13.11 sysvinit_2.88dsf-13.11 sysvinit-utils_2.88dsf-13.11 tar_1.26-2 tzdata_2011i-2 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+Package versions: apt_0.8.15.6 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.53.20110823-3 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 cdbs_0.4.99 coreutils_8.5-1 cpp_4:4.6.1-2 cpp-4.6_4.6.1-9 dash_0.5.7-1 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.7 debian-archive-keyring_2010.08.28 debianutils_4.0.2 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.42~WIP-2011-07-02-1 e2fsprogs_1.42~WIP-2011-07-02-1 fakeroot_1.18-1 file_5.08-1 findutils_4.4.2-1+b1 g++_4:4.6.1-2 g++-4.6_4.6.1-9 gcc_4:4.6.1-2 gcc-4.4-base_4.4.6-10 gcc-4.5-base_4.5.3-8 gcc-4.6_4.6.1-9 gcc-4.6-base_4.6.1-9 gettext_0.18.1.1-4 gettext-base_0.18.1.1-4 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.11 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-3 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbz2-1.0_1.0.5-7 libc-bin_2.13-18 libc-dev-bin_2.13-18 libc6_2.13-18 libc6-dev_2.13-18 libcomerr2_1.42~WIP-2011-07-02-1 libcroco3_0.6.2-1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.0.3 libgc1c2_1:7.1-8 libgcc1_1:4.6.1-9 libgdbm3_1.8.3-10 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.2+dfsg-1 libgomp1_4.6.1-9 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.08-1 libmount1_2.19.1-5 libmpc2_0.9-3 libmpfr4_3.0.1-6 libncurses5_5.9-1 libpam-modules_1.1.3-2 libpam-modules-bin_1.1.3-2 libpam-runtime_1.1.3-2 libpam0g_1.1.3-2 libpcre3_8.12-4 libpipeline1_1.2.0-3 libreadline6_6.2-4 libselinux1_2.1.0-1 libsepol1_2.1.0-1.1 libslang2_2.2.4-3 libss2_1.42~WIP-2011-07-02-1 libstdc++6_4.6.1-9 libstdc++6-4.6-dev_4.6.1-9 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-4 linux-libc-dev_3.0.0-3 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-15 mount_2.19.1-5 multiarch-support_2.13-18 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-4 perl-base_5.12.4-4 perl-modules_5.12.4-4 po-debconf_1.0.16+nmu1 quilt_0.48-8 readline-common_6.2-4 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.2-1 sysv-rc_2.88dsf-13.11 sysvinit_2.88dsf-13.11 sysvinit-utils_2.88dsf-13.11 tar_1.26-2 tzdata_2011i-2 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -286,12 +287,12 @@ Unpack source
─────────────
gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
-gpgv: Signature made Sun Sep 11 00:44:52 2011 UTC using RSA key ID 2295D502
+gpgv: Signature made Sat Sep 24 01:39:55 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_2.13.1-1.dsc
-dpkg-source: info: extracting bedtools in bedtools-2.13.1
-dpkg-source: info: unpacking bedtools_2.13.1.orig.tar.xz
-dpkg-source: info: unpacking bedtools_2.13.1-1.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bedtools_2.13.2-1.dsc
+dpkg-source: info: extracting bedtools in bedtools-2.13.2
+dpkg-source: info: unpacking bedtools_2.13.2.orig.tar.xz
+dpkg-source: info: unpacking bedtools_2.13.2-1.debian.tar.gz
dpkg-source: info: applying gzstream.h.patch
Check disc space
@@ -307,24 +308,24 @@ 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 2.13.1-1
- dpkg-source --before-build bedtools-2.13.1
+dpkg-buildpackage: source version 2.13.2-1
+ dpkg-source --before-build bedtools-2.13.2
dpkg-buildpackage: host architecture armel
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_2.13.1-1-armel-0nW2r_/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-armel-ZXrRqH/bedtools-2.13.2'
Cleaning up.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-armel-0nW2r_/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-armel-ZXrRqH/bedtools-2.13.2'
dh_clean
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/build/buildd-bedtools_2.13.1-1-armel-0nW2r_/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-armel-ZXrRqH/bedtools-2.13.2'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-armel-0nW2r_/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-armel-ZXrRqH/bedtools-2.13.2'
if [ -d "." ]; then \
- cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.1-1-armel-0nW2r_/bedtools-2.13.1/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
+ cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.2-1-armel-ZXrRqH/bedtools-2.13.2/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
fi
Removing patch gzstream.h.patch
Restoring src/utils/gzstream/gzstream.C
@@ -337,21 +338,21 @@ test -x debian/rules
mkdir -p "."
/usr/share/cdbs/1/rules/buildcore.mk:109: WARNING: DEB_DH_BUILDDEB_ARGS is a deprecated variable
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/build/buildd-bedtools_2.13.1-1-armel-0nW2r_/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-armel-ZXrRqH/bedtools-2.13.2'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-armel-0nW2r_/bedtools-2.13.1'
-cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.1-1-armel-0nW2r_/bedtools-2.13.1/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-armel-ZXrRqH/bedtools-2.13.2'
+cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.2-1-armel-ZXrRqH/bedtools-2.13.2/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_2.13.1-1-armel-0nW2r_/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-armel-ZXrRqH/bedtools-2.13.2'
make[1]: Nothing to be done for `update-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-armel-0nW2r_/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-armel-ZXrRqH/bedtools-2.13.2'
/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_2.13.1-1-armel-0nW2r_/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-armel-ZXrRqH/bedtools-2.13.2'
[ -d obj ] || mkdir -p obj
[ -d bin ] || mkdir -p bin
Building BEDTools:
@@ -365,10 +366,8 @@ Building BEDTools:
- Building in src/utils/bedGraphFile
* compiling bedGraphFile.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/chromsweep
+ * compiling chromsweep.cpp
- Building in src/utils/gzstream
g++ -g -O2 -g -O2 -Wall -c -o ../../../obj//gzstream.o gzstream.C -I.
@@ -433,6 +432,11 @@ Fasta.cpp:31:17: warning: converting to non-pointer type 'int' from NULL [-Wconv
Fasta.cpp:32:17: warning: converting to non-pointer type 'int' from NULL [-Wconversion-null]
* compiling split.cpp
+- Building in src/utils/genomeFile
+ * compiling genomeFile.cpp
+genomeFile.cpp: In member function 'void GenomeFile::loadGenomeFileIntoMap()':
+genomeFile.cpp:61:26: warning: variable 'c2' set but not used [-Wunused-but-set-variable]
+
- Building in src/annotateBed
* compiling annotateMain.cpp
annotateMain.cpp: In function 'int main(int, char**)':
@@ -537,9 +541,9 @@ 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:254:12: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp:255:12: 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:306:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp:307:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
* linking pairToBed
- Building in src/pairToPair
@@ -595,7 +599,7 @@ unionBedGraphsMain.cpp:49:10: warning: variable 'haveFiller' set but not used [-
* compiling windowBed.cpp
* linking windowBed
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-armel-0nW2r_/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-armel-ZXrRqH/bedtools-2.13.2'
touch debian/stamp-makefile-build
DEB_MAKE_CHECK_TARGET unset, not running checks
fakeroot debian/rules binary-arch
@@ -638,19 +642,19 @@ 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/multiBamCov 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/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/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/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/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/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/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/pairToPair contains an unresolvable reference to symbol __aeabi_unwind_cpp_pr1 at GCC_3.5: it's probably a plugin.
@@ -659,69 +663,64 @@ dpkg-shlibdeps: warning: debian/bedtools/usr/bin/mergeBed contains an unresolvab
dpkg-shlibdeps: warning: debian/bedtools/usr/bin/nucBed 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/tagBam 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/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/tagBam 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 -- -Z xz
-dpkg-deb: building package `bedtools' in `../bedtools_2.13.1-1_armel.deb'.
- dpkg-genchanges -B -marmel Build Daemon (alain) <buildd_armel-alain at buildd.debian.org> >../bedtools_2.13.1-1_armel.changes
+dpkg-deb: building package `bedtools' in `../bedtools_2.13.2-1_armel.deb'.
+ dpkg-genchanges -B -marmel Build Daemon (antheil) <buildd_armel-antheil at buildd.debian.org> >../bedtools_2.13.2-1_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-2.13.1
+ dpkg-source --after-build bedtools-2.13.2
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110911-0133
+Build finished at 20110924-0406
-bedtools_2.13.1-1_armel.changes:
+bedtools_2.13.2-1_armel.changes:
Format: 1.8
-Date: Sat, 10 Sep 2011 23:32:43 +0900
+Date: Sat, 24 Sep 2011 09:34:29 +0900
Source: bedtools
Binary: bedtools
Architecture: armel
-Version: 2.13.1-1
+Version: 2.13.2-1
Distribution: sid
Urgency: low
-Maintainer: armel Build Daemon (alain) <buildd_armel-alain at buildd.debian.org>
+Maintainer: armel Build Daemon (antheil) <buildd_armel-antheil at buildd.debian.org>
Changed-By: Charles Plessy <plessy at debian.org>
Description:
bedtools - suite of utilities for comparing genomic features
Changes:
- bedtools (2.13.1-1) unstable; urgency=low
+ bedtools (2.13.2-1) unstable; urgency=low
.
- [2e3fe5e] New upstream release.
- [ff5450e] Compress source and binary packages with xz.
- [ef58a33] Suggest filo for the groupBy command.
- [df206c0] Mangle debian/watch download URL.
- [2fe7cff] Simplified repacking as upstream tarballs do not contain
- ‘*/*DS_Store’ files anymore.
+ [1930a26] New upstream release.
Checksums-Sha1:
- 8f7899cfaceef6a77e022cebb051817bf0b6443f 519688 bedtools_2.13.1-1_armel.deb
+ a8c7bb800b066e797774f4be2e9aa9407c552ce4 531992 bedtools_2.13.2-1_armel.deb
Checksums-Sha256:
- 2a7a2c93c9e4b28fc605fd9f24861924175e66aeb2de946b0bc6f67f7a330dd5 519688 bedtools_2.13.1-1_armel.deb
+ 79931b80ac9289b1af036337ad93b4302f2e815cc702bdc23277fa331fda2c4a 531992 bedtools_2.13.2-1_armel.deb
Files:
- 6b6c754a2d58890591556d039a80e7d1 519688 science optional bedtools_2.13.1-1_armel.deb
+ 7b7615edcf85994a31d6cd0214146c5a 531992 science optional bedtools_2.13.2-1_armel.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bedtools_2.13.1-1_armel.deb
+bedtools_2.13.2-1_armel.deb
───────────────────────────
new debian package, version 2.0.
- size 519688 bytes: control archive= 1712 bytes.
+ size 531992 bytes: control archive= 1724 bytes.
835 bytes, 18 lines control
- 2028 bytes, 35 lines md5sums
+ 2025 bytes, 35 lines md5sums
Package: bedtools
- Version: 2.13.1-1
+ Version: 2.13.2-1
Architecture: armel
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 4052
+ Installed-Size: 4116
Depends: libc6 (>= 2.4), libgcc1 (>= 1:4.4.0), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
Suggests: filo
Section: science
@@ -736,49 +735,49 @@ bedtools_2.13.1-1_armel.deb
.
The groupBy utility is distribued in the filo package.
-drwxr-xr-x root/root 0 2011-09-11 01:32 ./
-drwxr-xr-x root/root 0 2011-09-11 01:33 ./usr/
-drwxr-xr-x root/root 0 2011-09-11 01:33 ./usr/share/
-drwxr-xr-x root/root 0 2011-09-11 01:33 ./usr/share/bedtools/
-drwxr-xr-x root/root 0 2011-09-11 01:10 ./usr/share/bedtools/genomes/
--rwxr-xr-x root/root 565 2011-09-07 00:36 ./usr/share/bedtools/genomes/mouse.mm8.genome
--rwxr-xr-x root/root 1972 2011-09-07 00:36 ./usr/share/bedtools/genomes/human.hg19.genome
--rwxr-xr-x root/root 586 2011-09-07 00:36 ./usr/share/bedtools/genomes/mouse.mm9.genome
--rwxr-xr-x root/root 856 2011-09-07 00:36 ./usr/share/bedtools/genomes/human.hg18.genome
-drwxr-xr-x root/root 0 2011-09-11 01:32 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-09-11 01:33 ./usr/share/doc/bedtools/
--rw-r--r-- root/root 391 2011-09-10 14:32 ./usr/share/doc/bedtools/changelog.Debian.gz
--rw-r--r-- root/root 4611 2011-09-10 14:21 ./usr/share/doc/bedtools/copyright
--rw-r--r-- root/root 1586 2011-09-07 00:36 ./usr/share/doc/bedtools/README.rst.gz
--rw-r--r-- root/root 10990 2011-09-07 00:36 ./usr/share/doc/bedtools/changelog.gz
-drwxr-xr-x root/root 0 2011-09-11 01:33 ./usr/bin/
--rwxr-xr-x root/root 240000 2011-09-11 01:33 ./usr/bin/multiBamCov
--rwxr-xr-x root/root 105744 2011-09-11 01:33 ./usr/bin/closestBed
--rwxr-xr-x root/root 227708 2011-09-11 01:33 ./usr/bin/coverageBed
--rwxr-xr-x root/root 302452 2011-09-11 01:33 ./usr/bin/pairToBed
--rwxr-xr-x root/root 122108 2011-09-11 01:33 ./usr/bin/nucBed
--rwxr-xr-x root/root 88188 2011-09-11 01:33 ./usr/bin/bed12ToBed6
--rwxr-xr-x root/root 127480 2011-09-11 01:33 ./usr/bin/sortBed
--rwxr-xr-x root/root 236596 2011-09-11 01:33 ./usr/bin/genomeCoverageBed
--rwxr-xr-x root/root 231828 2011-09-11 01:33 ./usr/bin/windowBed
--rwxr-xr-x root/root 92280 2011-09-11 01:33 ./usr/bin/linksBed
--rwxr-xr-x root/root 90512 2011-09-11 01:33 ./usr/bin/complementBed
--rwxr-xr-x root/root 96420 2011-09-11 01:33 ./usr/bin/maskFastaFromBed
--rwxr-xr-x root/root 104564 2011-09-11 01:33 ./usr/bin/subtractBed
--rwxr-xr-x root/root 92272 2011-09-11 01:33 ./usr/bin/annotateBed
--rwxr-xr-x root/root 75900 2011-09-11 01:33 ./usr/bin/overlap
--rwxr-xr-x root/root 93844 2011-09-11 01:33 ./usr/bin/slopBed
--rwxr-xr-x root/root 186716 2011-09-11 01:33 ./usr/bin/bedToBam
--rwxr-xr-x root/root 121748 2011-09-11 01:33 ./usr/bin/fastaFromBed
--rwxr-xr-x root/root 183404 2011-09-11 01:33 ./usr/bin/bamToBed
--rwxr-xr-x root/root 160184 2011-09-11 01:33 ./usr/bin/pairToPair
--rwxr-xr-x root/root 244128 2011-09-11 01:33 ./usr/bin/intersectBed
--rwxr-xr-x root/root 55428 2011-09-11 01:33 ./usr/bin/unionBedGraphs
--rwxr-xr-x root/root 93844 2011-09-11 01:33 ./usr/bin/mergeBed
--rwxr-xr-x root/root 219548 2011-09-11 01:33 ./usr/bin/tagBam
--rwxr-xr-x root/root 101260 2011-09-11 01:33 ./usr/bin/flankBed
--rwxr-xr-x root/root 112816 2011-09-11 01:33 ./usr/bin/shuffleBed
--rwxr-xr-x root/root 102796 2011-09-11 01:33 ./usr/bin/bedToIgv
+drwxr-xr-x root/root 0 2011-09-24 04:05 ./
+drwxr-xr-x root/root 0 2011-09-24 04:05 ./usr/
+drwxr-xr-x root/root 0 2011-09-24 04:05 ./usr/bin/
+-rwxr-xr-x root/root 106224 2011-09-24 04:05 ./usr/bin/closestBed
+-rwxr-xr-x root/root 55680 2011-09-24 04:05 ./usr/bin/unionBedGraphs
+-rwxr-xr-x root/root 240008 2011-09-24 04:05 ./usr/bin/multiBamCov
+-rwxr-xr-x root/root 104572 2011-09-24 04:05 ./usr/bin/subtractBed
+-rwxr-xr-x root/root 129136 2011-09-24 04:05 ./usr/bin/sortBed
+-rwxr-xr-x root/root 94316 2011-09-24 04:05 ./usr/bin/mergeBed
+-rwxr-xr-x root/root 96416 2011-09-24 04:05 ./usr/bin/slopBed
+-rwxr-xr-x root/root 102476 2011-09-24 04:05 ./usr/bin/flankBed
+-rwxr-xr-x root/root 305588 2011-09-24 04:05 ./usr/bin/pairToBed
+-rwxr-xr-x root/root 92288 2011-09-24 04:05 ./usr/bin/linksBed
+-rwxr-xr-x root/root 104600 2011-09-24 04:05 ./usr/bin/bedToIgv
+-rwxr-xr-x root/root 220504 2011-09-24 04:05 ./usr/bin/tagBam
+-rwxr-xr-x root/root 92464 2011-09-24 04:05 ./usr/bin/annotateBed
+-rwxr-xr-x root/root 96428 2011-09-24 04:05 ./usr/bin/maskFastaFromBed
+-rwxr-xr-x root/root 231836 2011-09-24 04:05 ./usr/bin/windowBed
+-rwxr-xr-x root/root 183404 2011-09-24 04:05 ./usr/bin/bamToBed
+-rwxr-xr-x root/root 289196 2011-09-24 04:05 ./usr/bin/intersectBed
+-rwxr-xr-x root/root 113124 2011-09-24 04:05 ./usr/bin/shuffleBed
+-rwxr-xr-x root/root 186788 2011-09-24 04:05 ./usr/bin/bedToBam
+-rwxr-xr-x root/root 88196 2011-09-24 04:05 ./usr/bin/bed12ToBed6
+-rwxr-xr-x root/root 159756 2011-09-24 04:05 ./usr/bin/pairToPair
+-rwxr-xr-x root/root 227716 2011-09-24 04:05 ./usr/bin/coverageBed
+-rwxr-xr-x root/root 240032 2011-09-24 04:05 ./usr/bin/genomeCoverageBed
+-rwxr-xr-x root/root 75928 2011-09-24 04:05 ./usr/bin/overlap
+-rwxr-xr-x root/root 92304 2011-09-24 04:05 ./usr/bin/complementBed
+-rwxr-xr-x root/root 122220 2011-09-24 04:05 ./usr/bin/fastaFromBed
+-rwxr-xr-x root/root 122580 2011-09-24 04:05 ./usr/bin/nucBed
+drwxr-xr-x root/root 0 2011-09-24 04:05 ./usr/share/
+drwxr-xr-x root/root 0 2011-09-24 04:05 ./usr/share/bedtools/
+drwxr-xr-x root/root 0 2011-09-24 03:42 ./usr/share/bedtools/genomes/
+-rwxr-xr-x root/root 1972 2011-09-23 15:57 ./usr/share/bedtools/genomes/human.hg19.genome
+-rwxr-xr-x root/root 565 2011-09-23 15:57 ./usr/share/bedtools/genomes/mouse.mm8.genome
+-rwxr-xr-x root/root 585 2011-09-23 15:57 ./usr/share/bedtools/genomes/mouse.mm9.genome
+-rwxr-xr-x root/root 856 2011-09-23 15:57 ./usr/share/bedtools/genomes/human.hg18.genome
+drwxr-xr-x root/root 0 2011-09-24 04:04 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-09-24 04:05 ./usr/share/doc/bedtools/
+-rw-r--r-- root/root 1442 2011-09-23 15:57 ./usr/share/doc/bedtools/README.rst
+-rw-r--r-- root/root 11135 2011-09-23 15:57 ./usr/share/doc/bedtools/changelog.gz
+-rw-r--r-- root/root 417 2011-09-24 00:36 ./usr/share/doc/bedtools/changelog.Debian.gz
+-rw-r--r-- root/root 4611 2011-09-24 00:33 ./usr/share/doc/bedtools/copyright
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -792,7 +791,7 @@ Built successfully
│ Post Build │
└──────────────────────────────────────────────────────────────────────────────┘
-Purging /var/lib/schroot/mount/sid-armel-sbuild-f72ffd2e-57b3-438a-a585-cc5a0ec4836b/build/buildd-bedtools_2.13.1-1-armel-0nW2r_
+Purging /var/lib/schroot/mount/sid-armel-sbuild-39014e0e-403f-470e-be93-a27e465ac1f7/build/buildd-bedtools_2.13.2-1-armel-ZXrRqH
Not cleaning session: cloned chroot in use
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -800,19 +799,19 @@ Not cleaning session: cloned chroot in use
└──────────────────────────────────────────────────────────────────────────────┘
Architecture: armel
-Build-Space: 95696
-Build-Time: 1371
+Build-Space: 97864
+Build-Time: 1383
Distribution: sid
-Install-Time: 90
-Job: bedtools_2.13.1-1
+Install-Time: 89
+Job: bedtools_2.13.2-1
Package: bedtools
-Package-Time: 1556
-Source-Version: 2.13.1-1
-Space: 95696
+Package-Time: 1589
+Source-Version: 2.13.2-1
+Space: 97864
Status: successful
-Version: 2.13.1-1
+Version: 2.13.2-1
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110911-0133
-Build needed 00:25:56, 95696k disc space
-Signature with key 'E7073AA3' requested:
+Finished at 20110924-0406
+Build needed 00:26:29, 97864k disc space
+Signature with key '288B0753' requested:
diff --git a/hurd-i386.log b/hurd-i386.log
index bc26bf1..7dc31fb 100644
--- a/hurd-i386.log
+++ b/hurd-i386.log
@@ -1,42 +1,42 @@
-From buildd at mozart.debian.net Mon Sep 12 02:12:51 2011
+From buildd at mozart.debian.net Sat Sep 24 06:38:53 2011
Return-path: <buildd at mozart.debian.net>
Received: from callisto.debian.net ([80.87.129.151])
by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
(Exim 4.72) (envelope-from <buildd at mozart.debian.net>)
- id 1R2w0w-0002cY-V2
- for logs at buildd.debian.org; Mon, 12 Sep 2011 02:12:51 +0000
+ id 1R7Lsx-00046c-HV
+ for logs at buildd.debian.org; Sat, 24 Sep 2011 06:38:53 +0000
Received: from mozart.debian.net ([10.1.0.1])
by callisto.debian.net with esmtp (Exim 4.69)
(envelope-from <buildd at mozart.debian.net>)
- id 1R2w0p-0002Is-MN; Mon, 12 Sep 2011 03:12:43 +0100
+ id 1R7Lss-00015N-4Y; Sat, 24 Sep 2011 07:38:46 +0100
Received: from buildd by mozart.debian.net with local (Exim 4.76)
(envelope-from <buildd at mozart.debian.net>)
- id 1R2w0o-0001IC-4x; Mon, 12 Sep 2011 02:12:43 +0000
+ id 1R7Lsr-0001YB-4h; Sat, 24 Sep 2011 06:38:45 +0000
MIME-Version: 1.0
Content-Transfer-Encoding: binary
X-Mailer: MIME::Lite 3.027 (F2.78; A2.07; B3.08; Q3.08)
-Date: Mon, 12 Sep 2011 02:12:41 +0000
+Date: Sat, 24 Sep 2011 06:38:44 +0000
From: Build Daemon <buildd at mozart.debian.net>
To: samuel.thibault at ens-lyon.org, 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_2.13.1-1 on hurd-i386 (dist=sid)
-Message-Id: <E1R2w0o-0001IC-4x at mozart.debian.net>
+Subject: Log for successful build of bedtools_2.13.2-1 on hurd-i386 (dist=sid)
+Message-Id: <E1R7Lsr-0001YB-4h at mozart.debian.net>
Delivered-To: logs at buildd.debian.org
sbuild (Debian sbuild) 0.62.5 (13 Jul 2011) on mozart.debian.net
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bedtools 2.13.1-1 (hurd-i386) 12 sept. 2011 01:52 ║
+║ bedtools 2.13.2-1 (hurd-i386) 24 sept. 2011 06:23 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bedtools
-Version: 2.13.1-1
-Source Version: 2.13.1-1
+Version: 2.13.2-1
+Source Version: 2.13.2-1
Distribution: sid
Architecture: hurd-i386
-I: NOTICE: Log filtering will replace 'build/bedtools-gkOcvg/bedtools-2.13.1' with '«PKGBUILDDIR»'
-I: NOTICE: Log filtering will replace 'build/bedtools-gkOcvg' with '«BUILDDIR»'
+I: NOTICE: Log filtering will replace 'build/bedtools-dLhWj9/bedtools-2.13.2' with '«PKGBUILDDIR»'
+I: NOTICE: Log filtering will replace 'build/bedtools-dLhWj9' with '«BUILDDIR»'
I: NOTICE: Log filtering will replace 'home/buildd/build/chroot-sid' with '«CHROOT»'
W: Stripped single quote from command for security:
use strict;
@@ -87,7 +87,7 @@ W: Stripped single quote from command for security:
}
}
- F->print("bedtools_2.13.1-1 1356 buildd\n");
+ F->print("bedtools_2.13.2-1 3899 buildd\n");
F->close();
exit 0;
@@ -97,112 +97,50 @@ W: Stripped single quote from command for security:
│ Update chroot │
└──────────────────────────────────────────────────────────────────────────────┘
+Hit http://ftp.uk.debian.org sid InRelease
+Hit http://ftp.fr.debian.org sid InRelease
Ign http://incoming.debian.org InRelease
-Get:1 http://ftp.uk.debian.org sid InRelease [146 kB]
-Get:2 http://ftp.fr.debian.org sid InRelease [146 kB]
-Get:3 http://incoming.debian.org Release.gpg [836 B]
-Get:4 http://incoming.debian.org Release [1604 B]
+Hit http://ftp.uk.debian.org sid/main Sources/DiffIndex
Ign http://ftp.debian-ports.org unreleased InRelease
-Get:5 http://ftp.debian-ports.org unreleased Release.gpg [836 B]
-Get:6 http://ftp.debian-ports.org unreleased Release [25.8 kB]
-Get:7 http://ftp.fr.debian.org sid/main Sources/DiffIndex [2038 B]
-Get:8 http://ftp.uk.debian.org sid/main Sources/DiffIndex [2038 B]
-Get:9 http://ftp.uk.debian.org sid/contrib Sources/DiffIndex [2023 B]
-Get:10 http://ftp.fr.debian.org sid/contrib Sources/DiffIndex [2023 B]
-Get:11 http://ftp.fr.debian.org sid/non-free Sources/DiffIndex [2023 B]
-Get:12 http://ftp.fr.debian.org sid/main hurd-i386 Packages/DiffIndex [2038 B]
-Get:13 http://ftp.uk.debian.org sid/non-free Sources/DiffIndex [2023 B]
-Get:14 http://ftp.uk.debian.org sid/main hurd-i386 Packages/DiffIndex [2038 B]
-Get:15 http://ftp.uk.debian.org sid/contrib hurd-i386 Packages/DiffIndex [2023 B]
-Get:16 http://ftp.uk.debian.org sid/non-free hurd-i386 Packages/DiffIndex [2023 B]
+Get:1 http://incoming.debian.org Release.gpg [836 B]
+Hit http://ftp.uk.debian.org sid/contrib Sources/DiffIndex
+Hit http://ftp.uk.debian.org sid/non-free Sources/DiffIndex
+Hit http://ftp.uk.debian.org sid/main hurd-i386 Packages/DiffIndex
+Hit http://ftp.uk.debian.org sid/contrib hurd-i386 Packages/DiffIndex
+Hit http://ftp.uk.debian.org sid/non-free hurd-i386 Packages/DiffIndex
Ign http://ftp.uk.debian.org sid/contrib TranslationIndex
-Get:17 http://ftp.uk.debian.org sid/main TranslationIndex [2045 B]
+Hit http://ftp.uk.debian.org sid/main TranslationIndex
Ign http://ftp.uk.debian.org sid/non-free TranslationIndex
-Get:18 http://ftp.fr.debian.org sid/contrib hurd-i386 Packages/DiffIndex [2023 B]
-Get:19 http://ftp.fr.debian.org sid/non-free hurd-i386 Packages/DiffIndex [2023 B]
+Hit http://ftp.fr.debian.org sid/main Sources/DiffIndex
+Hit http://ftp.debian-ports.org unreleased Release.gpg
+Get:2 http://incoming.debian.org Release [1604 B]
+Hit http://ftp.fr.debian.org sid/contrib Sources/DiffIndex
+Hit http://ftp.fr.debian.org sid/non-free Sources/DiffIndex
+Hit http://ftp.fr.debian.org sid/main hurd-i386 Packages/DiffIndex
+Hit http://ftp.debian-ports.org unreleased Release
+Get:3 http://incoming.debian.org Sources [33.0 kB]
+Hit http://ftp.fr.debian.org sid/contrib hurd-i386 Packages/DiffIndex
+Hit http://ftp.fr.debian.org sid/non-free hurd-i386 Packages/DiffIndex
Ign http://ftp.fr.debian.org sid/contrib TranslationIndex
-Get:20 http://ftp.fr.debian.org sid/main TranslationIndex [2045 B]
+Hit http://ftp.fr.debian.org sid/main TranslationIndex
Ign http://ftp.fr.debian.org sid/non-free TranslationIndex
-Get:21 http://ftp.debian-ports.org unreleased/main hurd-i386 Packages [49.7 kB]
-Get:22 http://incoming.debian.org Sources [36.7 kB]
-Get:23 http://ftp.uk.debian.org sid/main 2011-09-10-2018.11.pdiff [14.8 kB]
-Get:24 http://ftp.uk.debian.org sid/contrib 2011-09-11-1413.17.pdiff [484 B]
-Get:25 http://ftp.uk.debian.org sid/non-free 2011-09-11-1413.17.pdiff [873 B]
-Get:26 http://ftp.uk.debian.org sid/main hurd-i386 2011-09-10-2018.11.pdiff [5696 B]
-Get:27 http://ftp.uk.debian.org sid/contrib hurd-i386 2011-09-11-1413.17.pdiff [29 B]
-Get:28 http://ftp.uk.debian.org sid/non-free hurd-i386 2011-09-11-1413.17.pdiff [848 B]
-Get:29 http://ftp.fr.debian.org sid/main 2011-09-10-2018.11.pdiff [14.8 kB]
-Get:30 http://ftp.fr.debian.org sid/contrib 2011-09-11-1413.17.pdiff [484 B]
-Get:31 http://ftp.fr.debian.org sid/non-free 2011-09-11-1413.17.pdiff [873 B]
-Get:32 http://ftp.fr.debian.org sid/main hurd-i386 2011-09-10-2018.11.pdiff [5696 B]
-Get:33 http://ftp.uk.debian.org sid/main 2011-09-10-2018.11.pdiff [14.8 kB]
-Get:34 http://ftp.fr.debian.org sid/contrib hurd-i386 2011-09-11-1413.17.pdiff [29 B]
-Get:35 http://ftp.fr.debian.org sid/non-free hurd-i386 2011-09-11-1413.17.pdiff [848 B]
-Ign http://ftp.debian-ports.org unreleased/main TranslationIndex
-Get:36 http://incoming.debian.org Packages [233 kB]
+Get:4 http://incoming.debian.org Packages [592 kB]
Ign http://ftp.uk.debian.org sid/contrib Translation-en
Ign http://ftp.uk.debian.org sid/non-free Translation-en
-Ign http://ftp.fr.debian.org sid/contrib Translation-en
-Ign http://ftp.fr.debian.org sid/non-free Translation-en
+Hit http://ftp.debian-ports.org unreleased/main hurd-i386 Packages
+Ign http://ftp.debian-ports.org unreleased/main TranslationIndex
Ign http://ftp.debian-ports.org unreleased/main Translation-en
Ign http://incoming.debian.org Translation-en
-Get:37 http://ftp.uk.debian.org sid/contrib 2011-09-11-1413.17.pdiff [484 B]
-Get:38 http://ftp.uk.debian.org sid/main 2011-09-11-0215.26.pdiff [9396 B]
-Get:39 http://ftp.uk.debian.org sid/non-free 2011-09-11-1413.17.pdiff [873 B]
-Get:40 http://ftp.uk.debian.org sid/contrib 2011-09-11-2015.34.pdiff [29 B]
-Get:41 http://ftp.uk.debian.org sid/main hurd-i386 2011-09-10-2018.11.pdiff [5696 B]
-Get:42 http://ftp.uk.debian.org sid/non-free 2011-09-11-2015.34.pdiff [351 B]
-Get:43 http://ftp.uk.debian.org sid/contrib hurd-i386 2011-09-11-1413.17.pdiff [29 B]
-Get:44 http://ftp.uk.debian.org sid/main hurd-i386 2011-09-11-0215.26.pdiff [5403 B]
-Get:45 http://ftp.uk.debian.org sid/non-free hurd-i386 2011-09-11-1413.17.pdiff [848 B]
-Get:46 http://ftp.fr.debian.org sid/main 2011-09-10-2018.11.pdiff [14.8 kB]
-Get:47 http://ftp.uk.debian.org sid/non-free hurd-i386 2011-09-11-2015.34.pdiff [254 B]
-Get:48 http://ftp.fr.debian.org sid/contrib 2011-09-11-1413.17.pdiff [484 B]
-Get:49 http://ftp.fr.debian.org sid/main 2011-09-11-0215.26.pdiff [9396 B]
-Get:50 http://ftp.fr.debian.org sid/non-free 2011-09-11-1413.17.pdiff [873 B]
-Get:51 http://ftp.fr.debian.org sid/contrib 2011-09-11-2015.34.pdiff [29 B]
-Get:52 http://ftp.fr.debian.org sid/main hurd-i386 2011-09-10-2018.11.pdiff [5696 B]
-Get:53 http://ftp.fr.debian.org sid/non-free 2011-09-11-2015.34.pdiff [351 B]
-Get:54 http://ftp.fr.debian.org sid/contrib hurd-i386 2011-09-11-1413.17.pdiff [29 B]
-Get:55 http://ftp.fr.debian.org sid/main hurd-i386 2011-09-11-0215.26.pdiff [5403 B]
-Get:56 http://ftp.fr.debian.org sid/non-free hurd-i386 2011-09-11-1413.17.pdiff [848 B]
-Get:57 http://ftp.uk.debian.org sid/main 2011-09-11-0215.26.pdiff [9396 B]
-Get:58 http://ftp.fr.debian.org sid/non-free hurd-i386 2011-09-11-2015.34.pdiff [254 B]
-Get:59 http://ftp.uk.debian.org sid/contrib 2011-09-11-2015.34.pdiff [29 B]
-Get:60 http://ftp.uk.debian.org sid/main 2011-09-11-0816.36.pdiff [2437 B]
-Get:61 http://ftp.uk.debian.org sid/non-free 2011-09-11-2015.34.pdiff [351 B]
-Get:62 http://ftp.uk.debian.org sid/main hurd-i386 2011-09-11-0215.26.pdiff [5403 B]
-Get:63 http://ftp.uk.debian.org sid/non-free hurd-i386 2011-09-11-2015.34.pdiff [254 B]
-Get:64 http://ftp.uk.debian.org sid/main hurd-i386 2011-09-11-0816.36.pdiff [1206 B]
-Get:65 http://ftp.fr.debian.org sid/main 2011-09-11-0215.26.pdiff [9396 B]
-Get:66 http://ftp.fr.debian.org sid/contrib 2011-09-11-2015.34.pdiff [29 B]
-Get:67 http://ftp.fr.debian.org sid/main 2011-09-11-0816.36.pdiff [2437 B]
-Get:68 http://ftp.fr.debian.org sid/non-free 2011-09-11-2015.34.pdiff [351 B]
-Get:69 http://ftp.fr.debian.org sid/main hurd-i386 2011-09-11-0215.26.pdiff [5403 B]
-Get:70 http://ftp.fr.debian.org sid/non-free hurd-i386 2011-09-11-2015.34.pdiff [254 B]
-Get:71 http://ftp.fr.debian.org sid/main hurd-i386 2011-09-11-0816.36.pdiff [1206 B]
-Get:72 http://ftp.uk.debian.org sid/main 2011-09-11-0816.36.pdiff [2437 B]
-Get:73 http://ftp.uk.debian.org sid/main hurd-i386 2011-09-11-0816.36.pdiff [1206 B]
-Get:74 http://ftp.uk.debian.org sid/main 2011-09-11-1413.17.pdiff [14.7 kB]
-Get:75 http://ftp.fr.debian.org sid/main 2011-09-11-0816.36.pdiff [2437 B]
-Get:76 http://ftp.uk.debian.org sid/main hurd-i386 2011-09-11-1413.17.pdiff [10.8 kB]
-Get:77 http://ftp.fr.debian.org sid/main hurd-i386 2011-09-11-0816.36.pdiff [1206 B]
-Get:78 http://ftp.fr.debian.org sid/main 2011-09-11-1413.17.pdiff [14.7 kB]
-Get:79 http://ftp.uk.debian.org sid/main 2011-09-11-1413.17.pdiff [14.7 kB]
-Get:80 http://ftp.fr.debian.org sid/main hurd-i386 2011-09-11-1413.17.pdiff [10.8 kB]
-Get:81 http://ftp.uk.debian.org sid/main hurd-i386 2011-09-11-1413.17.pdiff [10.8 kB]
-Get:82 http://ftp.uk.debian.org sid/main 2011-09-11-2015.34.pdiff [10.6 kB]
-Get:83 http://ftp.fr.debian.org sid/main 2011-09-11-1413.17.pdiff [14.7 kB]
-Get:84 http://ftp.uk.debian.org sid/main hurd-i386 2011-09-11-2015.34.pdiff [2454 B]
-Get:85 http://ftp.fr.debian.org sid/main hurd-i386 2011-09-11-1413.17.pdiff [10.8 kB]
-Get:86 http://ftp.fr.debian.org sid/main 2011-09-11-2015.34.pdiff [10.6 kB]
-Get:87 http://ftp.uk.debian.org sid/main 2011-09-11-2015.34.pdiff [10.6 kB]
-Get:88 http://ftp.fr.debian.org sid/main hurd-i386 2011-09-11-2015.34.pdiff [2454 B]
-Get:89 http://ftp.uk.debian.org sid/main hurd-i386 2011-09-11-2015.34.pdiff [2454 B]
-Get:90 http://ftp.fr.debian.org sid/main 2011-09-11-2015.34.pdiff [10.6 kB]
-Get:91 http://ftp.fr.debian.org sid/main hurd-i386 2011-09-11-2015.34.pdiff [2454 B]
-Fetched 829 kB in 6min 9s (2246 B/s)
-Reading package lists...
+Err http://ftp.fr.debian.org sid/contrib Translation-en
+ Unable to connect to ftp.fr.debian.org:http:
+Err http://ftp.fr.debian.org sid/non-free Translation-en
+ Unable to connect to ftp.fr.debian.org:http:
+Fetched 627 kB in 4min 48s (2174 B/s)
+W: Failed to fetch http://ftp.fr.debian.org/debian/dists/sid/contrib/i18n/Translation-en Unable to connect to ftp.fr.debian.org:http:
+
+W: Failed to fetch http://ftp.fr.debian.org/debian/dists/sid/non-free/i18n/Translation-en Unable to connect to ftp.fr.debian.org:http:
+
+E: Some index files failed to download. They have been ignored, or old ones used instead.
┌──────────────────────────────────────────────────────────────────────────────┐
│ Fetch source files │
@@ -222,11 +160,11 @@ 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 664 kB of source archives.
-Get:1 http://ftp.uk.debian.org/debian/ sid/main bedtools 2.13.1-1 (dsc) [1921 B]
-Get:2 http://ftp.uk.debian.org/debian/ sid/main bedtools 2.13.1-1 (tar) [658 kB]
-Get:3 http://ftp.uk.debian.org/debian/ sid/main bedtools 2.13.1-1 (diff) [4254 B]
-Fetched 664 kB in 0s (684 kB/s)
+Need to get 666 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (dsc) [1967 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (tar) [659 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (diff) [4285 B]
+Fetched 666 kB in 3s (222 kB/s)
Download complete and in download only mode
Check arch
@@ -234,7 +172,7 @@ 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-yBnYA2/apt_archive/sbuild-build-depends-core-dummy.deb'.
+dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/«BUILDDIR»/resolver-R7p9eu/apt_archive/sbuild-build-depends-core-dummy.deb'.
gpg: WARNING: using insecure memory!
gpg: please see http://www.gnupg.org/faq.html for more information
OK
@@ -253,19 +191,19 @@ The following packages were automatically installed and are no longer required:
Use 'apt-get autoremove' to remove them.
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
-0 upgraded, 1 newly installed, 0 to remove and 1 not upgraded.
+0 upgraded, 1 newly installed, 0 to remove and 26 not upgraded.
Need to get 0 B/716 B of archives.
After this operation, 0 B of additional disk space will be used.
WARNING: The following packages cannot be authenticated!
sbuild-build-depends-core-dummy
Authentication warning overridden.
Selecting previously deselected package sbuild-build-depends-core-dummy.
-(Reading database ... 13789 files and directories currently installed.)
+(Reading database ... 13809 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, hurd, ncurses-base, ncurses-bin, perl-base, sed, sysvinit-utils, sysvinit, tar, bsdutils, util-linux, libc0.3-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), hurd-dev, cdbs, debhelper (>= 8), quilt, zlib1g-dev
Filtered Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, hurd, ncurses-base, ncurses-bin, perl-base, sed, sysvinit-utils, sysvinit, tar, bsdutils, util-linux, libc0.3-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), hurd-dev, cdbs, debhelper (>= 8), quilt, zlib1g-dev
-dpkg-deb: building package `sbuild-build-depends-bedtools-dummy' in `/«BUILDDIR»/resolver-RiWMjn/apt_archive/sbuild-build-depends-bedtools-dummy.deb'.
+dpkg-deb: building package `sbuild-build-depends-bedtools-dummy' in `/«BUILDDIR»/resolver-oWVB2e/apt_archive/sbuild-build-depends-bedtools-dummy.deb'.
gpg: WARNING: using insecure memory!
gpg: please see http://www.gnupg.org/faq.html for more information
OK
@@ -290,27 +228,27 @@ Recommended packages:
autotools-dev
The following NEW packages will be installed:
cdbs diffstat quilt sbuild-build-depends-bedtools-dummy zlib1g-dev
-0 upgraded, 5 newly installed, 0 to remove and 1 not upgraded.
-Need to get 0 B/645 kB of archives.
-After this operation, 1786 kB of additional disk space will be used.
+0 upgraded, 5 newly installed, 0 to remove and 26 not upgraded.
+Need to get 0 B/648 kB of archives.
+After this operation, 1633 kB of additional disk space will be used.
WARNING: The following packages cannot be authenticated!
cdbs diffstat quilt zlib1g-dev sbuild-build-depends-bedtools-dummy
Authentication warning overridden.
Selecting previously deselected package cdbs.
-(Reading database ... 13789 files and directories currently installed.)
-Unpacking cdbs (from .../archives/cdbs_0.4.96_all.deb) ...
+(Reading database ... 13809 files and directories currently installed.)
+Unpacking cdbs (from .../archives/cdbs_0.4.99_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) ...
+Unpacking quilt (from .../archives/quilt_0.48-8_all.deb) ...
Selecting previously deselected package zlib1g-dev.
Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_hurd-i386.deb) ...
Selecting previously deselected package sbuild-build-depends-bedtools-dummy.
Unpacking sbuild-build-depends-bedtools-dummy (from .../sbuild-build-depends-bedtools-dummy.deb) ...
Processing triggers for man-db ...
-Setting up cdbs (0.4.96) ...
+Setting up cdbs (0.4.99) ...
Setting up diffstat (1.54-1) ...
-Setting up quilt (0.48-7) ...
+Setting up quilt (0.48-8) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
Setting up sbuild-build-depends-bedtools-dummy (0.invalid.0) ...
@@ -319,8 +257,8 @@ Setting up sbuild-build-depends-bedtools-dummy (0.invalid.0) ...
└──────────────────────────────────────────────────────────────────────────────┘
Kernel: GNU 0.3 hurd-i386 (i686-AT386)
-Toolchain package versions: binutils_2.21.53.20110823-3+hurd.1 dpkg-dev_1.16.0.3 g++-4.5_4.5.3-8 g++-4.6_4.6.1-9+hurd.1 gcc-4.4_4.4.6-10 gcc-4.5_4.5.3-8 gcc-4.6_4.6.1-9+hurd.1 gnumach-dev_2:1.3.99.dfsg.git20110805-1 hurd-dev_20110519-3 libc0.3-dev_2.13-18 libstdc++6_4.6.1-9+hurd.1 libstdc++6-4.5-dev_4.5.3-8 libstdc++6-4.6-dev_4.6.1-9+hurd.1
-Package versions: adduser_3.113 apt_0.8.15.6 apt-utils_0.8.15.6 base-files_6.5 base-passwd_3.5.23 bash_4.1-3+hurd.1 binutils_2.21.53.20110823-3+hurd.1 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 cdbs_0.4.96 coreutils_8.5-1 cpio_2.11-7 cpp_4:4.6.1-2 cpp-4.4_4.4.6-10 cpp-4.5_4.5.3-8 cpp-4.6_4.6.1-9+hurd.1 cron_3.0pl1-119 dash_0.5.7-1 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.6 debian-archive-keyring_2010.08.28 debian-ports-archive-keyring_2011.01.12 debianutils_4.0.2 deborphan_1.7.28.5 dialog_1.1-20110707-1 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.42~WIP-2011-07-02-1 e2fsprogs_1.42~WIP-2011-07-02-1 fakeroot_1.15.1-1 file_5.08-1 findutils_4.4.2-1+b1 fontconfig_2.8.0-3 fontconfig-config_2.8.0-3 g++_4:4.6.1-2 g++-4.5_4.5.3-8 g++-4.6_4.6.1-9+hurd.1 gawk_1:3.1.8+dfsg-0.1 gcc_4:4.6.1-2 gcc-4.4_4.4.6-10 gcc-4.4-base_4.4.6-10 gcc-4.5_4.5.3-8 gcc-4.5-base_4.5.3-8 gcc-4.6_4.6.1-9+hurd.1 gcc-4.6-base_4.6.1-9+hurd.1 gettext_0.18.1.1-4 gettext-base_0.18.1.1-4 gfortran_4:4.6.1-2 gfortran-4.6_4.6.1-9+hurd.1 gnumach-dev_2:1.3.99.dfsg.git20110805-1 gnupg_1.4.11-3 gobjc-4.4_4.4.6-10 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.3.12-9 hostname_3.06 html2text_1.3.2a-15+b1 hurd_20110519-3 hurd-dev_20110519-3 initscripts_2.88dsf-13.11 insserv_1.14.0-2.1 install-info_4.13a.dfsg.1-8 intltool-debian_0.35.0+20060710.1 libacl1_2.2.47-3 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libboost-iostreams1.46.1_1.46.1-7 libbz2-1.0_1.0.5-7 libc-bin_2.13-18 libc-dev-bin_2.13-18 libc0.3_2.13-18 libc0.3-dev_2.13-18 libc0.3-xen_2.13-18 libcomerr2_1.42~WIP-2011-07-02-1 libcroco3_0.6.2-1 libdb5.1_5.1.25-11 libdigest-sha1-perl_2.13-2 libdpkg-perl_1.16.0.3 libelfg0_0.8.13-3 libept1_1.0.5 libexpat1_2.0.1-7 libfontconfig1_2.8.0-3 libfreetype6_2.4.6-2 libgc1c2_1:7.1-8 libgcc1_1:4.6.1-9+hurd.1 libgcrypt11_1.5.0-3 libgdbm3_1.8.3-10 libgfortran3_4.6.1-9+hurd.1 libglib2.0-0_2.28.6-1 libglib2.0-data_2.28.6-1 libgmp10_2:5.0.2+dfsg-1 libgnutls26_2.12.10-1 libgomp1_4.6.1-9+hurd.1 libgpg-error0_1.10-0.3 libldap-2.4-2_2.4.25-3 liblocale-gettext-perl_1.05-7 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.08-1 libmpc2_0.9-3 libmpfr4_3.0.1-6 libncurses5_5.9-1 libncursesw5_5.9-1 libobjc2_4.5.3-8 libp11-kit0_0.4-2 libpam-modules_1.1.3-2 libpam-modules-bin_1.1.3-2 libpam-runtime_1.1.3-2 libpam0g_1.1.3-2 libparted0debian1_2.3-3+hurd.1 libpcre3_8.12-4 libpipeline1_1.2.0-3 libpng12-0_1.2.46-3 libpopt0_1.16-1 libpthread-stubs0_0.3-2.1+hurd.1 libpthread-stubs0-dev_0.3-2.1+hurd.1 libquadmath0_4.6.1-9+hurd.1 libreadline6_6.2-4 libsasl2-2_2.1.24~rc1.dfsg1+cvs2011-05-23-6 libsigsegv2_2.9-4 libslang2_2.2.4-3 libss2_1.42~WIP-2011-07-02-1 libssl0.9.8_0.9.8o-7+b1 libssl1.0.0_1.0.0d-3 libstdc++6_4.6.1-9+hurd.1 libstdc++6-4.5-dev_4.5.3-8 libstdc++6-4.6-dev_4.6.1-9+hurd.1 libsysfs2_2.1.0+repack-1 libtasn1-3_2.9-4 libtext-charwidth-perl_0.04-7 libtext-iconv-perl_1.7-4 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libuuid1_2.19.1-5 libxapian22_1.2.7-1 libxml2_2.7.8.dfsg-4 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-15 multiarch-support_2.13-18 ncurses-base_5.9-1 ncurses-bin_5.9-1 netbase_4.46 netcat-traditional_1.10-39 original-awk_2011-05-06-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-4 perl-base_5.12.4-4 perl-modules_5.12.4-4 po-debconf_1.0.16+nmu1 procps_1:3.2.8-11 psmisc_22.3-1 quilt_0.48-7 random-egd_0.5-0+hurd.1 readline-common_6.2-4 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 sgml-base_1.26+nmu1 shared-mime-info_0.90-1 sudo_1.7.2p7-1 sysv-rc_2.88dsf-13.11 sysvinit_2.88dsf-13.11 sysvinit-utils_2.88dsf-13.11 tar_1.26-2 ttf-dejavu-core_2.33-2 type-handling_0.2.23 tzdata_2011i-2 ucf_3.0025+nmu2 util-linux_2.19.1-5 xml-core_0.13 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+Toolchain package versions: binutils_2.21.53.20110823-3+hurd.1 dpkg-dev_1.16.0.3 g++-4.5_4.5.3-8 g++-4.6_4.6.1-9+hurd.1 gcc-4.4_4.4.6-10 gcc-4.5_4.5.3-8 gcc-4.6_4.6.1-9+hurd.1 gnumach-dev_2:1.3.99.dfsg.git20110805-1 hurd-dev_20110519-3 libc0.3-dev_2.13-20 libstdc++6_4.6.1-9+hurd.1 libstdc++6-4.5-dev_4.5.3-8 libstdc++6-4.6-dev_4.6.1-9+hurd.1
+Package versions: adduser_3.113 apt_0.8.15.6 apt-utils_0.8.15.6 base-files_6.5 base-passwd_3.5.23 bash_4.1-3+hurd.1 binutils_2.21.53.20110823-3+hurd.1 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 cdbs_0.4.99 coreutils_8.5-1 cpio_2.11-7 cpp_4:4.6.1-2 cpp-4.4_4.4.6-10 cpp-4.5_4.5.3-8 cpp-4.6_4.6.1-9+hurd.1 cron_3.0pl1-119 dash_0.5.7-1 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.6 debian-archive-keyring_2010.08.28 debian-ports-archive-keyring_2011.01.12 debianutils_4.0.2 deborphan_1.7.28.5 dialog_1.1-20110707-1 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.42~WIP-2011-07-02-1 e2fsprogs_1.42~WIP-2011-07-02-1 fakeroot_1.15.1-1 file_5.08-1 findutils_4.4.2-1+b1 fontconfig_2.8.0-3 fontconfig-config_2.8.0-3 g++_4:4.6.1-2 g++-4.5_4.5.3-8 g++-4.6_4.6.1-9+hurd.1 gawk_1:3.1.8+dfsg-0.1 gcc_4:4.6.1-2 gcc-4.4_4.4.6-10 gcc-4.4-base_4.4.6-10 gcc-4.5_4.5.3-8 gcc-4.5-base_4.5.3-8 gcc-4.6_4.6.1-9+hurd.1 gcc-4.6-base_4.6.1-9+hurd.1 gettext_0.18.1.1-4 gettext-base_0.18.1.1-4 gfortran_4:4.6.1-2 gfortran-4.6_4.6.1-9+hurd.1 gnumach-dev_2:1.3.99.dfsg.git20110805-1 gnupg_1.4.11-3 gobjc-4.4_4.4.6-10 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.3.12-9 hostname_3.06 html2text_1.3.2a-15+b1 hurd_20110519-3 hurd-dev_20110519-3 initscripts_2.88dsf-13.11 insserv_1.14.0-2.1 install-info_4.13a.dfsg.1-8 intltool-debian_0.35.0+20060710.1 libacl1_2.2.47-3 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libboost-iostreams1.46.1_1.46.1-7 libbz2-1.0_1.0.5-7 libc-bin_2.13-20 libc-dev-bin_2.13-20 libc0.3_2.13-20 libc0.3-dev_2.13-20 libc0.3-xen_2.13-20 libcomerr2_1.42~WIP-2011-07-02-1 libcroco3_0.6.2-1 libdb5.1_5.1.25-11 libdigest-sha1-perl_2.13-2 libdpkg-perl_1.16.0.3 libelfg0_0.8.13-3 libept1_1.0.5 libexpat1_2.0.1-7 libfontconfig1_2.8.0-3 libfreetype6_2.4.6-2 libgc1c2_1:7.1-8 libgcc1_1:4.6.1-9+hurd.1 libgcrypt11_1.5.0-3 libgdbm3_1.8.3-10 libgfortran3_4.6.1-9+hurd.1 libglib2.0-0_2.28.6-1 libglib2.0-data_2.28.6-1 libgmp10_2:5.0.2+dfsg-1 libgnutls26_2.12.10-2 libgomp1_4.6.1-9+hurd.1 libgpg-error0_1.10-1 libldap-2.4-2_2.4.25-3 liblocale-gettext-perl_1.05-7 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.08-1 libmpc2_0.9-3 libmpfr4_3.0.1-6 libncurses5_5.9-1 libncursesw5_5.9-1 libobjc2_4.5.3-8 libp11-kit0_0.4-2 libpam-modules_1.1.3-2 libpam-modules-bin_1.1.3-2 libpam-runtime_1.1.3-2 libpam0g_1.1.3-2 libparted0debian1_2.3-3+hurd.1 libpcre3_8.12-4 libpipeline1_1.2.0-3 libpng12-0_1.2.46-3 libpopt0_1.16-1 libpthread-stubs0_0.3-2.1+hurd.1 libpthread-stubs0-dev_0.3-2.1+hurd.1 libquadmath0_4.6.1-9+hurd.1 libreadline6_6.2-4 libsasl2-2_2.1.24~rc1.dfsg1+cvs2011-05-23-6 libsasl2-modules_2.1.24~rc1.dfsg1+cvs2011-05-23-6 libsigsegv2_2.9-4 libslang2_2.2.4-3 libss2_1.42~WIP-2011-07-02-1 libssl0.9.8_0.9.8o-7+b1 libssl1.0.0_1.0.0e-2 libstdc++6_4.6.1-9+hurd.1 libstdc++6-4.5-dev_4.5.3-8 libstdc++6-4.6-dev_4.6.1-9+hurd.1 libsysfs2_2.1.0+repack-1 libtasn1-3_2.9-4 libtext-charwidth-perl_0.04-7 libtext-iconv-perl_1.7-4 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libuuid1_2.19.1-5 libxapian22_1.2.7-1 libxml2_2.7.8.dfsg-4 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-15 multiarch-support_2.13-18 ncurses-base_5.9-1 ncurses-bin_5.9-1 netbase_4.46 netcat-traditional_1.10-39 original-awk_2011-05-06-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-4 perl-base_5.12.4-4 perl-modules_5.12.4-4 po-debconf_1.0.16+nmu1 procps_1:3.2.8-11 psmisc_22.3-1 quilt_0.48-8 random-egd_0.5-0+hurd.1 readline-common_6.2-4 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 sgml-base_1.26+nmu1 shared-mime-info_0.90-1 sudo_1.7.2p7-1 sysv-rc_2.88dsf-13.11 sysvinit_2.88dsf-13.11 sysvinit-utils_2.88dsf-13.11 tar_1.26-2 ttf-dejavu-core_2.33-2 type-handling_0.2.23 tzdata_2011i-2 ucf_3.0025+nmu2 util-linux_2.19.1-5 xml-core_0.13 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -331,12 +269,12 @@ Unpack source
─────────────
gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
-gpgv: Signature made Sun Sep 11 00:44:52 2011 UTC using RSA key ID 2295D502
+gpgv: Signature made Sat Sep 24 01:39:55 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_2.13.1-1.dsc
-dpkg-source: info: extracting bedtools in bedtools-2.13.1
-dpkg-source: info: unpacking bedtools_2.13.1.orig.tar.xz
-dpkg-source: info: unpacking bedtools_2.13.1-1.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bedtools_2.13.2-1.dsc
+dpkg-source: info: extracting bedtools in bedtools-2.13.2
+dpkg-source: info: unpacking bedtools_2.13.2.orig.tar.xz
+dpkg-source: info: unpacking bedtools_2.13.2-1.debian.tar.gz
dpkg-source: info: applying gzstream.h.patch
Check disc space
@@ -365,7 +303,7 @@ SUDO_COMMAND=/usr/sbin/chroot /«CHROOT» su buildd -s /bin/sh -c cd '/«PKGBUIL
SUDO_GID=105
SUDO_UID=60000
SUDO_USER=buildd
-TERM=linux
+TERM=rxvt-unicode
USER=buildd
USERNAME=root
@@ -378,8 +316,8 @@ 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 2.13.1-1
- dpkg-source --before-build bedtools-2.13.1
+dpkg-buildpackage: source version 2.13.2-1
+ dpkg-source --before-build bedtools-2.13.2
dpkg-buildpackage: host architecture hurd-i386
/usr/bin/fakeroot debian/rules clean
test -x debian/rules
@@ -436,10 +374,8 @@ Building BEDTools:
- Building in src/utils/bedGraphFile
* compiling bedGraphFile.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/chromsweep
+ * compiling chromsweep.cpp
- Building in src/utils/gzstream
g++ -g -O2 -g -O2 -Wall -c -o ../../../obj//gzstream.o gzstream.C -I.
@@ -504,6 +440,11 @@ Fasta.cpp:31:17: warning: converting to non-pointer type 'int' from NULL [-Wconv
Fasta.cpp:32:17: warning: converting to non-pointer type 'int' from NULL [-Wconversion-null]
* compiling split.cpp
+- Building in src/utils/genomeFile
+ * compiling genomeFile.cpp
+genomeFile.cpp: In member function 'void GenomeFile::loadGenomeFileIntoMap()':
+genomeFile.cpp:61:26: warning: variable 'c2' set but not used [-Wunused-but-set-variable]
+
- Building in src/annotateBed
* compiling annotateMain.cpp
annotateMain.cpp: In function 'int main(int, char**)':
@@ -512,9 +453,9 @@ annotateMain.cpp:39:10: warning: variable 'haveTitles' set but not used [-Wunuse
* 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]
+ * compiling bamToBed.cpp
* linking bamToBed
- Building in src/bedToBam
@@ -596,21 +537,21 @@ multiBamCovMain.cpp:39:10: warning: variable 'haveBams' set but not used [-Wunus
* compiling nucBed.cpp
* linking nucBed
-- Building in src/overlap
overlap.cpp: In function 'int main(int, char**)':
overlap.cpp:44:10: warning: variable 'haveColumns' set but not used [-Wunused-but-set-variable]
+- Building in src/overlap
* compiling overlap.cpp
* 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 pairToBedMain.cpp
+ * compiling pairToBed.cpp
pairToBed.cpp: In member function 'void BedIntersectPE::FindSpanningOverlaps(const BEDPE&, std::vector<BED>&, const string&)':
-pairToBed.cpp:254:12: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp:255:12: 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:306:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
- * compiling pairToBed.cpp
+pairToBed.cpp:307:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
* linking pairToBed
- Building in src/pairToPair
@@ -639,9 +580,9 @@ pairToPair.cpp:113:14: warning: variable 'found2' set but not used [-Wunused-but
* 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 subtractMain.cpp
* compiling subtractBed.cpp
* linking subtractBed
@@ -665,10 +606,10 @@ unionBedGraphsMain.cpp:49:10: warning: variable 'haveFiller' set but not used [-
* compiling windowMain.cpp
* compiling windowBed.cpp
* linking windowBed
+ /usr/bin/fakeroot debian/rules binary-arch
make[1]: Leaving directory `/«PKGBUILDDIR»'
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
@@ -711,14 +652,14 @@ dh_shlibdeps -pbedtools
dh_gencontrol -pbedtools
dh_md5sums -pbedtools
dh_builddeb -pbedtools -- -Z xz
-dpkg-deb: building package `bedtools' in `../bedtools_2.13.1-1_hurd-i386.deb'.
- dpkg-genchanges -B -mDebian GNU/Hurd Build Daemon <buildd_hurd-i386-mozart at buildd.debian.org> >../bedtools_2.13.1-1_hurd-i386.changes
+dpkg-deb: building package `bedtools' in `../bedtools_2.13.2-1_hurd-i386.deb'.
+ dpkg-genchanges -B -mDebian GNU/Hurd Build Daemon <buildd_hurd-i386-mozart at buildd.debian.org> >../bedtools_2.13.2-1_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-2.13.1
+ dpkg-source --after-build bedtools-2.13.2
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110912-0211
+Build finished at 20110924-0638
Finished
────────
@@ -730,15 +671,15 @@ I: Built successfully
└──────────────────────────────────────────────────────────────────────────────┘
-bedtools_2.13.1-1_hurd-i386.changes:
+bedtools_2.13.2-1_hurd-i386.changes:
────────────────────────────────────
Format: 1.8
-Date: Sat, 10 Sep 2011 23:32:43 +0900
+Date: Sat, 24 Sep 2011 09:34:29 +0900
Source: bedtools
Binary: bedtools
Architecture: hurd-i386
-Version: 2.13.1-1
+Version: 2.13.2-1
Distribution: sid
Urgency: low
Maintainer: Debian GNU/Hurd Build Daemon <buildd_hurd-i386-mozart at buildd.debian.org>
@@ -746,38 +687,33 @@ Changed-By: Charles Plessy <plessy at debian.org>
Description:
bedtools - suite of utilities for comparing genomic features
Changes:
- bedtools (2.13.1-1) unstable; urgency=low
+ bedtools (2.13.2-1) unstable; urgency=low
.
- [2e3fe5e] New upstream release.
- [ff5450e] Compress source and binary packages with xz.
- [ef58a33] Suggest filo for the groupBy command.
- [df206c0] Mangle debian/watch download URL.
- [2fe7cff] Simplified repacking as upstream tarballs do not contain
- ‘*/*DS_Store’ files anymore.
+ [1930a26] New upstream release.
Checksums-Sha1:
- ce4c62644466d17c65032c4b077a5924203670f6 659216 bedtools_2.13.1-1_hurd-i386.deb
+ 4293c1dfdb6b5913c7d1ac6d5388e62c9f432379 676900 bedtools_2.13.2-1_hurd-i386.deb
Checksums-Sha256:
- 6c04ed10968c5113d6064f61fe0582bbece3df0fefefbbb07f5f7daf55bb5a18 659216 bedtools_2.13.1-1_hurd-i386.deb
+ 0d3e85b37766e5d9b9765485c7772dab94989b9a6b87bde7ec2ece682fd50311 676900 bedtools_2.13.2-1_hurd-i386.deb
Files:
- 2f42dff3773f55609a98eb704f3f877f 659216 science optional bedtools_2.13.1-1_hurd-i386.deb
+ 38163a5417e8269572bf984854590fd4 676900 science optional bedtools_2.13.2-1_hurd-i386.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bedtools_2.13.1-1_hurd-i386.deb
+bedtools_2.13.2-1_hurd-i386.deb
───────────────────────────────
new debian package, version 2.0.
- size 659216 bytes: control archive= 1727 bytes.
+ size 676900 bytes: control archive= 1723 bytes.
841 bytes, 18 lines control
- 2028 bytes, 35 lines md5sums
+ 2025 bytes, 35 lines md5sums
Package: bedtools
- Version: 2.13.1-1
+ Version: 2.13.2-1
Architecture: hurd-i386
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 4744
+ Installed-Size: 4800
Depends: libc0.3 (>= 2.2.6), libgcc1 (>= 4.2.1), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
Suggests: filo
Section: science
@@ -792,49 +728,49 @@ bedtools_2.13.1-1_hurd-i386.deb
.
The groupBy utility is distribued in the filo package.
-drwxr-xr-x root/root 0 2011-09-12 02:09 ./
-drwxr-xr-x root/root 0 2011-09-12 02:09 ./usr/
-drwxr-xr-x root/root 0 2011-09-12 02:09 ./usr/share/
-drwxr-xr-x root/root 0 2011-09-12 02:09 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-09-12 02:09 ./usr/share/doc/bedtools/
--rw-r--r-- root/root 10990 2011-09-07 00:36 ./usr/share/doc/bedtools/changelog.gz
--rw-r--r-- root/root 4611 2011-09-10 14:21 ./usr/share/doc/bedtools/copyright
--rw-r--r-- root/root 1586 2011-09-07 00:36 ./usr/share/doc/bedtools/README.rst.gz
--rw-r--r-- root/root 391 2011-09-10 14:32 ./usr/share/doc/bedtools/changelog.Debian.gz
-drwxr-xr-x root/root 0 2011-09-12 02:09 ./usr/share/bedtools/
-drwxr-xr-x root/root 0 2011-09-12 02:01 ./usr/share/bedtools/genomes/
--rwxr-xr-x root/root 856 2011-09-07 00:36 ./usr/share/bedtools/genomes/human.hg18.genome
--rwxr-xr-x root/root 1972 2011-09-07 00:36 ./usr/share/bedtools/genomes/human.hg19.genome
--rwxr-xr-x root/root 565 2011-09-07 00:36 ./usr/share/bedtools/genomes/mouse.mm8.genome
--rwxr-xr-x root/root 586 2011-09-07 00:36 ./usr/share/bedtools/genomes/mouse.mm9.genome
-drwxr-xr-x root/root 0 2011-09-12 02:09 ./usr/bin/
--rwxr-xr-x root/root 102688 2011-09-12 02:09 ./usr/bin/annotateBed
--rwxr-xr-x root/root 220432 2011-09-12 02:09 ./usr/bin/bamToBed
--rwxr-xr-x root/root 96344 2011-09-12 02:09 ./usr/bin/bed12ToBed6
--rwxr-xr-x root/root 227616 2011-09-12 02:09 ./usr/bin/bedToBam
--rwxr-xr-x root/root 120944 2011-09-12 02:09 ./usr/bin/bedToIgv
--rwxr-xr-x root/root 120904 2011-09-12 02:09 ./usr/bin/closestBed
--rwxr-xr-x root/root 104548 2011-09-12 02:09 ./usr/bin/complementBed
--rwxr-xr-x root/root 280908 2011-09-12 02:09 ./usr/bin/coverageBed
--rwxr-xr-x root/root 141760 2011-09-12 02:09 ./usr/bin/fastaFromBed
--rwxr-xr-x root/root 112732 2011-09-12 02:09 ./usr/bin/flankBed
--rwxr-xr-x root/root 293892 2011-09-12 02:09 ./usr/bin/genomeCoverageBed
--rwxr-xr-x root/root 301404 2011-09-12 02:09 ./usr/bin/intersectBed
--rwxr-xr-x root/root 105120 2011-09-12 02:09 ./usr/bin/linksBed
--rwxr-xr-x root/root 108872 2011-09-12 02:09 ./usr/bin/maskFastaFromBed
--rwxr-xr-x root/root 106432 2011-09-12 02:09 ./usr/bin/mergeBed
--rwxr-xr-x root/root 297300 2011-09-12 02:09 ./usr/bin/multiBamCov
--rwxr-xr-x root/root 141808 2011-09-12 02:09 ./usr/bin/nucBed
--rwxr-xr-x root/root 88152 2011-09-12 02:09 ./usr/bin/overlap
--rwxr-xr-x root/root 366956 2011-09-12 02:09 ./usr/bin/pairToBed
--rwxr-xr-x root/root 178272 2011-09-12 02:09 ./usr/bin/pairToPair
--rwxr-xr-x root/root 129148 2011-09-12 02:09 ./usr/bin/shuffleBed
--rwxr-xr-x root/root 104540 2011-09-12 02:09 ./usr/bin/slopBed
--rwxr-xr-x root/root 142248 2011-09-12 02:09 ./usr/bin/sortBed
--rwxr-xr-x root/root 112704 2011-09-12 02:09 ./usr/bin/subtractBed
--rwxr-xr-x root/root 268776 2011-09-12 02:09 ./usr/bin/tagBam
--rwxr-xr-x root/root 59508 2011-09-12 02:09 ./usr/bin/unionBedGraphs
--rwxr-xr-x root/root 285012 2011-09-12 02:09 ./usr/bin/windowBed
+drwxr-xr-x root/root 0 2011-09-24 06:36 ./
+drwxr-xr-x root/root 0 2011-09-24 06:36 ./usr/
+drwxr-xr-x root/root 0 2011-09-24 06:37 ./usr/share/
+drwxr-xr-x root/root 0 2011-09-24 06:36 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-09-24 06:37 ./usr/share/doc/bedtools/
+-rw-r--r-- root/root 1442 2011-09-23 15:57 ./usr/share/doc/bedtools/README.rst
+-rw-r--r-- root/root 4611 2011-09-24 00:33 ./usr/share/doc/bedtools/copyright
+-rw-r--r-- root/root 11135 2011-09-23 15:57 ./usr/share/doc/bedtools/changelog.gz
+-rw-r--r-- root/root 417 2011-09-24 00:36 ./usr/share/doc/bedtools/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-09-24 06:37 ./usr/share/bedtools/
+drwxr-xr-x root/root 0 2011-09-24 06:30 ./usr/share/bedtools/genomes/
+-rwxr-xr-x root/root 856 2011-09-23 15:57 ./usr/share/bedtools/genomes/human.hg18.genome
+-rwxr-xr-x root/root 1972 2011-09-23 15:57 ./usr/share/bedtools/genomes/human.hg19.genome
+-rwxr-xr-x root/root 565 2011-09-23 15:57 ./usr/share/bedtools/genomes/mouse.mm8.genome
+-rwxr-xr-x root/root 585 2011-09-23 15:57 ./usr/share/bedtools/genomes/mouse.mm9.genome
+drwxr-xr-x root/root 0 2011-09-24 06:37 ./usr/bin/
+-rwxr-xr-x root/root 102836 2011-09-24 06:37 ./usr/bin/annotateBed
+-rwxr-xr-x root/root 220432 2011-09-24 06:37 ./usr/bin/bamToBed
+-rwxr-xr-x root/root 96352 2011-09-24 06:37 ./usr/bin/bed12ToBed6
+-rwxr-xr-x root/root 227624 2011-09-24 06:37 ./usr/bin/bedToBam
+-rwxr-xr-x root/root 121136 2011-09-24 06:37 ./usr/bin/bedToIgv
+-rwxr-xr-x root/root 120912 2011-09-24 06:37 ./usr/bin/closestBed
+-rwxr-xr-x root/root 105156 2011-09-24 06:37 ./usr/bin/complementBed
+-rwxr-xr-x root/root 280916 2011-09-24 06:37 ./usr/bin/coverageBed
+-rwxr-xr-x root/root 141940 2011-09-24 06:37 ./usr/bin/fastaFromBed
+-rwxr-xr-x root/root 113920 2011-09-24 06:37 ./usr/bin/flankBed
+-rwxr-xr-x root/root 297320 2011-09-24 06:37 ./usr/bin/genomeCoverageBed
+-rwxr-xr-x root/root 347436 2011-09-24 06:37 ./usr/bin/intersectBed
+-rwxr-xr-x root/root 105300 2011-09-24 06:37 ./usr/bin/linksBed
+-rwxr-xr-x root/root 109052 2011-09-24 06:37 ./usr/bin/maskFastaFromBed
+-rwxr-xr-x root/root 106612 2011-09-24 06:37 ./usr/bin/mergeBed
+-rwxr-xr-x root/root 297308 2011-09-24 06:37 ./usr/bin/multiBamCov
+-rwxr-xr-x root/root 141988 2011-09-24 06:37 ./usr/bin/nucBed
+-rwxr-xr-x root/root 88160 2011-09-24 06:37 ./usr/bin/overlap
+-rwxr-xr-x root/root 366964 2011-09-24 06:37 ./usr/bin/pairToBed
+-rwxr-xr-x root/root 178280 2011-09-24 06:37 ./usr/bin/pairToPair
+-rwxr-xr-x root/root 129156 2011-09-24 06:37 ./usr/bin/shuffleBed
+-rwxr-xr-x root/root 105028 2011-09-24 06:37 ./usr/bin/slopBed
+-rwxr-xr-x root/root 142556 2011-09-24 06:37 ./usr/bin/sortBed
+-rwxr-xr-x root/root 112712 2011-09-24 06:37 ./usr/bin/subtractBed
+-rwxr-xr-x root/root 272740 2011-09-24 06:37 ./usr/bin/tagBam
+-rwxr-xr-x root/root 59852 2011-09-24 06:37 ./usr/bin/unionBedGraphs
+-rwxr-xr-x root/root 285020 2011-09-24 06:37 ./usr/bin/windowBed
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -853,7 +789,7 @@ Reading state information...
The following packages were automatically installed and are no longer required:
libpopt0 libept1 libxapian22 libboost-iostreams1.46.1 libsysfs2
Use 'apt-get autoremove' to remove them.
-0 upgraded, 0 newly installed, 0 to remove and 1 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 26 not upgraded.
Reading package lists...
Building dependency tree...
Reading state information...
@@ -863,9 +799,9 @@ Use 'apt-get autoremove' to remove them.
The following packages will be REMOVED:
cdbs* diffstat* quilt* sbuild-build-depends-bedtools-dummy*
sbuild-build-depends-core-dummy* zlib1g-dev*
-0 upgraded, 0 newly installed, 6 to remove and 1 not upgraded.
-After this operation, 1786 kB disk space will be freed.
-(Reading database ... 13959 files and directories currently installed.)
+0 upgraded, 0 newly installed, 6 to remove and 26 not upgraded.
+After this operation, 1633 kB disk space will be freed.
+(Reading database ... 13980 files and directories currently installed.)
Removing sbuild-build-depends-bedtools-dummy ...
Removing cdbs ...
Removing quilt ...
@@ -880,17 +816,17 @@ Processing triggers for man-db ...
└──────────────────────────────────────────────────────────────────────────────┘
Architecture: hurd-i386
-Build-Space: 91708
-Build-Time: 586
+Build-Space: 93836
+Build-Time: 489
Distribution: sid
-Install-Time: 97
-Job: bedtools_2.13.1-1
+Install-Time: 61
+Job: bedtools_2.13.2-1
Package: bedtools
-Package-Time: 1099
-Source-Version: 2.13.1-1
-Space: 91708
+Package-Time: 869
+Source-Version: 2.13.2-1
+Space: 93836
Status: successful
-Version: 2.13.1-1
+Version: 2.13.2-1
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110912-0211
-Build needed 00:18:19, 91708k disc space
+Finished at 20110924-0638
+Build needed 00:14:29, 93836k disc space
diff --git a/i386.log b/i386.log
index 7d8df4f..a31ca70 100644
--- a/i386.log
+++ b/i386.log
@@ -1,67 +1,68 @@
-From buildd at murphy.debian.org Sun Sep 11 01:12:06 2011
-Return-path: <buildd at murphy.debian.org>
-Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
+From buildd at biber.debian.org Sat Sep 24 03:26:12 2011
+Return-path: <buildd at biber.debian.org>
+Received: from kokkonen.debian.org ([2001:41b8:202:deb:1a1a:0:52c3:4b61])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
- CN=merikanto.debian.org,
- EMAIL=hostmaster at merikanto.debian.org (verified)
+ CN=kokkonen.debian.org,
+ EMAIL=hostmaster at kokkonen.debian.org (verified)
by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.72) (envelope-from <buildd at murphy.debian.org>)
- id 1R2Yac-0005D3-L9
- for logs at buildd.debian.org; Sun, 11 Sep 2011 01:12:06 +0000
-Received: from murphy.debian.org ([70.103.162.31])
+ (Exim 4.72) (envelope-from <buildd at biber.debian.org>)
+ id 1R7IsV-0001bo-TW
+ for logs at buildd.debian.org; Sat, 24 Sep 2011 03:26:12 +0000
+Received: from biber.debian.org ([2001:648:2ffc:deb:214:22ff:feb2:1268])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
- CN=murphy.debian.org, EMAIL=hostmaster at murphy.debian.org (verified)
- by merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.72) (envelope-from <buildd at murphy.debian.org>)
- id 1R2Yab-0007i1-0g
- for logs at buildd.debian.org; Sun, 11 Sep 2011 01:12:05 +0000
-Received: from buildd by murphy.debian.org with local (Exim 4.72)
- (envelope-from <buildd at murphy.debian.org>)
- id 1R2YaZ-0006rE-9b; Sun, 11 Sep 2011 01:12:03 +0000
-Message-Id: <E1R2YaZ-0006rE-9b at murphy.debian.org>
+ CN=biber.debian.org, EMAIL=hostmaster at biber.debian.org (verified)
+ by kokkonen.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd at biber.debian.org>)
+ id 1R7IsU-0002Oe-SR; Sat, 24 Sep 2011 03:26:11 +0000
+Received: from buildd by biber.debian.org with local (Exim 4.72)
+ (envelope-from <buildd at biber.debian.org>)
+ id 1R7IsU-0002ak-1g; Sat, 24 Sep 2011 03:26:10 +0000
+Message-Id: <E1R7IsU-0002ak-1g at biber.debian.org>
MIME-Version: 1.0
Content-Transfer-Encoding: binary
X-Mailer: MIME::Lite 3.027 (F2.77; B3.08; Q3.08)
-Date: Sun, 11 Sep 2011 01:12:03 +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_2.13.1-1 on i386 (dist=sid)
-Key-Id: AC7BC9C1
+Date: Sat, 24 Sep 2011 03:26:09 +0000
+From: buildd on biber <buildd at biber.debian.org>
+To: kurt at roeckx.be,logs at buildd.debian.org
+Subject: Log for successful build of bedtools_2.13.2-1 on i386 (dist=sid)
+Key-Id: E4786BDC
Delivered-To: logs at buildd.debian.org
-sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on murphy.debian.org
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on biber.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bedtools 2.13.1-1 (i386) 11 Sep 2011 01:08 ║
+║ bedtools 2.13.2-1 (i386) 24 Sep 2011 03:22 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bedtools
-Version: 2.13.1-1
-Source Version: 2.13.1-1
+Version: 2.13.2-1
+Source Version: 2.13.2-1
Architecture: i386
-Hit http://ftp.us.debian.org sid InRelease
-Hit http://incoming.debian.org sid InRelease
+Get:1 http://ftp.gr.debian.org unstable InRelease [146 kB]
+Get:2 http://ftp.gr.debian.org unstable/main Sources [5773 kB]
+Get:3 http://incoming.debian.org unstable InRelease [146 kB]
+Get:4 http://ftp.gr.debian.org unstable/contrib Sources [56.5 kB]
+Get:5 http://ftp.gr.debian.org unstable/non-free Sources [102 kB]
+Get:6 http://ftp.gr.debian.org unstable/main i386 Packages [7735 kB]
+Get:7 http://ftp.gr.debian.org unstable/contrib i386 Packages [68.5 kB]
+Ign http://ftp.gr.debian.org unstable/contrib TranslationIndex
+Get:8 http://ftp.gr.debian.org unstable/main TranslationIndex [2045 B]
+Ign http://ftp.gr.debian.org unstable/contrib Translation-en
Ign http://incoming.debian.org InRelease
-Hit http://ftp.us.debian.org sid/main Sources/DiffIndex
-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/contrib Sources/DiffIndex
-Hit http://ftp.us.debian.org sid/main i386 Packages/DiffIndex
-Hit http://ftp.us.debian.org sid/contrib i386 Packages/DiffIndex
-Ign http://ftp.us.debian.org sid/contrib TranslationIndex
-Hit http://ftp.us.debian.org sid/main TranslationIndex
-Hit http://incoming.debian.org 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]
-Get:3 http://incoming.debian.org Sources [32.0 kB]
-Ign http://ftp.us.debian.org sid/contrib Translation-en
-Get:4 http://incoming.debian.org Packages [290 kB]
-Ign http://incoming.debian.org sid/contrib Translation-en
+Get:9 http://incoming.debian.org Release.gpg [836 B]
+Get:10 http://incoming.debian.org unstable/main Sources [5783 kB]
+Get:11 http://incoming.debian.org unstable/contrib Sources [56.5 kB]
+Get:12 http://incoming.debian.org unstable/non-free Sources [102 kB]
+Get:13 http://incoming.debian.org unstable/main i386 Packages [7744 kB]
+Get:14 http://incoming.debian.org unstable/contrib i386 Packages [68.5 kB]
+Ign http://incoming.debian.org unstable/contrib TranslationIndex
+Get:15 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
+Get:16 http://incoming.debian.org Release [1604 B]
+Get:17 http://incoming.debian.org Sources [32.8 kB]
+Get:18 http://incoming.debian.org Packages [561 kB]
+Ign http://incoming.debian.org unstable/contrib Translation-en
Ign http://incoming.debian.org Translation-en
-Fetched 325 kB in 5s (61.3 kB/s)
+Fetched 28.4 MB in 20s (1362 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -82,11 +83,11 @@ 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 664 kB of source archives.
-Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (dsc) [1921 B]
-Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (tar) [658 kB]
-Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (diff) [4254 B]
-Fetched 664 kB in 2s (327 kB/s)
+Need to get 666 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (dsc) [1967 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (tar) [659 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (diff) [4285 B]
+Fetched 666 kB in 1s (412 kB/s)
Download complete and in download only mode
Check arch
@@ -106,12 +107,12 @@ Installing positive dependencies:
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 4 not upgraded.
Removing negative dependencies:
Reading package lists...
Building dependency tree...
Reading state information...
-0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 4 not upgraded.
Checking correctness of dependencies...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -123,12 +124,12 @@ Checking for already installed dependencies...
base-files: already installed (6.5)
base-passwd: already installed (3.5.23)
bash: already installed (4.1-3)
-coreutils: already installed (8.5-1)
+coreutils: already installed (8.13-1)
dash: already installed (0.5.7-1)
debianutils: already installed (4.0.2)
diffutils: already installed (1:3.0-1)
dpkg: already installed (1.16.0.3)
-e2fsprogs: already installed (1.42~WIP-2011-07-02-1)
+e2fsprogs: already installed (1.42~WIP-2011-09-16-1)
findutils: already installed (4.4.2-1+b1)
grep: already installed (2.9-2)
gzip: already installed (1.4-1)
@@ -144,14 +145,14 @@ tar: already installed (1.26-2)
bsdutils: already installed (1:2.19.1-5)
mount: already installed (2.19.1-5)
util-linux: already installed (2.19.1-5)
-libc6-dev: already installed (2.13-20)
+libc6-dev: already installed (2.13-21)
gcc: already installed (4:4.6.1-2 >= 4:4.4.3 is satisfied)
g++: already installed (4:4.6.1-2 >= 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 8.9.6
+Using default version 8.9.7
quilt: missing
zlib1g-dev: missing
Checking for dependency conflicts...
@@ -173,12 +174,34 @@ 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 4 not upgraded.
+Need to get 9547 kB of archives.
+After this operation, 28.7 MB of additional disk space will be used.
+Get:1 http://ftp.gr.debian.org/debian/ unstable/main libpipeline1 i386 1.2.0-3 [37.6 kB]
+Get:2 http://ftp.gr.debian.org/debian/ unstable/main libpcre3 i386 8.12-4 [223 kB]
+Get:3 http://ftp.gr.debian.org/debian/ unstable/main bsdmainutils i386 8.2.3 [203 kB]
+Get:4 http://ftp.gr.debian.org/debian/ unstable/main groff-base i386 1.21-6 [1127 kB]
+Get:5 http://ftp.gr.debian.org/debian/ unstable/main man-db i386 2.6.0.2-2 [1013 kB]
+Get:6 http://ftp.gr.debian.org/debian/ unstable/main libmagic1 i386 5.08-1 [248 kB]
+Get:7 http://ftp.gr.debian.org/debian/ unstable/main file i386 5.08-1 [51.3 kB]
+Get:8 http://ftp.gr.debian.org/debian/ unstable/main gettext-base i386 0.18.1.1-4 [133 kB]
+Get:9 http://ftp.gr.debian.org/debian/ unstable/main libxml2 i386 2.7.8.dfsg-4 [882 kB]
+Get:10 http://ftp.gr.debian.org/debian/ unstable/main cdbs all 0.4.99 [77.1 kB]
+Get:11 http://ftp.gr.debian.org/debian/ unstable/main html2text i386 1.3.2a-15 [101 kB]
+Get:12 http://ftp.gr.debian.org/debian/ unstable/main libglib2.0-0 i386 2.28.6-1 [1503 kB]
+Get:13 http://ftp.gr.debian.org/debian/ unstable/main libcroco3 i386 0.6.2-1 [116 kB]
+Get:14 http://ftp.gr.debian.org/debian/ unstable/main libunistring0 i386 0.9.3-4 [431 kB]
+Get:15 http://ftp.gr.debian.org/debian/ unstable/main gettext i386 0.18.1.1-4 [2024 kB]
+Get:16 http://ftp.gr.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get:17 http://ftp.gr.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get:18 http://ftp.gr.debian.org/debian/ unstable/main debhelper all 8.9.7 [552 kB]
+Get:19 http://ftp.gr.debian.org/debian/ unstable/main diffstat i386 1.54-1 [27.7 kB]
+Get:20 http://ftp.gr.debian.org/debian/ unstable/main quilt all 0.48-8 [357 kB]
+Get:21 http://ftp.gr.debian.org/debian/ unstable/main zlib1g-dev i386 1:1.2.3.4.dfsg-3 [186 kB]
debconf: delaying package configuration, since apt-utils is not installed
-0 upgraded, 21 newly installed, 0 to remove and 0 not upgraded.
-Need to get 0 B/9553 kB of archives.
-After this operation, 28.8 MB of additional disk space will be used.
+Fetched 9547 kB in 1s (8258 kB/s)
Selecting previously deselected package libpipeline1.
-(Reading database ... 10794 files and directories currently installed.)
+(Reading database ... 10637 files and directories currently installed.)
Unpacking libpipeline1 (from .../libpipeline1_1.2.0-3_i386.deb) ...
Selecting previously deselected package libpcre3.
Unpacking libpcre3 (from .../libpcre3_8.12-4_i386.deb) ...
@@ -196,6 +219,8 @@ Selecting previously deselected package gettext-base.
Unpacking gettext-base (from .../gettext-base_0.18.1.1-4_i386.deb) ...
Selecting previously deselected package libxml2.
Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-4_i386.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.99_all.deb) ...
Selecting previously deselected package html2text.
Unpacking html2text (from .../html2text_1.3.2a-15_i386.deb) ...
Selecting previously deselected package libglib2.0-0.
@@ -211,13 +236,11 @@ 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_8.9.6_all.deb) ...
-Selecting previously deselected package cdbs.
-Unpacking cdbs (from .../archives/cdbs_0.4.96_all.deb) ...
+Unpacking debhelper (from .../debhelper_8.9.7_all.deb) ...
Selecting previously deselected package diffstat.
Unpacking diffstat (from .../diffstat_1.54-1_i386.deb) ...
Selecting previously deselected package quilt.
-Unpacking quilt (from .../archives/quilt_0.48-7_all.deb) ...
+Unpacking quilt (from .../archives/quilt_0.48-8_all.deb) ...
Selecting previously deselected package zlib1g-dev.
Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_i386.deb) ...
Setting up libpipeline1 (1.2.0-3) ...
@@ -232,6 +255,7 @@ Setting up libmagic1 (5.08-1) ...
Setting up file (5.08-1) ...
Setting up gettext-base (0.18.1.1-4) ...
Setting up libxml2 (2.7.8.dfsg-4) ...
+Setting up cdbs (0.4.99) ...
Setting up html2text (1.3.2a-15) ...
Setting up libglib2.0-0 (2.28.6-1) ...
No schema files found: doing nothing.
@@ -240,20 +264,19 @@ Setting up libunistring0 (0.9.3-4) ...
Setting up gettext (0.18.1.1-4) ...
Setting up intltool-debian (0.35.0+20060710.1) ...
Setting up po-debconf (1.0.16+nmu1) ...
-Setting up debhelper (8.9.6) ...
-Setting up cdbs (0.4.96) ...
+Setting up debhelper (8.9.7) ...
Setting up diffstat (1.54-1) ...
-Setting up quilt (0.48-7) ...
+Setting up quilt (0.48-8) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
Removing negative dependencies:
Reading package lists...
Building dependency tree...
Reading state information...
-0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 4 not upgraded.
Checking correctness of dependencies...
-Kernel: Linux 2.6.32-5-686-bigmem i386 (i686)
-Toolchain package versions: binutils_2.21.53.20110910-1 dpkg-dev_1.16.0.3 g++-4.6_4.6.1-10 gcc-4.6_4.6.1-10 libc6-dev_2.13-20 libstdc++6_4.6.1-10 libstdc++6-4.6-dev_4.6.1-10 linux-libc-dev_3.0.0-3
-Package versions: apt_0.8.15.6 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.53.20110910-1 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 cdbs_0.4.96 coreutils_8.5-1 cpp_4:4.6.1-2 cpp-4.6_4.6.1-10 dash_0.5.7-1 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.6 debian-archive-keyring_2010.08.28 debianutils_4.0.2 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.42~WIP-2011-07-02-1 e2fsprogs_1.42~WIP-2011-07-02-1 fakeroot_1.18-1 file_5.08-1 findutils_4.4.2-1+b1 g++_4:4.6.1-2 g++-4.6_4.6.1-10 gcc_4:4.6.1-2 gcc-4.6_4.6.1-10 gcc-4.6-base_4.6.1-10 gettext_0.18.1.1-4 gettext-base_0.18.1.1-4 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.11 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-3 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbz2-1.0_1.0.5-7 libc-bin_2.13-20 libc-dev-bin_2.13-20 libc6_2.13-20 libc6-dev_2.13-20 libcomerr2_1.42~WIP-2011-07-02-1 libcroco3_0.6.2-1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.0.3 libgc1c2_1:7.1-8 libgcc1_1:4.6.1-10 libgdbm3_1.8.3-10 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.2+dfsg-1 libgomp1_4.6.1-10 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.08-1 libmount1_2.19.1-5 libmpc2_0.9-3 libmpfr4_3.0.1-6 libncurses5_5.9-1 libpam-modules_1.1.3-2 libpam-modules-bin_1.1.3-2 libpam-runtime_1.1.3-2 libpam0g_1.1.3-2 libpcre3_8.12-4 libpipeline1_1.2.0-3 libquadmath0_4.6.1-10 libreadline6_6.2-4 libselinux1_2.1.0-1 libsepol1_2.1.0-1.1 libslang2_2.2.4-3 libss2_1.42~WIP-2011-07-02-1 libstdc++6_4.6.1-10 libstdc++6-4.6-dev_4.6.1-10 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-4 linux-libc-dev_3.0.0-3 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-15 mount_2.19.1-5 multiarch-support_2.13-20 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-4 perl-base_5.12.4-4 perl-modules_5.12.4-4 po-debconf_1.0.16+nmu1 quilt_0.48-7 readline-common_6.2-4 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.2-1 sysv-rc_2.88dsf-13.11 sysvinit_2.88dsf-13.11 sysvinit-utils_2.88dsf-13.11 tar_1.26-2 tzdata_2011i-2 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+Kernel: Linux 2.6.32-5-amd64 i386 (x86_64)
+Toolchain package versions: binutils_2.21.53.20110910-1 dpkg-dev_1.16.0.3 g++-4.6_4.6.1-11 gcc-4.6_4.6.1-11 libc6-dev_2.13-21 libstdc++6_4.6.1-11 libstdc++6-4.6-dev_4.6.1-11 linux-libc-dev_3.0.0-3
+Package versions: apt_0.8.15.8 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.53.20110910-1 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 cdbs_0.4.99 coreutils_8.13-1 cpp_4:4.6.1-2 cpp-4.6_4.6.1-11 dash_0.5.7-1 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.7 debian-archive-keyring_2010.08.28 debianutils_4.0.2 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.42~WIP-2011-09-16-1 e2fsprogs_1.42~WIP-2011-09-16-1 fakeroot_1.18-1 file_5.08-1 findutils_4.4.2-1+b1 g++_4:4.6.1-2 g++-4.6_4.6.1-11 gcc_4:4.6.1-2 gcc-4.6_4.6.1-11 gcc-4.6-base_4.6.1-11 gettext_0.18.1.1-4 gettext-base_0.18.1.1-4 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.11 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-3 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbz2-1.0_1.0.5-7 libc-bin_2.13-21 libc-dev-bin_2.13-21 libc6_2.13-21 libc6-dev_2.13-21 libcomerr2_1.42~WIP-2011-09-16-1 libcroco3_0.6.2-1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.0.3 libgc1c2_1:7.1-8 libgcc1_1:4.6.1-11 libgdbm3_1.8.3-10 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.2+dfsg-1 libgomp1_4.6.1-11 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.08-1 libmount1_2.19.1-5 libmpc2_0.9-3 libmpfr4_3.0.1-6 libncurses5_5.9-1 libpam-modules_1.1.3-2 libpam-modules-bin_1.1.3-2 libpam-runtime_1.1.3-2 libpam0g_1.1.3-2 libpcre3_8.12-4 libpipeline1_1.2.0-3 libquadmath0_4.6.1-11 libreadline6_6.2-4 libselinux1_2.1.0-1 libsepol1_2.1.0-1.1 libslang2_2.2.4-3 libss2_1.42~WIP-2011-09-16-1 libstdc++6_4.6.1-11 libstdc++6-4.6-dev_4.6.1-11 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-4 linux-libc-dev_3.0.0-3 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-15 mount_2.19.1-5 multiarch-support_2.13-21 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-4 perl-base_5.12.4-4 perl-modules_5.12.4-4 po-debconf_1.0.16+nmu1 quilt_0.48-8 readline-common_6.2-4 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.2-1 sysv-rc_2.88dsf-13.11 sysvinit_2.88dsf-13.11 sysvinit-utils_2.88dsf-13.11 tar_1.26-2 tzdata_2011j-1 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -264,12 +287,12 @@ Unpack source
─────────────
gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
-gpgv: Signature made Sun Sep 11 00:44:52 2011 UTC using RSA key ID 2295D502
+gpgv: Signature made Sat Sep 24 01:39:55 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_2.13.1-1.dsc
-dpkg-source: info: extracting bedtools in bedtools-2.13.1
-dpkg-source: info: unpacking bedtools_2.13.1.orig.tar.xz
-dpkg-source: info: unpacking bedtools_2.13.1-1.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bedtools_2.13.2-1.dsc
+dpkg-source: info: extracting bedtools in bedtools-2.13.2
+dpkg-source: info: unpacking bedtools_2.13.2.orig.tar.xz
+dpkg-source: info: unpacking bedtools_2.13.2-1.debian.tar.gz
dpkg-source: info: applying gzstream.h.patch
Check disc space
@@ -285,24 +308,24 @@ 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 2.13.1-1
- dpkg-source --before-build bedtools-2.13.1
+dpkg-buildpackage: source version 2.13.2-1
+ dpkg-source --before-build bedtools-2.13.2
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 `/build/buildd-bedtools_2.13.1-1-i386-nhfdke/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-i386-gjfied/bedtools-2.13.2'
Cleaning up.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-i386-nhfdke/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-i386-gjfied/bedtools-2.13.2'
dh_clean
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/build/buildd-bedtools_2.13.1-1-i386-nhfdke/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-i386-gjfied/bedtools-2.13.2'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-i386-nhfdke/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-i386-gjfied/bedtools-2.13.2'
if [ -d "." ]; then \
- cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.1-1-i386-nhfdke/bedtools-2.13.1/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
+ cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.2-1-i386-gjfied/bedtools-2.13.2/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
fi
Removing patch gzstream.h.patch
Restoring src/utils/gzstream/gzstream.C
@@ -315,21 +338,21 @@ test -x debian/rules
mkdir -p "."
/usr/share/cdbs/1/rules/buildcore.mk:109: WARNING: DEB_DH_BUILDDEB_ARGS is a deprecated variable
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/build/buildd-bedtools_2.13.1-1-i386-nhfdke/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-i386-gjfied/bedtools-2.13.2'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-i386-nhfdke/bedtools-2.13.1'
-cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.1-1-i386-nhfdke/bedtools-2.13.1/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-i386-gjfied/bedtools-2.13.2'
+cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.2-1-i386-gjfied/bedtools-2.13.2/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_2.13.1-1-i386-nhfdke/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-i386-gjfied/bedtools-2.13.2'
make[1]: Nothing to be done for `update-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-i386-nhfdke/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-i386-gjfied/bedtools-2.13.2'
/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_2.13.1-1-i386-nhfdke/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-i386-gjfied/bedtools-2.13.2'
[ -d obj ] || mkdir -p obj
[ -d bin ] || mkdir -p bin
Building BEDTools:
@@ -343,10 +366,8 @@ Building BEDTools:
- Building in src/utils/bedGraphFile
* compiling bedGraphFile.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/chromsweep
+ * compiling chromsweep.cpp
- Building in src/utils/gzstream
g++ -g -O2 -g -O2 -Wall -c -o ../../../obj//gzstream.o gzstream.C -I.
@@ -411,6 +432,11 @@ Fasta.cpp:31:17: warning: converting to non-pointer type 'int' from NULL [-Wconv
Fasta.cpp:32:17: warning: converting to non-pointer type 'int' from NULL [-Wconversion-null]
* compiling split.cpp
+- Building in src/utils/genomeFile
+ * compiling genomeFile.cpp
+genomeFile.cpp: In member function 'void GenomeFile::loadGenomeFileIntoMap()':
+genomeFile.cpp:61:26: warning: variable 'c2' set but not used [-Wunused-but-set-variable]
+
- Building in src/annotateBed
* compiling annotateMain.cpp
annotateMain.cpp: In function 'int main(int, char**)':
@@ -515,9 +541,9 @@ 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:254:12: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp:255:12: 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:306:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp:307:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
* linking pairToBed
- Building in src/pairToPair
@@ -573,7 +599,7 @@ unionBedGraphsMain.cpp:49:10: warning: variable 'haveFiller' set but not used [-
* compiling windowBed.cpp
* linking windowBed
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-i386-nhfdke/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-i386-gjfied/bedtools-2.13.2'
touch debian/stamp-makefile-build
DEB_MAKE_CHECK_TARGET unset, not running checks
fakeroot debian/rules binary-arch
@@ -618,61 +644,56 @@ dh_shlibdeps -pbedtools
dh_gencontrol -pbedtools
dh_md5sums -pbedtools
dh_builddeb -pbedtools -- -Z xz
-dpkg-deb: building package `bedtools' in `../bedtools_2.13.1-1_i386.deb'.
- dpkg-genchanges -B -mi386 Build Daemon (murphy) <buildd_i386-murphy at buildd.debian.org> >../bedtools_2.13.1-1_i386.changes
+dpkg-deb: building package `bedtools' in `../bedtools_2.13.2-1_i386.deb'.
+ dpkg-genchanges -B -mi386 Build Daemon <buildd_i386-biber at buildd.debian.org> >../bedtools_2.13.2-1_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-2.13.1
+ dpkg-source --after-build bedtools-2.13.2
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110911-0111
+Build finished at 20110924-0326
-bedtools_2.13.1-1_i386.changes:
+bedtools_2.13.2-1_i386.changes:
Format: 1.8
-Date: Sat, 10 Sep 2011 23:32:43 +0900
+Date: Sat, 24 Sep 2011 09:34:29 +0900
Source: bedtools
Binary: bedtools
Architecture: i386
-Version: 2.13.1-1
+Version: 2.13.2-1
Distribution: sid
Urgency: low
-Maintainer: i386 Build Daemon (murphy) <buildd_i386-murphy at buildd.debian.org>
+Maintainer: i386 Build Daemon <buildd_i386-biber at buildd.debian.org>
Changed-By: Charles Plessy <plessy at debian.org>
Description:
bedtools - suite of utilities for comparing genomic features
Changes:
- bedtools (2.13.1-1) unstable; urgency=low
+ bedtools (2.13.2-1) unstable; urgency=low
.
- [2e3fe5e] New upstream release.
- [ff5450e] Compress source and binary packages with xz.
- [ef58a33] Suggest filo for the groupBy command.
- [df206c0] Mangle debian/watch download URL.
- [2fe7cff] Simplified repacking as upstream tarballs do not contain
- ‘*/*DS_Store’ files anymore.
+ [1930a26] New upstream release.
Checksums-Sha1:
- 447b7e9472158fb5c4dd7c3dfe9ca575c43adc39 659932 bedtools_2.13.1-1_i386.deb
+ 304f8da62a18c00aa99a23b4e7f8d9ab428c9962 676280 bedtools_2.13.2-1_i386.deb
Checksums-Sha256:
- c11c0899e857a75183621caaad88cf75bc81c2c991658d3e1d5d8b2931faa3d6 659932 bedtools_2.13.1-1_i386.deb
+ d19c33388aeb98eea1478a8b2770f5961f84fae568e758a14c904737075db846 676280 bedtools_2.13.2-1_i386.deb
Files:
- 4fd0df79e608d8b655ca636ffcb68cbc 659932 science optional bedtools_2.13.1-1_i386.deb
+ c9995414483f78950cfdea99a9147c7c 676280 science optional bedtools_2.13.2-1_i386.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bedtools_2.13.1-1_i386.deb
+bedtools_2.13.2-1_i386.deb
──────────────────────────
new debian package, version 2.0.
- size 659932 bytes: control archive= 1715 bytes.
+ size 676280 bytes: control archive= 1716 bytes.
836 bytes, 18 lines control
- 2028 bytes, 35 lines md5sums
+ 2025 bytes, 35 lines md5sums
Package: bedtools
- Version: 2.13.1-1
+ Version: 2.13.2-1
Architecture: i386
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 4736
+ Installed-Size: 4796
Depends: libc6 (>= 2.1.3), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
Suggests: filo
Section: science
@@ -687,49 +708,49 @@ bedtools_2.13.1-1_i386.deb
.
The groupBy utility is distribued in the filo package.
-drwxr-xr-x root/root 0 2011-09-11 01:11 ./
-drwxr-xr-x root/root 0 2011-09-11 01:11 ./usr/
-drwxr-xr-x root/root 0 2011-09-11 01:11 ./usr/bin/
--rwxr-xr-x root/root 120944 2011-09-11 01:11 ./usr/bin/bedToIgv
--rwxr-xr-x root/root 293764 2011-09-11 01:11 ./usr/bin/genomeCoverageBed
--rwxr-xr-x root/root 268648 2011-09-11 01:11 ./usr/bin/tagBam
--rwxr-xr-x root/root 96344 2011-09-11 01:11 ./usr/bin/bed12ToBed6
--rwxr-xr-x root/root 141584 2011-09-11 01:11 ./usr/bin/nucBed
--rwxr-xr-x root/root 141992 2011-09-11 01:11 ./usr/bin/sortBed
--rwxr-xr-x root/root 281928 2011-09-11 01:11 ./usr/bin/windowBed
--rwxr-xr-x root/root 119364 2011-09-11 01:11 ./usr/bin/closestBed
--rwxr-xr-x root/root 280908 2011-09-11 01:11 ./usr/bin/coverageBed
--rwxr-xr-x root/root 108744 2011-09-11 01:11 ./usr/bin/maskFastaFromBed
--rwxr-xr-x root/root 102400 2011-09-11 01:11 ./usr/bin/annotateBed
--rwxr-xr-x root/root 141536 2011-09-11 01:11 ./usr/bin/fastaFromBed
--rwxr-xr-x root/root 129148 2011-09-11 01:11 ./usr/bin/shuffleBed
--rwxr-xr-x root/root 366956 2011-09-11 01:11 ./usr/bin/pairToBed
--rwxr-xr-x root/root 106304 2011-09-11 01:11 ./usr/bin/mergeBed
--rwxr-xr-x root/root 104548 2011-09-11 01:11 ./usr/bin/complementBed
--rwxr-xr-x root/root 297300 2011-09-11 01:11 ./usr/bin/multiBamCov
--rwxr-xr-x root/root 88152 2011-09-11 01:11 ./usr/bin/overlap
--rwxr-xr-x root/root 178272 2011-09-11 01:11 ./usr/bin/pairToPair
--rwxr-xr-x root/root 104896 2011-09-11 01:11 ./usr/bin/linksBed
--rwxr-xr-x root/root 112704 2011-09-11 01:11 ./usr/bin/subtractBed
--rwxr-xr-x root/root 227616 2011-09-11 01:11 ./usr/bin/bedToBam
--rwxr-xr-x root/root 59508 2011-09-11 01:11 ./usr/bin/unionBedGraphs
--rwxr-xr-x root/root 220336 2011-09-11 01:11 ./usr/bin/bamToBed
--rwxr-xr-x root/root 112732 2011-09-11 01:11 ./usr/bin/flankBed
--rwxr-xr-x root/root 301404 2011-09-11 01:11 ./usr/bin/intersectBed
--rwxr-xr-x root/root 104540 2011-09-11 01:11 ./usr/bin/slopBed
-drwxr-xr-x root/root 0 2011-09-11 01:11 ./usr/share/
-drwxr-xr-x root/root 0 2011-09-11 01:11 ./usr/share/bedtools/
-drwxr-xr-x root/root 0 2011-09-11 01:08 ./usr/share/bedtools/genomes/
--rwxr-xr-x root/root 565 2011-09-07 00:36 ./usr/share/bedtools/genomes/mouse.mm8.genome
--rwxr-xr-x root/root 1972 2011-09-07 00:36 ./usr/share/bedtools/genomes/human.hg19.genome
--rwxr-xr-x root/root 586 2011-09-07 00:36 ./usr/share/bedtools/genomes/mouse.mm9.genome
--rwxr-xr-x root/root 856 2011-09-07 00:36 ./usr/share/bedtools/genomes/human.hg18.genome
-drwxr-xr-x root/root 0 2011-09-11 01:11 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-09-11 01:11 ./usr/share/doc/bedtools/
--rw-r--r-- root/root 391 2011-09-10 14:32 ./usr/share/doc/bedtools/changelog.Debian.gz
--rw-r--r-- root/root 4611 2011-09-10 14:21 ./usr/share/doc/bedtools/copyright
--rw-r--r-- root/root 10990 2011-09-07 00:36 ./usr/share/doc/bedtools/changelog.gz
--rw-r--r-- root/root 1586 2011-09-07 00:36 ./usr/share/doc/bedtools/README.rst.gz
+drwxr-xr-x root/root 0 2011-09-24 03:25 ./
+drwxr-xr-x root/root 0 2011-09-24 03:25 ./usr/
+drwxr-xr-x root/root 0 2011-09-24 03:25 ./usr/bin/
+-rwxr-xr-x root/root 141716 2011-09-24 03:25 ./usr/bin/fastaFromBed
+-rwxr-xr-x root/root 59628 2011-09-24 03:25 ./usr/bin/unionBedGraphs
+-rwxr-xr-x root/root 96352 2011-09-24 03:25 ./usr/bin/bed12ToBed6
+-rwxr-xr-x root/root 227624 2011-09-24 03:25 ./usr/bin/bedToBam
+-rwxr-xr-x root/root 113760 2011-09-24 03:25 ./usr/bin/flankBed
+-rwxr-xr-x root/root 142268 2011-09-24 03:25 ./usr/bin/sortBed
+-rwxr-xr-x root/root 297308 2011-09-24 03:25 ./usr/bin/multiBamCov
+-rwxr-xr-x root/root 105076 2011-09-24 03:25 ./usr/bin/linksBed
+-rwxr-xr-x root/root 141764 2011-09-24 03:25 ./usr/bin/nucBed
+-rwxr-xr-x root/root 347308 2011-09-24 03:25 ./usr/bin/intersectBed
+-rwxr-xr-x root/root 112712 2011-09-24 03:25 ./usr/bin/subtractBed
+-rwxr-xr-x root/root 285020 2011-09-24 03:25 ./usr/bin/windowBed
+-rwxr-xr-x root/root 108924 2011-09-24 03:25 ./usr/bin/maskFastaFromBed
+-rwxr-xr-x root/root 272740 2011-09-24 03:25 ./usr/bin/tagBam
+-rwxr-xr-x root/root 129156 2011-09-24 03:25 ./usr/bin/shuffleBed
+-rwxr-xr-x root/root 280916 2011-09-24 03:25 ./usr/bin/coverageBed
+-rwxr-xr-x root/root 106484 2011-09-24 03:25 ./usr/bin/mergeBed
+-rwxr-xr-x root/root 102708 2011-09-24 03:25 ./usr/bin/annotateBed
+-rwxr-xr-x root/root 88160 2011-09-24 03:25 ./usr/bin/overlap
+-rwxr-xr-x root/root 120912 2011-09-24 03:25 ./usr/bin/closestBed
+-rwxr-xr-x root/root 176848 2011-09-24 03:25 ./usr/bin/pairToPair
+-rwxr-xr-x root/root 104996 2011-09-24 03:25 ./usr/bin/complementBed
+-rwxr-xr-x root/root 220336 2011-09-24 03:25 ./usr/bin/bamToBed
+-rwxr-xr-x root/root 297320 2011-09-24 03:25 ./usr/bin/genomeCoverageBed
+-rwxr-xr-x root/root 366964 2011-09-24 03:25 ./usr/bin/pairToBed
+-rwxr-xr-x root/root 120976 2011-09-24 03:25 ./usr/bin/bedToIgv
+-rwxr-xr-x root/root 104868 2011-09-24 03:25 ./usr/bin/slopBed
+drwxr-xr-x root/root 0 2011-09-24 03:25 ./usr/share/
+drwxr-xr-x root/root 0 2011-09-24 03:25 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-09-24 03:25 ./usr/share/doc/bedtools/
+-rw-r--r-- root/root 11135 2011-09-23 15:57 ./usr/share/doc/bedtools/changelog.gz
+-rw-r--r-- root/root 1442 2011-09-23 15:57 ./usr/share/doc/bedtools/README.rst
+-rw-r--r-- root/root 417 2011-09-24 00:36 ./usr/share/doc/bedtools/changelog.Debian.gz
+-rw-r--r-- root/root 4611 2011-09-24 00:33 ./usr/share/doc/bedtools/copyright
+drwxr-xr-x root/root 0 2011-09-24 03:25 ./usr/share/bedtools/
+drwxr-xr-x root/root 0 2011-09-24 03:23 ./usr/share/bedtools/genomes/
+-rwxr-xr-x root/root 565 2011-09-23 15:57 ./usr/share/bedtools/genomes/mouse.mm8.genome
+-rwxr-xr-x root/root 585 2011-09-23 15:57 ./usr/share/bedtools/genomes/mouse.mm9.genome
+-rwxr-xr-x root/root 1972 2011-09-23 15:57 ./usr/share/bedtools/genomes/human.hg19.genome
+-rwxr-xr-x root/root 856 2011-09-23 15:57 ./usr/share/bedtools/genomes/human.hg18.genome
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -743,73 +764,26 @@ Built successfully
│ Post Build │
└──────────────────────────────────────────────────────────────────────────────┘
-Purging /var/lib/schroot/mount/sid-i386-sbuild-6fadc8c4-276d-40b9-b68b-e3d99ad53b7f/build/buildd-bedtools_2.13.1-1-i386-nhfdke
-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*
- zlib1g-dev*
-0 upgraded, 0 newly installed, 21 to remove and 0 not upgraded.
-After this operation, 28.8 MB disk space will be freed.
-(Reading database ... 12265 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 ...
+Purging /var/lib/schroot/mount/sid-i386-sbuild-e5619fe0-6e60-42dd-bf35-69551e41b189/build/buildd-bedtools_2.13.2-1-i386-gjfied
+Not cleaning session: cloned chroot in use
┌──────────────────────────────────────────────────────────────────────────────┐
│ Summary │
└──────────────────────────────────────────────────────────────────────────────┘
Architecture: i386
-Build-Space: 91692
-Build-Time: 194
+Build-Space: 93820
+Build-Time: 168
Distribution: sid
-Install-Time: 10
-Job: bedtools_2.13.1-1
+Install-Time: 39
+Job: bedtools_2.13.2-1
Package: bedtools
-Package-Time: 216
-Source-Version: 2.13.1-1
-Space: 91692
+Package-Time: 241
+Source-Version: 2.13.2-1
+Space: 93820
Status: successful
-Version: 2.13.1-1
+Version: 2.13.2-1
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110911-0111
-Build needed 00:03:36, 91692k disc space
-Signature with key 'AC7BC9C1' requested:
+Finished at 20110924-0326
+Build needed 00:04:01, 93820k disc space
+Signature with key 'E4786BDC' requested:
diff --git a/ia64.log b/ia64.log
index 74d1d62..d6c683f 100644
--- a/ia64.log
+++ b/ia64.log
@@ -1,66 +1,67 @@
-From buildd at mundy.debian.org Sun Sep 11 01:23:48 2011
-Return-path: <buildd at mundy.debian.org>
+From buildd at alkman.debian.org Sat Sep 24 04:58:16 2011
+Return-path: <buildd at alkman.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 mundy.debian.org>)
- id 1R2Ylv-0006x1-Dl
- for logs at buildd.debian.org; Sun, 11 Sep 2011 01:23:48 +0000
-Received: from mundy.debian.org ([192.25.206.62])
+ (Exim 4.72) (envelope-from <buildd at alkman.debian.org>)
+ id 1R7KJb-0005uf-RZ
+ for logs at buildd.debian.org; Sat, 24 Sep 2011 04:58:16 +0000
+Received: from alkman.debian.org ([192.25.206.63])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
- CN=mundy.debian.org, EMAIL=hostmaster at mundy.debian.org (verified)
+ CN=alkman.debian.org, EMAIL=hostmaster at alkman.debian.org (verified)
by merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.72) (envelope-from <buildd at mundy.debian.org>)
- id 1R2Ylo-00088C-8p; Sun, 11 Sep 2011 01:23:40 +0000
-Received: from buildd by mundy.debian.org with local (Exim 4.72)
- (envelope-from <buildd at mundy.debian.org>)
- id 1R2Yll-0008OB-SZ; Sun, 11 Sep 2011 01:23:37 +0000
-Date: Sun, 11 Sep 2011 01:23:37 +0000
-Message-Id: <E1R2Yll-0008OB-SZ at mundy.debian.org>
-From: buildd on mundy <buildd at mundy.debian.org>
-To: dannf at master.debian.org,logs at buildd.debian.org
-Subject: Log for successful build of bedtools_2.13.1-1 on ia64 (dist=sid)
+ (Exim 4.72) (envelope-from <buildd at alkman.debian.org>)
+ id 1R7KJa-00019G-0v
+ for logs at buildd.debian.org; Sat, 24 Sep 2011 04:58:14 +0000
+Received: from buildd by alkman.debian.org with local (Exim 4.72)
+ (envelope-from <buildd at alkman.debian.org>)
+ id 1R7KJX-00043i-K7; Sat, 24 Sep 2011 04:58:11 +0000
+Date: Sat, 24 Sep 2011 04:58:11 +0000
+Message-Id: <E1R7KJX-00043i-K7 at alkman.debian.org>
+From: buildd on alkman <buildd at alkman.debian.org>
+To: buildd-porters at alkman.debian.org,logs at buildd.debian.org
+Subject: Log for successful build of bedtools_2.13.2-1 on ia64 (dist=sid)
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit
Delivered-To: logs at buildd.debian.org
-sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on mundy.debian.org
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on alkman.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bedtools 2.13.1-1 (ia64) 11 Sep 2011 01:13 ║
+║ bedtools 2.13.2-1 (ia64) 24 Sep 2011 04:46 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bedtools
-Version: 2.13.1-1
-Source Version: 2.13.1-1
+Version: 2.13.2-1
+Source Version: 2.13.2-1
Architecture: ia64
Get:1 http://spohr.debian.org unstable InRelease [146 kB]
-Get:2 http://spohr.debian.org unstable/main Sources [5755 kB]
-Get:3 http://incoming.debian.org unstable InRelease [146 kB]
-Get:4 http://spohr.debian.org unstable/contrib Sources [57.4 kB]
-Get:5 http://spohr.debian.org unstable/non-free Sources [102 kB]
-Get:6 http://spohr.debian.org unstable/main ia64 Packages [7416 kB]
+Get:2 http://incoming.debian.org unstable InRelease [146 kB]
Ign http://incoming.debian.org InRelease
-Get:7 http://incoming.debian.org Release.gpg [836 B]
-Get:8 http://incoming.debian.org unstable/main Sources [5755 kB]
-Get:9 http://spohr.debian.org unstable/contrib ia64 Packages [56.3 kB]
-Ign http://spohr.debian.org unstable/contrib TranslationIndex
-Get:10 http://spohr.debian.org unstable/main TranslationIndex [2045 B]
-Ign http://spohr.debian.org unstable/contrib Translation-en
-Get:11 http://incoming.debian.org unstable/contrib Sources [57.4 kB]
-Get:12 http://incoming.debian.org unstable/non-free Sources [102 kB]
-Get:13 http://incoming.debian.org unstable/main ia64 Packages [7416 kB]
-Get:14 http://incoming.debian.org unstable/contrib ia64 Packages [56.3 kB]
+Get:3 http://incoming.debian.org Release.gpg [836 B]
+Get:4 http://incoming.debian.org Release [1604 B]
+Get:5 http://incoming.debian.org unstable/main Sources [5783 kB]
+Get:6 http://spohr.debian.org unstable/main Sources [5783 kB]
+Get:7 http://incoming.debian.org unstable/contrib Sources [56.5 kB]
+Get:8 http://incoming.debian.org unstable/non-free Sources [102 kB]
+Get:9 http://incoming.debian.org unstable/main ia64 Packages [7461 kB]
+Get:10 http://incoming.debian.org unstable/contrib ia64 Packages [55.5 kB]
Ign http://incoming.debian.org unstable/contrib TranslationIndex
-Get:15 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
-Get:16 http://incoming.debian.org Release [1604 B]
-Get:17 http://incoming.debian.org Sources [32.0 kB]
-Get:18 http://incoming.debian.org Packages [290 kB]
-Ign http://incoming.debian.org unstable/contrib Translation-en
+Get:11 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
+Get:12 http://incoming.debian.org Sources [33.1 kB]
+Get:13 http://incoming.debian.org Packages [576 kB]
Ign http://incoming.debian.org Translation-en
-Fetched 27.4 MB in 17s (1598 kB/s)
+Ign http://incoming.debian.org unstable/contrib Translation-en
+Get:14 http://spohr.debian.org unstable/contrib Sources [56.5 kB]
+Get:15 http://spohr.debian.org unstable/non-free Sources [102 kB]
+Get:16 http://spohr.debian.org unstable/main ia64 Packages [7461 kB]
+Get:17 http://spohr.debian.org unstable/contrib ia64 Packages [55.5 kB]
+Ign http://spohr.debian.org unstable/contrib TranslationIndex
+Get:18 http://spohr.debian.org unstable/main TranslationIndex [2045 B]
+Ign http://spohr.debian.org unstable/contrib Translation-en
+Fetched 27.8 MB in 25s (1108 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -81,11 +82,11 @@ 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 664 kB of source archives.
-Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (dsc) [1921 B]
-Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (tar) [658 kB]
-Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (diff) [4254 B]
-Fetched 664 kB in 0s (677 kB/s)
+Need to get 666 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (dsc) [1967 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (tar) [659 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (diff) [4285 B]
+Fetched 666 kB in 0s (675 kB/s)
Download complete and in download only mode
Check arch
@@ -108,7 +109,7 @@ Reading state information...
The following packages were automatically installed and are no longer required:
libppl9 libpwl5 libppl-c4 libcloog-ppl0 libgmpxx4ldbl
Use 'apt-get autoremove' to remove them.
-0 upgraded, 0 newly installed, 0 to remove and 6 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 15 not upgraded.
Removing negative dependencies:
Reading package lists...
Building dependency tree...
@@ -116,7 +117,7 @@ Reading state information...
The following packages were automatically installed and are no longer required:
libppl9 libpwl5 libppl-c4 libcloog-ppl0 libgmpxx4ldbl
Use 'apt-get autoremove' to remove them.
-0 upgraded, 0 newly installed, 0 to remove and 6 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 15 not upgraded.
Checking correctness of dependencies...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -156,7 +157,7 @@ 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 8.9.6
+Using default version 8.9.7
quilt: missing
zlib1g-dev: missing
Checking for dependency conflicts...
@@ -181,9 +182,9 @@ 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 6 not upgraded.
+0 upgraded, 21 newly installed, 0 to remove and 15 not upgraded.
Need to get 11.4 MB of archives.
-After this operation, 43.3 MB of additional disk space will be used.
+After this operation, 43.2 MB of additional disk space will be used.
Get:1 http://spohr.debian.org/debian/ unstable/main libpipeline1 ia64 1.2.0-3 [47.8 kB]
Get:2 http://spohr.debian.org/debian/ unstable/main libpcre3 ia64 8.12-4 [272 kB]
Get:3 http://spohr.debian.org/debian/ unstable/main bsdmainutils ia64 8.2.3 [238 kB]
@@ -193,20 +194,20 @@ Get:6 http://spohr.debian.org/debian/ unstable/main libmagic1 ia64 5.08-1 [272 k
Get:7 http://spohr.debian.org/debian/ unstable/main file ia64 5.08-1 [54.0 kB]
Get:8 http://spohr.debian.org/debian/ unstable/main gettext-base ia64 0.18.1.1-4 [173 kB]
Get:9 http://spohr.debian.org/debian/ unstable/main libxml2 ia64 2.7.8.dfsg-4 [1177 kB]
-Get:10 http://spohr.debian.org/debian/ unstable/main html2text ia64 1.3.2a-15 [134 kB]
-Get:11 http://spohr.debian.org/debian/ unstable/main libglib2.0-0 ia64 2.28.6-1 [1973 kB]
-Get:12 http://spohr.debian.org/debian/ unstable/main libcroco3 ia64 0.6.2-1 [155 kB]
-Get:13 http://spohr.debian.org/debian/ unstable/main libunistring0 ia64 0.9.3-4 [467 kB]
-Get:14 http://spohr.debian.org/debian/ unstable/main gettext ia64 0.18.1.1-4 [2441 kB]
-Get:15 http://spohr.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
-Get:16 http://spohr.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
-Get:17 http://spohr.debian.org/debian/ unstable/main debhelper all 8.9.6 [562 kB]
-Get:18 http://spohr.debian.org/debian/ unstable/main cdbs all 0.4.96 [75.8 kB]
+Get:10 http://spohr.debian.org/debian/ unstable/main cdbs all 0.4.99 [77.1 kB]
+Get:11 http://spohr.debian.org/debian/ unstable/main html2text ia64 1.3.2a-15 [134 kB]
+Get:12 http://spohr.debian.org/debian/ unstable/main libglib2.0-0 ia64 2.28.6-1 [1973 kB]
+Get:13 http://spohr.debian.org/debian/ unstable/main libcroco3 ia64 0.6.2-1 [155 kB]
+Get:14 http://spohr.debian.org/debian/ unstable/main libunistring0 ia64 0.9.3-4 [467 kB]
+Get:15 http://spohr.debian.org/debian/ unstable/main gettext ia64 0.18.1.1-4 [2441 kB]
+Get:16 http://spohr.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get:17 http://spohr.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get:18 http://spohr.debian.org/debian/ unstable/main debhelper all 8.9.7 [552 kB]
Get:19 http://spohr.debian.org/debian/ unstable/main diffstat ia64 1.54-1 [36.9 kB]
-Get:20 http://spohr.debian.org/debian/ unstable/main quilt all 0.48-7 [354 kB]
+Get:20 http://spohr.debian.org/debian/ unstable/main quilt all 0.48-8 [357 kB]
Get:21 http://spohr.debian.org/debian/ unstable/main zlib1g-dev ia64 1:1.2.3.4.dfsg-3 [224 kB]
debconf: delaying package configuration, since apt-utils is not installed
-Fetched 11.4 MB in 0s (13.0 MB/s)
+Fetched 11.4 MB in 6s (1768 kB/s)
Selecting previously deselected package libpipeline1.
(Reading database ... 10607 files and directories currently installed.)
Unpacking libpipeline1 (from .../libpipeline1_1.2.0-3_ia64.deb) ...
@@ -226,6 +227,8 @@ Selecting previously deselected package gettext-base.
Unpacking gettext-base (from .../gettext-base_0.18.1.1-4_ia64.deb) ...
Selecting previously deselected package libxml2.
Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-4_ia64.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.99_all.deb) ...
Selecting previously deselected package html2text.
Unpacking html2text (from .../html2text_1.3.2a-15_ia64.deb) ...
Selecting previously deselected package libglib2.0-0.
@@ -241,13 +244,11 @@ 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_8.9.6_all.deb) ...
-Selecting previously deselected package cdbs.
-Unpacking cdbs (from .../archives/cdbs_0.4.96_all.deb) ...
+Unpacking debhelper (from .../debhelper_8.9.7_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) ...
+Unpacking quilt (from .../archives/quilt_0.48-8_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 libpipeline1 (1.2.0-3) ...
@@ -262,6 +263,7 @@ Setting up libmagic1 (5.08-1) ...
Setting up file (5.08-1) ...
Setting up gettext-base (0.18.1.1-4) ...
Setting up libxml2 (2.7.8.dfsg-4) ...
+Setting up cdbs (0.4.99) ...
Setting up html2text (1.3.2a-15) ...
Setting up libglib2.0-0 (2.28.6-1) ...
No schema files found: doing nothing.
@@ -270,10 +272,9 @@ Setting up libunistring0 (0.9.3-4) ...
Setting up gettext (0.18.1.1-4) ...
Setting up intltool-debian (0.35.0+20060710.1) ...
Setting up po-debconf (1.0.16+nmu1) ...
-Setting up debhelper (8.9.6) ...
-Setting up cdbs (0.4.96) ...
+Setting up debhelper (8.9.7) ...
Setting up diffstat (1.54-1) ...
-Setting up quilt (0.48-7) ...
+Setting up quilt (0.48-8) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
Removing negative dependencies:
Reading package lists...
@@ -282,11 +283,11 @@ Reading state information...
The following packages were automatically installed and are no longer required:
libppl9 libpwl5 libppl-c4 libcloog-ppl0 libgmpxx4ldbl
Use 'apt-get autoremove' to remove them.
-0 upgraded, 0 newly installed, 0 to remove and 6 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 15 not upgraded.
Checking correctness of dependencies...
Kernel: Linux 2.6.32-5-mckinley ia64 (ia64)
Toolchain package versions: binutils_2.21.53.20110823-3 dpkg-dev_1.16.0.3 g++-4.6_4.6.1-9 gcc-4.6_4.6.1-9 libc6.1-dev_2.13-19 libstdc++6_4.6.1-9 libstdc++6-4.6-dev_4.6.1-9 linux-libc-dev_3.0.0-3
-Package versions: apt_0.8.15.6 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.53.20110823-3 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 cdbs_0.4.96 coreutils_8.5-1 cpp_4:4.6.1-2 cpp-4.6_4.6.1-9 dash_0.5.7-1 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.6 debian-archive-keyring_2010.08.28 debianutils_4.0.2 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.42~WIP-2011-07-02-1 e2fsprogs_1.42~WIP-2011-07-02-1 fakeroot_1.18-1 file_5.08-1 findutils_4.4.2-1+b1 g++_4:4.6.1-2 g++-4.6_4.6.1-9 gcc_4:4.6.1-2 gcc-4.4-base_4.4.6-10 gcc-4.5-base_4.5.3-8 gcc-4.6_4.6.1-9 gcc-4.6-base_4.6.1-9 gettext_0.18.1.1-4 gettext-base_0.18.1.1-4 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.11 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-3 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbz2-1.0_1.0.5-7 libc-bin_2.13-19 libc-dev-bin_2.13-19 libc6.1_2.13-19 libc6.1-dev_2.13-19 libcloog-ppl0_0.15.9-3 libcomerr2_1.42~WIP-2011-07-02-1 libcroco3_0.6.2-1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.0.3 libgc1c2_1:7.1-8 libgcc1_1:4.6.1-9 libgdbm3_1.8.3-10 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.2+dfsg-1 libgmpxx4ldbl_2:5.0.2+dfsg-1 libgomp1_4.6.1-9 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.08-1 libmount1_2.19.1-5 libmpc2_0.9-3 libmpfr4_3.0.1-6 libncurses5_5.9-1 libpam-modules_1.1.3-2 libpam-modules-bin_1.1.3-2 libpam-runtime_1.1.3-2 libpam0g_1.1.3-2 libpcre3_8.12-4 libpipeline1_1.2.0-3 libppl-c4_0.11.2-4 libppl9_0.11.2-4 libpwl5_0.11.2-4 libquadmath0_4.6.1-9 libreadline6_6.2-4 libselinux1_2.1.0-1 libsepol1_2.1.0-1.1 libslang2_2.2.4-3 libss2_1.42~WIP-2011-07-02-1 libstdc++6_4.6.1-9 libstdc++6-4.6-dev_4.6.1-9 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libunwind7_0.99-0.3 libunwind7-dev_0.99-0.3 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-4 linux-libc-dev_3.0.0-3 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-15 mount_2.19.1-5 multiarch-support_2.13-19 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-4 perl-base_5.12.4-4 perl-modules_5.12.4-4 po-debconf_1.0.16+nmu1 quilt_0.48-7 readline-common_6.2-4 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.2-1 sysv-rc_2.88dsf-13.11 sysvinit_2.88dsf-13.11 sysvinit-utils_2.88dsf-13.11 tar_1.26-2 tzdata_2011i-2 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+Package versions: apt_0.8.15.6 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.53.20110823-3 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 cdbs_0.4.99 coreutils_8.5-1 cpp_4:4.6.1-2 cpp-4.6_4.6.1-9 dash_0.5.7-1 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.7 debian-archive-keyring_2010.08.28 debianutils_4.0.2 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.42~WIP-2011-07-02-1 e2fsprogs_1.42~WIP-2011-07-02-1 fakeroot_1.18-1 file_5.08-1 findutils_4.4.2-1+b1 g++_4:4.6.1-2 g++-4.6_4.6.1-9 gcc_4:4.6.1-2 gcc-4.4-base_4.4.6-10 gcc-4.5-base_4.5.3-8 gcc-4.6_4.6.1-9 gcc-4.6-base_4.6.1-9 gettext_0.18.1.1-4 gettext-base_0.18.1.1-4 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.11 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-3 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbz2-1.0_1.0.5-7 libc-bin_2.13-19 libc-dev-bin_2.13-19 libc6.1_2.13-19 libc6.1-dev_2.13-19 libcloog-ppl0_0.15.9-3 libcomerr2_1.42~WIP-2011-07-02-1 libcroco3_0.6.2-1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.0.3 libgc1c2_1:7.1-8 libgcc1_1:4.6.1-9 libgdbm3_1.8.3-10 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.2+dfsg-1 libgmpxx4ldbl_2:5.0.2+dfsg-1 libgomp1_4.6.1-9 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.08-1 libmount1_2.19.1-5 libmpc2_0.9-3 libmpfr4_3.0.1-6 libncurses5_5.9-1 libpam-modules_1.1.3-2 libpam-modules-bin_1.1.3-2 libpam-runtime_1.1.3-2 libpam0g_1.1.3-2 libpcre3_8.12-4 libpipeline1_1.2.0-3 libppl-c4_0.11.2-4 libppl9_0.11.2-4 libpwl5_0.11.2-4 libquadmath0_4.6.1-9 libreadline6_6.2-4 libselinux1_2.1.0-1 libsepol1_2.1.0-1.1 libslang2_2.2.4-3 libss2_1.42~WIP-2011-07-02-1 libstdc++6_4.6.1-9 libstdc++6-4.6-dev_4.6.1-9 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libunwind7_0.99-0.3 libunwind7-dev_0.99-0.3 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-4 linux-libc-dev_3.0.0-3 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-15 mount_2.19.1-5 multiarch-support_2.13-19 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-4 perl-base_5.12.4-4 perl-modules_5.12.4-4 po-debconf_1.0.16+nmu1 quilt_0.48-8 readline-common_6.2-4 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.2-1 sysv-rc_2.88dsf-13.11 sysvinit_2.88dsf-13.11 sysvinit-utils_2.88dsf-13.11 tar_1.26-2 tzdata_2011i-2 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -297,12 +298,12 @@ Unpack source
─────────────
gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
-gpgv: Signature made Sun Sep 11 00:44:52 2011 UTC using RSA key ID 2295D502
+gpgv: Signature made Sat Sep 24 01:39:55 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_2.13.1-1.dsc
-dpkg-source: info: extracting bedtools in bedtools-2.13.1
-dpkg-source: info: unpacking bedtools_2.13.1.orig.tar.xz
-dpkg-source: info: unpacking bedtools_2.13.1-1.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bedtools_2.13.2-1.dsc
+dpkg-source: info: extracting bedtools in bedtools-2.13.2
+dpkg-source: info: unpacking bedtools_2.13.2.orig.tar.xz
+dpkg-source: info: unpacking bedtools_2.13.2-1.debian.tar.gz
dpkg-source: info: applying gzstream.h.patch
Check disc space
@@ -318,24 +319,24 @@ 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 2.13.1-1
- dpkg-source --before-build bedtools-2.13.1
+dpkg-buildpackage: source version 2.13.2-1
+ dpkg-source --before-build bedtools-2.13.2
dpkg-buildpackage: host architecture ia64
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_2.13.1-1-ia64-ftwQbc/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-ia64-TgnPuD/bedtools-2.13.2'
Cleaning up.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-ia64-ftwQbc/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-ia64-TgnPuD/bedtools-2.13.2'
dh_clean
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/build/buildd-bedtools_2.13.1-1-ia64-ftwQbc/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-ia64-TgnPuD/bedtools-2.13.2'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-ia64-ftwQbc/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-ia64-TgnPuD/bedtools-2.13.2'
if [ -d "." ]; then \
- cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.1-1-ia64-ftwQbc/bedtools-2.13.1/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
+ cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.2-1-ia64-TgnPuD/bedtools-2.13.2/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
fi
Removing patch gzstream.h.patch
Restoring src/utils/gzstream/gzstream.C
@@ -348,21 +349,21 @@ test -x debian/rules
mkdir -p "."
/usr/share/cdbs/1/rules/buildcore.mk:109: WARNING: DEB_DH_BUILDDEB_ARGS is a deprecated variable
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/build/buildd-bedtools_2.13.1-1-ia64-ftwQbc/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-ia64-TgnPuD/bedtools-2.13.2'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-ia64-ftwQbc/bedtools-2.13.1'
-cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.1-1-ia64-ftwQbc/bedtools-2.13.1/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-ia64-TgnPuD/bedtools-2.13.2'
+cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.2-1-ia64-TgnPuD/bedtools-2.13.2/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_2.13.1-1-ia64-ftwQbc/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-ia64-TgnPuD/bedtools-2.13.2'
make[1]: Nothing to be done for `update-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-ia64-ftwQbc/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-ia64-TgnPuD/bedtools-2.13.2'
/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_2.13.1-1-ia64-ftwQbc/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-ia64-TgnPuD/bedtools-2.13.2'
[ -d obj ] || mkdir -p obj
[ -d bin ] || mkdir -p bin
Building BEDTools:
@@ -376,10 +377,8 @@ Building BEDTools:
- Building in src/utils/bedGraphFile
* compiling bedGraphFile.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/chromsweep
+ * compiling chromsweep.cpp
- Building in src/utils/gzstream
g++ -g -O2 -g -O2 -Wall -c -o ../../../obj//gzstream.o gzstream.C -I.
@@ -444,6 +443,11 @@ Fasta.cpp:31:17: warning: converting to non-pointer type 'int' from NULL [-Wconv
Fasta.cpp:32:17: warning: converting to non-pointer type 'int' from NULL [-Wconversion-null]
* compiling split.cpp
+- Building in src/utils/genomeFile
+ * compiling genomeFile.cpp
+genomeFile.cpp: In member function 'void GenomeFile::loadGenomeFileIntoMap()':
+genomeFile.cpp:61:26: warning: variable 'c2' set but not used [-Wunused-but-set-variable]
+
- Building in src/annotateBed
* compiling annotateMain.cpp
annotateMain.cpp: In function 'int main(int, char**)':
@@ -548,9 +552,9 @@ 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:254:12: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp:255:12: 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:306:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp:307:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
* linking pairToBed
- Building in src/pairToPair
@@ -606,7 +610,7 @@ unionBedGraphsMain.cpp:49:10: warning: variable 'haveFiller' set but not used [-
* compiling windowBed.cpp
* linking windowBed
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-ia64-ftwQbc/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-ia64-TgnPuD/bedtools-2.13.2'
touch debian/stamp-makefile-build
DEB_MAKE_CHECK_TARGET unset, not running checks
fakeroot debian/rules binary-arch
@@ -648,65 +652,60 @@ 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/multiBamCov debian/bedtools/usr/bin/pairToBed debian/bedtools/usr/bin/bed12ToBed6 debian/bedtools/usr/bin/bamToBed debian/bedtools/usr/bin/coverageBed debian/bedtools/usr/bin/closestBed debian/bedtools/usr/bin/fastaFromBed debian/bedtools/usr/bin/overlap 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/pairToPair debian/bedtools/usr/bin/shuffleBed debian/bedtools/usr/bin/mergeBed debian/bedtools/usr/bin/nucBed debian/bedtools/usr/bin/bedToIgv debian/bedtools/usr/bin/windowBed debian/bedtools/usr/bin/linksBed debian/bedtools/usr/bin/tagBam 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).
+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/multiBamCov 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/pairToPair debian/bedtools/usr/bin/shuffleBed debian/bedtools/usr/bin/mergeBed debian/bedtools/usr/bin/nucBed debian/bedtools/usr/bin/bedToIgv debian/bedtools/usr/bin/windowBed debian/bedtools/usr/bin/tagBam 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 -- -Z xz
-dpkg-deb: building package `bedtools' in `../bedtools_2.13.1-1_ia64.deb'.
- dpkg-genchanges -B -mia64 Build Daemon (mundy) <buildd_ia64-mundy at buildd.debian.org> >../bedtools_2.13.1-1_ia64.changes
+dpkg-deb: building package `bedtools' in `../bedtools_2.13.2-1_ia64.deb'.
+ dpkg-genchanges -B -mia64 Build Daemon (alkman) <buildd_ia64-alkman at buildd.debian.org> >../bedtools_2.13.2-1_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-2.13.1
+ dpkg-source --after-build bedtools-2.13.2
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110911-0123
+Build finished at 20110924-0458
-bedtools_2.13.1-1_ia64.changes:
+bedtools_2.13.2-1_ia64.changes:
Format: 1.8
-Date: Sat, 10 Sep 2011 23:32:43 +0900
+Date: Sat, 24 Sep 2011 09:34:29 +0900
Source: bedtools
Binary: bedtools
Architecture: ia64
-Version: 2.13.1-1
+Version: 2.13.2-1
Distribution: sid
Urgency: low
-Maintainer: ia64 Build Daemon (mundy) <buildd_ia64-mundy at buildd.debian.org>
+Maintainer: ia64 Build Daemon (alkman) <buildd_ia64-alkman at buildd.debian.org>
Changed-By: Charles Plessy <plessy at debian.org>
Description:
bedtools - suite of utilities for comparing genomic features
Changes:
- bedtools (2.13.1-1) unstable; urgency=low
+ bedtools (2.13.2-1) unstable; urgency=low
.
- [2e3fe5e] New upstream release.
- [ff5450e] Compress source and binary packages with xz.
- [ef58a33] Suggest filo for the groupBy command.
- [df206c0] Mangle debian/watch download URL.
- [2fe7cff] Simplified repacking as upstream tarballs do not contain
- ‘*/*DS_Store’ files anymore.
+ [1930a26] New upstream release.
Checksums-Sha1:
- fdb16f89167d253b61d819a3f1d6f909f2881c00 720166 bedtools_2.13.1-1_ia64.deb
+ 60341ce50ab66cbb47de7a44fed7dfd4e55d0bff 744034 bedtools_2.13.2-1_ia64.deb
Checksums-Sha256:
- 4980390175f4d313dd7485ca2f0c5db70ecc8b2140033aab8b9eb19cbd4af03c 720166 bedtools_2.13.1-1_ia64.deb
+ 70d9c7fc8ab9a57c23984a31bffab2c3592fb8a99eef102011830d762b9c965e 744034 bedtools_2.13.2-1_ia64.deb
Files:
- dea4aa02818809c0187560d85ea630ee 720166 science optional bedtools_2.13.1-1_ia64.deb
+ ff9d5d42aa8e89520c8637433db4c929 744034 science optional bedtools_2.13.2-1_ia64.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bedtools_2.13.1-1_ia64.deb
+bedtools_2.13.2-1_ia64.deb
──────────────────────────
new debian package, version 2.0.
- size 720166 bytes: control archive= 1730 bytes.
- 848 bytes, 18 lines control
- 2028 bytes, 35 lines md5sums
+ size 744034 bytes: control archive= 1725 bytes.
+ 849 bytes, 18 lines control
+ 2025 bytes, 35 lines md5sums
Package: bedtools
- Version: 2.13.1-1
+ Version: 2.13.2-1
Architecture: ia64
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 9580
+ Installed-Size: 10272
Depends: libc6.1 (>= 2.2), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0), libunwind7, zlib1g (>= 1:1.1.4)
Suggests: filo
Section: science
@@ -721,49 +720,49 @@ bedtools_2.13.1-1_ia64.deb
.
The groupBy utility is distribued in the filo package.
-drwxr-xr-x root/root 0 2011-09-11 01:23 ./
-drwxr-xr-x root/root 0 2011-09-11 01:23 ./usr/
-drwxr-xr-x root/root 0 2011-09-11 01:23 ./usr/share/
-drwxr-xr-x root/root 0 2011-09-11 01:23 ./usr/share/bedtools/
-drwxr-xr-x root/root 0 2011-09-11 01:15 ./usr/share/bedtools/genomes/
--rwxr-xr-x root/root 565 2011-09-07 00:36 ./usr/share/bedtools/genomes/mouse.mm8.genome
--rwxr-xr-x root/root 856 2011-09-07 00:36 ./usr/share/bedtools/genomes/human.hg18.genome
--rwxr-xr-x root/root 1972 2011-09-07 00:36 ./usr/share/bedtools/genomes/human.hg19.genome
--rwxr-xr-x root/root 586 2011-09-07 00:36 ./usr/share/bedtools/genomes/mouse.mm9.genome
-drwxr-xr-x root/root 0 2011-09-11 01:23 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-09-11 01:23 ./usr/share/doc/bedtools/
--rw-r--r-- root/root 10990 2011-09-07 00:36 ./usr/share/doc/bedtools/changelog.gz
--rw-r--r-- root/root 4611 2011-09-10 14:21 ./usr/share/doc/bedtools/copyright
--rw-r--r-- root/root 1586 2011-09-07 00:36 ./usr/share/doc/bedtools/README.rst.gz
--rw-r--r-- root/root 391 2011-09-10 14:32 ./usr/share/doc/bedtools/changelog.Debian.gz
-drwxr-xr-x root/root 0 2011-09-11 01:23 ./usr/bin/
--rwxr-xr-x root/root 456592 2011-09-11 01:23 ./usr/bin/bamToBed
--rwxr-xr-x root/root 178016 2011-09-11 01:23 ./usr/bin/overlap
--rwxr-xr-x root/root 267936 2011-09-11 01:23 ./usr/bin/shuffleBed
--rwxr-xr-x root/root 469176 2011-09-11 01:23 ./usr/bin/bedToBam
--rwxr-xr-x root/root 217248 2011-09-11 01:23 ./usr/bin/complementBed
--rwxr-xr-x root/root 586280 2011-09-11 01:23 ./usr/bin/windowBed
--rwxr-xr-x root/root 214384 2011-09-11 01:23 ./usr/bin/slopBed
--rwxr-xr-x root/root 304704 2011-09-11 01:23 ./usr/bin/sortBed
--rwxr-xr-x root/root 225672 2011-09-11 01:23 ./usr/bin/maskFastaFromBed
--rwxr-xr-x root/root 296840 2011-09-11 01:23 ./usr/bin/nucBed
--rwxr-xr-x root/root 293040 2011-09-11 01:23 ./usr/bin/fastaFromBed
--rwxr-xr-x root/root 220408 2011-09-11 01:23 ./usr/bin/mergeBed
--rwxr-xr-x root/root 233320 2011-09-11 01:23 ./usr/bin/subtractBed
--rwxr-xr-x root/root 247728 2011-09-11 01:23 ./usr/bin/closestBed
--rwxr-xr-x root/root 621632 2011-09-11 01:23 ./usr/bin/intersectBed
--rwxr-xr-x root/root 198832 2011-09-11 01:23 ./usr/bin/bed12ToBed6
--rwxr-xr-x root/root 558992 2011-09-11 01:23 ./usr/bin/tagBam
--rwxr-xr-x root/root 244240 2011-09-11 01:23 ./usr/bin/bedToIgv
--rwxr-xr-x root/root 219672 2011-09-11 01:23 ./usr/bin/linksBed
--rwxr-xr-x root/root 215952 2011-09-11 01:23 ./usr/bin/annotateBed
--rwxr-xr-x root/root 572584 2011-09-11 01:23 ./usr/bin/coverageBed
--rwxr-xr-x root/root 379184 2011-09-11 01:23 ./usr/bin/pairToPair
--rwxr-xr-x root/root 602928 2011-09-11 01:23 ./usr/bin/genomeCoverageBed
--rwxr-xr-x root/root 619648 2011-09-11 01:23 ./usr/bin/multiBamCov
--rwxr-xr-x root/root 118456 2011-09-11 01:23 ./usr/bin/unionBedGraphs
--rwxr-xr-x root/root 769440 2011-09-11 01:23 ./usr/bin/pairToBed
--rwxr-xr-x root/root 231104 2011-09-11 01:23 ./usr/bin/flankBed
+drwxr-xr-x root/root 0 2011-09-24 04:57 ./
+drwxr-xr-x root/root 0 2011-09-24 04:57 ./usr/
+drwxr-xr-x root/root 0 2011-09-24 04:57 ./usr/bin/
+-rwxr-xr-x root/root 216544 2011-09-24 04:57 ./usr/bin/annotateBed
+-rwxr-xr-x root/root 456592 2011-09-24 04:57 ./usr/bin/bamToBed
+-rwxr-xr-x root/root 199440 2011-09-24 04:57 ./usr/bin/bed12ToBed6
+-rwxr-xr-x root/root 471744 2011-09-24 04:57 ./usr/bin/bedToBam
+-rwxr-xr-x root/root 246744 2011-09-24 04:57 ./usr/bin/bedToIgv
+-rwxr-xr-x root/root 248720 2011-09-24 04:57 ./usr/bin/closestBed
+-rwxr-xr-x root/root 219816 2011-09-24 04:57 ./usr/bin/complementBed
+-rwxr-xr-x root/root 573176 2011-09-24 04:57 ./usr/bin/coverageBed
+-rwxr-xr-x root/root 293648 2011-09-24 04:57 ./usr/bin/fastaFromBed
+-rwxr-xr-x root/root 234008 2011-09-24 04:57 ./usr/bin/flankBed
+-rwxr-xr-x root/root 605640 2011-09-24 04:57 ./usr/bin/genomeCoverageBed
+-rwxr-xr-x root/root 725680 2011-09-24 04:57 ./usr/bin/intersectBed
+-rwxr-xr-x root/root 220280 2011-09-24 04:57 ./usr/bin/linksBed
+-rwxr-xr-x root/root 226280 2011-09-24 04:57 ./usr/bin/maskFastaFromBed
+-rwxr-xr-x root/root 221000 2011-09-24 04:57 ./usr/bin/mergeBed
+-rwxr-xr-x root/root 620256 2011-09-24 04:57 ./usr/bin/multiBamCov
+-rwxr-xr-x root/root 297448 2011-09-24 04:57 ./usr/bin/nucBed
+-rwxr-xr-x root/root 178672 2011-09-24 04:57 ./usr/bin/overlap
+-rwxr-xr-x root/root 770432 2011-09-24 04:57 ./usr/bin/pairToBed
+-rwxr-xr-x root/root 377984 2011-09-24 04:57 ./usr/bin/pairToPair
+-rwxr-xr-x root/root 270504 2011-09-24 04:57 ./usr/bin/shuffleBed
+-rwxr-xr-x root/root 216952 2011-09-24 04:57 ./usr/bin/slopBed
+-rwxr-xr-x root/root 305632 2011-09-24 04:57 ./usr/bin/sortBed
+-rwxr-xr-x root/root 234248 2011-09-24 04:57 ./usr/bin/subtractBed
+-rwxr-xr-x root/root 564800 2011-09-24 04:57 ./usr/bin/tagBam
+-rwxr-xr-x root/root 120416 2011-09-24 04:57 ./usr/bin/unionBedGraphs
+-rwxr-xr-x root/root 586936 2011-09-24 04:57 ./usr/bin/windowBed
+drwxr-xr-x root/root 0 2011-09-24 04:57 ./usr/share/
+drwxr-xr-x root/root 0 2011-09-24 04:57 ./usr/share/bedtools/
+drwxr-xr-x root/root 0 2011-09-24 04:48 ./usr/share/bedtools/genomes/
+-rwxr-xr-x root/root 856 2011-09-23 15:57 ./usr/share/bedtools/genomes/human.hg18.genome
+-rwxr-xr-x root/root 1972 2011-09-23 15:57 ./usr/share/bedtools/genomes/human.hg19.genome
+-rwxr-xr-x root/root 565 2011-09-23 15:57 ./usr/share/bedtools/genomes/mouse.mm8.genome
+-rwxr-xr-x root/root 585 2011-09-23 15:57 ./usr/share/bedtools/genomes/mouse.mm9.genome
+drwxr-xr-x root/root 0 2011-09-24 04:57 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-09-24 04:57 ./usr/share/doc/bedtools/
+-rw-r--r-- root/root 417 2011-09-24 00:36 ./usr/share/doc/bedtools/changelog.Debian.gz
+-rw-r--r-- root/root 11135 2011-09-23 15:57 ./usr/share/doc/bedtools/changelog.gz
+-rw-r--r-- root/root 4611 2011-09-24 00:33 ./usr/share/doc/bedtools/copyright
+-rw-r--r-- root/root 1442 2011-09-23 15:57 ./usr/share/doc/bedtools/README.rst
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -777,7 +776,7 @@ Built successfully
│ Post Build │
└──────────────────────────────────────────────────────────────────────────────┘
-Purging /var/lib/schroot/mount/sid-ia64-sbuild-4ddb4911-b790-4238-a222-048556b6ed53/build/buildd-bedtools_2.13.1-1-ia64-ftwQbc
+Purging /var/lib/schroot/mount/sid-ia64-sbuild-cef8bc2b-9c7d-4a3d-96ee-8d62ac3d15a1/build/buildd-bedtools_2.13.2-1-ia64-TgnPuD
Not cleaning session: cloned chroot in use
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -785,19 +784,19 @@ Not cleaning session: cloned chroot in use
└──────────────────────────────────────────────────────────────────────────────┘
Architecture: ia64
-Build-Space: 151388
-Build-Time: 512
+Build-Space: 161388
+Build-Time: 580
Distribution: sid
-Install-Time: 60
-Job: bedtools_2.13.1-1
+Install-Time: 69
+Job: bedtools_2.13.2-1
Package: bedtools
-Package-Time: 624
-Source-Version: 2.13.1-1
-Space: 151388
+Package-Time: 700
+Source-Version: 2.13.2-1
+Space: 161388
Status: successful
-Version: 2.13.1-1
+Version: 2.13.2-1
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110911-0123
-Build needed 00:10:24, 151388k disc space
-Signature with key '96FA48F4' requested:
+Finished at 20110924-0458
+Build needed 00:11:40, 161388k disc space
+Signature with key 'C6591CE9' requested:
diff --git a/info b/info
index 85d58fb..583aa9a 100644
--- a/info
+++ b/info
@@ -1,11 +1,11 @@
-i386~1315703527~sid~successful
-powerpc~1315703659~sid~successful
-kfreebsd-i386~1315703927~sid~successful
-s390~1315704226~sid~successful
-ia64~1315704228~sid~successful
-mips~1315704574~sid~successful
-mipsel~1315704673~sid~successful
-armel~1315704839~sid~successful
-kfreebsd-amd64~1315706138~sid~successful
-sparc~1315712893~sid~successful
-hurd-i386~1315793571~sid~successful
+kfreebsd-amd64~1316834703~sid~successful
+i386~1316834772~sid~successful
+powerpc~1316834926~sid~successful
+s390~1316835803~sid~successful
+kfreebsd-i386~1316836045~sid~successful
+armel~1316837171~sid~successful
+mipsel~1316838555~sid~successful
+ia64~1316840296~sid~successful
+sparc~1316840547~sid~successful
+hurd-i386~1316846333~sid~successful
+mips~1316969457~sid~successful
diff --git a/kfreebsd-amd64.log b/kfreebsd-amd64.log
index 8611756..e1c2e73 100644
--- a/kfreebsd-amd64.log
+++ b/kfreebsd-amd64.log
@@ -1,30 +1,30 @@
-From buildd at fano.debian.org Sun Sep 11 01:55:37 2011
+From buildd at fano.debian.org Sat Sep 24 03:25:03 2011
Return-path: <buildd at fano.debian.org>
-Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
+Received: from kokkonen.debian.org ([2001:41b8:202:deb:1a1a:0:52c3:4b61])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
- CN=merikanto.debian.org,
- EMAIL=hostmaster at merikanto.debian.org (verified)
+ CN=kokkonen.debian.org,
+ EMAIL=hostmaster at kokkonen.debian.org (verified)
by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
(Exim 4.72) (envelope-from <buildd at fano.debian.org>)
- id 1R2ZGj-00040H-9G
- for logs at buildd.debian.org; Sun, 11 Sep 2011 01:55:37 +0000
+ id 1R7IrO-0001Pz-Rb
+ for logs at buildd.debian.org; Sat, 24 Sep 2011 03:25:02 +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)
+ by kokkonen.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
(Exim 4.72) (envelope-from <buildd at fano.debian.org>)
- id 1R2ZGh-00016a-JL; Sun, 11 Sep 2011 01:55:35 +0000
+ id 1R7IrN-0002DY-CF; Sat, 24 Sep 2011 03:25:01 +0000
Received: from buildd by fano.debian.org with local (Exim 4.72)
(envelope-from <buildd at fano.debian.org>)
- id 1R2ZGe-000PkI-79; Sun, 11 Sep 2011 01:55:32 +0000
-Message-Id: <E1R2ZGe-000PkI-79 at fano.debian.org>
+ id 1R7IrL-0007RP-1u; Sat, 24 Sep 2011 03:24:59 +0000
+Message-Id: <E1R7IrL-0007RP-1u 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: Sun, 11 Sep 2011 01:55:32 +0000
+Date: Sat, 24 Sep 2011 03:24:58 +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_2.13.1-1 on kfreebsd-amd64
+Subject: Log for successful build of bedtools_2.13.2-1 on kfreebsd-amd64
(dist=sid)
Key-Id: 911EAB69
Delivered-To: logs at buildd.debian.org
@@ -32,46 +32,50 @@ Delivered-To: logs at buildd.debian.org
sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on fano.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bedtools 2.13.1-1 (kfreebsd-amd64) 11 Sep 2011 01:51 ║
+║ bedtools 2.13.2-1 (kfreebsd-amd64) 24 Sep 2011 03:20 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bedtools
-Version: 2.13.1-1
-Source Version: 2.13.1-1
+Version: 2.13.2-1
+Source Version: 2.13.2-1
Architecture: kfreebsd-amd64
-Hit http://incoming.debian.org sid InRelease
+Get:1 http://incoming.debian.org sid InRelease [146 kB]
Ign http://incoming.debian.org InRelease
-Get:1 http://incoming.debian.org Release.gpg [836 B]
+Get:2 http://incoming.debian.org Release.gpg [836 B]
+Get:3 http://incoming.debian.org sid/main Sources/DiffIndex [2038 B]
Hit http://mirror-ubc.debian.org sid InRelease
-Hit http://mirror-ubc.debian.org sid/main Sources/DiffIndex
-Hit http://incoming.debian.org sid/main Sources/DiffIndex
Hit http://incoming.debian.org sid/contrib Sources/DiffIndex
Hit http://incoming.debian.org sid/non-free Sources/DiffIndex
-Hit http://incoming.debian.org sid/main kfreebsd-amd64 Packages/DiffIndex
+Get:4 http://incoming.debian.org sid/main kfreebsd-amd64 Packages/DiffIndex [2038 B]
Hit http://incoming.debian.org sid/contrib kfreebsd-amd64 Packages/DiffIndex
Hit http://incoming.debian.org sid/non-free kfreebsd-amd64 Packages/DiffIndex
Ign http://incoming.debian.org sid/contrib TranslationIndex
-Hit http://incoming.debian.org sid/main TranslationIndex
+Get:5 http://incoming.debian.org sid/main TranslationIndex [2045 B]
Ign http://incoming.debian.org sid/non-free TranslationIndex
+Hit http://mirror-ubc.debian.org sid/main Sources/DiffIndex
+Get:6 http://incoming.debian.org Release [1604 B]
+Get:7 http://incoming.debian.org sid/main 2011-09-24-0213.05.pdiff [16.1 kB]
+Get:8 http://incoming.debian.org sid/main kfreebsd-amd64 2011-09-24-0213.05.pdiff [27.8 kB]
+Get:9 http://incoming.debian.org sid/non-free kfreebsd-amd64 Packages [87.2 kB]
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
+Get:10 http://mirror-ubc.debian.org sid/main TranslationIndex [2045 B]
Ign http://mirror-ubc.debian.org sid/non-free TranslationIndex
+Get:11 http://incoming.debian.org sid/main 2011-09-24-0213.05.pdiff [16.1 kB]
Hit http://mirror-ubc.debian.org sid/non-free kfreebsd-amd64 Packages
+Get:12 http://incoming.debian.org sid/main kfreebsd-amd64 2011-09-24-0213.05.pdiff [27.8 kB]
Ign http://mirror-ubc.debian.org sid/contrib Translation-en
Ign http://mirror-ubc.debian.org sid/non-free Translation-en
-Get:2 http://incoming.debian.org Release [1604 B]
-Hit http://incoming.debian.org sid/non-free kfreebsd-amd64 Packages
-Get:3 http://incoming.debian.org Sources [32.0 kB]
-Get:4 http://incoming.debian.org Packages [289 kB]
+Get:13 http://incoming.debian.org Sources [32.8 kB]
+Get:14 http://incoming.debian.org Packages [561 kB]
Ign http://incoming.debian.org sid/contrib Translation-en
Ign http://incoming.debian.org sid/non-free Translation-en
Ign http://incoming.debian.org Translation-en
-Fetched 323 kB in 3s (87.7 kB/s)
+Fetched 882 kB in 7s (115 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -92,11 +96,11 @@ 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 664 kB of source archives.
-Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (dsc) [1921 B]
-Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (tar) [658 kB]
-Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (diff) [4254 B]
-Fetched 664 kB in 1s (514 kB/s)
+Need to get 666 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (dsc) [1967 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (tar) [659 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (diff) [4285 B]
+Fetched 666 kB in 1s (549 kB/s)
Download complete and in download only mode
Check arch
@@ -116,12 +120,12 @@ Installing positive dependencies:
Reading package lists...
Building dependency tree...
Reading state information...
-0 upgraded, 0 newly installed, 0 to remove and 6 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 4 not upgraded.
Removing negative dependencies:
Reading package lists...
Building dependency tree...
Reading state information...
-0 upgraded, 0 newly installed, 0 to remove and 6 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 4 not upgraded.
Checking correctness of dependencies...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -161,7 +165,7 @@ 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 8.9.6
+Using default version 8.9.7
quilt: missing
zlib1g-dev: missing
Checking for dependency conflicts...
@@ -184,11 +188,11 @@ The following NEW packages will be installed:
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, 20 newly installed, 0 to remove and 6 not upgraded.
-Need to get 0 B/9581 kB of archives.
-After this operation, 27.2 MB of additional disk space will be used.
+0 upgraded, 20 newly installed, 0 to remove and 4 not upgraded.
+Need to get 0 B/9575 kB of archives.
+After this operation, 27.0 MB of additional disk space will be used.
Selecting previously deselected package libpipeline1.
-(Reading database ... 12210 files and directories currently installed.)
+(Reading database ... 12212 files and directories currently installed.)
Unpacking libpipeline1 (from .../libpipeline1_1.2.0-3_kfreebsd-amd64.deb) ...
Selecting previously deselected package libpcre3.
Unpacking libpcre3 (from .../libpcre3_8.12-4_kfreebsd-amd64.deb) ...
@@ -204,6 +208,8 @@ Selecting previously deselected package gettext-base.
Unpacking gettext-base (from .../gettext-base_0.18.1.1-4_kfreebsd-amd64.deb) ...
Selecting previously deselected package libxml2.
Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-4_kfreebsd-amd64.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.99_all.deb) ...
Selecting previously deselected package html2text.
Unpacking html2text (from .../html2text_1.3.2a-15_kfreebsd-amd64.deb) ...
Selecting previously deselected package libglib2.0-0.
@@ -219,13 +225,11 @@ 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_8.9.6_all.deb) ...
-Selecting previously deselected package cdbs.
-Unpacking cdbs (from .../archives/cdbs_0.4.96_all.deb) ...
+Unpacking debhelper (from .../debhelper_8.9.7_all.deb) ...
Selecting previously deselected package diffstat.
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) ...
+Unpacking quilt (from .../archives/quilt_0.48-8_all.deb) ...
Selecting previously deselected package zlib1g-dev.
Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_kfreebsd-amd64.deb) ...
Setting up libpipeline1 (1.2.0-3) ...
@@ -237,6 +241,7 @@ Setting up libmagic1 (5.08-1) ...
Setting up file (5.08-1) ...
Setting up gettext-base (0.18.1.1-4) ...
Setting up libxml2 (2.7.8.dfsg-4) ...
+Setting up cdbs (0.4.99) ...
Setting up html2text (1.3.2a-15) ...
Setting up libglib2.0-0 (2.28.6-1) ...
No schema files found: doing nothing.
@@ -245,20 +250,19 @@ Setting up libunistring0 (0.9.3-4) ...
Setting up gettext (0.18.1.1-4) ...
Setting up intltool-debian (0.35.0+20060710.1) ...
Setting up po-debconf (1.0.16+nmu1) ...
-Setting up debhelper (8.9.6) ...
-Setting up cdbs (0.4.96) ...
+Setting up debhelper (8.9.7) ...
Setting up diffstat (1.54-1) ...
-Setting up quilt (0.48-7) ...
+Setting up quilt (0.48-8) ...
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 6 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 4 not upgraded.
Checking correctness of dependencies...
Kernel: GNU/kFreeBSD 8.1-1-amd64 kfreebsd-amd64 (x86_64)
-Toolchain package versions: binutils_2.21.53.20110823-3 dpkg-dev_1.16.0.3 g++-4.6_4.6.1-9 gcc-4.6_4.6.1-9 kfreebsd-kernel-headers_0.57 libc0.1-dev_2.13-19 libstdc++6_4.6.1-9 libstdc++6-4.6-dev_4.6.1-9
-Package versions: apt_0.8.15.6 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.53.20110823-3 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 cdbs_0.4.96 coreutils_8.5-1 cpio_2.11-7 cpp_4:4.6.1-2 cpp-4.6_4.6.1-9 dash_0.5.7-1 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.6 debian-archive-keyring_2010.08.28 debianutils_4.0.2 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.42~WIP-2011-07-02-1 e2fsprogs_1.42~WIP-2011-07-02-1 fakeroot_1.17-1 file_5.08-1 findutils_4.4.2-1 freebsd-utils_8.2+ds2-5 g++_4:4.6.1-2 g++-4.6_4.6.1-9 gcc_4:4.6.1-2 gcc-4.2-base_4.2.4-6 gcc-4.4-base_4.4.6-10 gcc-4.5-base_4.5.3-8 gcc-4.6_4.6.1-9 gcc-4.6-base_4.6.1-9 gettext_0.18.1.1-4 gettext-base_0.18.1.1-4 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.11 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 kfreebsd-kernel-headers_0.57 libacl1_2.2.51-3 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbsd0_0.3.0-1 libbz2-1.0_1.0.5-7 libc-bin_2.13-19 libc-dev-bin_2.13-19 libc0.1_2.13-19 libc0.1-dev_2.13-19 libcam0_8.2+ds1-4 libcomerr2_1.42~WIP-2011-07-02-1 libcroco3_0.6.2-1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.0.3 libexpat1_2.0.1-7 libgc1c2_1:7.1-8 libgcc1_1:4.6.1-9 libgdbm3_1.8.3-10 libgeom1_8.2+ds1-4 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.2+dfsg-1 libgomp1_4.6.1-9 libgssglue1_0.3-3 libjail1_8.2+ds1-4 libkiconv4_8.2+ds1-4 libkvm0_8.2+ds1-4 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.08-1 libmpc2_0.9-3 libmpfr4_3.0.1-6 libncurses5_5.9-1 libncursesw5_5.9-1 libpam-modules_1.1.3-2 libpam-modules-bin_1.1.3-2 libpam-runtime_1.1.3-2 libpam0g_1.1.3-2 libpcre3_8.12-4 libpipeline1_1.2.0-3 libpng12-0_1.2.46-3 libquadmath0_4.6.1-9 libreadline6_6.2-4 libsbuf0_8.2+ds1-4 libslang2_2.2.4-3 libss2_1.42~WIP-2011-07-02-1 libstdc++6_4.6.1-9 libstdc++6-4.6-dev_4.6.1-9 libtimedate-perl_1.2000-1 libtirpc1_0.2.2-5 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-4 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 lzma_4.43-14 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-15 multiarch-support_2.13-19 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-4 perl-base_5.12.4-4 perl-modules_5.12.4-4 po-debconf_1.0.16+nmu1 procps_1:3.2.8-11 psmisc_22.13-1 quilt_0.48-7 readline-common_6.2-4 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.2-1 sysv-rc_2.88dsf-13.11 sysvinit_2.88dsf-13.11 sysvinit-utils_2.88dsf-13.11 tar_1.25-3 type-handling_0.2.23 tzdata_2011i-2 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+Toolchain package versions: binutils_2.21.53.20110910-1 dpkg-dev_1.16.0.3 g++-4.6_4.6.1-11 gcc-4.6_4.6.1-11 kfreebsd-kernel-headers_0.57 libc0.1-dev_2.13-21 libstdc++6_4.6.1-11 libstdc++6-4.6-dev_4.6.1-11
+Package versions: apt_0.8.15.8 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.53.20110910-1 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 cdbs_0.4.99 coreutils_8.5-1 cpio_2.11-7 cpp_4:4.6.1-2 cpp-4.6_4.6.1-11 dash_0.5.7-1 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.7 debian-archive-keyring_2010.08.28 debianutils_4.0.2 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.42~WIP-2011-07-02-1 e2fsprogs_1.42~WIP-2011-07-02-1 fakeroot_1.17-1 file_5.08-1 findutils_4.4.2-1 freebsd-utils_8.2+ds2-5 g++_4:4.6.1-2 g++-4.6_4.6.1-11 gcc_4:4.6.1-2 gcc-4.2-base_4.2.4-6 gcc-4.4-base_4.4.6-11 gcc-4.6_4.6.1-11 gcc-4.6-base_4.6.1-11 gettext_0.18.1.1-4 gettext-base_0.18.1.1-4 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.11 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 kfreebsd-kernel-headers_0.57 libacl1_2.2.51-3 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbsd0_0.3.0-1 libbz2-1.0_1.0.5-7 libc-bin_2.13-21 libc-dev-bin_2.13-21 libc0.1_2.13-21 libc0.1-dev_2.13-21 libcam0_8.2+ds1-4 libcomerr2_1.42~WIP-2011-07-02-1 libcroco3_0.6.2-1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.0.3 libexpat1_2.0.1-7 libgc1c2_1:7.1-8 libgcc1_1:4.6.1-11 libgdbm3_1.8.3-10 libgeom1_8.2+ds1-4 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.2+dfsg-1 libgomp1_4.6.1-11 libgssglue1_0.3-3 libjail1_8.2+ds1-4 libkiconv4_8.2+ds1-4 libkvm0_8.2+ds1-4 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.08-1 libmpc2_0.9-3 libmpfr4_3.0.1-6 libncurses5_5.9-1 libncursesw5_5.9-1 libpam-modules_1.1.3-2 libpam-modules-bin_1.1.3-2 libpam-runtime_1.1.3-2 libpam0g_1.1.3-2 libpcre3_8.12-4 libpipeline1_1.2.0-3 libpng12-0_1.2.46-3 libquadmath0_4.6.1-11 libreadline6_6.2-4 libsbuf0_8.2+ds1-4 libslang2_2.2.4-3 libss2_1.42~WIP-2011-07-02-1 libstdc++6_4.6.1-11 libstdc++6-4.6-dev_4.6.1-11 libtimedate-perl_1.2000-1 libtirpc1_0.2.2-5 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-4 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 lzma_4.43-14 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-15 multiarch-support_2.13-21 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-4 perl-base_5.12.4-4 perl-modules_5.12.4-4 po-debconf_1.0.16+nmu1 procps_1:3.2.8-11 psmisc_22.13-1 quilt_0.48-8 readline-common_6.2-4 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.2-1 sysv-rc_2.88dsf-13.11 sysvinit_2.88dsf-13.11 sysvinit-utils_2.88dsf-13.11 tar_1.25-3 type-handling_0.2.23 tzdata_2011j-1 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -269,12 +273,12 @@ Unpack source
─────────────
gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
-gpgv: Signature made Sun Sep 11 00:44:52 2011 UTC using RSA key ID 2295D502
+gpgv: Signature made Sat Sep 24 01:39:55 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_2.13.1-1.dsc
-dpkg-source: info: extracting bedtools in bedtools-2.13.1
-dpkg-source: info: unpacking bedtools_2.13.1.orig.tar.xz
-dpkg-source: info: unpacking bedtools_2.13.1-1.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bedtools_2.13.2-1.dsc
+dpkg-source: info: extracting bedtools in bedtools-2.13.2
+dpkg-source: info: unpacking bedtools_2.13.2.orig.tar.xz
+dpkg-source: info: unpacking bedtools_2.13.2-1.debian.tar.gz
dpkg-source: info: applying gzstream.h.patch
Check disc space
@@ -290,24 +294,24 @@ 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 2.13.1-1
- dpkg-source --before-build bedtools-2.13.1
+dpkg-buildpackage: source version 2.13.2-1
+ dpkg-source --before-build bedtools-2.13.2
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 `/build/buildd-bedtools_2.13.1-1-kfreebsd-amd64-Km4gug/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-kfreebsd-amd64-o7Kzsl/bedtools-2.13.2'
Cleaning up.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-kfreebsd-amd64-Km4gug/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-kfreebsd-amd64-o7Kzsl/bedtools-2.13.2'
dh_clean
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/build/buildd-bedtools_2.13.1-1-kfreebsd-amd64-Km4gug/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-kfreebsd-amd64-o7Kzsl/bedtools-2.13.2'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-kfreebsd-amd64-Km4gug/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-kfreebsd-amd64-o7Kzsl/bedtools-2.13.2'
if [ -d "." ]; then \
- cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.1-1-kfreebsd-amd64-Km4gug/bedtools-2.13.1/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
+ cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.2-1-kfreebsd-amd64-o7Kzsl/bedtools-2.13.2/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
fi
Removing patch gzstream.h.patch
Restoring src/utils/gzstream/gzstream.C
@@ -320,21 +324,21 @@ test -x debian/rules
mkdir -p "."
/usr/share/cdbs/1/rules/buildcore.mk:109: WARNING: DEB_DH_BUILDDEB_ARGS is a deprecated variable
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/build/buildd-bedtools_2.13.1-1-kfreebsd-amd64-Km4gug/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-kfreebsd-amd64-o7Kzsl/bedtools-2.13.2'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-kfreebsd-amd64-Km4gug/bedtools-2.13.1'
-cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.1-1-kfreebsd-amd64-Km4gug/bedtools-2.13.1/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-kfreebsd-amd64-o7Kzsl/bedtools-2.13.2'
+cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.2-1-kfreebsd-amd64-o7Kzsl/bedtools-2.13.2/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_2.13.1-1-kfreebsd-amd64-Km4gug/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-kfreebsd-amd64-o7Kzsl/bedtools-2.13.2'
make[1]: Nothing to be done for `update-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-kfreebsd-amd64-Km4gug/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-kfreebsd-amd64-o7Kzsl/bedtools-2.13.2'
/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_2.13.1-1-kfreebsd-amd64-Km4gug/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-kfreebsd-amd64-o7Kzsl/bedtools-2.13.2'
[ -d obj ] || mkdir -p obj
[ -d bin ] || mkdir -p bin
Building BEDTools:
@@ -348,10 +352,8 @@ Building BEDTools:
- Building in src/utils/bedGraphFile
* compiling bedGraphFile.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/chromsweep
+ * compiling chromsweep.cpp
- Building in src/utils/gzstream
g++ -g -O2 -g -O2 -Wall -c -o ../../../obj//gzstream.o gzstream.C -I.
@@ -416,6 +418,11 @@ Fasta.cpp:31:17: warning: converting to non-pointer type 'int' from NULL [-Wconv
Fasta.cpp:32:17: warning: converting to non-pointer type 'int' from NULL [-Wconversion-null]
* compiling split.cpp
+- Building in src/utils/genomeFile
+ * compiling genomeFile.cpp
+genomeFile.cpp: In member function 'void GenomeFile::loadGenomeFileIntoMap()':
+genomeFile.cpp:61:26: warning: variable 'c2' set but not used [-Wunused-but-set-variable]
+
- Building in src/annotateBed
* compiling annotateMain.cpp
annotateMain.cpp: In function 'int main(int, char**)':
@@ -520,9 +527,9 @@ 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:254:12: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp:255:12: 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:306:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp:307:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
* linking pairToBed
- Building in src/pairToPair
@@ -578,7 +585,7 @@ unionBedGraphsMain.cpp:49:10: warning: variable 'haveFiller' set but not used [-
* compiling windowBed.cpp
* linking windowBed
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-kfreebsd-amd64-Km4gug/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-kfreebsd-amd64-o7Kzsl/bedtools-2.13.2'
touch debian/stamp-makefile-build
DEB_MAKE_CHECK_TARGET unset, not running checks
fakeroot debian/rules binary-arch
@@ -623,22 +630,22 @@ dh_shlibdeps -pbedtools
dh_gencontrol -pbedtools
dh_md5sums -pbedtools
dh_builddeb -pbedtools -- -Z xz
-dpkg-deb: building package `bedtools' in `../bedtools_2.13.1-1_kfreebsd-amd64.deb'.
- dpkg-genchanges -B -mkfreebsd-amd64 Build Daemon (fano) <buildd_kfreebsd-amd64-fano at buildd.debian.org> >../bedtools_2.13.1-1_kfreebsd-amd64.changes
+dpkg-deb: building package `bedtools' in `../bedtools_2.13.2-1_kfreebsd-amd64.deb'.
+ dpkg-genchanges -B -mkfreebsd-amd64 Build Daemon (fano) <buildd_kfreebsd-amd64-fano at buildd.debian.org> >../bedtools_2.13.2-1_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-2.13.1
+ dpkg-source --after-build bedtools-2.13.2
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110911-0155
+Build finished at 20110924-0324
-bedtools_2.13.1-1_kfreebsd-amd64.changes:
+bedtools_2.13.2-1_kfreebsd-amd64.changes:
Format: 1.8
-Date: Sat, 10 Sep 2011 23:32:43 +0900
+Date: Sat, 24 Sep 2011 09:34:29 +0900
Source: bedtools
Binary: bedtools
Architecture: kfreebsd-amd64
-Version: 2.13.1-1
+Version: 2.13.2-1
Distribution: sid
Urgency: low
Maintainer: kfreebsd-amd64 Build Daemon (fano) <buildd_kfreebsd-amd64-fano at buildd.debian.org>
@@ -646,38 +653,33 @@ Changed-By: Charles Plessy <plessy at debian.org>
Description:
bedtools - suite of utilities for comparing genomic features
Changes:
- bedtools (2.13.1-1) unstable; urgency=low
+ bedtools (2.13.2-1) unstable; urgency=low
.
- [2e3fe5e] New upstream release.
- [ff5450e] Compress source and binary packages with xz.
- [ef58a33] Suggest filo for the groupBy command.
- [df206c0] Mangle debian/watch download URL.
- [2fe7cff] Simplified repacking as upstream tarballs do not contain
- ‘*/*DS_Store’ files anymore.
+ [1930a26] New upstream release.
Checksums-Sha1:
- c048b7afe96c049cd0987f390cb6e1f10b5ef634 646470 bedtools_2.13.1-1_kfreebsd-amd64.deb
+ 50435c77bd6741c69eb8a5970314b1a9826c10f3 662608 bedtools_2.13.2-1_kfreebsd-amd64.deb
Checksums-Sha256:
- 131f11d491a314dd656d1f60031abba8e9b8b7213f97ab7338afc0875de1ee86 646470 bedtools_2.13.1-1_kfreebsd-amd64.deb
+ 88673de5bce8a407d46ff9c7c5431dc6830d97a4950f968b09cc9be2eef8ac4e 662608 bedtools_2.13.2-1_kfreebsd-amd64.deb
Files:
- 116dcef71188cea5fc1e8838ea1a528e 646470 science optional bedtools_2.13.1-1_kfreebsd-amd64.deb
+ 7b19d82dba03787d4568f67d83eeaae5 662608 science optional bedtools_2.13.2-1_kfreebsd-amd64.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bedtools_2.13.1-1_kfreebsd-amd64.deb
+bedtools_2.13.2-1_kfreebsd-amd64.deb
────────────────────────────────────
new debian package, version 2.0.
- size 646470 bytes: control archive= 1730 bytes.
+ size 662608 bytes: control archive= 1724 bytes.
846 bytes, 18 lines control
- 2028 bytes, 35 lines md5sums
+ 2025 bytes, 35 lines md5sums
Package: bedtools
- Version: 2.13.1-1
+ Version: 2.13.2-1
Architecture: kfreebsd-amd64
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 4808
+ Installed-Size: 4876
Depends: libc0.1 (>= 2.3), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
Suggests: filo
Section: science
@@ -692,49 +694,49 @@ bedtools_2.13.1-1_kfreebsd-amd64.deb
.
The groupBy utility is distribued in the filo package.
-drwxr-xr-x root/root 0 2011-09-11 01:54 ./
-drwxr-xr-x root/root 0 2011-09-11 01:54 ./usr/
-drwxr-xr-x root/root 0 2011-09-11 01:54 ./usr/share/
-drwxr-xr-x root/root 0 2011-09-11 01:54 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-09-11 01:54 ./usr/share/doc/bedtools/
--rw-r--r-- root/root 4611 2011-09-10 14:21 ./usr/share/doc/bedtools/copyright
--rw-r--r-- root/root 10990 2011-09-07 00:36 ./usr/share/doc/bedtools/changelog.gz
--rw-r--r-- root/root 1586 2011-09-07 00:36 ./usr/share/doc/bedtools/README.rst.gz
--rw-r--r-- root/root 391 2011-09-10 14:32 ./usr/share/doc/bedtools/changelog.Debian.gz
-drwxr-xr-x root/root 0 2011-09-11 01:54 ./usr/share/bedtools/
-drwxr-xr-x root/root 0 2011-09-11 01:52 ./usr/share/bedtools/genomes/
--rwxr-xr-x root/root 856 2011-09-07 00:36 ./usr/share/bedtools/genomes/human.hg18.genome
--rwxr-xr-x root/root 1972 2011-09-07 00:36 ./usr/share/bedtools/genomes/human.hg19.genome
--rwxr-xr-x root/root 565 2011-09-07 00:36 ./usr/share/bedtools/genomes/mouse.mm8.genome
--rwxr-xr-x root/root 586 2011-09-07 00:36 ./usr/share/bedtools/genomes/mouse.mm9.genome
-drwxr-xr-x root/root 0 2011-09-11 01:54 ./usr/bin/
--rwxr-xr-x root/root 109976 2011-09-11 01:54 ./usr/bin/annotateBed
--rwxr-xr-x root/root 214848 2011-09-11 01:54 ./usr/bin/bamToBed
--rwxr-xr-x root/root 101832 2011-09-11 01:54 ./usr/bin/bed12ToBed6
--rwxr-xr-x root/root 226616 2011-09-11 01:54 ./usr/bin/bedToBam
--rwxr-xr-x root/root 126456 2011-09-11 01:54 ./usr/bin/bedToIgv
--rwxr-xr-x root/root 126376 2011-09-11 01:54 ./usr/bin/closestBed
--rwxr-xr-x root/root 110176 2011-09-11 01:54 ./usr/bin/complementBed
--rwxr-xr-x root/root 272720 2011-09-11 01:54 ./usr/bin/coverageBed
--rwxr-xr-x root/root 147088 2011-09-11 01:54 ./usr/bin/fastaFromBed
--rwxr-xr-x root/root 118224 2011-09-11 01:54 ./usr/bin/flankBed
--rwxr-xr-x root/root 290768 2011-09-11 01:54 ./usr/bin/genomeCoverageBed
--rwxr-xr-x root/root 294856 2011-09-11 01:54 ./usr/bin/intersectBed
--rwxr-xr-x root/root 110016 2011-09-11 01:54 ./usr/bin/linksBed
--rwxr-xr-x root/root 115192 2011-09-11 01:54 ./usr/bin/maskFastaFromBed
--rwxr-xr-x root/root 114088 2011-09-11 01:54 ./usr/bin/mergeBed
--rwxr-xr-x root/root 291928 2011-09-11 01:54 ./usr/bin/multiBamCov
--rwxr-xr-x root/root 147112 2011-09-11 01:54 ./usr/bin/nucBed
--rwxr-xr-x root/root 93640 2011-09-11 01:54 ./usr/bin/overlap
--rwxr-xr-x root/root 356328 2011-09-11 01:54 ./usr/bin/pairToBed
--rwxr-xr-x root/root 180224 2011-09-11 01:54 ./usr/bin/pairToPair
--rwxr-xr-x root/root 134672 2011-09-11 01:54 ./usr/bin/shuffleBed
--rwxr-xr-x root/root 110032 2011-09-11 01:54 ./usr/bin/slopBed
--rwxr-xr-x root/root 148040 2011-09-11 01:54 ./usr/bin/sortBed
--rwxr-xr-x root/root 264496 2011-09-11 01:54 ./usr/bin/tagBam
--rwxr-xr-x root/root 118168 2011-09-11 01:54 ./usr/bin/subtractBed
--rwxr-xr-x root/root 65024 2011-09-11 01:54 ./usr/bin/unionBedGraphs
--rwxr-xr-x root/root 278456 2011-09-11 01:54 ./usr/bin/windowBed
+drwxr-xr-x root/root 0 2011-09-24 03:24 ./
+drwxr-xr-x root/root 0 2011-09-24 03:24 ./usr/
+drwxr-xr-x root/root 0 2011-09-24 03:24 ./usr/share/
+drwxr-xr-x root/root 0 2011-09-24 03:24 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-09-24 03:24 ./usr/share/doc/bedtools/
+-rw-r--r-- root/root 1442 2011-09-23 15:57 ./usr/share/doc/bedtools/README.rst
+-rw-r--r-- root/root 4611 2011-09-24 00:33 ./usr/share/doc/bedtools/copyright
+-rw-r--r-- root/root 11135 2011-09-23 15:57 ./usr/share/doc/bedtools/changelog.gz
+-rw-r--r-- root/root 417 2011-09-24 00:36 ./usr/share/doc/bedtools/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-09-24 03:24 ./usr/share/bedtools/
+drwxr-xr-x root/root 0 2011-09-24 03:21 ./usr/share/bedtools/genomes/
+-rwxr-xr-x root/root 856 2011-09-23 15:57 ./usr/share/bedtools/genomes/human.hg18.genome
+-rwxr-xr-x root/root 1972 2011-09-23 15:57 ./usr/share/bedtools/genomes/human.hg19.genome
+-rwxr-xr-x root/root 565 2011-09-23 15:57 ./usr/share/bedtools/genomes/mouse.mm8.genome
+-rwxr-xr-x root/root 585 2011-09-23 15:57 ./usr/share/bedtools/genomes/mouse.mm9.genome
+drwxr-xr-x root/root 0 2011-09-24 03:24 ./usr/bin/
+-rwxr-xr-x root/root 109992 2011-09-24 03:24 ./usr/bin/annotateBed
+-rwxr-xr-x root/root 214848 2011-09-24 03:24 ./usr/bin/bamToBed
+-rwxr-xr-x root/root 101848 2011-09-24 03:24 ./usr/bin/bed12ToBed6
+-rwxr-xr-x root/root 227560 2011-09-24 03:24 ./usr/bin/bedToBam
+-rwxr-xr-x root/root 126472 2011-09-24 03:24 ./usr/bin/bedToIgv
+-rwxr-xr-x root/root 126392 2011-09-24 03:24 ./usr/bin/closestBed
+-rwxr-xr-x root/root 114160 2011-09-24 03:24 ./usr/bin/complementBed
+-rwxr-xr-x root/root 272776 2011-09-24 03:24 ./usr/bin/coverageBed
+-rwxr-xr-x root/root 147104 2011-09-24 03:24 ./usr/bin/fastaFromBed
+-rwxr-xr-x root/root 118464 2011-09-24 03:24 ./usr/bin/flankBed
+-rwxr-xr-x root/root 290784 2011-09-24 03:24 ./usr/bin/genomeCoverageBed
+-rwxr-xr-x root/root 344552 2011-09-24 03:24 ./usr/bin/intersectBed
+-rwxr-xr-x root/root 110032 2011-09-24 03:24 ./usr/bin/linksBed
+-rwxr-xr-x root/root 115240 2011-09-24 03:24 ./usr/bin/maskFastaFromBed
+-rwxr-xr-x root/root 114104 2011-09-24 03:24 ./usr/bin/mergeBed
+-rwxr-xr-x root/root 291976 2011-09-24 03:24 ./usr/bin/multiBamCov
+-rwxr-xr-x root/root 147128 2011-09-24 03:24 ./usr/bin/nucBed
+-rwxr-xr-x root/root 93656 2011-09-24 03:24 ./usr/bin/overlap
+-rwxr-xr-x root/root 356344 2011-09-24 03:24 ./usr/bin/pairToBed
+-rwxr-xr-x root/root 179688 2011-09-24 03:24 ./usr/bin/pairToPair
+-rwxr-xr-x root/root 134928 2011-09-24 03:24 ./usr/bin/shuffleBed
+-rwxr-xr-x root/root 110048 2011-09-24 03:24 ./usr/bin/slopBed
+-rwxr-xr-x root/root 148216 2011-09-24 03:24 ./usr/bin/sortBed
+-rwxr-xr-x root/root 266856 2011-09-24 03:24 ./usr/bin/tagBam
+-rwxr-xr-x root/root 118184 2011-09-24 03:24 ./usr/bin/subtractBed
+-rwxr-xr-x root/root 65024 2011-09-24 03:24 ./usr/bin/unionBedGraphs
+-rwxr-xr-x root/root 278472 2011-09-24 03:24 ./usr/bin/windowBed
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -748,11 +750,11 @@ Built successfully
│ Post Build │
└──────────────────────────────────────────────────────────────────────────────┘
-Purging /var/lib/schroot/mount/sid-ka-sbuild-1315705886-96757/build/buildd-bedtools_2.13.1-1-kfreebsd-amd64-Km4gug
+Purging /var/lib/schroot/mount/sid-ka-sbuild-1316834455-26488/build/buildd-bedtools_2.13.2-1-kfreebsd-amd64-o7Kzsl
Reading package lists...
Building dependency tree...
Reading state information...
-0 upgraded, 0 newly installed, 0 to remove and 6 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 4 not upgraded.
Reading package lists...
Building dependency tree...
Reading state information...
@@ -760,9 +762,9 @@ The following packages will be REMOVED:
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 6 not upgraded.
-After this operation, 27.2 MB disk space will be freed.
-(Reading database ... 13573 files and directories currently installed.)
+0 upgraded, 0 newly installed, 20 to remove and 4 not upgraded.
+After this operation, 27.0 MB disk space will be freed.
+(Reading database ... 13574 files and directories currently installed.)
Removing cdbs ...
Removing debhelper ...
Removing quilt ...
@@ -800,18 +802,18 @@ Removing zlib1g-dev ...
└──────────────────────────────────────────────────────────────────────────────┘
Architecture: kfreebsd-amd64
-Build-Space: 131776
-Build-Time: 172
+Build-Space: 135456
+Build-Time: 167
Distribution: sid
-Install-Time: 36
-Job: bedtools_2.13.1-1
+Install-Time: 37
+Job: bedtools_2.13.2-1
Package: bedtools
Package-Time: 223
-Source-Version: 2.13.1-1
-Space: 131776
+Source-Version: 2.13.2-1
+Space: 135456
Status: successful
-Version: 2.13.1-1
+Version: 2.13.2-1
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110911-0155
-Build needed 00:03:43, 131776k disc space
+Finished at 20110924-0324
+Build needed 00:03:43, 135456k disc space
Signature with key '911EAB69' requested:
diff --git a/kfreebsd-i386.log b/kfreebsd-i386.log
index 06f79d0..0a9886a 100644
--- a/kfreebsd-i386.log
+++ b/kfreebsd-i386.log
@@ -1,4 +1,4 @@
-From buildd at field.debian.org Sun Sep 11 01:18:47 2011
+From buildd at field.debian.org Sat Sep 24 03:47:24 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,
@@ -6,25 +6,25 @@ Received: from kokkonen.debian.org ([2001:41b8:202:deb:1a1a:0:52c3:4b61])
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 1R2Yh5-0006AQ-Ab
- for logs at buildd.debian.org; Sun, 11 Sep 2011 01:18:47 +0000
+ id 1R7JD2-0004I6-KE
+ for logs at buildd.debian.org; Sat, 24 Sep 2011 03:47:24 +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 1R2Yh4-0004Q5-33; Sun, 11 Sep 2011 01:18:46 +0000
+ id 1R7JD1-0003D6-OO; Sat, 24 Sep 2011 03:47:23 +0000
Received: from buildd by field.debian.org with local (Exim 4.72)
(envelope-from <buildd at field.debian.org>)
- id 1R2Yh3-000GBI-56; Sun, 11 Sep 2011 01:18:45 +0000
-Message-Id: <E1R2Yh3-000GBI-56 at field.debian.org>
+ id 1R7JD0-0004D1-Vi; Sat, 24 Sep 2011 03:47:23 +0000
+Message-Id: <E1R7JD0-0004D1-Vi 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: Sun, 11 Sep 2011 01:18:45 +0000
+Date: Sat, 24 Sep 2011 03:47:22 +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_2.13.1-1 on kfreebsd-i386
+Subject: Log for successful build of bedtools_2.13.2-1 on kfreebsd-i386
(dist=sid)
Key-Id: 6B8016EE
Delivered-To: logs at buildd.debian.org
@@ -32,12 +32,12 @@ Delivered-To: logs at buildd.debian.org
sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on field.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bedtools 2.13.1-1 (kfreebsd-i386) 11 Sep 2011 01:13 ║
+║ bedtools 2.13.2-1 (kfreebsd-i386) 24 Sep 2011 03:41 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bedtools
-Version: 2.13.1-1
-Source Version: 2.13.1-1
+Version: 2.13.2-1
+Source Version: 2.13.2-1
Architecture: kfreebsd-i386
Hit http://ftp.gr.debian.org sid InRelease
Hit http://ftp.gr.debian.org sid/main Sources/DiffIndex
@@ -64,12 +64,12 @@ 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
Get:2 http://incoming.debian.org Release [1604 B]
-Get:3 http://incoming.debian.org Sources [32.0 kB]
-Get:4 http://incoming.debian.org Packages [290 kB]
+Hit http://incoming.debian.org Sources
+Get:3 http://incoming.debian.org Packages [562 kB]
Ign http://incoming.debian.org sid/contrib Translation-en
Ign http://incoming.debian.org sid/non-free Translation-en
Ign http://incoming.debian.org Translation-en
-Fetched 325 kB in 5s (61.4 kB/s)
+Fetched 564 kB in 5s (98.9 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -90,11 +90,11 @@ 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 664 kB of source archives.
-Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (dsc) [1921 B]
-Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (tar) [658 kB]
-Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (diff) [4254 B]
-Fetched 664 kB in 2s (330 kB/s)
+Need to get 666 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (dsc) [1967 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (tar) [659 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (diff) [4285 B]
+Fetched 666 kB in 2s (307 kB/s)
Download complete and in download only mode
Check arch
@@ -114,12 +114,12 @@ Installing positive dependencies:
Reading package lists...
Building dependency tree...
Reading state information...
-0 upgraded, 0 newly installed, 0 to remove and 15 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 6 not upgraded.
Removing negative dependencies:
Reading package lists...
Building dependency tree...
Reading state information...
-0 upgraded, 0 newly installed, 0 to remove and 15 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 6 not upgraded.
Checking correctness of dependencies...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -159,7 +159,7 @@ 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 8.9.6
+Using default version 8.9.7
quilt: missing
zlib1g-dev: missing
Checking for dependency conflicts...
@@ -182,11 +182,11 @@ The following NEW packages will be installed:
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 15 not upgraded.
-Need to get 0 B/9053 kB of archives.
-After this operation, 25.8 MB of additional disk space will be used.
+0 upgraded, 19 newly installed, 0 to remove and 6 not upgraded.
+Need to get 0 B/9047 kB of archives.
+After this operation, 25.6 MB of additional disk space will be used.
Selecting previously deselected package libpipeline1.
-(Reading database ... 12163 files and directories currently installed.)
+(Reading database ... 12173 files and directories currently installed.)
Unpacking libpipeline1 (from .../libpipeline1_1.2.0-3_kfreebsd-i386.deb) ...
Selecting previously deselected package groff-base.
Unpacking groff-base (from .../groff-base_1.21-6_kfreebsd-i386.deb) ...
@@ -200,6 +200,8 @@ Selecting previously deselected package gettext-base.
Unpacking gettext-base (from .../gettext-base_0.18.1.1-4_kfreebsd-i386.deb) ...
Selecting previously deselected package libxml2.
Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-4_kfreebsd-i386.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.99_all.deb) ...
Selecting previously deselected package html2text.
Unpacking html2text (from .../html2text_1.3.2a-15_kfreebsd-i386.deb) ...
Selecting previously deselected package libglib2.0-0.
@@ -215,13 +217,11 @@ 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_8.9.6_all.deb) ...
-Selecting previously deselected package cdbs.
-Unpacking cdbs (from .../archives/cdbs_0.4.96_all.deb) ...
+Unpacking debhelper (from .../debhelper_8.9.7_all.deb) ...
Selecting previously deselected package diffstat.
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) ...
+Unpacking quilt (from .../archives/quilt_0.48-8_all.deb) ...
Selecting previously deselected package zlib1g-dev.
Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_kfreebsd-i386.deb) ...
Setting up libpipeline1 (1.2.0-3) ...
@@ -232,6 +232,7 @@ Setting up libmagic1 (5.08-1) ...
Setting up file (5.08-1) ...
Setting up gettext-base (0.18.1.1-4) ...
Setting up libxml2 (2.7.8.dfsg-4) ...
+Setting up cdbs (0.4.99) ...
Setting up html2text (1.3.2a-15) ...
Setting up libglib2.0-0 (2.28.6-1) ...
No schema files found: doing nothing.
@@ -240,20 +241,19 @@ Setting up libunistring0 (0.9.3-4) ...
Setting up gettext (0.18.1.1-4) ...
Setting up intltool-debian (0.35.0+20060710.1) ...
Setting up po-debconf (1.0.16+nmu1) ...
-Setting up debhelper (8.9.6) ...
-Setting up cdbs (0.4.96) ...
+Setting up debhelper (8.9.7) ...
Setting up diffstat (1.54-1) ...
-Setting up quilt (0.48-7) ...
+Setting up quilt (0.48-8) ...
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 15 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 6 not upgraded.
Checking correctness of dependencies...
Kernel: GNU/kFreeBSD 8.1-1-686-smp kfreebsd-i386 (i686)
-Toolchain package versions: binutils_2.21.53.20110823-3 dpkg-dev_1.16.0.3 g++-4.6_4.6.1-9 gcc-4.6_4.6.1-9 kfreebsd-kernel-headers_0.57 libc0.1-dev_2.13-19 libstdc++6_4.6.1-9 libstdc++6-4.6-dev_4.6.1-9
-Package versions: apt_0.8.15.6 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.53.20110823-3 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 cdbs_0.4.96 coreutils_8.5-1 cpp_4:4.6.1-2 cpp-4.6_4.6.1-9 dash_0.5.7-1 debconf_1.5.41 debconf-english_1.5.38 debfoster_2.7-1.1 debhelper_8.9.6 debian-archive-keyring_2010.08.28 debianutils_4.0.2 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.42~WIP-2011-07-02-1 e2fsprogs_1.42~WIP-2011-07-02-1 fakeroot_1.17-1 file_5.08-1 findutils_4.4.2-1 freebsd-utils_8.2+ds2-5 g++_4:4.6.1-2 g++-4.6_4.6.1-9 gcc_4:4.6.1-2 gcc-4.4-base_4.4.6-10 gcc-4.5-base_4.5.3-8 gcc-4.6_4.6.1-9 gcc-4.6-base_4.6.1-9 gettext_0.18.1.1-4 gettext-base_0.18.1.1-4 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.11 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 kfreebsd-kernel-headers_0.57 libacl1_2.2.51-3 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbsd0_0.3.0-1 libbz2-1.0_1.0.5-7 libc-bin_2.13-19 libc-dev-bin_2.13-19 libc0.1_2.13-19 libc0.1-dev_2.13-19 libcam0_8.2+ds1-4 libcomerr2_1.42~WIP-2011-07-02-1 libcroco3_0.6.2-1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.0.3 libexpat1_2.0.1-7 libgc1c2_1:7.1-8 libgcc1_1:4.6.1-9 libgdbm3_1.8.3-10 libgeom1_8.2+ds1-4 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.2+dfsg-1 libgomp1_4.6.1-9 libgssglue1_0.3-3 libjail1_8.2+ds1-4 libkiconv4_8.2+ds1-4 libkvm0_8.2+ds1-4 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.08-1 libmpc2_0.9-3 libmpfr4_3.0.1-6 libncurses5_5.9-1 libncursesw5_5.9-1 libpam-modules_1.1.3-2 libpam-modules-bin_1.1.3-2 libpam-runtime_1.1.3-2 libpam0g_1.1.3-2 libpcre3_8.12-4 libpipeline1_1.2.0-3 libpng12-0_1.2.46-3 libquadmath0_4.6.1-9 libreadline6_6.2-4 libsbuf0_8.2+ds1-4 libslang2_2.2.4-3 libss2_1.42~WIP-2011-07-02-1 libstdc++6_4.6.1-9 libstdc++6-4.6-dev_4.6.1-9 libtimedate-perl_1.2000-1 libtirpc1_0.2.2-5 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-4 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 lzma_4.43-14 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-15 multiarch-support_2.13-19 ncurses-base_5.9-1 ncurses-bin_5.9-1 netbase_4.46 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-4 perl-base_5.12.4-4 perl-modules_5.12.4-4 po-debconf_1.0.16+nmu1 procps_1:3.2.8-11 psmisc_22.13-1 quilt_0.48-7 readline-common_6.2-4 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.2-1 sysv-rc_2.88dsf-13.11 sysvinit_2.88dsf-13.11 sysvinit-utils_2.88dsf-13.11 tar_1.25-3 type-handling_0.2.23 tzdata_2011i-2 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+Toolchain package versions: binutils_2.21.53.20110910-1 dpkg-dev_1.16.0.3 g++-4.6_4.6.1-11 gcc-4.6_4.6.1-11 kfreebsd-kernel-headers_0.57 libc0.1-dev_2.13-21 libstdc++6_4.6.1-11 libstdc++6-4.6-dev_4.6.1-11
+Package versions: apt_0.8.15.8 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.53.20110910-1 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 cdbs_0.4.99 coreutils_8.5-1 cpp_4:4.6.1-2 cpp-4.6_4.6.1-11 dash_0.5.7-1 debconf_1.5.41 debconf-english_1.5.38 debfoster_2.7-1.1 debhelper_8.9.7 debian-archive-keyring_2010.08.28 debianutils_4.0.2 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.42~WIP-2011-07-02-1 e2fsprogs_1.42~WIP-2011-07-02-1 fakeroot_1.17-1 file_5.08-1 findutils_4.4.2-1 freebsd-utils_8.2+ds2-5 g++_4:4.6.1-2 g++-4.6_4.6.1-11 gcc_4:4.6.1-2 gcc-4.4-base_4.4.6-11 gcc-4.5-base_4.5.3-9 gcc-4.6_4.6.1-11 gcc-4.6-base_4.6.1-11 gettext_0.18.1.1-4 gettext-base_0.18.1.1-4 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.11 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 kfreebsd-kernel-headers_0.57 libacl1_2.2.51-3 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbsd0_0.3.0-1 libbz2-1.0_1.0.5-7 libc-bin_2.13-21 libc-dev-bin_2.13-21 libc0.1_2.13-21 libc0.1-dev_2.13-21 libcam0_8.2+ds1-4 libcomerr2_1.42~WIP-2011-07-02-1 libcroco3_0.6.2-1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.0.3 libexpat1_2.0.1-7 libgc1c2_1:7.1-8 libgcc1_1:4.6.1-11 libgdbm3_1.8.3-10 libgeom1_8.2+ds1-4 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.2+dfsg-1 libgomp1_4.6.1-11 libgssglue1_0.3-3 libjail1_8.2+ds1-4 libkiconv4_8.2+ds1-4 libkvm0_8.2+ds1-4 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.08-1 libmpc2_0.9-3 libmpfr4_3.0.1-6 libncurses5_5.9-1 libncursesw5_5.9-1 libpam-modules_1.1.3-2 libpam-modules-bin_1.1.3-2 libpam-runtime_1.1.3-2 libpam0g_1.1.3-2 libpcre3_8.12-4 libpipeline1_1.2.0-3 libpng12-0_1.2.46-3 libquadmath0_4.6.1-11 libreadline6_6.2-4 libsbuf0_8.2+ds1-4 libslang2_2.2.4-3 libss2_1.42~WIP-2011-07-02-1 libstdc++6_4.6.1-11 libstdc++6-4.6-dev_4.6.1-11 libtimedate-perl_1.2000-1 libtirpc1_0.2.2-5 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-4 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 lzma_4.43-14 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-15 multiarch-support_2.13-19 ncurses-base_5.9-1 ncurses-bin_5.9-1 netbase_4.46 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-4 perl-base_5.12.4-4 perl-modules_5.12.4-4 po-debconf_1.0.16+nmu1 procps_1:3.2.8-11 psmisc_22.13-1 quilt_0.48-8 readline-common_6.2-4 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.2-1 sysv-rc_2.88dsf-13.11 sysvinit_2.88dsf-13.11 sysvinit-utils_2.88dsf-13.11 tar_1.25-3 type-handling_0.2.23 tzdata_2011i-2 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -264,12 +264,12 @@ Unpack source
─────────────
gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
-gpgv: Signature made Sun Sep 11 00:44:52 2011 UTC using RSA key ID 2295D502
+gpgv: Signature made Sat Sep 24 01:39:55 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_2.13.1-1.dsc
-dpkg-source: info: extracting bedtools in bedtools-2.13.1
-dpkg-source: info: unpacking bedtools_2.13.1.orig.tar.xz
-dpkg-source: info: unpacking bedtools_2.13.1-1.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bedtools_2.13.2-1.dsc
+dpkg-source: info: extracting bedtools in bedtools-2.13.2
+dpkg-source: info: unpacking bedtools_2.13.2.orig.tar.xz
+dpkg-source: info: unpacking bedtools_2.13.2-1.debian.tar.gz
dpkg-source: info: applying gzstream.h.patch
Check disc space
@@ -285,24 +285,24 @@ 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 2.13.1-1
- dpkg-source --before-build bedtools-2.13.1
+dpkg-buildpackage: source version 2.13.2-1
+ dpkg-source --before-build bedtools-2.13.2
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 `/build/buildd-bedtools_2.13.1-1-kfreebsd-i386-atotGL/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-kfreebsd-i386-9OGN7M/bedtools-2.13.2'
Cleaning up.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-kfreebsd-i386-atotGL/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-kfreebsd-i386-9OGN7M/bedtools-2.13.2'
dh_clean
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/build/buildd-bedtools_2.13.1-1-kfreebsd-i386-atotGL/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-kfreebsd-i386-9OGN7M/bedtools-2.13.2'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-kfreebsd-i386-atotGL/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-kfreebsd-i386-9OGN7M/bedtools-2.13.2'
if [ -d "." ]; then \
- cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.1-1-kfreebsd-i386-atotGL/bedtools-2.13.1/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
+ cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.2-1-kfreebsd-i386-9OGN7M/bedtools-2.13.2/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
fi
Removing patch gzstream.h.patch
Restoring src/utils/gzstream/gzstream.C
@@ -315,21 +315,21 @@ test -x debian/rules
mkdir -p "."
/usr/share/cdbs/1/rules/buildcore.mk:109: WARNING: DEB_DH_BUILDDEB_ARGS is a deprecated variable
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/build/buildd-bedtools_2.13.1-1-kfreebsd-i386-atotGL/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-kfreebsd-i386-9OGN7M/bedtools-2.13.2'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-kfreebsd-i386-atotGL/bedtools-2.13.1'
-cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.1-1-kfreebsd-i386-atotGL/bedtools-2.13.1/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-kfreebsd-i386-9OGN7M/bedtools-2.13.2'
+cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.2-1-kfreebsd-i386-9OGN7M/bedtools-2.13.2/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_2.13.1-1-kfreebsd-i386-atotGL/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-kfreebsd-i386-9OGN7M/bedtools-2.13.2'
make[1]: Nothing to be done for `update-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-kfreebsd-i386-atotGL/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-kfreebsd-i386-9OGN7M/bedtools-2.13.2'
/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_2.13.1-1-kfreebsd-i386-atotGL/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-kfreebsd-i386-9OGN7M/bedtools-2.13.2'
[ -d obj ] || mkdir -p obj
[ -d bin ] || mkdir -p bin
Building BEDTools:
@@ -343,10 +343,8 @@ Building BEDTools:
- Building in src/utils/bedGraphFile
* compiling bedGraphFile.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/chromsweep
+ * compiling chromsweep.cpp
- Building in src/utils/gzstream
g++ -g -O2 -g -O2 -Wall -c -o ../../../obj//gzstream.o gzstream.C -I.
@@ -411,6 +409,11 @@ Fasta.cpp:31:17: warning: converting to non-pointer type 'int' from NULL [-Wconv
Fasta.cpp:32:17: warning: converting to non-pointer type 'int' from NULL [-Wconversion-null]
* compiling split.cpp
+- Building in src/utils/genomeFile
+ * compiling genomeFile.cpp
+genomeFile.cpp: In member function 'void GenomeFile::loadGenomeFileIntoMap()':
+genomeFile.cpp:61:26: warning: variable 'c2' set but not used [-Wunused-but-set-variable]
+
- Building in src/annotateBed
* compiling annotateMain.cpp
annotateMain.cpp: In function 'int main(int, char**)':
@@ -515,9 +518,9 @@ 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:254:12: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp:255:12: 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:306:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp:307:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
* linking pairToBed
- Building in src/pairToPair
@@ -573,7 +576,7 @@ unionBedGraphsMain.cpp:49:10: warning: variable 'haveFiller' set but not used [-
* compiling windowBed.cpp
* linking windowBed
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-kfreebsd-i386-atotGL/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-kfreebsd-i386-9OGN7M/bedtools-2.13.2'
touch debian/stamp-makefile-build
DEB_MAKE_CHECK_TARGET unset, not running checks
fakeroot debian/rules binary-arch
@@ -618,22 +621,22 @@ dh_shlibdeps -pbedtools
dh_gencontrol -pbedtools
dh_md5sums -pbedtools
dh_builddeb -pbedtools -- -Z xz
-dpkg-deb: building package `bedtools' in `../bedtools_2.13.1-1_kfreebsd-i386.deb'.
- dpkg-genchanges -B -mkfreebsd-i386 Build Daemon (field) <buildd_kfreebsd-i386-field at buildd.debian.org> >../bedtools_2.13.1-1_kfreebsd-i386.changes
+dpkg-deb: building package `bedtools' in `../bedtools_2.13.2-1_kfreebsd-i386.deb'.
+ dpkg-genchanges -B -mkfreebsd-i386 Build Daemon (field) <buildd_kfreebsd-i386-field at buildd.debian.org> >../bedtools_2.13.2-1_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-2.13.1
+ dpkg-source --after-build bedtools-2.13.2
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110911-0117
+Build finished at 20110924-0346
-bedtools_2.13.1-1_kfreebsd-i386.changes:
+bedtools_2.13.2-1_kfreebsd-i386.changes:
Format: 1.8
-Date: Sat, 10 Sep 2011 23:32:43 +0900
+Date: Sat, 24 Sep 2011 09:34:29 +0900
Source: bedtools
Binary: bedtools
Architecture: kfreebsd-i386
-Version: 2.13.1-1
+Version: 2.13.2-1
Distribution: sid
Urgency: low
Maintainer: kfreebsd-i386 Build Daemon (field) <buildd_kfreebsd-i386-field at buildd.debian.org>
@@ -641,38 +644,33 @@ Changed-By: Charles Plessy <plessy at debian.org>
Description:
bedtools - suite of utilities for comparing genomic features
Changes:
- bedtools (2.13.1-1) unstable; urgency=low
+ bedtools (2.13.2-1) unstable; urgency=low
.
- [2e3fe5e] New upstream release.
- [ff5450e] Compress source and binary packages with xz.
- [ef58a33] Suggest filo for the groupBy command.
- [df206c0] Mangle debian/watch download URL.
- [2fe7cff] Simplified repacking as upstream tarballs do not contain
- ‘*/*DS_Store’ files anymore.
+ [1930a26] New upstream release.
Checksums-Sha1:
- 7f82b478da9ac213d02bb6d2a2f4ac597eda2f45 658382 bedtools_2.13.1-1_kfreebsd-i386.deb
+ fb335e9c25af16780ffdf1ff276063bc0b7d648d 674716 bedtools_2.13.2-1_kfreebsd-i386.deb
Checksums-Sha256:
- 41ce144abfca6cb751d55a393a8d9f6b840cee9d31bd0ed048c2e6528c2e8185 658382 bedtools_2.13.1-1_kfreebsd-i386.deb
+ 8832ba4eefb27a6e2fafa7c1f1a18c4f6240e3669d6a1f1ca7fdfc4847fcda52 674716 bedtools_2.13.2-1_kfreebsd-i386.deb
Files:
- 5ba65e4ba601613400dc91240d96771f 658382 science optional bedtools_2.13.1-1_kfreebsd-i386.deb
+ 54036367d246fa4e31933aef93a72954 674716 science optional bedtools_2.13.2-1_kfreebsd-i386.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bedtools_2.13.1-1_kfreebsd-i386.deb
+bedtools_2.13.2-1_kfreebsd-i386.deb
───────────────────────────────────
new debian package, version 2.0.
- size 658382 bytes: control archive= 1730 bytes.
+ size 674716 bytes: control archive= 1728 bytes.
845 bytes, 18 lines control
- 2028 bytes, 35 lines md5sums
+ 2025 bytes, 35 lines md5sums
Package: bedtools
- Version: 2.13.1-1
+ Version: 2.13.2-1
Architecture: kfreebsd-i386
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 4790
+ Installed-Size: 4872
Depends: libc0.1 (>= 2.3), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
Suggests: filo
Section: science
@@ -687,49 +685,49 @@ bedtools_2.13.1-1_kfreebsd-i386.deb
.
The groupBy utility is distribued in the filo package.
-drwxr-xr-x root/root 0 2011-09-11 01:17 ./
-drwxr-xr-x root/root 0 2011-09-11 01:17 ./usr/
-drwxr-xr-x root/root 0 2011-09-11 01:17 ./usr/share/
-drwxr-xr-x root/root 0 2011-09-11 01:17 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-09-11 01:17 ./usr/share/doc/bedtools/
--rw-r--r-- root/root 4611 2011-09-10 14:21 ./usr/share/doc/bedtools/copyright
--rw-r--r-- root/root 10990 2011-09-07 00:36 ./usr/share/doc/bedtools/changelog.gz
--rw-r--r-- root/root 1586 2011-09-07 00:36 ./usr/share/doc/bedtools/README.rst.gz
--rw-r--r-- root/root 391 2011-09-10 14:32 ./usr/share/doc/bedtools/changelog.Debian.gz
-drwxr-xr-x root/root 0 2011-09-11 01:17 ./usr/share/bedtools/
-drwxr-xr-x root/root 0 2011-09-11 01:14 ./usr/share/bedtools/genomes/
--rwxr-xr-x root/root 856 2011-09-07 00:36 ./usr/share/bedtools/genomes/human.hg18.genome
--rwxr-xr-x root/root 1972 2011-09-07 00:36 ./usr/share/bedtools/genomes/human.hg19.genome
--rwxr-xr-x root/root 565 2011-09-07 00:36 ./usr/share/bedtools/genomes/mouse.mm8.genome
--rwxr-xr-x root/root 586 2011-09-07 00:36 ./usr/share/bedtools/genomes/mouse.mm9.genome
-drwxr-xr-x root/root 0 2011-09-11 01:17 ./usr/bin/
--rwxr-xr-x root/root 102368 2011-09-11 01:17 ./usr/bin/annotateBed
--rwxr-xr-x root/root 220316 2011-09-11 01:17 ./usr/bin/bamToBed
--rwxr-xr-x root/root 96344 2011-09-11 01:17 ./usr/bin/bed12ToBed6
--rwxr-xr-x root/root 227616 2011-09-11 01:17 ./usr/bin/bedToBam
--rwxr-xr-x root/root 120944 2011-09-11 01:17 ./usr/bin/bedToIgv
--rwxr-xr-x root/root 119332 2011-09-11 01:17 ./usr/bin/closestBed
--rwxr-xr-x root/root 104548 2011-09-11 01:17 ./usr/bin/complementBed
--rwxr-xr-x root/root 277908 2011-09-11 01:17 ./usr/bin/coverageBed
--rwxr-xr-x root/root 141568 2011-09-11 01:17 ./usr/bin/fastaFromBed
--rwxr-xr-x root/root 112732 2011-09-11 01:17 ./usr/bin/flankBed
--rwxr-xr-x root/root 293744 2011-09-11 01:17 ./usr/bin/genomeCoverageBed
--rwxr-xr-x root/root 301404 2011-09-11 01:17 ./usr/bin/intersectBed
--rwxr-xr-x root/root 104864 2011-09-11 01:17 ./usr/bin/linksBed
--rwxr-xr-x root/root 108680 2011-09-11 01:17 ./usr/bin/maskFastaFromBed
--rwxr-xr-x root/root 106240 2011-09-11 01:17 ./usr/bin/mergeBed
--rwxr-xr-x root/root 297300 2011-09-11 01:17 ./usr/bin/multiBamCov
--rwxr-xr-x root/root 141616 2011-09-11 01:17 ./usr/bin/nucBed
--rwxr-xr-x root/root 88152 2011-09-11 01:17 ./usr/bin/overlap
--rwxr-xr-x root/root 366956 2011-09-11 01:17 ./usr/bin/pairToBed
--rwxr-xr-x root/root 178272 2011-09-11 01:17 ./usr/bin/pairToPair
--rwxr-xr-x root/root 129148 2011-09-11 01:17 ./usr/bin/shuffleBed
--rwxr-xr-x root/root 104540 2011-09-11 01:17 ./usr/bin/slopBed
--rwxr-xr-x root/root 141928 2011-09-11 01:17 ./usr/bin/sortBed
--rwxr-xr-x root/root 268636 2011-09-11 01:17 ./usr/bin/tagBam
--rwxr-xr-x root/root 112704 2011-09-11 01:17 ./usr/bin/subtractBed
--rwxr-xr-x root/root 59508 2011-09-11 01:17 ./usr/bin/unionBedGraphs
--rwxr-xr-x root/root 281908 2011-09-11 01:17 ./usr/bin/windowBed
+drwxr-xr-x root/root 0 2011-09-24 03:46 ./
+drwxr-xr-x root/root 0 2011-09-24 03:46 ./usr/
+drwxr-xr-x root/root 0 2011-09-24 03:46 ./usr/share/
+drwxr-xr-x root/root 0 2011-09-24 03:46 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-09-24 03:46 ./usr/share/doc/bedtools/
+-rw-r--r-- root/root 1442 2011-09-23 15:57 ./usr/share/doc/bedtools/README.rst
+-rw-r--r-- root/root 4611 2011-09-24 00:33 ./usr/share/doc/bedtools/copyright
+-rw-r--r-- root/root 11135 2011-09-23 15:57 ./usr/share/doc/bedtools/changelog.gz
+-rw-r--r-- root/root 417 2011-09-24 00:36 ./usr/share/doc/bedtools/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-09-24 03:46 ./usr/share/bedtools/
+drwxr-xr-x root/root 0 2011-09-24 03:43 ./usr/share/bedtools/genomes/
+-rwxr-xr-x root/root 856 2011-09-23 15:57 ./usr/share/bedtools/genomes/human.hg18.genome
+-rwxr-xr-x root/root 1972 2011-09-23 15:57 ./usr/share/bedtools/genomes/human.hg19.genome
+-rwxr-xr-x root/root 565 2011-09-23 15:57 ./usr/share/bedtools/genomes/mouse.mm8.genome
+-rwxr-xr-x root/root 585 2011-09-23 15:57 ./usr/share/bedtools/genomes/mouse.mm9.genome
+drwxr-xr-x root/root 0 2011-09-24 03:46 ./usr/bin/
+-rwxr-xr-x root/root 102676 2011-09-24 03:46 ./usr/bin/annotateBed
+-rwxr-xr-x root/root 220316 2011-09-24 03:46 ./usr/bin/bamToBed
+-rwxr-xr-x root/root 96352 2011-09-24 03:46 ./usr/bin/bed12ToBed6
+-rwxr-xr-x root/root 227624 2011-09-24 03:46 ./usr/bin/bedToBam
+-rwxr-xr-x root/root 120952 2011-09-24 03:46 ./usr/bin/bedToIgv
+-rwxr-xr-x root/root 120912 2011-09-24 03:46 ./usr/bin/closestBed
+-rwxr-xr-x root/root 104964 2011-09-24 03:46 ./usr/bin/complementBed
+-rwxr-xr-x root/root 280916 2011-09-24 03:46 ./usr/bin/coverageBed
+-rwxr-xr-x root/root 141748 2011-09-24 03:46 ./usr/bin/fastaFromBed
+-rwxr-xr-x root/root 113728 2011-09-24 03:46 ./usr/bin/flankBed
+-rwxr-xr-x root/root 297320 2011-09-24 03:46 ./usr/bin/genomeCoverageBed
+-rwxr-xr-x root/root 347288 2011-09-24 03:46 ./usr/bin/intersectBed
+-rwxr-xr-x root/root 105044 2011-09-24 03:46 ./usr/bin/linksBed
+-rwxr-xr-x root/root 108860 2011-09-24 03:46 ./usr/bin/maskFastaFromBed
+-rwxr-xr-x root/root 106420 2011-09-24 03:46 ./usr/bin/mergeBed
+-rwxr-xr-x root/root 297308 2011-09-24 03:46 ./usr/bin/multiBamCov
+-rwxr-xr-x root/root 141796 2011-09-24 03:46 ./usr/bin/nucBed
+-rwxr-xr-x root/root 88160 2011-09-24 03:46 ./usr/bin/overlap
+-rwxr-xr-x root/root 366964 2011-09-24 03:46 ./usr/bin/pairToBed
+-rwxr-xr-x root/root 176816 2011-09-24 03:46 ./usr/bin/pairToPair
+-rwxr-xr-x root/root 129156 2011-09-24 03:46 ./usr/bin/shuffleBed
+-rwxr-xr-x root/root 104836 2011-09-24 03:46 ./usr/bin/slopBed
+-rwxr-xr-x root/root 142236 2011-09-24 03:46 ./usr/bin/sortBed
+-rwxr-xr-x root/root 272740 2011-09-24 03:46 ./usr/bin/tagBam
+-rwxr-xr-x root/root 112712 2011-09-24 03:46 ./usr/bin/subtractBed
+-rwxr-xr-x root/root 59596 2011-09-24 03:46 ./usr/bin/unionBedGraphs
+-rwxr-xr-x root/root 285020 2011-09-24 03:46 ./usr/bin/windowBed
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -743,11 +741,11 @@ Built successfully
│ Post Build │
└──────────────────────────────────────────────────────────────────────────────┘
-Purging /var/lib/schroot/mount/sid-ki-sbuild-1315703583-59249/build/buildd-bedtools_2.13.1-1-kfreebsd-i386-atotGL
+Purging /var/lib/schroot/mount/sid-ki-sbuild-1316835693-12896/build/buildd-bedtools_2.13.2-1-kfreebsd-i386-9OGN7M
Reading package lists...
Building dependency tree...
Reading state information...
-0 upgraded, 0 newly installed, 0 to remove and 15 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 6 not upgraded.
Reading package lists...
Building dependency tree...
Reading state information...
@@ -755,9 +753,9 @@ 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 15 not upgraded.
-After this operation, 25.8 MB disk space will be freed.
-(Reading database ... 13513 files and directories currently installed.)
+0 upgraded, 0 newly installed, 19 to remove and 6 not upgraded.
+After this operation, 25.6 MB disk space will be freed.
+(Reading database ... 13522 files and directories currently installed.)
Removing cdbs ...
Removing debhelper ...
Removing quilt ...
@@ -793,18 +791,18 @@ Removing zlib1g-dev ...
└──────────────────────────────────────────────────────────────────────────────┘
Architecture: kfreebsd-i386
-Build-Space: 92724
-Build-Time: 180
+Build-Space: 94954
+Build-Time: 189
Distribution: sid
Install-Time: 80
-Job: bedtools_2.13.1-1
+Job: bedtools_2.13.2-1
Package: bedtools
-Package-Time: 286
-Source-Version: 2.13.1-1
-Space: 92724
+Package-Time: 294
+Source-Version: 2.13.2-1
+Space: 94954
Status: successful
-Version: 2.13.1-1
+Version: 2.13.2-1
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110911-0117
-Build needed 00:04:46, 92724k disc space
+Finished at 20110924-0346
+Build needed 00:04:54, 94954k disc space
Signature with key '6B8016EE' requested:
diff --git a/mips.log b/mips.log
index 4ff8e02..ecec8b1 100644
--- a/mips.log
+++ b/mips.log
@@ -1,67 +1,68 @@
-From buildd at ball.debian.org Sun Sep 11 01:29:33 2011
-Return-path: <buildd at ball.debian.org>
-Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
+From buildd2 at lucatelli.debian.org Sun Sep 25 16:50:57 2011
+Return-path: <buildd2 at lucatelli.debian.org>
+Received: from kokkonen.debian.org ([2001:41b8:202:deb:1a1a:0:52c3:4b61])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
- CN=merikanto.debian.org,
- EMAIL=hostmaster at merikanto.debian.org (verified)
+ CN=kokkonen.debian.org,
+ EMAIL=hostmaster at kokkonen.debian.org (verified)
by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.72) (envelope-from <buildd at ball.debian.org>)
- id 1R2YrV-0007pq-IZ
- for logs at buildd.debian.org; Sun, 11 Sep 2011 01:29:33 +0000
-Received: from ball.debian.org ([2001:41b8:202:deb:202:4cff:fefe:d09])
+ (Exim 4.72) (envelope-from <buildd2 at lucatelli.debian.org>)
+ id 1R7rur-0005Wd-34
+ for logs at buildd.debian.org; Sun, 25 Sep 2011 16:50:57 +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=ball.debian.org, EMAIL=hostmaster at ball.debian.org (verified)
- by merikanto.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.72) (envelope-from <buildd at ball.debian.org>)
- id 1R2YrU-0008N4-19
- for logs at buildd.debian.org; Sun, 11 Sep 2011 01:29:32 +0000
-Received: from buildd by ball.debian.org with local (Exim 4.72)
- (envelope-from <buildd at ball.debian.org>)
- id 1R2YrS-0004oo-Mm; Sun, 11 Sep 2011 01:29:30 +0000
-Date: Sun, 11 Sep 2011 01:29:30 +0000
-Message-Id: <E1R2YrS-0004oo-Mm at ball.debian.org>
-From: buildd on ball <buildd at ball.debian.org>
-To: logs at buildd.debian.org,buildd-porters at ball.debian.org
-Subject: Log for successful build of bedtools_2.13.1-1 on mips (dist=sid)
+ CN=lucatelli.debian.org,
+ EMAIL=hostmaster at lucatelli.debian.org (verified)
+ by kokkonen.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
+ (Exim 4.72) (envelope-from <buildd2 at lucatelli.debian.org>)
+ id 1R7rup-0007gC-Ss
+ for logs at buildd.debian.org; Sun, 25 Sep 2011 16:50:56 +0000
+Received: from buildd2 by lucatelli.debian.org with local (Exim 4.69)
+ (envelope-from <buildd2 at lucatelli.debian.org>) id 1R7pOj-00088g-Hw
+ for logs at buildd.debian.org; Sun, 25 Sep 2011 14:09:37 +0000
+From: buildd on lucatelli <buildd2 at lucatelli.debian.org>
+To: logs at buildd.debian.org
+Subject: Log for successful build of bedtools_2.13.2-1 on mips (dist=sid)
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit
+Message-Id: <E1R7pOj-00088g-Hw at lucatelli.debian.org>
+Date: Sun, 25 Sep 2011 14:09:37 +0000
Delivered-To: logs at buildd.debian.org
-sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on ball.debian.org
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on lucatelli.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bedtools 2.13.1-1 (mips) 11 Sep 2011 01:07 ║
+║ bedtools 2.13.2-1 (mips) 25 Sep 2011 13:18 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bedtools
-Version: 2.13.1-1
-Source Version: 2.13.1-1
+Version: 2.13.2-1
+Source Version: 2.13.2-1
Architecture: mips
-Get:1 http://ftp.de.debian.org unstable InRelease [146 kB]
+Get:1 http://mirror-ubc.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 [5755 kB]
+Get:3 http://mirror-ubc.debian.org unstable/main Sources [5792 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 [5755 kB]
-Get:6 http://ftp.de.debian.org unstable/contrib Sources [57.4 kB]
-Get:7 http://ftp.de.debian.org unstable/non-free Sources [102 kB]
-Get:8 http://ftp.de.debian.org unstable/main mips Packages [7480 kB]
-Get:9 http://ftp.de.debian.org unstable/contrib mips Packages [56.1 kB]
-Ign http://ftp.de.debian.org unstable/contrib TranslationIndex
-Get:10 http://ftp.de.debian.org unstable/main TranslationIndex [2045 B]
-Ign http://ftp.de.debian.org unstable/contrib Translation-en
-Get:11 http://incoming.debian.org unstable/contrib Sources [57.4 kB]
-Get:12 http://incoming.debian.org unstable/non-free Sources [102 kB]
-Get:13 http://incoming.debian.org unstable/main mips Packages [7480 kB]
-Get:14 http://incoming.debian.org unstable/contrib mips Packages [56.1 kB]
+Get:5 http://incoming.debian.org Release [1604 B]
+Get:6 http://incoming.debian.org unstable/main Sources [5792 kB]
+Get:7 http://mirror-ubc.debian.org unstable/contrib Sources [56.8 kB]
+Get:8 http://mirror-ubc.debian.org unstable/non-free Sources [102 kB]
+Get:9 http://mirror-ubc.debian.org unstable/main mips Packages [7530 kB]
+Get:10 http://mirror-ubc.debian.org unstable/contrib mips Packages [55.4 kB]
+Ign http://mirror-ubc.debian.org unstable/contrib TranslationIndex
+Get:11 http://mirror-ubc.debian.org unstable/main TranslationIndex [2045 B]
+Ign http://mirror-ubc.debian.org unstable/contrib Translation-en
+Get:12 http://incoming.debian.org unstable/contrib Sources [56.8 kB]
+Get:13 http://incoming.debian.org unstable/non-free Sources [102 kB]
+Get:14 http://incoming.debian.org unstable/main mips Packages [7530 kB]
+Get:15 http://incoming.debian.org unstable/contrib mips Packages [55.4 kB]
Ign http://incoming.debian.org unstable/contrib TranslationIndex
-Get:15 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
-Get:16 http://incoming.debian.org Release [1604 B]
-Get:17 http://incoming.debian.org Sources [32.0 kB]
-Get:18 http://incoming.debian.org Packages [290 kB]
-Ign http://incoming.debian.org unstable/contrib Translation-en
+Get:16 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
+Get:17 http://incoming.debian.org Sources [36.3 kB]
+Get:18 http://incoming.debian.org Packages [508 kB]
Ign http://incoming.debian.org Translation-en
-Fetched 27.5 MB in 1min 16s (360 kB/s)
+Ign http://incoming.debian.org unstable/contrib Translation-en
+Fetched 27.9 MB in 1min 45s (265 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -82,11 +83,11 @@ 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 664 kB of source archives.
-Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (dsc) [1921 B]
-Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (tar) [658 kB]
-Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (diff) [4254 B]
-Fetched 664 kB in 1s (549 kB/s)
+Need to get 666 kB of source archives.
+Get:1 http://mirror-ubc.debian.org/debian/ unstable/main bedtools 2.13.2-1 (dsc) [1967 B]
+Get:2 http://mirror-ubc.debian.org/debian/ unstable/main bedtools 2.13.2-1 (tar) [659 kB]
+Get:3 http://mirror-ubc.debian.org/debian/ unstable/main bedtools 2.13.2-1 (diff) [4285 B]
+Fetched 666 kB in 0s (3708 kB/s)
Download complete and in download only mode
Check arch
@@ -106,12 +107,12 @@ Installing positive dependencies:
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 12 not upgraded.
Removing negative dependencies:
Reading package lists...
Building dependency tree...
Reading state information...
-0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 12 not upgraded.
Checking correctness of dependencies...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -123,7 +124,7 @@ Checking for already installed dependencies...
base-files: already installed (6.5)
base-passwd: already installed (3.5.23)
bash: already installed (4.1-3)
-coreutils: already installed (8.5-1)
+coreutils: already installed (8.13-1)
dash: already installed (0.5.7-1)
debianutils: already installed (4.0.2)
diffutils: already installed (1:3.0-1)
@@ -144,14 +145,14 @@ tar: already installed (1.26-2)
bsdutils: already installed (1:2.19.1-5)
mount: already installed (2.19.1-5)
util-linux: already installed (2.19.1-5)
-libc6-dev: already installed (2.13-20)
+libc6-dev: already installed (2.13-21)
gcc: already installed (4:4.6.1-2 >= 4:4.4.3 is satisfied)
g++: already installed (4:4.6.1-2 >= 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 8.9.6
+Using default version 8.9.7
quilt: missing
zlib1g-dev: missing
Checking for dependency conflicts...
@@ -173,34 +174,34 @@ 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 0 not upgraded.
-Need to get 9543 kB of archives.
-After this operation, 30.3 MB of additional disk space will be used.
-Get:1 http://ftp.de.debian.org/debian/ unstable/main libpipeline1 mips 1.2.0-3 [35.6 kB]
-Get:2 http://ftp.de.debian.org/debian/ unstable/main libpcre3 mips 8.12-4 [227 kB]
-Get:3 http://ftp.de.debian.org/debian/ unstable/main bsdmainutils mips 8.2.3 [206 kB]
-Get:4 http://ftp.de.debian.org/debian/ unstable/main groff-base mips 1.21-6 [1152 kB]
-Get:5 http://ftp.de.debian.org/debian/ unstable/main man-db mips 2.6.0.2-2 [990 kB]
-Get:6 http://ftp.de.debian.org/debian/ unstable/main libmagic1 mips 5.08-1 [250 kB]
-Get:7 http://ftp.de.debian.org/debian/ unstable/main file mips 5.08-1 [51.8 kB]
-Get:8 http://ftp.de.debian.org/debian/ unstable/main gettext-base mips 0.18.1.1-4 [142 kB]
-Get:9 http://ftp.de.debian.org/debian/ unstable/main libxml2 mips 2.7.8.dfsg-4 [858 kB]
-Get:10 http://ftp.de.debian.org/debian/ unstable/main html2text mips 1.3.2a-15 [103 kB]
-Get:11 http://ftp.de.debian.org/debian/ unstable/main libglib2.0-0 mips 2.28.6-1 [1509 kB]
-Get:12 http://ftp.de.debian.org/debian/ unstable/main libcroco3 mips 0.6.2-1 [110 kB]
-Get:13 http://ftp.de.debian.org/debian/ unstable/main libunistring0 mips 0.9.3-4 [415 kB]
-Get:14 http://ftp.de.debian.org/debian/ unstable/main gettext mips 0.18.1.1-4 [2025 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 8.9.6 [562 kB]
-Get:18 http://ftp.de.debian.org/debian/ unstable/main cdbs all 0.4.96 [75.8 kB]
-Get:19 http://ftp.de.debian.org/debian/ unstable/main diffstat mips 1.54-1 [28.8 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 mips 1:1.2.3.4.dfsg-3 [191 kB]
+0 upgraded, 21 newly installed, 0 to remove and 12 not upgraded.
+Need to get 9537 kB of archives.
+After this operation, 30.1 MB of additional disk space will be used.
+Get:1 http://mirror-ubc.debian.org/debian/ unstable/main libpipeline1 mips 1.2.0-3 [35.6 kB]
+Get:2 http://mirror-ubc.debian.org/debian/ unstable/main libpcre3 mips 8.12-4 [227 kB]
+Get:3 http://mirror-ubc.debian.org/debian/ unstable/main bsdmainutils mips 8.2.3 [206 kB]
+Get:4 http://mirror-ubc.debian.org/debian/ unstable/main groff-base mips 1.21-6 [1152 kB]
+Get:5 http://mirror-ubc.debian.org/debian/ unstable/main man-db mips 2.6.0.2-2 [990 kB]
+Get:6 http://mirror-ubc.debian.org/debian/ unstable/main libmagic1 mips 5.08-1 [250 kB]
+Get:7 http://mirror-ubc.debian.org/debian/ unstable/main file mips 5.08-1 [51.8 kB]
+Get:8 http://mirror-ubc.debian.org/debian/ unstable/main gettext-base mips 0.18.1.1-4 [142 kB]
+Get:9 http://mirror-ubc.debian.org/debian/ unstable/main libxml2 mips 2.7.8.dfsg-4 [858 kB]
+Get:10 http://mirror-ubc.debian.org/debian/ unstable/main cdbs all 0.4.99 [77.1 kB]
+Get:11 http://mirror-ubc.debian.org/debian/ unstable/main html2text mips 1.3.2a-15 [103 kB]
+Get:12 http://mirror-ubc.debian.org/debian/ unstable/main libglib2.0-0 mips 2.28.6-1 [1509 kB]
+Get:13 http://mirror-ubc.debian.org/debian/ unstable/main libcroco3 mips 0.6.2-1 [110 kB]
+Get:14 http://mirror-ubc.debian.org/debian/ unstable/main libunistring0 mips 0.9.3-4 [415 kB]
+Get:15 http://mirror-ubc.debian.org/debian/ unstable/main gettext mips 0.18.1.1-4 [2025 kB]
+Get:16 http://mirror-ubc.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get:17 http://mirror-ubc.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get:18 http://mirror-ubc.debian.org/debian/ unstable/main debhelper all 8.9.7 [552 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 0.48-8 [357 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 9543 kB in 2s (4019 kB/s)
+Fetched 9537 kB in 1s (5151 kB/s)
Selecting previously deselected package libpipeline1.
-(Reading database ... 10620 files and directories currently installed.)
+(Reading database ... 10546 files and directories currently installed.)
Unpacking libpipeline1 (from .../libpipeline1_1.2.0-3_mips.deb) ...
Selecting previously deselected package libpcre3.
Unpacking libpcre3 (from .../libpcre3_8.12-4_mips.deb) ...
@@ -218,6 +219,8 @@ Selecting previously deselected package gettext-base.
Unpacking gettext-base (from .../gettext-base_0.18.1.1-4_mips.deb) ...
Selecting previously deselected package libxml2.
Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-4_mips.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.99_all.deb) ...
Selecting previously deselected package html2text.
Unpacking html2text (from .../html2text_1.3.2a-15_mips.deb) ...
Selecting previously deselected package libglib2.0-0.
@@ -233,13 +236,11 @@ 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_8.9.6_all.deb) ...
-Selecting previously deselected package cdbs.
-Unpacking cdbs (from .../archives/cdbs_0.4.96_all.deb) ...
+Unpacking debhelper (from .../debhelper_8.9.7_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) ...
+Unpacking quilt (from .../archives/quilt_0.48-8_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 libpipeline1 (1.2.0-3) ...
@@ -254,6 +255,7 @@ Setting up libmagic1 (5.08-1) ...
Setting up file (5.08-1) ...
Setting up gettext-base (0.18.1.1-4) ...
Setting up libxml2 (2.7.8.dfsg-4) ...
+Setting up cdbs (0.4.99) ...
Setting up html2text (1.3.2a-15) ...
Setting up libglib2.0-0 (2.28.6-1) ...
No schema files found: doing nothing.
@@ -262,20 +264,19 @@ Setting up libunistring0 (0.9.3-4) ...
Setting up gettext (0.18.1.1-4) ...
Setting up intltool-debian (0.35.0+20060710.1) ...
Setting up po-debconf (1.0.16+nmu1) ...
-Setting up debhelper (8.9.6) ...
-Setting up cdbs (0.4.96) ...
+Setting up debhelper (8.9.7) ...
Setting up diffstat (1.54-1) ...
-Setting up quilt (0.48-7) ...
+Setting up quilt (0.48-8) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
Removing negative dependencies:
Reading package lists...
Building dependency tree...
Reading state information...
-0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 12 not upgraded.
Checking correctness of dependencies...
-Kernel: Linux 2.6.32-5-sb1-bcm91250a mips (mips64)
-Toolchain package versions: binutils_2.21.53.20110910-1 dpkg-dev_1.16.0.3 g++-4.6_4.6.1-9 gcc-4.6_4.6.1-9 libc6-dev_2.13-20 libstdc++6_4.6.1-9 libstdc++6-4.6-dev_4.6.1-9 linux-libc-dev_3.0.0-3
-Package versions: apt_0.8.15.6 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.53.20110910-1 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 cdbs_0.4.96 coreutils_8.5-1 cpp_4:4.6.1-2 cpp-4.6_4.6.1-9 dash_0.5.7-1 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.6 debian-archive-keyring_2010.08.28 debianutils_4.0.2 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.42~WIP-2011-07-02-1 e2fsprogs_1.42~WIP-2011-07-02-1 fakeroot_1.18-1 file_5.08-1 findutils_4.4.2-1+b1 g++_4:4.6.1-2 g++-4.6_4.6.1-9 gcc_4:4.6.1-2 gcc-4.4-base_4.4.6-10 gcc-4.6_4.6.1-9 gcc-4.6-base_4.6.1-9 gettext_0.18.1.1-4 gettext-base_0.18.1.1-4 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.11 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-3 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbz2-1.0_1.0.5-7 libc-bin_2.13-20 libc-dev-bin_2.13-20 libc6_2.13-20 libc6-dev_2.13-20 libcomerr2_1.42~WIP-2011-07-02-1 libcroco3_0.6.2-1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.0.3 libgc1c2_1:7.1-8 libgcc1_1:4.6.1-9 libgdbm3_1.8.3-10 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.2+dfsg-1 libgomp1_4.6.1-9 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.08-1 libmount1_2.19.1-5 libmpc2_0.9-3 libmpfr4_3.0.1-6 libncurses5_5.9-1 libpam-modules_1.1.3-2 libpam-modules-bin_1.1.3-2 libpam-runtime_1.1.3-2 libpam0g_1.1.3-2 libpcre3_8.12-4 libpipeline1_1.2.0-3 libreadline6_6.2-4 libselinux1_2.1.0-1 libsepol1_2.1.0-1.1 libslang2_2.2.4-3 libss2_1.42~WIP-2011-07-02-1 libstdc++6_4.6.1-9 libstdc++6-4.6-dev_4.6.1-9 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-4 linux-libc-dev_3.0.0-3 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-15 mount_2.19.1-5 multiarch-support_2.13-20 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-4 perl-base_5.12.4-4 perl-modules_5.12.4-4 po-debconf_1.0.16+nmu1 quilt_0.48-7 readline-common_6.2-4 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.2-1 sysv-rc_2.88dsf-13.11 sysvinit_2.88dsf-13.11 sysvinit-utils_2.88dsf-13.11 tar_1.26-2 tzdata_2011i-2 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+Kernel: Linux 2.6.35.4-dsa-octeon mips (mips64)
+Toolchain package versions: binutils_2.21.53.20110910-1 dpkg-dev_1.16.0.3 g++-4.6_4.6.1-11 gcc-4.6_4.6.1-11 libc6-dev_2.13-21 libstdc++6_4.6.1-11 libstdc++6-4.6-dev_4.6.1-11 linux-libc-dev_3.0.0-3
+Package versions: apt_0.8.15.8 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.53.20110910-1 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 cdbs_0.4.99 coreutils_8.13-1 cpp_4:4.6.1-2 cpp-4.6_4.6.1-11 dash_0.5.7-1 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.7 debian-archive-keyring_2010.08.28 debianutils_4.0.2 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.42~WIP-2011-07-02-1 e2fsprogs_1.42~WIP-2011-07-02-1 fakeroot_1.18-1 file_5.08-1 findutils_4.4.2-1+b1 g++_4:4.6.1-2 g++-4.6_4.6.1-11 gcc_4:4.6.1-2 gcc-4.6_4.6.1-11 gcc-4.6-base_4.6.1-11 gettext_0.18.1.1-4 gettext-base_0.18.1.1-4 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.11 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-3 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbz2-1.0_1.0.5-7 libc-bin_2.13-21 libc-dev-bin_2.13-21 libc6_2.13-21 libc6-dev_2.13-21 libcomerr2_1.42~WIP-2011-07-02-1 libcroco3_0.6.2-1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.0.3 libgc1c2_1:7.1-8 libgcc1_1:4.6.1-11 libgdbm3_1.8.3-10 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.2+dfsg-1 libgomp1_4.6.1-11 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.08-1 libmount1_2.19.1-5 libmpc2_0.9-3 libmpfr4_3.0.1-6 libncurses5_5.9-1 libpam-modules_1.1.3-2 libpam-modules-bin_1.1.3-2 libpam-runtime_1.1.3-2 libpam0g_1.1.3-2 libpcre3_8.12-4 libpipeline1_1.2.0-3 libreadline6_6.2-4 libselinux1_2.1.0-1 libsepol1_2.1.0-1.1 libslang2_2.2.4-3 libss2_1.42~WIP-2011-07-02-1 libstdc++6_4.6.1-11 libstdc++6-4.6-dev_4.6.1-11 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-4 linux-libc-dev_3.0.0-3 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-15 mount_2.19.1-5 multiarch-support_2.13-21 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-4 perl-base_5.12.4-4 perl-modules_5.12.4-4 po-debconf_1.0.16+nmu1 quilt_0.48-8 readline-common_6.2-4 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.2-1 sysv-rc_2.88dsf-13.11 sysvinit_2.88dsf-13.11 sysvinit-utils_2.88dsf-13.11 tar_1.26-2 tzdata_2011j-1 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -285,13 +286,13 @@ Package versions: apt_0.8.15.6 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binu
Unpack source
─────────────
-gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
-gpgv: Signature made Sun Sep 11 00:44:52 2011 UTC using RSA key ID 2295D502
+gpgv: keyblock resource `/home/buildd2/.gnupg/trustedkeys.gpg': file open error
+gpgv: Signature made Sat Sep 24 01:39:55 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_2.13.1-1.dsc
-dpkg-source: info: extracting bedtools in bedtools-2.13.1
-dpkg-source: info: unpacking bedtools_2.13.1.orig.tar.xz
-dpkg-source: info: unpacking bedtools_2.13.1-1.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bedtools_2.13.2-1.dsc
+dpkg-source: info: extracting bedtools in bedtools-2.13.2
+dpkg-source: info: unpacking bedtools_2.13.2.orig.tar.xz
+dpkg-source: info: unpacking bedtools_2.13.2-1.debian.tar.gz
dpkg-source: info: applying gzstream.h.patch
Check disc space
@@ -307,24 +308,24 @@ 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 2.13.1-1
- dpkg-source --before-build bedtools-2.13.1
+dpkg-buildpackage: source version 2.13.2-1
+ dpkg-source --before-build bedtools-2.13.2
dpkg-buildpackage: host architecture mips
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_2.13.1-1-mips-JdsEXM/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd2-bedtools_2.13.2-1-mips-gqBRBb/bedtools-2.13.2'
Cleaning up.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-mips-JdsEXM/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd2-bedtools_2.13.2-1-mips-gqBRBb/bedtools-2.13.2'
dh_clean
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/build/buildd-bedtools_2.13.1-1-mips-JdsEXM/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd2-bedtools_2.13.2-1-mips-gqBRBb/bedtools-2.13.2'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-mips-JdsEXM/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd2-bedtools_2.13.2-1-mips-gqBRBb/bedtools-2.13.2'
if [ -d "." ]; then \
- cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.1-1-mips-JdsEXM/bedtools-2.13.1/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
+ cd . && QUILT_PATCHES=/build/buildd2-bedtools_2.13.2-1-mips-gqBRBb/bedtools-2.13.2/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
fi
Removing patch gzstream.h.patch
Restoring src/utils/gzstream/gzstream.C
@@ -337,21 +338,21 @@ test -x debian/rules
mkdir -p "."
/usr/share/cdbs/1/rules/buildcore.mk:109: WARNING: DEB_DH_BUILDDEB_ARGS is a deprecated variable
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/build/buildd-bedtools_2.13.1-1-mips-JdsEXM/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd2-bedtools_2.13.2-1-mips-gqBRBb/bedtools-2.13.2'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-mips-JdsEXM/bedtools-2.13.1'
-cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.1-1-mips-JdsEXM/bedtools-2.13.1/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
+make[1]: Leaving directory `/build/buildd2-bedtools_2.13.2-1-mips-gqBRBb/bedtools-2.13.2'
+cd . && QUILT_PATCHES=/build/buildd2-bedtools_2.13.2-1-mips-gqBRBb/bedtools-2.13.2/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_2.13.1-1-mips-JdsEXM/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd2-bedtools_2.13.2-1-mips-gqBRBb/bedtools-2.13.2'
make[1]: Nothing to be done for `update-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-mips-JdsEXM/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd2-bedtools_2.13.2-1-mips-gqBRBb/bedtools-2.13.2'
/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_2.13.1-1-mips-JdsEXM/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd2-bedtools_2.13.2-1-mips-gqBRBb/bedtools-2.13.2'
[ -d obj ] || mkdir -p obj
[ -d bin ] || mkdir -p bin
Building BEDTools:
@@ -365,10 +366,8 @@ Building BEDTools:
- Building in src/utils/bedGraphFile
* compiling bedGraphFile.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/chromsweep
+ * compiling chromsweep.cpp
- Building in src/utils/gzstream
g++ -g -O2 -g -O2 -Wall -c -o ../../../obj//gzstream.o gzstream.C -I.
@@ -433,6 +432,11 @@ Fasta.cpp:31:17: warning: converting to non-pointer type 'int' from NULL [-Wconv
Fasta.cpp:32:17: warning: converting to non-pointer type 'int' from NULL [-Wconversion-null]
* compiling split.cpp
+- Building in src/utils/genomeFile
+ * compiling genomeFile.cpp
+genomeFile.cpp: In member function 'void GenomeFile::loadGenomeFileIntoMap()':
+genomeFile.cpp:61:26: warning: variable 'c2' set but not used [-Wunused-but-set-variable]
+
- Building in src/annotateBed
* compiling annotateMain.cpp
annotateMain.cpp: In function 'int main(int, char**)':
@@ -537,9 +541,9 @@ 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:254:12: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp:255:12: 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:306:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp:307:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
* linking pairToBed
- Building in src/pairToPair
@@ -595,7 +599,7 @@ unionBedGraphsMain.cpp:49:10: warning: variable 'haveFiller' set but not used [-
* compiling windowBed.cpp
* linking windowBed
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-mips-JdsEXM/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd2-bedtools_2.13.2-1-mips-gqBRBb/bedtools-2.13.2'
touch debian/stamp-makefile-build
DEB_MAKE_CHECK_TARGET unset, not running checks
fakeroot debian/rules binary-arch
@@ -640,61 +644,56 @@ dh_shlibdeps -pbedtools
dh_gencontrol -pbedtools
dh_md5sums -pbedtools
dh_builddeb -pbedtools -- -Z xz
-dpkg-deb: building package `bedtools' in `../bedtools_2.13.1-1_mips.deb'.
- dpkg-genchanges -B -mDebian Build Daemon <buildd_mips-ball at buildd.debian.org> >../bedtools_2.13.1-1_mips.changes
+dpkg-deb: building package `bedtools' in `../bedtools_2.13.2-1_mips.deb'.
+ dpkg-genchanges -B -mmips Build Daemon (lucatelli) <buildd_mips-lucatelli2 at buildd.debian.org> >../bedtools_2.13.2-1_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-2.13.1
+ dpkg-source --after-build bedtools-2.13.2
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110911-0129
+Build finished at 20110925-1409
-bedtools_2.13.1-1_mips.changes:
+bedtools_2.13.2-1_mips.changes:
Format: 1.8
-Date: Sat, 10 Sep 2011 23:32:43 +0900
+Date: Sat, 24 Sep 2011 09:34:29 +0900
Source: bedtools
Binary: bedtools
Architecture: mips
-Version: 2.13.1-1
+Version: 2.13.2-1
Distribution: sid
Urgency: low
-Maintainer: Debian Build Daemon <buildd_mips-ball at buildd.debian.org>
+Maintainer: mips Build Daemon (lucatelli) <buildd_mips-lucatelli2 at buildd.debian.org>
Changed-By: Charles Plessy <plessy at debian.org>
Description:
bedtools - suite of utilities for comparing genomic features
Changes:
- bedtools (2.13.1-1) unstable; urgency=low
+ bedtools (2.13.2-1) unstable; urgency=low
.
- [2e3fe5e] New upstream release.
- [ff5450e] Compress source and binary packages with xz.
- [ef58a33] Suggest filo for the groupBy command.
- [df206c0] Mangle debian/watch download URL.
- [2fe7cff] Simplified repacking as upstream tarballs do not contain
- ‘*/*DS_Store’ files anymore.
+ [1930a26] New upstream release.
Checksums-Sha1:
- 876281e77d10c1a0d091e715cf03abe79fd114a0 581984 bedtools_2.13.1-1_mips.deb
+ fccb540a7cb1bbf29fc62cd651d17b5a2a267b4a 596060 bedtools_2.13.2-1_mips.deb
Checksums-Sha256:
- e1249e7783a9cd23a20ce96423c01af0676bbcb6a1808d568a672f4b7c3da822 581984 bedtools_2.13.1-1_mips.deb
+ 1f556218272a9879f901c7eb1d2bf3af3c5a4c4a25c191eeaf3baefe648ec415 596060 bedtools_2.13.2-1_mips.deb
Files:
- 28fb1b6c4b53a7b1525fab1602cd17f8 581984 science optional bedtools_2.13.1-1_mips.deb
+ 70fcfea4c52588df83e24316e1cd3fb2 596060 science optional bedtools_2.13.2-1_mips.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bedtools_2.13.1-1_mips.deb
+bedtools_2.13.2-1_mips.deb
──────────────────────────
new debian package, version 2.0.
- size 581984 bytes: control archive= 1728 bytes.
+ size 596060 bytes: control archive= 1720 bytes.
834 bytes, 18 lines control
- 2028 bytes, 35 lines md5sums
+ 2025 bytes, 35 lines md5sums
Package: bedtools
- Version: 2.13.1-1
+ Version: 2.13.2-1
Architecture: mips
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 5112
+ Installed-Size: 5184
Depends: libc6 (>= 2.2), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
Suggests: filo
Section: science
@@ -709,49 +708,7 @@ bedtools_2.13.1-1_mips.deb
.
The groupBy utility is distribued in the filo package.
-drwxr-xr-x root/root 0 2011-09-11 01:28 ./
-drwxr-xr-x root/root 0 2011-09-11 01:28 ./usr/
-drwxr-xr-x root/root 0 2011-09-11 01:28 ./usr/share/
-drwxr-xr-x root/root 0 2011-09-11 01:28 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-09-11 01:28 ./usr/share/doc/bedtools/
--rw-r--r-- root/root 4611 2011-09-10 14:21 ./usr/share/doc/bedtools/copyright
--rw-r--r-- root/root 10990 2011-09-07 00:36 ./usr/share/doc/bedtools/changelog.gz
--rw-r--r-- root/root 391 2011-09-10 14:32 ./usr/share/doc/bedtools/changelog.Debian.gz
--rw-r--r-- root/root 1586 2011-09-07 00:36 ./usr/share/doc/bedtools/README.rst.gz
-drwxr-xr-x root/root 0 2011-09-11 01:28 ./usr/share/bedtools/
-drwxr-xr-x root/root 0 2011-09-11 01:11 ./usr/share/bedtools/genomes/
--rwxr-xr-x root/root 565 2011-09-07 00:36 ./usr/share/bedtools/genomes/mouse.mm8.genome
--rwxr-xr-x root/root 586 2011-09-07 00:36 ./usr/share/bedtools/genomes/mouse.mm9.genome
--rwxr-xr-x root/root 856 2011-09-07 00:36 ./usr/share/bedtools/genomes/human.hg18.genome
--rwxr-xr-x root/root 1972 2011-09-07 00:36 ./usr/share/bedtools/genomes/human.hg19.genome
-drwxr-xr-x root/root 0 2011-09-11 01:28 ./usr/bin/
--rwxr-xr-x root/root 111592 2011-09-11 01:28 ./usr/bin/annotateBed
--rwxr-xr-x root/root 103448 2011-09-11 01:28 ./usr/bin/bed12ToBed6
--rwxr-xr-x root/root 114088 2011-09-11 01:28 ./usr/bin/linksBed
--rwxr-xr-x root/root 127304 2011-09-11 01:28 ./usr/bin/bedToIgv
--rwxr-xr-x root/root 294892 2011-09-11 01:28 ./usr/bin/tagBam
--rwxr-xr-x root/root 135656 2011-09-11 01:28 ./usr/bin/shuffleBed
--rwxr-xr-x root/root 303692 2011-09-11 01:28 ./usr/bin/coverageBed
--rwxr-xr-x root/root 118456 2011-09-11 01:28 ./usr/bin/maskFastaFromBed
--rwxr-xr-x root/root 116104 2011-09-11 01:28 ./usr/bin/mergeBed
--rwxr-xr-x root/root 152732 2011-09-11 01:28 ./usr/bin/fastaFromBed
--rwxr-xr-x root/root 151640 2011-09-11 01:28 ./usr/bin/sortBed
--rwxr-xr-x root/root 63016 2011-09-11 01:28 ./usr/bin/unionBedGraphs
--rwxr-xr-x root/root 326428 2011-09-11 01:28 ./usr/bin/multiBamCov
--rwxr-xr-x root/root 320172 2011-09-11 01:28 ./usr/bin/genomeCoverageBed
--rwxr-xr-x root/root 244348 2011-09-11 01:28 ./usr/bin/bedToBam
--rwxr-xr-x root/root 187160 2011-09-11 01:28 ./usr/bin/pairToPair
--rwxr-xr-x root/root 152780 2011-09-11 01:28 ./usr/bin/nucBed
--rwxr-xr-x root/root 126648 2011-09-11 01:28 ./usr/bin/closestBed
--rwxr-xr-x root/root 311420 2011-09-11 01:28 ./usr/bin/windowBed
--rwxr-xr-x root/root 93608 2011-09-11 01:28 ./usr/bin/overlap
--rwxr-xr-x root/root 119864 2011-09-11 01:28 ./usr/bin/flankBed
--rwxr-xr-x root/root 241532 2011-09-11 01:28 ./usr/bin/bamToBed
--rwxr-xr-x root/root 119656 2011-09-11 01:28 ./usr/bin/subtractBed
--rwxr-xr-x root/root 328172 2011-09-11 01:28 ./usr/bin/intersectBed
--rwxr-xr-x root/root 112344 2011-09-11 01:28 ./usr/bin/slopBed
--rwxr-xr-x root/root 390844 2011-09-11 01:28 ./usr/bin/pairToBed
--rwxr-xr-x root/root 113096 2011-09-11 01:28 ./usr/bin/complementBed
+dpkg-deb: file `/var/lib/schroot/mount/sid-mips-sbuild-9eec9f59-3884-4d3e-b400-fcb6692b0005/build/buildd2-bedtools_2.13.2-1-mips-gqBRBb/bedtools_2.13.2-1_mips.deb' contains ununderstood data member data.tar.xz , giving up
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -765,89 +722,88 @@ Built successfully
│ Post Build │
└──────────────────────────────────────────────────────────────────────────────┘
-Purging /var/lib/schroot/mount/sid-mips-sbuild-14fc924b-d274-429b-972e-cbe99af6238b/build/buildd-bedtools_2.13.1-1-mips-JdsEXM
+Purging /var/lib/schroot/mount/sid-mips-sbuild-9eec9f59-3884-4d3e-b400-fcb6692b0005/build/buildd2-bedtools_2.13.2-1-mips-gqBRBb
Not cleaning session: cloned chroot in use
+Can't open average time db /var/lib/sbuild/avg-build-times
+Can't open average space db /var/lib/sbuild/avg-build-space
┌──────────────────────────────────────────────────────────────────────────────┐
│ Summary │
└──────────────────────────────────────────────────────────────────────────────┘
Architecture: mips
-Build-Space: 99468
-Build-Time: 1068
+Build-Space: 101716
+Build-Time: 2788
Distribution: sid
-Install-Time: 93
-Job: bedtools_2.13.1-1
+Install-Time: 84
+Job: bedtools_2.13.2-1
Package: bedtools
-Package-Time: 1289
-Source-Version: 2.13.1-1
-Space: 99468
+Package-Time: 3033
+Source-Version: 2.13.2-1
+Space: 101716
Status: successful
-Version: 2.13.1-1
+Version: 2.13.2-1
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110911-0129
-Build needed 00:21:29, 99468k disc space
-Signature with key '2D578AB1' requested:
+Finished at 20110925-1409
+Build needed 00:50:33, 101716k disc space
+Signature with key 'FDFDA76A' requested:
-From buildd at monteverdi.ayous.org Sun Sep 11 01:31:13 2011
-Return-path: <buildd at monteverdi.ayous.org>
-Received: from monteverdi.ayous.org ([2001:a60:f006:deb:20a:1ff:fe00:987]
+From buildd at phrixos.ayous.org Sat Sep 24 04:29:14 2011
+Return-path: <buildd at phrixos.ayous.org>
+Received: from phrixos.ayous.org ([2001:a60:f006:deb:223:9eff:fe00:f7c]
helo=alius.ayous.org)
by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.72) (envelope-from <buildd at monteverdi.ayous.org>)
- id 1R2Yt6-0008Mp-1t
- for logs at buildd.debian.org; Sun, 11 Sep 2011 01:31:13 +0000
-Received: from buildd by monteverdi.ayous.org with local (Exim 4.72)
- (envelope-from <buildd at monteverdi.ayous.org>)
- id 1R2Yts-0005cc-9E; Sun, 11 Sep 2011 01:32:00 +0000
-Date: Sun, 11 Sep 2011 01:32:00 +0000
-Message-Id: <E1R2Yts-0005cc-9E at monteverdi.ayous.org>
-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_2.13.1-1 on mipsel (dist=sid)
+ (Exim 4.72) (envelope-from <buildd at phrixos.ayous.org>)
+ id 1R7JrU-0001Tl-UG
+ for logs at buildd.debian.org; Sat, 24 Sep 2011 04:29:14 +0000
+Received: from buildd by phrixos.ayous.org with local (Exim 4.72)
+ (envelope-from <buildd at phrixos.ayous.org>)
+ id 1R7KLf-00063X-Sn; Sat, 24 Sep 2011 05:00:24 +0000
+Date: Sat, 24 Sep 2011 05:00:23 +0000
+Message-Id: <E1R7KLf-00063X-Sn at phrixos.ayous.org>
+From: buildd on phrixos <buildd at phrixos.ayous.org>
+To: aba+buildd_phrixos at not.so.argh.org,logs at buildd.debian.org
+Subject: Log for successful build of bedtools_2.13.2-1 on mipsel (dist=sid)
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit
Delivered-To: logs at buildd.debian.org
-sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on monteverdi.ayous.org
+sbuild (Debian sbuild) 0.60.0 (23 Feb 2010) on phrixos.ayous.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bedtools 2.13.1-1 (mipsel) 11 Sep 2011 01:08 ║
+║ bedtools 2.13.2-1 (mipsel) 24 Sep 2011 04:39 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bedtools
-Version: 2.13.1-1
-Source Version: 2.13.1-1
+Version: 2.13.2-1
Architecture: mipsel
-Ign http://mirror.ayous.org unstable InRelease
-Ign http://incoming.debian.org unstable InRelease
-Ign http://incoming.debian.org InRelease
-Get:1 http://mirror.ayous.org unstable Release.gpg [836 B]
-Get:2 http://mirror.ayous.org unstable Release [145 kB]
+Chroot Build Dir: /var/lib/schroot/mount/sid-mipsel-sbuild-5db71cd2-56ce-4b78-8919-738b65028116/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj
+Start Time: 20110924-0439
+Get:1 http://incoming.debian.org unstable InRelease [146 kB]
+Get:2 http://mirror.ayous.org unstable InRelease [146 kB]
Ign http://mirror.ayous.org unstable/contrib TranslationIndex
Get:3 http://mirror.ayous.org unstable/main TranslationIndex [2045 B]
-Get:4 http://mirror.ayous.org unstable/main Sources [7228 kB]
-Get:5 http://incoming.debian.org unstable Release.gpg [836 B]
+Get:4 http://mirror.ayous.org unstable/main Sources [7251 kB]
+Ign http://incoming.debian.org InRelease
+Ign http://incoming.debian.org unstable/contrib TranslationIndex
+Get:5 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
Get:6 http://incoming.debian.org Release.gpg [836 B]
-Get:7 http://incoming.debian.org unstable Release [145 kB]
-Get:8 http://mirror.ayous.org unstable/contrib Sources [68.3 kB]
+Get:7 http://incoming.debian.org unstable/main Sources [7251 kB]
+Get:8 http://mirror.ayous.org unstable/contrib Sources [67.1 kB]
Get:9 http://mirror.ayous.org unstable/non-free Sources [123 kB]
-Get:10 http://mirror.ayous.org unstable/main mipsel Packages [9811 kB]
-Get:11 http://incoming.debian.org Release [1604 B]
-Ign http://incoming.debian.org unstable/contrib TranslationIndex
-Get:12 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
-Get:13 http://incoming.debian.org unstable/main Sources [7228 kB]
-Get:14 http://incoming.debian.org unstable/contrib Sources [68.3 kB]
-Get:15 http://incoming.debian.org unstable/non-free Sources [123 kB]
-Get:16 http://incoming.debian.org unstable/main mipsel Packages [9811 kB]
-Get:17 http://mirror.ayous.org unstable/contrib mipsel Packages [68.6 kB]
+Get:10 http://mirror.ayous.org unstable/main mipsel Packages [9881 kB]
+Get:11 http://incoming.debian.org unstable/contrib Sources [67.1 kB]
+Get:12 http://incoming.debian.org unstable/non-free Sources [123 kB]
+Get:13 http://incoming.debian.org unstable/main mipsel Packages [9881 kB]
+Get:14 http://mirror.ayous.org unstable/contrib mipsel Packages [67.5 kB]
Ign http://mirror.ayous.org unstable/contrib Translation-en
-Get:18 http://incoming.debian.org unstable/contrib mipsel Packages [68.6 kB]
-Get:19 http://incoming.debian.org Sources [37.2 kB]
-Get:20 http://incoming.debian.org Packages [464 kB]
-Ign http://incoming.debian.org Translation-en
+Get:15 http://incoming.debian.org unstable/contrib mipsel Packages [67.5 kB]
+Get:16 http://incoming.debian.org Release [1604 B]
+Get:17 http://incoming.debian.org Sources [38.6 kB]
+Get:18 http://incoming.debian.org Packages [903 kB]
Ign http://incoming.debian.org unstable/contrib Translation-en
-Fetched 35.4 MB in 45s (781 kB/s)
+Ign http://incoming.debian.org Translation-en
+Fetched 36.0 MB in 27s (1296 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -868,79 +824,30 @@ 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 664 kB of source archives.
-Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (dsc) [1921 B]
-Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (tar) [658 kB]
-Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (diff) [4254 B]
-Fetched 664 kB in 2s (242 kB/s)
+Need to get 666 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (dsc) [1967 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (tar) [659 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (diff) [4285 B]
+Fetched 666 kB in 2s (234 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 core build dependencies (internal resolver) │
-└──────────────────────────────────────────────────────────────────────────────┘
-
-Build-Depends: build-essential, fakeroot
-Checking for already installed dependencies...
-build-essential: already installed (11.5)
-fakeroot: already installed (1.18-1)
-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) │
+│ Install 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 (6.5)
-base-passwd: already installed (3.5.23)
-bash: already installed (4.1-3)
-coreutils: already installed (8.5-1)
-dash: already installed (0.5.7-1)
-debianutils: already installed (4.0.2)
-diffutils: already installed (1:3.0-1)
-dpkg: already installed (1.16.0.3)
-e2fsprogs: already installed (1.42~WIP-2011-07-02-1)
-findutils: already installed (4.4.2-1+b1)
-grep: already installed (2.9-2)
-gzip: already installed (1.4-1)
-hostname: already installed (3.06)
-ncurses-base: already installed (5.9-1)
-ncurses-bin: already installed (5.9-1)
-perl-base: already installed (5.12.4-4)
-sed: already installed (4.2.1-9)
-login: already installed (1:4.1.4.2+svn3283-3)
-sysvinit-utils: already installed (2.88dsf-13.11)
-sysvinit: already installed (2.88dsf-13.11)
-tar: already installed (1.26-2)
-bsdutils: already installed (1:2.19.1-5)
-mount: already installed (2.19.1-5)
-util-linux: already installed (2.19.1-5)
-libc6-dev: already installed (2.13-18)
-gcc: already installed (4:4.6.1-2 >= 4:4.4.3 is satisfied)
-g++: already installed (4:4.6.1-2 >= 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)
+Checking for already installed source dependencies...
cdbs: missing
debhelper: missing
-Using default version 8.9.6
+Using default version 8.9.7
quilt: missing
zlib1g-dev: missing
-Checking for dependency conflicts...
+Checking for source dependency conflicts...
Installing positive dependencies: cdbs debhelper quilt zlib1g-dev
Reading package lists...
Building dependency tree...
@@ -959,9 +866,9 @@ 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 1 not upgraded.
-Need to get 9492 kB of archives.
-After this operation, 30.2 MB of additional disk space will be used.
+0 upgraded, 21 newly installed, 0 to remove and 26 not upgraded.
+Need to get 9486 kB of archives.
+After this operation, 30.1 MB of additional disk space will be used.
Get:1 http://mirror.ayous.org/debian/ unstable/main libpipeline1 mipsel 1.2.0-3 [35.7 kB]
Get:2 http://mirror.ayous.org/debian/ unstable/main libpcre3 mipsel 8.12-4 [227 kB]
Get:3 http://mirror.ayous.org/debian/ unstable/main bsdmainutils mipsel 8.2.3 [208 kB]
@@ -971,22 +878,22 @@ Get:6 http://mirror.ayous.org/debian/ unstable/main libmagic1 mipsel 5.08-1 [248
Get:7 http://mirror.ayous.org/debian/ unstable/main file mipsel 5.08-1 [51.7 kB]
Get:8 http://mirror.ayous.org/debian/ unstable/main gettext-base mipsel 0.18.1.1-4 [133 kB]
Get:9 http://mirror.ayous.org/debian/ unstable/main libxml2 mipsel 2.7.8.dfsg-4 [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 0.18.1.1-4 [2008 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 8.9.6 [562 kB]
-Get:18 http://mirror.ayous.org/debian/ unstable/main cdbs all 0.4.96 [75.8 kB]
+Get:10 http://mirror.ayous.org/debian/ unstable/main cdbs all 0.4.99 [77.1 kB]
+Get:11 http://mirror.ayous.org/debian/ unstable/main html2text mipsel 1.3.2a-15 [103 kB]
+Get:12 http://mirror.ayous.org/debian/ unstable/main libglib2.0-0 mipsel 2.28.6-1 [1503 kB]
+Get:13 http://mirror.ayous.org/debian/ unstable/main libcroco3 mipsel 0.6.2-1 [110 kB]
+Get:14 http://mirror.ayous.org/debian/ unstable/main libunistring0 mipsel 0.9.3-4 [411 kB]
+Get:15 http://mirror.ayous.org/debian/ unstable/main gettext mipsel 0.18.1.1-4 [2008 kB]
+Get:16 http://mirror.ayous.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get:17 http://mirror.ayous.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get:18 http://mirror.ayous.org/debian/ unstable/main debhelper all 8.9.7 [552 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:20 http://mirror.ayous.org/debian/ unstable/main quilt all 0.48-8 [357 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 9492 kB in 1s (5626 kB/s)
+Fetched 9486 kB in 1s (5578 kB/s)
Selecting previously deselected package libpipeline1.
-(Reading database ... 10771 files and directories currently installed.)
+(Reading database ... 11488 files and directories currently installed.)
Unpacking libpipeline1 (from .../libpipeline1_1.2.0-3_mipsel.deb) ...
Selecting previously deselected package libpcre3.
Unpacking libpcre3 (from .../libpcre3_8.12-4_mipsel.deb) ...
@@ -1004,6 +911,8 @@ Selecting previously deselected package gettext-base.
Unpacking gettext-base (from .../gettext-base_0.18.1.1-4_mipsel.deb) ...
Selecting previously deselected package libxml2.
Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-4_mipsel.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.99_all.deb) ...
Selecting previously deselected package html2text.
Unpacking html2text (from .../html2text_1.3.2a-15_mipsel.deb) ...
Selecting previously deselected package libglib2.0-0.
@@ -1019,13 +928,11 @@ 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_8.9.6_all.deb) ...
-Selecting previously deselected package cdbs.
-Unpacking cdbs (from .../archives/cdbs_0.4.96_all.deb) ...
+Unpacking debhelper (from .../debhelper_8.9.7_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) ...
+Unpacking quilt (from .../archives/quilt_0.48-8_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 libpipeline1 (1.2.0-3) ...
@@ -1040,6 +947,7 @@ Setting up libmagic1 (5.08-1) ...
Setting up file (5.08-1) ...
Setting up gettext-base (0.18.1.1-4) ...
Setting up libxml2 (2.7.8.dfsg-4) ...
+Setting up cdbs (0.4.99) ...
Setting up html2text (1.3.2a-15) ...
Setting up libglib2.0-0 (2.28.6-1) ...
No schema files found: doing nothing.
@@ -1048,20 +956,15 @@ Setting up libunistring0 (0.9.3-4) ...
Setting up gettext (0.18.1.1-4) ...
Setting up intltool-debian (0.35.0+20060710.1) ...
Setting up po-debconf (1.0.16+nmu1) ...
-Setting up debhelper (8.9.6) ...
-Setting up cdbs (0.4.96) ...
+Setting up debhelper (8.9.7) ...
Setting up diffstat (1.54-1) ...
-Setting up quilt (0.48-7) ...
+Setting up quilt (0.48-8) ...
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 2.6.39-2-loongson-2e mipsel (mips64)
-Toolchain package versions: binutils_2.21.53.20110823-3 dpkg-dev_1.16.0.3 g++-4.6_4.6.1-9 gcc-4.6_4.6.1-9 libc6-dev_2.13-18 libstdc++6_4.6.1-9 libstdc++6-4.6-dev_4.6.1-9 linux-libc-dev_3.0.0-3
-Package versions: apt_0.8.15.6 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.53.20110823-3 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 cdbs_0.4.96 coreutils_8.5-1 cpp_4:4.6.1-2 cpp-4.6_4.6.1-9 dash_0.5.7-1 debconf_1.5.41 debconf-i18n_1.5.41 debfoster_2.7-1.1 debhelper_8.9.6 debian-archive-keyring_2010.08.28 debianutils_4.0.2 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.42~WIP-2011-07-02-1 e2fsprogs_1.42~WIP-2011-07-02-1 fakeroot_1.18-1 file_5.08-1 findutils_4.4.2-1+b1 g++_4:4.6.1-2 g++-4.6_4.6.1-9 gcc_4:4.6.1-2 gcc-4.4-base_4.4.6-10 gcc-4.5-base_4.5.3-5 gcc-4.6_4.6.1-9 gcc-4.6-base_4.6.1-9 gettext_0.18.1.1-4 gettext-base_0.18.1.1-4 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.11 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-3 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbz2-1.0_1.0.5-7 libc-bin_2.13-18 libc-dev-bin_2.13-18 libc6_2.13-18 libc6-dev_2.13-18 libcomerr2_1.42~WIP-2011-07-02-1 libcroco3_0.6.2-1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.0.3 libgc1c2_1:7.1-8 libgcc1_1:4.6.1-9 libgdbm3_1.8.3-10 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.2+dfsg-1 libgomp1_4.6.1-9 liblocale-gettext-perl_1.05-7 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.08-1 libmount1_2.19.1-5 libmpc2_0.9-3 libmpfr4_3.0.1-6 libncurses5_5.9-1 libpam-modules_1.1.3-2 libpam-modules-bin_1.1.3-2 libpam-runtime_1.1.3-2 libpam0g_1.1.3-2 libpcre3_8.12-4 libpipeline1_1.2.0-3 libreadline6_6.2-4 libselinux1_2.1.0-1 libsepol1_2.1.0-1.1 libslang2_2.2.4-3 libss2_1.42~WIP-2011-07-02-1 libstdc++6_4.6.1-9 libstdc++6-4.6-dev_4.6.1-9 libtext-charwidth-perl_0.04-7 libtext-iconv-perl_1.7-4 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-4 linux-libc-dev_3.0.0-3 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-15 mount_2.19.1-5 multiarch-support_2.13-18 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-4 perl-base_5.12.4-4 perl-modules_5.12.4-4 po-debconf_1.0.16+nmu1 quilt_0.48-7 readline-common_6.2-4 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.2-1 sysv-rc_2.88dsf-13.11 sysvinit_2.88dsf-13.11 sysvinit-utils_2.88dsf-13.11 tar_1.26-2 tzdata_2011i-2 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+Checking correctness of source dependencies...
+Kernel: Linux 3.1.0-rc6+ mipsel (mips64)
+Toolchain package versions: libc6-dev_2.13-18 dpkg-dev_1.16.0.3 linux-libc-dev_3.0.0-3 gcc-4.6_4.6.1-9 g++-4.6_4.6.1-9 binutils_2.21.53.20110910-1 libstdc++6-4.6-dev_4.6.1-9 libstdc++6_4.6.1-9
+Package versions: apt_0.8.15.6 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.53.20110910-1 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 cdbs_0.4.99 coreutils_8.5-1 cpp_4:4.6.1-2 cpp-4.4_4.4.6-10 cpp-4.6_4.6.1-9 dash_0.5.7-1 debconf_1.5.41 debconf-english_1.5.38 debfoster_2.7-1.1 debhelper_8.9.7 debian-archive-keyring_2010.08.28 debianutils_4.0.2 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.42~WIP-2011-07-02-1 e2fsprogs_1.42~WIP-2011-07-02-1 fakeroot_1.18-1 file_5.08-1 findutils_4.4.2-1+b1 g++_4:4.6.1-2 g++-4.4_4.4.6-10 g++-4.6_4.6.1-9 gcc_4:4.6.1-2 gcc-4.4_4.4.6-10 gcc-4.4-base_4.4.6-10 gcc-4.5-base_4.5.3-5 gcc-4.6_4.6.1-9 gcc-4.6-base_4.6.1-9 gettext_0.18.1.1-4 gettext-base_0.18.1.1-4 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.11 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-3 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbz2-1.0_1.0.5-7 libc-bin_2.13-18 libc-dev-bin_2.13-18 libc6_2.13-18 libc6-dev_2.13-18 libcloog-ppl0_0.15.9-3 libcomerr2_1.42~WIP-2011-07-02-1 libcroco3_0.6.2-1 libdb4.7_4.7.25-20 libdb4.8_4.8.30-9 libdb5.1_5.1.25-11 libdpkg-perl_1.16.0.3 libgc1c2_1:7.1-8 libgcc1_1:4.6.1-9 libgdbm3_1.8.3-10 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.2+dfsg-1 libgmp3c2_2:4.3.2+dfsg-2 libgmpxx4ldbl_2:5.0.2+dfsg-1 libgomp1_4.6.1-9 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.08-1 libmount1_2.19.1-5 libmpc2_0.9-3 libmpfr1ldbl_2.4.2-3 libmpfr4_3.0.1-6 libncurses5_5.9-1 libpam-modules_1.1.3-2 libpam-modules-bin_1.1.3-2 libpam-runtime_1.1.3-2 libpam0g_1.1.3-2 libpcre3_8.12-4 libpipeline1_1.2.0-3 libppl-c4_0.11.2-4 libppl9_0.11.2-4 libpwl5_0.11.2-4 libreadline6_6.2-4 libselinux1_2.1.0-1 libsepol1_2.1.0-1.1 libslang2_2.2.4-3 libss2_1.42~WIP-2011-07-02-1 libstdc++6_4.6.1-9 libstdc++6-4.4-dev_4.4.6-10 libstdc++6-4.6-dev_4.6.1-9 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-4 linux-libc-dev_3.0.0-3 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 lzma_4.43-14 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-15 mount_2.19.1-5 multiarch-support_2.13-18 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-4 perl-base_5.12.4-4 perl-modules_5.12.4-4 po-debconf_1.0.16+nmu1 quilt_0.48-8 readline-common_6.2-4 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.2-1 sysv-rc_2.88dsf-13.11 sysvinit_2.88dsf-13.11 sysvinit-utils_2.88dsf-13.11 tar_1.26-2 tzdata_2011i-2 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -1071,13 +974,14 @@ Package versions: apt_0.8.15.6 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binu
Unpack source
─────────────
+dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
-gpgv: Signature made Sun Sep 11 00:44:52 2011 UTC using RSA key ID 2295D502
+gpgv: Signature made Sat Sep 24 01:39:55 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_2.13.1-1.dsc
-dpkg-source: info: extracting bedtools in bedtools-2.13.1
-dpkg-source: info: unpacking bedtools_2.13.1.orig.tar.xz
-dpkg-source: info: unpacking bedtools_2.13.1-1.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bedtools_2.13.2-1.dsc
+dpkg-source: info: extracting bedtools in bedtools-2.13.2
+dpkg-source: info: unpacking bedtools_2.13.2.orig.tar.xz
+dpkg-source: info: unpacking bedtools_2.13.2-1.debian.tar.gz
dpkg-source: info: applying gzstream.h.patch
Check disc space
@@ -1093,24 +997,24 @@ 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 2.13.1-1
- dpkg-source --before-build bedtools-2.13.1
+dpkg-buildpackage: source version 2.13.2-1
+ dpkg-source --before-build bedtools-2.13.2
dpkg-buildpackage: host architecture mipsel
- fakeroot debian/rules clean
+ /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_2.13.1-1-mipsel-pXOGRI/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj/bedtools-2.13.2'
Cleaning up.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-mipsel-pXOGRI/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj/bedtools-2.13.2'
dh_clean
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/build/buildd-bedtools_2.13.1-1-mipsel-pXOGRI/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj/bedtools-2.13.2'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-mipsel-pXOGRI/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj/bedtools-2.13.2'
if [ -d "." ]; then \
- cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.1-1-mipsel-pXOGRI/bedtools-2.13.1/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
+ cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj/bedtools-2.13.2/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
fi
Removing patch gzstream.h.patch
Restoring src/utils/gzstream/gzstream.C
@@ -1123,21 +1027,21 @@ test -x debian/rules
mkdir -p "."
/usr/share/cdbs/1/rules/buildcore.mk:109: WARNING: DEB_DH_BUILDDEB_ARGS is a deprecated variable
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/build/buildd-bedtools_2.13.1-1-mipsel-pXOGRI/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj/bedtools-2.13.2'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-mipsel-pXOGRI/bedtools-2.13.1'
-cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.1-1-mipsel-pXOGRI/bedtools-2.13.1/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj/bedtools-2.13.2'
+cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj/bedtools-2.13.2/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_2.13.1-1-mipsel-pXOGRI/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj/bedtools-2.13.2'
make[1]: Nothing to be done for `update-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-mipsel-pXOGRI/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj/bedtools-2.13.2'
/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_2.13.1-1-mipsel-pXOGRI/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj/bedtools-2.13.2'
[ -d obj ] || mkdir -p obj
[ -d bin ] || mkdir -p bin
Building BEDTools:
@@ -1151,10 +1055,8 @@ Building BEDTools:
- Building in src/utils/bedGraphFile
* compiling bedGraphFile.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/chromsweep
+ * compiling chromsweep.cpp
- Building in src/utils/gzstream
g++ -g -O2 -g -O2 -Wall -c -o ../../../obj//gzstream.o gzstream.C -I.
@@ -1219,6 +1121,11 @@ Fasta.cpp:31:17: warning: converting to non-pointer type 'int' from NULL [-Wconv
Fasta.cpp:32:17: warning: converting to non-pointer type 'int' from NULL [-Wconversion-null]
* compiling split.cpp
+- Building in src/utils/genomeFile
+ * compiling genomeFile.cpp
+genomeFile.cpp: In member function 'void GenomeFile::loadGenomeFileIntoMap()':
+genomeFile.cpp:61:26: warning: variable 'c2' set but not used [-Wunused-but-set-variable]
+
- Building in src/annotateBed
* compiling annotateMain.cpp
annotateMain.cpp: In function 'int main(int, char**)':
@@ -1323,9 +1230,9 @@ 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:254:12: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp:255:12: 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:306:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp:307:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
* linking pairToBed
- Building in src/pairToPair
@@ -1381,10 +1288,10 @@ unionBedGraphsMain.cpp:49:10: warning: variable 'haveFiller' set but not used [-
* compiling windowBed.cpp
* linking windowBed
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-mipsel-pXOGRI/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj/bedtools-2.13.2'
touch debian/stamp-makefile-build
DEB_MAKE_CHECK_TARGET unset, not running checks
- fakeroot debian/rules binary-arch
+ /usr/bin/fakeroot debian/rules binary-arch
test -x debian/rules
dh_testroot
dh_prep
@@ -1426,61 +1333,56 @@ dh_shlibdeps -pbedtools
dh_gencontrol -pbedtools
dh_md5sums -pbedtools
dh_builddeb -pbedtools -- -Z xz
-dpkg-deb: building package `bedtools' in `../bedtools_2.13.1-1_mipsel.deb'.
- dpkg-genchanges -B -mmipsel Build Daemon (monteverdi) <buildd_mipsel-monteverdi at buildd.debian.org> >../bedtools_2.13.1-1_mipsel.changes
+dpkg-deb: building package `bedtools' in `../bedtools_2.13.2-1_mipsel.deb'.
+ dpkg-genchanges -B -mmipsel Build Daemon (phrixos) <buildd_mipsel-phrixos at buildd.debian.org> >../bedtools_2.13.2-1_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-2.13.1
+ dpkg-source --after-build bedtools-2.13.2
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110911-0131
+Build finished at 20110924-0500
-bedtools_2.13.1-1_mipsel.changes:
+bedtools_2.13.2-1_mipsel.changes:
Format: 1.8
-Date: Sat, 10 Sep 2011 23:32:43 +0900
+Date: Sat, 24 Sep 2011 09:34:29 +0900
Source: bedtools
Binary: bedtools
Architecture: mipsel
-Version: 2.13.1-1
+Version: 2.13.2-1
Distribution: sid
Urgency: low
-Maintainer: mipsel Build Daemon (monteverdi) <buildd_mipsel-monteverdi at buildd.debian.org>
+Maintainer: mipsel Build Daemon (phrixos) <buildd_mipsel-phrixos at buildd.debian.org>
Changed-By: Charles Plessy <plessy at debian.org>
Description:
bedtools - suite of utilities for comparing genomic features
Changes:
- bedtools (2.13.1-1) unstable; urgency=low
+ bedtools (2.13.2-1) unstable; urgency=low
.
- [2e3fe5e] New upstream release.
- [ff5450e] Compress source and binary packages with xz.
- [ef58a33] Suggest filo for the groupBy command.
- [df206c0] Mangle debian/watch download URL.
- [2fe7cff] Simplified repacking as upstream tarballs do not contain
- ‘*/*DS_Store’ files anymore.
+ [1930a26] New upstream release.
Checksums-Sha1:
- 5ca48989df8e773bc3389ee3a7a79f1af9ebfb53 614842 bedtools_2.13.1-1_mipsel.deb
+ 1d3ee7fad37ec420a7d4b1656f72d1556448c48a 626788 bedtools_2.13.2-1_mipsel.deb
Checksums-Sha256:
- ce8ef1c1895a62117bc65d9cfe50d772f279df59f080f658aec5fb3f60ef1118 614842 bedtools_2.13.1-1_mipsel.deb
+ 427879ca44bf18f91af967d47332071b37096ba23f371c4f881e424c6cf903eb 626788 bedtools_2.13.2-1_mipsel.deb
Files:
- fb40c1caa9bea0eed63b57b0d7d3bbd9 614842 science optional bedtools_2.13.1-1_mipsel.deb
+ dc43959f7bd8a1574bd49848f054183a 626788 science optional bedtools_2.13.2-1_mipsel.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bedtools_2.13.1-1_mipsel.deb
+bedtools_2.13.2-1_mipsel.deb
────────────────────────────
new debian package, version 2.0.
- size 614842 bytes: control archive= 1722 bytes.
+ size 626788 bytes: control archive= 1723 bytes.
836 bytes, 18 lines control
- 2028 bytes, 35 lines md5sums
+ 2025 bytes, 35 lines md5sums
Package: bedtools
- Version: 2.13.1-1
+ Version: 2.13.2-1
Architecture: mipsel
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 5004
+ Installed-Size: 5184
Depends: libc6 (>= 2.2), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
Suggests: filo
Section: science
@@ -1495,49 +1397,49 @@ bedtools_2.13.1-1_mipsel.deb
.
The groupBy utility is distribued in the filo package.
-drwxr-xr-x root/root 0 2011-09-11 01:31 ./
-drwxr-xr-x root/root 0 2011-09-11 01:31 ./usr/
-drwxr-xr-x root/root 0 2011-09-11 01:31 ./usr/bin/
--rwxr-xr-x root/root 187160 2011-09-11 01:31 ./usr/bin/pairToPair
--rwxr-xr-x root/root 152780 2011-09-11 01:31 ./usr/bin/nucBed
--rwxr-xr-x root/root 116104 2011-09-11 01:31 ./usr/bin/mergeBed
--rwxr-xr-x root/root 294892 2011-09-11 01:31 ./usr/bin/tagBam
--rwxr-xr-x root/root 126648 2011-09-11 01:31 ./usr/bin/closestBed
--rwxr-xr-x root/root 151640 2011-09-11 01:31 ./usr/bin/sortBed
--rwxr-xr-x root/root 135656 2011-09-11 01:31 ./usr/bin/shuffleBed
--rwxr-xr-x root/root 390844 2011-09-11 01:31 ./usr/bin/pairToBed
--rwxr-xr-x root/root 320172 2011-09-11 01:31 ./usr/bin/genomeCoverageBed
--rwxr-xr-x root/root 119656 2011-09-11 01:31 ./usr/bin/subtractBed
--rwxr-xr-x root/root 113096 2011-09-11 01:31 ./usr/bin/complementBed
--rwxr-xr-x root/root 328172 2011-09-11 01:31 ./usr/bin/intersectBed
--rwxr-xr-x root/root 241484 2011-09-11 01:31 ./usr/bin/bamToBed
--rwxr-xr-x root/root 118456 2011-09-11 01:31 ./usr/bin/maskFastaFromBed
--rwxr-xr-x root/root 127304 2011-09-11 01:31 ./usr/bin/bedToIgv
--rwxr-xr-x root/root 111592 2011-09-11 01:31 ./usr/bin/annotateBed
--rwxr-xr-x root/root 114088 2011-09-11 01:31 ./usr/bin/linksBed
--rwxr-xr-x root/root 103448 2011-09-11 01:31 ./usr/bin/bed12ToBed6
--rwxr-xr-x root/root 311420 2011-09-11 01:31 ./usr/bin/windowBed
--rwxr-xr-x root/root 112344 2011-09-11 01:31 ./usr/bin/slopBed
--rwxr-xr-x root/root 244332 2011-09-11 01:31 ./usr/bin/bedToBam
--rwxr-xr-x root/root 93608 2011-09-11 01:31 ./usr/bin/overlap
--rwxr-xr-x root/root 63016 2011-09-11 01:31 ./usr/bin/unionBedGraphs
--rwxr-xr-x root/root 119864 2011-09-11 01:31 ./usr/bin/flankBed
--rwxr-xr-x root/root 303644 2011-09-11 01:31 ./usr/bin/coverageBed
--rwxr-xr-x root/root 326428 2011-09-11 01:31 ./usr/bin/multiBamCov
--rwxr-xr-x root/root 152732 2011-09-11 01:31 ./usr/bin/fastaFromBed
-drwxr-xr-x root/root 0 2011-09-11 01:31 ./usr/share/
-drwxr-xr-x root/root 0 2011-09-11 01:31 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-09-11 01:31 ./usr/share/doc/bedtools/
--rw-r--r-- root/root 1586 2011-09-07 00:36 ./usr/share/doc/bedtools/README.rst.gz
--rw-r--r-- root/root 10990 2011-09-07 00:36 ./usr/share/doc/bedtools/changelog.gz
--rw-r--r-- root/root 391 2011-09-10 14:32 ./usr/share/doc/bedtools/changelog.Debian.gz
--rw-r--r-- root/root 4611 2011-09-10 14:21 ./usr/share/doc/bedtools/copyright
-drwxr-xr-x root/root 0 2011-09-11 01:31 ./usr/share/bedtools/
-drwxr-xr-x root/root 0 2011-09-11 01:11 ./usr/share/bedtools/genomes/
--rwxr-xr-x root/root 586 2011-09-07 00:36 ./usr/share/bedtools/genomes/mouse.mm9.genome
--rwxr-xr-x root/root 856 2011-09-07 00:36 ./usr/share/bedtools/genomes/human.hg18.genome
--rwxr-xr-x root/root 1972 2011-09-07 00:36 ./usr/share/bedtools/genomes/human.hg19.genome
--rwxr-xr-x root/root 565 2011-09-07 00:36 ./usr/share/bedtools/genomes/mouse.mm8.genome
+drwxr-xr-x root/root 0 2011-09-24 04:59 ./
+drwxr-xr-x root/root 0 2011-09-24 04:59 ./usr/
+drwxr-xr-x root/root 0 2011-09-24 04:59 ./usr/share/
+drwxr-xr-x root/root 0 2011-09-24 04:59 ./usr/share/bedtools/
+drwxr-xr-x root/root 0 2011-09-24 04:40 ./usr/share/bedtools/genomes/
+-rwxr-xr-x root/root 585 2011-09-23 15:57 ./usr/share/bedtools/genomes/mouse.mm9.genome
+-rwxr-xr-x root/root 856 2011-09-23 15:57 ./usr/share/bedtools/genomes/human.hg18.genome
+-rwxr-xr-x root/root 1972 2011-09-23 15:57 ./usr/share/bedtools/genomes/human.hg19.genome
+-rwxr-xr-x root/root 565 2011-09-23 15:57 ./usr/share/bedtools/genomes/mouse.mm8.genome
+drwxr-xr-x root/root 0 2011-09-24 04:59 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-09-24 04:59 ./usr/share/doc/bedtools/
+-rw-r--r-- root/root 1442 2011-09-23 15:57 ./usr/share/doc/bedtools/README.rst
+-rw-r--r-- root/root 11135 2011-09-23 15:57 ./usr/share/doc/bedtools/changelog.gz
+-rw-r--r-- root/root 4611 2011-09-24 00:33 ./usr/share/doc/bedtools/copyright
+-rw-r--r-- root/root 417 2011-09-24 00:36 ./usr/share/doc/bedtools/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-09-24 04:59 ./usr/bin/
+-rwxr-xr-x root/root 116408 2011-09-24 04:59 ./usr/bin/mergeBed
+-rwxr-xr-x root/root 299084 2011-09-24 04:59 ./usr/bin/tagBam
+-rwxr-xr-x root/root 378252 2011-09-24 04:59 ./usr/bin/intersectBed
+-rwxr-xr-x root/root 93928 2011-09-24 04:59 ./usr/bin/overlap
+-rwxr-xr-x root/root 128584 2011-09-24 04:59 ./usr/bin/bedToIgv
+-rwxr-xr-x root/root 120088 2011-09-24 04:59 ./usr/bin/subtractBed
+-rwxr-xr-x root/root 114776 2011-09-24 04:59 ./usr/bin/complementBed
+-rwxr-xr-x root/root 248076 2011-09-24 04:59 ./usr/bin/bedToBam
+-rwxr-xr-x root/root 121256 2011-09-24 04:59 ./usr/bin/flankBed
+-rwxr-xr-x root/root 118552 2011-09-24 04:59 ./usr/bin/maskFastaFromBed
+-rwxr-xr-x root/root 139592 2011-09-24 04:59 ./usr/bin/shuffleBed
+-rwxr-xr-x root/root 127064 2011-09-24 04:59 ./usr/bin/closestBed
+-rwxr-xr-x root/root 390940 2011-09-24 04:59 ./usr/bin/pairToBed
+-rwxr-xr-x root/root 103768 2011-09-24 04:59 ./usr/bin/bed12ToBed6
+-rwxr-xr-x root/root 311532 2011-09-24 04:59 ./usr/bin/windowBed
+-rwxr-xr-x root/root 186872 2011-09-24 04:59 ./usr/bin/pairToPair
+-rwxr-xr-x root/root 326540 2011-09-24 04:59 ./usr/bin/multiBamCov
+-rwxr-xr-x root/root 111912 2011-09-24 04:59 ./usr/bin/annotateBed
+-rwxr-xr-x root/root 63960 2011-09-24 04:59 ./usr/bin/unionBedGraphs
+-rwxr-xr-x root/root 152876 2011-09-24 04:59 ./usr/bin/nucBed
+-rwxr-xr-x root/root 114664 2011-09-24 04:59 ./usr/bin/slopBed
+-rwxr-xr-x root/root 303964 2011-09-24 04:59 ./usr/bin/coverageBed
+-rwxr-xr-x root/root 152828 2011-09-24 04:59 ./usr/bin/fastaFromBed
+-rwxr-xr-x root/root 152088 2011-09-24 04:59 ./usr/bin/sortBed
+-rwxr-xr-x root/root 114184 2011-09-24 04:59 ./usr/bin/linksBed
+-rwxr-xr-x root/root 320332 2011-09-24 04:59 ./usr/bin/genomeCoverageBed
+-rwxr-xr-x root/root 241484 2011-09-24 04:59 ./usr/bin/bamToBed
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -1546,31 +1448,9 @@ drwxr-xr-x root/root 0 2011-09-11 01:11 ./usr/share/bedtools/genomes/
Built successfully
────────────────────────────────────────────────────────────────────────────────
-
-┌──────────────────────────────────────────────────────────────────────────────┐
-│ Post Build │
-└──────────────────────────────────────────────────────────────────────────────┘
-
-Purging /var/lib/schroot/mount/sid-mipsel-sbuild-cae9f985-c70d-417e-afb1-0cf3707bacf1/build/buildd-bedtools_2.13.1-1-mipsel-pXOGRI
-Not cleaning session: cloned chroot in use
-
-┌──────────────────────────────────────────────────────────────────────────────┐
-│ Summary │
-└──────────────────────────────────────────────────────────────────────────────┘
-
-Architecture: mipsel
-Build-Space: 98944
-Build-Time: 1207
-Distribution: sid
-Install-Time: 80
-Job: bedtools_2.13.1-1
-Package: bedtools
-Package-Time: 1383
-Source-Version: 2.13.1-1
-Space: 98944
-Status: successful
-Version: 2.13.1-1
+Purging /var/lib/schroot/mount/sid-mipsel-sbuild-5db71cd2-56ce-4b78-8919-738b65028116/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj
+Not removing build depends: cloned chroot in use
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110911-0131
-Build needed 00:23:03, 98944k disc space
+Finished at 20110924-0500
+Build needed 00:21:13, 101752k disc space
diff --git a/mipsel.log b/mipsel.log
index 9a57233..3edfbac 100644
--- a/mipsel.log
+++ b/mipsel.log
@@ -1,62 +1,59 @@
-From buildd at monteverdi.ayous.org Sun Sep 11 01:31:13 2011
-Return-path: <buildd at monteverdi.ayous.org>
-Received: from monteverdi.ayous.org ([2001:a60:f006:deb:20a:1ff:fe00:987]
+From buildd at phrixos.ayous.org Sat Sep 24 04:29:14 2011
+Return-path: <buildd at phrixos.ayous.org>
+Received: from phrixos.ayous.org ([2001:a60:f006:deb:223:9eff:fe00:f7c]
helo=alius.ayous.org)
by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.72) (envelope-from <buildd at monteverdi.ayous.org>)
- id 1R2Yt6-0008Mp-1t
- for logs at buildd.debian.org; Sun, 11 Sep 2011 01:31:13 +0000
-Received: from buildd by monteverdi.ayous.org with local (Exim 4.72)
- (envelope-from <buildd at monteverdi.ayous.org>)
- id 1R2Yts-0005cc-9E; Sun, 11 Sep 2011 01:32:00 +0000
-Date: Sun, 11 Sep 2011 01:32:00 +0000
-Message-Id: <E1R2Yts-0005cc-9E at monteverdi.ayous.org>
-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_2.13.1-1 on mipsel (dist=sid)
+ (Exim 4.72) (envelope-from <buildd at phrixos.ayous.org>)
+ id 1R7JrU-0001Tl-UG
+ for logs at buildd.debian.org; Sat, 24 Sep 2011 04:29:14 +0000
+Received: from buildd by phrixos.ayous.org with local (Exim 4.72)
+ (envelope-from <buildd at phrixos.ayous.org>)
+ id 1R7KLf-00063X-Sn; Sat, 24 Sep 2011 05:00:24 +0000
+Date: Sat, 24 Sep 2011 05:00:23 +0000
+Message-Id: <E1R7KLf-00063X-Sn at phrixos.ayous.org>
+From: buildd on phrixos <buildd at phrixos.ayous.org>
+To: aba+buildd_phrixos at not.so.argh.org,logs at buildd.debian.org
+Subject: Log for successful build of bedtools_2.13.2-1 on mipsel (dist=sid)
Content-Type: text/plain; charset=UTF-8
Content-Transfer-Encoding: 8bit
Delivered-To: logs at buildd.debian.org
-sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on monteverdi.ayous.org
+sbuild (Debian sbuild) 0.60.0 (23 Feb 2010) on phrixos.ayous.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bedtools 2.13.1-1 (mipsel) 11 Sep 2011 01:08 ║
+║ bedtools 2.13.2-1 (mipsel) 24 Sep 2011 04:39 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bedtools
-Version: 2.13.1-1
-Source Version: 2.13.1-1
+Version: 2.13.2-1
Architecture: mipsel
-Ign http://mirror.ayous.org unstable InRelease
-Ign http://incoming.debian.org unstable InRelease
-Ign http://incoming.debian.org InRelease
-Get:1 http://mirror.ayous.org unstable Release.gpg [836 B]
-Get:2 http://mirror.ayous.org unstable Release [145 kB]
+Chroot Build Dir: /var/lib/schroot/mount/sid-mipsel-sbuild-5db71cd2-56ce-4b78-8919-738b65028116/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj
+Start Time: 20110924-0439
+Get:1 http://incoming.debian.org unstable InRelease [146 kB]
+Get:2 http://mirror.ayous.org unstable InRelease [146 kB]
Ign http://mirror.ayous.org unstable/contrib TranslationIndex
Get:3 http://mirror.ayous.org unstable/main TranslationIndex [2045 B]
-Get:4 http://mirror.ayous.org unstable/main Sources [7228 kB]
-Get:5 http://incoming.debian.org unstable Release.gpg [836 B]
+Get:4 http://mirror.ayous.org unstable/main Sources [7251 kB]
+Ign http://incoming.debian.org InRelease
+Ign http://incoming.debian.org unstable/contrib TranslationIndex
+Get:5 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
Get:6 http://incoming.debian.org Release.gpg [836 B]
-Get:7 http://incoming.debian.org unstable Release [145 kB]
-Get:8 http://mirror.ayous.org unstable/contrib Sources [68.3 kB]
+Get:7 http://incoming.debian.org unstable/main Sources [7251 kB]
+Get:8 http://mirror.ayous.org unstable/contrib Sources [67.1 kB]
Get:9 http://mirror.ayous.org unstable/non-free Sources [123 kB]
-Get:10 http://mirror.ayous.org unstable/main mipsel Packages [9811 kB]
-Get:11 http://incoming.debian.org Release [1604 B]
-Ign http://incoming.debian.org unstable/contrib TranslationIndex
-Get:12 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
-Get:13 http://incoming.debian.org unstable/main Sources [7228 kB]
-Get:14 http://incoming.debian.org unstable/contrib Sources [68.3 kB]
-Get:15 http://incoming.debian.org unstable/non-free Sources [123 kB]
-Get:16 http://incoming.debian.org unstable/main mipsel Packages [9811 kB]
-Get:17 http://mirror.ayous.org unstable/contrib mipsel Packages [68.6 kB]
+Get:10 http://mirror.ayous.org unstable/main mipsel Packages [9881 kB]
+Get:11 http://incoming.debian.org unstable/contrib Sources [67.1 kB]
+Get:12 http://incoming.debian.org unstable/non-free Sources [123 kB]
+Get:13 http://incoming.debian.org unstable/main mipsel Packages [9881 kB]
+Get:14 http://mirror.ayous.org unstable/contrib mipsel Packages [67.5 kB]
Ign http://mirror.ayous.org unstable/contrib Translation-en
-Get:18 http://incoming.debian.org unstable/contrib mipsel Packages [68.6 kB]
-Get:19 http://incoming.debian.org Sources [37.2 kB]
-Get:20 http://incoming.debian.org Packages [464 kB]
-Ign http://incoming.debian.org Translation-en
+Get:15 http://incoming.debian.org unstable/contrib mipsel Packages [67.5 kB]
+Get:16 http://incoming.debian.org Release [1604 B]
+Get:17 http://incoming.debian.org Sources [38.6 kB]
+Get:18 http://incoming.debian.org Packages [903 kB]
Ign http://incoming.debian.org unstable/contrib Translation-en
-Fetched 35.4 MB in 45s (781 kB/s)
+Ign http://incoming.debian.org Translation-en
+Fetched 36.0 MB in 27s (1296 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -77,79 +74,30 @@ 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 664 kB of source archives.
-Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (dsc) [1921 B]
-Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (tar) [658 kB]
-Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (diff) [4254 B]
-Fetched 664 kB in 2s (242 kB/s)
+Need to get 666 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (dsc) [1967 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (tar) [659 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (diff) [4285 B]
+Fetched 666 kB in 2s (234 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 core build dependencies (internal resolver) │
-└──────────────────────────────────────────────────────────────────────────────┘
-
-Build-Depends: build-essential, fakeroot
-Checking for already installed dependencies...
-build-essential: already installed (11.5)
-fakeroot: already installed (1.18-1)
-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) │
+│ Install 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 (6.5)
-base-passwd: already installed (3.5.23)
-bash: already installed (4.1-3)
-coreutils: already installed (8.5-1)
-dash: already installed (0.5.7-1)
-debianutils: already installed (4.0.2)
-diffutils: already installed (1:3.0-1)
-dpkg: already installed (1.16.0.3)
-e2fsprogs: already installed (1.42~WIP-2011-07-02-1)
-findutils: already installed (4.4.2-1+b1)
-grep: already installed (2.9-2)
-gzip: already installed (1.4-1)
-hostname: already installed (3.06)
-ncurses-base: already installed (5.9-1)
-ncurses-bin: already installed (5.9-1)
-perl-base: already installed (5.12.4-4)
-sed: already installed (4.2.1-9)
-login: already installed (1:4.1.4.2+svn3283-3)
-sysvinit-utils: already installed (2.88dsf-13.11)
-sysvinit: already installed (2.88dsf-13.11)
-tar: already installed (1.26-2)
-bsdutils: already installed (1:2.19.1-5)
-mount: already installed (2.19.1-5)
-util-linux: already installed (2.19.1-5)
-libc6-dev: already installed (2.13-18)
-gcc: already installed (4:4.6.1-2 >= 4:4.4.3 is satisfied)
-g++: already installed (4:4.6.1-2 >= 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)
+Checking for already installed source dependencies...
cdbs: missing
debhelper: missing
-Using default version 8.9.6
+Using default version 8.9.7
quilt: missing
zlib1g-dev: missing
-Checking for dependency conflicts...
+Checking for source dependency conflicts...
Installing positive dependencies: cdbs debhelper quilt zlib1g-dev
Reading package lists...
Building dependency tree...
@@ -168,9 +116,9 @@ 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 1 not upgraded.
-Need to get 9492 kB of archives.
-After this operation, 30.2 MB of additional disk space will be used.
+0 upgraded, 21 newly installed, 0 to remove and 26 not upgraded.
+Need to get 9486 kB of archives.
+After this operation, 30.1 MB of additional disk space will be used.
Get:1 http://mirror.ayous.org/debian/ unstable/main libpipeline1 mipsel 1.2.0-3 [35.7 kB]
Get:2 http://mirror.ayous.org/debian/ unstable/main libpcre3 mipsel 8.12-4 [227 kB]
Get:3 http://mirror.ayous.org/debian/ unstable/main bsdmainutils mipsel 8.2.3 [208 kB]
@@ -180,22 +128,22 @@ Get:6 http://mirror.ayous.org/debian/ unstable/main libmagic1 mipsel 5.08-1 [248
Get:7 http://mirror.ayous.org/debian/ unstable/main file mipsel 5.08-1 [51.7 kB]
Get:8 http://mirror.ayous.org/debian/ unstable/main gettext-base mipsel 0.18.1.1-4 [133 kB]
Get:9 http://mirror.ayous.org/debian/ unstable/main libxml2 mipsel 2.7.8.dfsg-4 [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 0.18.1.1-4 [2008 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 8.9.6 [562 kB]
-Get:18 http://mirror.ayous.org/debian/ unstable/main cdbs all 0.4.96 [75.8 kB]
+Get:10 http://mirror.ayous.org/debian/ unstable/main cdbs all 0.4.99 [77.1 kB]
+Get:11 http://mirror.ayous.org/debian/ unstable/main html2text mipsel 1.3.2a-15 [103 kB]
+Get:12 http://mirror.ayous.org/debian/ unstable/main libglib2.0-0 mipsel 2.28.6-1 [1503 kB]
+Get:13 http://mirror.ayous.org/debian/ unstable/main libcroco3 mipsel 0.6.2-1 [110 kB]
+Get:14 http://mirror.ayous.org/debian/ unstable/main libunistring0 mipsel 0.9.3-4 [411 kB]
+Get:15 http://mirror.ayous.org/debian/ unstable/main gettext mipsel 0.18.1.1-4 [2008 kB]
+Get:16 http://mirror.ayous.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get:17 http://mirror.ayous.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get:18 http://mirror.ayous.org/debian/ unstable/main debhelper all 8.9.7 [552 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:20 http://mirror.ayous.org/debian/ unstable/main quilt all 0.48-8 [357 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 9492 kB in 1s (5626 kB/s)
+Fetched 9486 kB in 1s (5578 kB/s)
Selecting previously deselected package libpipeline1.
-(Reading database ... 10771 files and directories currently installed.)
+(Reading database ... 11488 files and directories currently installed.)
Unpacking libpipeline1 (from .../libpipeline1_1.2.0-3_mipsel.deb) ...
Selecting previously deselected package libpcre3.
Unpacking libpcre3 (from .../libpcre3_8.12-4_mipsel.deb) ...
@@ -213,6 +161,8 @@ Selecting previously deselected package gettext-base.
Unpacking gettext-base (from .../gettext-base_0.18.1.1-4_mipsel.deb) ...
Selecting previously deselected package libxml2.
Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-4_mipsel.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.99_all.deb) ...
Selecting previously deselected package html2text.
Unpacking html2text (from .../html2text_1.3.2a-15_mipsel.deb) ...
Selecting previously deselected package libglib2.0-0.
@@ -228,13 +178,11 @@ 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_8.9.6_all.deb) ...
-Selecting previously deselected package cdbs.
-Unpacking cdbs (from .../archives/cdbs_0.4.96_all.deb) ...
+Unpacking debhelper (from .../debhelper_8.9.7_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) ...
+Unpacking quilt (from .../archives/quilt_0.48-8_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 libpipeline1 (1.2.0-3) ...
@@ -249,6 +197,7 @@ Setting up libmagic1 (5.08-1) ...
Setting up file (5.08-1) ...
Setting up gettext-base (0.18.1.1-4) ...
Setting up libxml2 (2.7.8.dfsg-4) ...
+Setting up cdbs (0.4.99) ...
Setting up html2text (1.3.2a-15) ...
Setting up libglib2.0-0 (2.28.6-1) ...
No schema files found: doing nothing.
@@ -257,20 +206,15 @@ Setting up libunistring0 (0.9.3-4) ...
Setting up gettext (0.18.1.1-4) ...
Setting up intltool-debian (0.35.0+20060710.1) ...
Setting up po-debconf (1.0.16+nmu1) ...
-Setting up debhelper (8.9.6) ...
-Setting up cdbs (0.4.96) ...
+Setting up debhelper (8.9.7) ...
Setting up diffstat (1.54-1) ...
-Setting up quilt (0.48-7) ...
+Setting up quilt (0.48-8) ...
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 2.6.39-2-loongson-2e mipsel (mips64)
-Toolchain package versions: binutils_2.21.53.20110823-3 dpkg-dev_1.16.0.3 g++-4.6_4.6.1-9 gcc-4.6_4.6.1-9 libc6-dev_2.13-18 libstdc++6_4.6.1-9 libstdc++6-4.6-dev_4.6.1-9 linux-libc-dev_3.0.0-3
-Package versions: apt_0.8.15.6 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.53.20110823-3 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 cdbs_0.4.96 coreutils_8.5-1 cpp_4:4.6.1-2 cpp-4.6_4.6.1-9 dash_0.5.7-1 debconf_1.5.41 debconf-i18n_1.5.41 debfoster_2.7-1.1 debhelper_8.9.6 debian-archive-keyring_2010.08.28 debianutils_4.0.2 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.42~WIP-2011-07-02-1 e2fsprogs_1.42~WIP-2011-07-02-1 fakeroot_1.18-1 file_5.08-1 findutils_4.4.2-1+b1 g++_4:4.6.1-2 g++-4.6_4.6.1-9 gcc_4:4.6.1-2 gcc-4.4-base_4.4.6-10 gcc-4.5-base_4.5.3-5 gcc-4.6_4.6.1-9 gcc-4.6-base_4.6.1-9 gettext_0.18.1.1-4 gettext-base_0.18.1.1-4 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.11 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-3 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbz2-1.0_1.0.5-7 libc-bin_2.13-18 libc-dev-bin_2.13-18 libc6_2.13-18 libc6-dev_2.13-18 libcomerr2_1.42~WIP-2011-07-02-1 libcroco3_0.6.2-1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.0.3 libgc1c2_1:7.1-8 libgcc1_1:4.6.1-9 libgdbm3_1.8.3-10 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.2+dfsg-1 libgomp1_4.6.1-9 liblocale-gettext-perl_1.05-7 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.08-1 libmount1_2.19.1-5 libmpc2_0.9-3 libmpfr4_3.0.1-6 libncurses5_5.9-1 libpam-modules_1.1.3-2 libpam-modules-bin_1.1.3-2 libpam-runtime_1.1.3-2 libpam0g_1.1.3-2 libpcre3_8.12-4 libpipeline1_1.2.0-3 libreadline6_6.2-4 libselinux1_2.1.0-1 libsepol1_2.1.0-1.1 libslang2_2.2.4-3 libss2_1.42~WIP-2011-07-02-1 libstdc++6_4.6.1-9 libstdc++6-4.6-dev_4.6.1-9 libtext-charwidth-perl_0.04-7 libtext-iconv-perl_1.7-4 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-4 linux-libc-dev_3.0.0-3 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-15 mount_2.19.1-5 multiarch-support_2.13-18 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-4 perl-base_5.12.4-4 perl-modules_5.12.4-4 po-debconf_1.0.16+nmu1 quilt_0.48-7 readline-common_6.2-4 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.2-1 sysv-rc_2.88dsf-13.11 sysvinit_2.88dsf-13.11 sysvinit-utils_2.88dsf-13.11 tar_1.26-2 tzdata_2011i-2 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+Checking correctness of source dependencies...
+Kernel: Linux 3.1.0-rc6+ mipsel (mips64)
+Toolchain package versions: libc6-dev_2.13-18 dpkg-dev_1.16.0.3 linux-libc-dev_3.0.0-3 gcc-4.6_4.6.1-9 g++-4.6_4.6.1-9 binutils_2.21.53.20110910-1 libstdc++6-4.6-dev_4.6.1-9 libstdc++6_4.6.1-9
+Package versions: apt_0.8.15.6 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.53.20110910-1 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 cdbs_0.4.99 coreutils_8.5-1 cpp_4:4.6.1-2 cpp-4.4_4.4.6-10 cpp-4.6_4.6.1-9 dash_0.5.7-1 debconf_1.5.41 debconf-english_1.5.38 debfoster_2.7-1.1 debhelper_8.9.7 debian-archive-keyring_2010.08.28 debianutils_4.0.2 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.42~WIP-2011-07-02-1 e2fsprogs_1.42~WIP-2011-07-02-1 fakeroot_1.18-1 file_5.08-1 findutils_4.4.2-1+b1 g++_4:4.6.1-2 g++-4.4_4.4.6-10 g++-4.6_4.6.1-9 gcc_4:4.6.1-2 gcc-4.4_4.4.6-10 gcc-4.4-base_4.4.6-10 gcc-4.5-base_4.5.3-5 gcc-4.6_4.6.1-9 gcc-4.6-base_4.6.1-9 gettext_0.18.1.1-4 gettext-base_0.18.1.1-4 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.11 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-3 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbz2-1.0_1.0.5-7 libc-bin_2.13-18 libc-dev-bin_2.13-18 libc6_2.13-18 libc6-dev_2.13-18 libcloog-ppl0_0.15.9-3 libcomerr2_1.42~WIP-2011-07-02-1 libcroco3_0.6.2-1 libdb4.7_4.7.25-20 libdb4.8_4.8.30-9 libdb5.1_5.1.25-11 libdpkg-perl_1.16.0.3 libgc1c2_1:7.1-8 libgcc1_1:4.6.1-9 libgdbm3_1.8.3-10 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.2+dfsg-1 libgmp3c2_2:4.3.2+dfsg-2 libgmpxx4ldbl_2:5.0.2+dfsg-1 libgomp1_4.6.1-9 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.08-1 libmount1_2.19.1-5 libmpc2_0.9-3 libmpfr1ldbl_2.4.2-3 libmpfr4_3.0.1-6 libncurses5_5.9-1 libpam-modules_1.1.3-2 libpam-modules-bin_1.1.3-2 libpam-runtime_1.1.3-2 libpam0g_1.1.3-2 libpcre3_8.12-4 libpipeline1_1.2.0-3 libppl-c4_0.11.2-4 libppl9_0.11.2-4 libpwl5_0.11.2-4 libreadline6_6.2-4 libselinux1_2.1.0-1 libsepol1_2.1.0-1.1 libslang2_2.2.4-3 libss2_1.42~WIP-2011-07-02-1 libstdc++6_4.6.1-9 libstdc++6-4.4-dev_4.4.6-10 libstdc++6-4.6-dev_4.6.1-9 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-4 linux-libc-dev_3.0.0-3 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 lzma_4.43-14 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-15 mount_2.19.1-5 multiarch-support_2.13-18 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-4 perl-base_5.12.4-4 perl-modules_5.12.4-4 po-debconf_1.0.16+nmu1 quilt_0.48-8 readline-common_6.2-4 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.2-1 sysv-rc_2.88dsf-13.11 sysvinit_2.88dsf-13.11 sysvinit-utils_2.88dsf-13.11 tar_1.26-2 tzdata_2011i-2 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -280,13 +224,14 @@ Package versions: apt_0.8.15.6 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binu
Unpack source
─────────────
+dpkg-source: warning: -sn is not a valid option for Dpkg::Source::Package::V3::quilt
gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
-gpgv: Signature made Sun Sep 11 00:44:52 2011 UTC using RSA key ID 2295D502
+gpgv: Signature made Sat Sep 24 01:39:55 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_2.13.1-1.dsc
-dpkg-source: info: extracting bedtools in bedtools-2.13.1
-dpkg-source: info: unpacking bedtools_2.13.1.orig.tar.xz
-dpkg-source: info: unpacking bedtools_2.13.1-1.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bedtools_2.13.2-1.dsc
+dpkg-source: info: extracting bedtools in bedtools-2.13.2
+dpkg-source: info: unpacking bedtools_2.13.2.orig.tar.xz
+dpkg-source: info: unpacking bedtools_2.13.2-1.debian.tar.gz
dpkg-source: info: applying gzstream.h.patch
Check disc space
@@ -302,24 +247,24 @@ 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 2.13.1-1
- dpkg-source --before-build bedtools-2.13.1
+dpkg-buildpackage: source version 2.13.2-1
+ dpkg-source --before-build bedtools-2.13.2
dpkg-buildpackage: host architecture mipsel
- fakeroot debian/rules clean
+ /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_2.13.1-1-mipsel-pXOGRI/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj/bedtools-2.13.2'
Cleaning up.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-mipsel-pXOGRI/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj/bedtools-2.13.2'
dh_clean
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/build/buildd-bedtools_2.13.1-1-mipsel-pXOGRI/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj/bedtools-2.13.2'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-mipsel-pXOGRI/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj/bedtools-2.13.2'
if [ -d "." ]; then \
- cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.1-1-mipsel-pXOGRI/bedtools-2.13.1/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
+ cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj/bedtools-2.13.2/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
fi
Removing patch gzstream.h.patch
Restoring src/utils/gzstream/gzstream.C
@@ -332,21 +277,21 @@ test -x debian/rules
mkdir -p "."
/usr/share/cdbs/1/rules/buildcore.mk:109: WARNING: DEB_DH_BUILDDEB_ARGS is a deprecated variable
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/build/buildd-bedtools_2.13.1-1-mipsel-pXOGRI/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj/bedtools-2.13.2'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-mipsel-pXOGRI/bedtools-2.13.1'
-cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.1-1-mipsel-pXOGRI/bedtools-2.13.1/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj/bedtools-2.13.2'
+cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj/bedtools-2.13.2/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_2.13.1-1-mipsel-pXOGRI/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj/bedtools-2.13.2'
make[1]: Nothing to be done for `update-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-mipsel-pXOGRI/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj/bedtools-2.13.2'
/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_2.13.1-1-mipsel-pXOGRI/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj/bedtools-2.13.2'
[ -d obj ] || mkdir -p obj
[ -d bin ] || mkdir -p bin
Building BEDTools:
@@ -360,10 +305,8 @@ Building BEDTools:
- Building in src/utils/bedGraphFile
* compiling bedGraphFile.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/chromsweep
+ * compiling chromsweep.cpp
- Building in src/utils/gzstream
g++ -g -O2 -g -O2 -Wall -c -o ../../../obj//gzstream.o gzstream.C -I.
@@ -428,6 +371,11 @@ Fasta.cpp:31:17: warning: converting to non-pointer type 'int' from NULL [-Wconv
Fasta.cpp:32:17: warning: converting to non-pointer type 'int' from NULL [-Wconversion-null]
* compiling split.cpp
+- Building in src/utils/genomeFile
+ * compiling genomeFile.cpp
+genomeFile.cpp: In member function 'void GenomeFile::loadGenomeFileIntoMap()':
+genomeFile.cpp:61:26: warning: variable 'c2' set but not used [-Wunused-but-set-variable]
+
- Building in src/annotateBed
* compiling annotateMain.cpp
annotateMain.cpp: In function 'int main(int, char**)':
@@ -532,9 +480,9 @@ 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:254:12: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp:255:12: 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:306:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp:307:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
* linking pairToBed
- Building in src/pairToPair
@@ -590,10 +538,10 @@ unionBedGraphsMain.cpp:49:10: warning: variable 'haveFiller' set but not used [-
* compiling windowBed.cpp
* linking windowBed
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-mipsel-pXOGRI/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj/bedtools-2.13.2'
touch debian/stamp-makefile-build
DEB_MAKE_CHECK_TARGET unset, not running checks
- fakeroot debian/rules binary-arch
+ /usr/bin/fakeroot debian/rules binary-arch
test -x debian/rules
dh_testroot
dh_prep
@@ -635,61 +583,56 @@ dh_shlibdeps -pbedtools
dh_gencontrol -pbedtools
dh_md5sums -pbedtools
dh_builddeb -pbedtools -- -Z xz
-dpkg-deb: building package `bedtools' in `../bedtools_2.13.1-1_mipsel.deb'.
- dpkg-genchanges -B -mmipsel Build Daemon (monteverdi) <buildd_mipsel-monteverdi at buildd.debian.org> >../bedtools_2.13.1-1_mipsel.changes
+dpkg-deb: building package `bedtools' in `../bedtools_2.13.2-1_mipsel.deb'.
+ dpkg-genchanges -B -mmipsel Build Daemon (phrixos) <buildd_mipsel-phrixos at buildd.debian.org> >../bedtools_2.13.2-1_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-2.13.1
+ dpkg-source --after-build bedtools-2.13.2
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110911-0131
+Build finished at 20110924-0500
-bedtools_2.13.1-1_mipsel.changes:
+bedtools_2.13.2-1_mipsel.changes:
Format: 1.8
-Date: Sat, 10 Sep 2011 23:32:43 +0900
+Date: Sat, 24 Sep 2011 09:34:29 +0900
Source: bedtools
Binary: bedtools
Architecture: mipsel
-Version: 2.13.1-1
+Version: 2.13.2-1
Distribution: sid
Urgency: low
-Maintainer: mipsel Build Daemon (monteverdi) <buildd_mipsel-monteverdi at buildd.debian.org>
+Maintainer: mipsel Build Daemon (phrixos) <buildd_mipsel-phrixos at buildd.debian.org>
Changed-By: Charles Plessy <plessy at debian.org>
Description:
bedtools - suite of utilities for comparing genomic features
Changes:
- bedtools (2.13.1-1) unstable; urgency=low
+ bedtools (2.13.2-1) unstable; urgency=low
.
- [2e3fe5e] New upstream release.
- [ff5450e] Compress source and binary packages with xz.
- [ef58a33] Suggest filo for the groupBy command.
- [df206c0] Mangle debian/watch download URL.
- [2fe7cff] Simplified repacking as upstream tarballs do not contain
- ‘*/*DS_Store’ files anymore.
+ [1930a26] New upstream release.
Checksums-Sha1:
- 5ca48989df8e773bc3389ee3a7a79f1af9ebfb53 614842 bedtools_2.13.1-1_mipsel.deb
+ 1d3ee7fad37ec420a7d4b1656f72d1556448c48a 626788 bedtools_2.13.2-1_mipsel.deb
Checksums-Sha256:
- ce8ef1c1895a62117bc65d9cfe50d772f279df59f080f658aec5fb3f60ef1118 614842 bedtools_2.13.1-1_mipsel.deb
+ 427879ca44bf18f91af967d47332071b37096ba23f371c4f881e424c6cf903eb 626788 bedtools_2.13.2-1_mipsel.deb
Files:
- fb40c1caa9bea0eed63b57b0d7d3bbd9 614842 science optional bedtools_2.13.1-1_mipsel.deb
+ dc43959f7bd8a1574bd49848f054183a 626788 science optional bedtools_2.13.2-1_mipsel.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bedtools_2.13.1-1_mipsel.deb
+bedtools_2.13.2-1_mipsel.deb
────────────────────────────
new debian package, version 2.0.
- size 614842 bytes: control archive= 1722 bytes.
+ size 626788 bytes: control archive= 1723 bytes.
836 bytes, 18 lines control
- 2028 bytes, 35 lines md5sums
+ 2025 bytes, 35 lines md5sums
Package: bedtools
- Version: 2.13.1-1
+ Version: 2.13.2-1
Architecture: mipsel
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 5004
+ Installed-Size: 5184
Depends: libc6 (>= 2.2), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
Suggests: filo
Section: science
@@ -704,49 +647,49 @@ bedtools_2.13.1-1_mipsel.deb
.
The groupBy utility is distribued in the filo package.
-drwxr-xr-x root/root 0 2011-09-11 01:31 ./
-drwxr-xr-x root/root 0 2011-09-11 01:31 ./usr/
-drwxr-xr-x root/root 0 2011-09-11 01:31 ./usr/bin/
--rwxr-xr-x root/root 187160 2011-09-11 01:31 ./usr/bin/pairToPair
--rwxr-xr-x root/root 152780 2011-09-11 01:31 ./usr/bin/nucBed
--rwxr-xr-x root/root 116104 2011-09-11 01:31 ./usr/bin/mergeBed
--rwxr-xr-x root/root 294892 2011-09-11 01:31 ./usr/bin/tagBam
--rwxr-xr-x root/root 126648 2011-09-11 01:31 ./usr/bin/closestBed
--rwxr-xr-x root/root 151640 2011-09-11 01:31 ./usr/bin/sortBed
--rwxr-xr-x root/root 135656 2011-09-11 01:31 ./usr/bin/shuffleBed
--rwxr-xr-x root/root 390844 2011-09-11 01:31 ./usr/bin/pairToBed
--rwxr-xr-x root/root 320172 2011-09-11 01:31 ./usr/bin/genomeCoverageBed
--rwxr-xr-x root/root 119656 2011-09-11 01:31 ./usr/bin/subtractBed
--rwxr-xr-x root/root 113096 2011-09-11 01:31 ./usr/bin/complementBed
--rwxr-xr-x root/root 328172 2011-09-11 01:31 ./usr/bin/intersectBed
--rwxr-xr-x root/root 241484 2011-09-11 01:31 ./usr/bin/bamToBed
--rwxr-xr-x root/root 118456 2011-09-11 01:31 ./usr/bin/maskFastaFromBed
--rwxr-xr-x root/root 127304 2011-09-11 01:31 ./usr/bin/bedToIgv
--rwxr-xr-x root/root 111592 2011-09-11 01:31 ./usr/bin/annotateBed
--rwxr-xr-x root/root 114088 2011-09-11 01:31 ./usr/bin/linksBed
--rwxr-xr-x root/root 103448 2011-09-11 01:31 ./usr/bin/bed12ToBed6
--rwxr-xr-x root/root 311420 2011-09-11 01:31 ./usr/bin/windowBed
--rwxr-xr-x root/root 112344 2011-09-11 01:31 ./usr/bin/slopBed
--rwxr-xr-x root/root 244332 2011-09-11 01:31 ./usr/bin/bedToBam
--rwxr-xr-x root/root 93608 2011-09-11 01:31 ./usr/bin/overlap
--rwxr-xr-x root/root 63016 2011-09-11 01:31 ./usr/bin/unionBedGraphs
--rwxr-xr-x root/root 119864 2011-09-11 01:31 ./usr/bin/flankBed
--rwxr-xr-x root/root 303644 2011-09-11 01:31 ./usr/bin/coverageBed
--rwxr-xr-x root/root 326428 2011-09-11 01:31 ./usr/bin/multiBamCov
--rwxr-xr-x root/root 152732 2011-09-11 01:31 ./usr/bin/fastaFromBed
-drwxr-xr-x root/root 0 2011-09-11 01:31 ./usr/share/
-drwxr-xr-x root/root 0 2011-09-11 01:31 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-09-11 01:31 ./usr/share/doc/bedtools/
--rw-r--r-- root/root 1586 2011-09-07 00:36 ./usr/share/doc/bedtools/README.rst.gz
--rw-r--r-- root/root 10990 2011-09-07 00:36 ./usr/share/doc/bedtools/changelog.gz
--rw-r--r-- root/root 391 2011-09-10 14:32 ./usr/share/doc/bedtools/changelog.Debian.gz
--rw-r--r-- root/root 4611 2011-09-10 14:21 ./usr/share/doc/bedtools/copyright
-drwxr-xr-x root/root 0 2011-09-11 01:31 ./usr/share/bedtools/
-drwxr-xr-x root/root 0 2011-09-11 01:11 ./usr/share/bedtools/genomes/
--rwxr-xr-x root/root 586 2011-09-07 00:36 ./usr/share/bedtools/genomes/mouse.mm9.genome
--rwxr-xr-x root/root 856 2011-09-07 00:36 ./usr/share/bedtools/genomes/human.hg18.genome
--rwxr-xr-x root/root 1972 2011-09-07 00:36 ./usr/share/bedtools/genomes/human.hg19.genome
--rwxr-xr-x root/root 565 2011-09-07 00:36 ./usr/share/bedtools/genomes/mouse.mm8.genome
+drwxr-xr-x root/root 0 2011-09-24 04:59 ./
+drwxr-xr-x root/root 0 2011-09-24 04:59 ./usr/
+drwxr-xr-x root/root 0 2011-09-24 04:59 ./usr/share/
+drwxr-xr-x root/root 0 2011-09-24 04:59 ./usr/share/bedtools/
+drwxr-xr-x root/root 0 2011-09-24 04:40 ./usr/share/bedtools/genomes/
+-rwxr-xr-x root/root 585 2011-09-23 15:57 ./usr/share/bedtools/genomes/mouse.mm9.genome
+-rwxr-xr-x root/root 856 2011-09-23 15:57 ./usr/share/bedtools/genomes/human.hg18.genome
+-rwxr-xr-x root/root 1972 2011-09-23 15:57 ./usr/share/bedtools/genomes/human.hg19.genome
+-rwxr-xr-x root/root 565 2011-09-23 15:57 ./usr/share/bedtools/genomes/mouse.mm8.genome
+drwxr-xr-x root/root 0 2011-09-24 04:59 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-09-24 04:59 ./usr/share/doc/bedtools/
+-rw-r--r-- root/root 1442 2011-09-23 15:57 ./usr/share/doc/bedtools/README.rst
+-rw-r--r-- root/root 11135 2011-09-23 15:57 ./usr/share/doc/bedtools/changelog.gz
+-rw-r--r-- root/root 4611 2011-09-24 00:33 ./usr/share/doc/bedtools/copyright
+-rw-r--r-- root/root 417 2011-09-24 00:36 ./usr/share/doc/bedtools/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-09-24 04:59 ./usr/bin/
+-rwxr-xr-x root/root 116408 2011-09-24 04:59 ./usr/bin/mergeBed
+-rwxr-xr-x root/root 299084 2011-09-24 04:59 ./usr/bin/tagBam
+-rwxr-xr-x root/root 378252 2011-09-24 04:59 ./usr/bin/intersectBed
+-rwxr-xr-x root/root 93928 2011-09-24 04:59 ./usr/bin/overlap
+-rwxr-xr-x root/root 128584 2011-09-24 04:59 ./usr/bin/bedToIgv
+-rwxr-xr-x root/root 120088 2011-09-24 04:59 ./usr/bin/subtractBed
+-rwxr-xr-x root/root 114776 2011-09-24 04:59 ./usr/bin/complementBed
+-rwxr-xr-x root/root 248076 2011-09-24 04:59 ./usr/bin/bedToBam
+-rwxr-xr-x root/root 121256 2011-09-24 04:59 ./usr/bin/flankBed
+-rwxr-xr-x root/root 118552 2011-09-24 04:59 ./usr/bin/maskFastaFromBed
+-rwxr-xr-x root/root 139592 2011-09-24 04:59 ./usr/bin/shuffleBed
+-rwxr-xr-x root/root 127064 2011-09-24 04:59 ./usr/bin/closestBed
+-rwxr-xr-x root/root 390940 2011-09-24 04:59 ./usr/bin/pairToBed
+-rwxr-xr-x root/root 103768 2011-09-24 04:59 ./usr/bin/bed12ToBed6
+-rwxr-xr-x root/root 311532 2011-09-24 04:59 ./usr/bin/windowBed
+-rwxr-xr-x root/root 186872 2011-09-24 04:59 ./usr/bin/pairToPair
+-rwxr-xr-x root/root 326540 2011-09-24 04:59 ./usr/bin/multiBamCov
+-rwxr-xr-x root/root 111912 2011-09-24 04:59 ./usr/bin/annotateBed
+-rwxr-xr-x root/root 63960 2011-09-24 04:59 ./usr/bin/unionBedGraphs
+-rwxr-xr-x root/root 152876 2011-09-24 04:59 ./usr/bin/nucBed
+-rwxr-xr-x root/root 114664 2011-09-24 04:59 ./usr/bin/slopBed
+-rwxr-xr-x root/root 303964 2011-09-24 04:59 ./usr/bin/coverageBed
+-rwxr-xr-x root/root 152828 2011-09-24 04:59 ./usr/bin/fastaFromBed
+-rwxr-xr-x root/root 152088 2011-09-24 04:59 ./usr/bin/sortBed
+-rwxr-xr-x root/root 114184 2011-09-24 04:59 ./usr/bin/linksBed
+-rwxr-xr-x root/root 320332 2011-09-24 04:59 ./usr/bin/genomeCoverageBed
+-rwxr-xr-x root/root 241484 2011-09-24 04:59 ./usr/bin/bamToBed
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -755,31 +698,9 @@ drwxr-xr-x root/root 0 2011-09-11 01:11 ./usr/share/bedtools/genomes/
Built successfully
────────────────────────────────────────────────────────────────────────────────
-
-┌──────────────────────────────────────────────────────────────────────────────┐
-│ Post Build │
-└──────────────────────────────────────────────────────────────────────────────┘
-
-Purging /var/lib/schroot/mount/sid-mipsel-sbuild-cae9f985-c70d-417e-afb1-0cf3707bacf1/build/buildd-bedtools_2.13.1-1-mipsel-pXOGRI
-Not cleaning session: cloned chroot in use
-
-┌──────────────────────────────────────────────────────────────────────────────┐
-│ Summary │
-└──────────────────────────────────────────────────────────────────────────────┘
-
-Architecture: mipsel
-Build-Space: 98944
-Build-Time: 1207
-Distribution: sid
-Install-Time: 80
-Job: bedtools_2.13.1-1
-Package: bedtools
-Package-Time: 1383
-Source-Version: 2.13.1-1
-Space: 98944
-Status: successful
-Version: 2.13.1-1
+Purging /var/lib/schroot/mount/sid-mipsel-sbuild-5db71cd2-56ce-4b78-8919-738b65028116/build/buildd-bedtools_2.13.2-1-mipsel-Aoe4Gj
+Not removing build depends: cloned chroot in use
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110911-0131
-Build needed 00:23:03, 98944k disc space
+Finished at 20110924-0500
+Build needed 00:21:13, 101752k disc space
diff --git a/powerpc.log b/powerpc.log
index e25719f..20fa6f6 100644
--- a/powerpc.log
+++ b/powerpc.log
@@ -1,4 +1,4 @@
-From buildd at poulenc.debian.org Sun Sep 11 01:14:19 2011
+From buildd at poulenc.debian.org Sat Sep 24 03:28:45 2011
Return-path: <buildd at poulenc.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,
@@ -6,64 +6,64 @@ Received: from kokkonen.debian.org ([2001:41b8:202:deb:1a1a:0:52c3:4b61])
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 poulenc.debian.org>)
- id 1R2Ycl-0005co-4G
- for logs at buildd.debian.org; Sun, 11 Sep 2011 01:14:19 +0000
+ id 1R7Iuz-0001oV-Hc
+ for logs at buildd.debian.org; Sat, 24 Sep 2011 03:28:45 +0000
Received: from poulenc.ynic.york.ac.uk ([144.32.168.77]
helo=poulenc.debian.org)
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
CN=poulenc.debian.org, EMAIL=hostmaster at poulenc.debian.org (verified)
by kokkonen.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
(Exim 4.72) (envelope-from <buildd at poulenc.debian.org>)
- id 1R2Yck-0004Ez-Cv; Sun, 11 Sep 2011 01:14:18 +0000
+ id 1R7Iuy-0002Qn-PK; Sat, 24 Sep 2011 03:28:44 +0000
Received: from buildd by poulenc.debian.org with local (Exim 4.72)
(envelope-from <buildd at poulenc.debian.org>)
- id 1R2Ycj-00038n-Sc; Sun, 11 Sep 2011 01:14:17 +0000
-Message-Id: <E1R2Ycj-00038n-Sc at poulenc.debian.org>
+ id 1R7Iux-0002ii-OX; Sat, 24 Sep 2011 03:28:43 +0000
+Message-Id: <E1R7Iux-0002ii-OX at poulenc.debian.org>
MIME-Version: 1.0
Content-Transfer-Encoding: binary
X-Mailer: MIME::Lite 3.027 (F2.77; B3.08; Q3.08)
-Date: Sun, 11 Sep 2011 01:14:17 +0000
+Date: Sat, 24 Sep 2011 03:28:43 +0000
From: buildd on poulenc <buildd at poulenc.debian.org>
To: phil+buildd at philkern.de,logs at buildd.debian.org
-Subject: Log for successful build of bedtools_2.13.1-1 on powerpc (dist=sid)
+Subject: Log for successful build of bedtools_2.13.2-1 on powerpc (dist=sid)
Key-Id: 779E1DD6
Delivered-To: logs at buildd.debian.org
sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on poulenc.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bedtools 2.13.1-1 (powerpc) 11 Sep 2011 01:08 ║
+║ bedtools 2.13.2-1 (powerpc) 24 Sep 2011 03:22 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bedtools
-Version: 2.13.1-1
-Source Version: 2.13.1-1
+Version: 2.13.2-1
+Source Version: 2.13.2-1
Architecture: powerpc
Get:1 http://ftp.uk.debian.org unstable InRelease [146 kB]
Get:2 http://incoming.debian.org unstable InRelease [146 kB]
-Get:3 http://ftp.uk.debian.org unstable/main Sources [5755 kB]
+Get:3 http://ftp.uk.debian.org unstable/main Sources [5773 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 [5755 kB]
-Get:6 http://ftp.uk.debian.org unstable/contrib Sources [57.4 kB]
+Get:5 http://incoming.debian.org unstable/main Sources [5783 kB]
+Get:6 http://ftp.uk.debian.org unstable/contrib Sources [56.5 kB]
Get:7 http://ftp.uk.debian.org unstable/non-free Sources [102 kB]
-Get:8 http://ftp.uk.debian.org unstable/main powerpc Packages [7585 kB]
-Get:9 http://ftp.uk.debian.org unstable/contrib powerpc Packages [55.7 kB]
+Get:8 http://ftp.uk.debian.org unstable/main powerpc Packages [7627 kB]
+Get:9 http://ftp.uk.debian.org unstable/contrib powerpc Packages [54.9 kB]
Ign http://ftp.uk.debian.org unstable/contrib TranslationIndex
Get:10 http://ftp.uk.debian.org unstable/main TranslationIndex [2045 B]
Ign http://ftp.uk.debian.org unstable/contrib Translation-en
-Get:11 http://incoming.debian.org unstable/contrib Sources [57.4 kB]
+Get:11 http://incoming.debian.org unstable/contrib Sources [56.5 kB]
Get:12 http://incoming.debian.org unstable/non-free Sources [102 kB]
-Get:13 http://incoming.debian.org unstable/main powerpc Packages [7585 kB]
-Get:14 http://incoming.debian.org unstable/contrib powerpc Packages [55.7 kB]
+Get:13 http://incoming.debian.org unstable/main powerpc Packages [7633 kB]
+Get:14 http://incoming.debian.org unstable/contrib powerpc Packages [54.9 kB]
Ign http://incoming.debian.org unstable/contrib TranslationIndex
Get:15 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
Get:16 http://incoming.debian.org Release [1604 B]
-Get:17 http://incoming.debian.org Sources [32.0 kB]
-Get:18 http://incoming.debian.org Packages [290 kB]
+Get:17 http://incoming.debian.org Sources [32.8 kB]
+Get:18 http://incoming.debian.org Packages [561 kB]
Ign http://incoming.debian.org unstable/contrib Translation-en
Ign http://incoming.debian.org Translation-en
-Fetched 27.7 MB in 23s (1172 kB/s)
+Fetched 28.1 MB in 23s (1182 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -84,11 +84,11 @@ 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 664 kB of source archives.
-Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (dsc) [1921 B]
-Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (tar) [658 kB]
-Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (diff) [4254 B]
-Fetched 664 kB in 1s (489 kB/s)
+Need to get 666 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (dsc) [1967 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (tar) [659 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (diff) [4285 B]
+Fetched 666 kB in 1s (470 kB/s)
Download complete and in download only mode
Check arch
@@ -108,12 +108,12 @@ Installing positive dependencies:
Reading package lists...
Building dependency tree...
Reading state information...
-0 upgraded, 0 newly installed, 0 to remove and 18 not upgraded.
+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 18 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 3 not upgraded.
Checking correctness of dependencies...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -146,14 +146,14 @@ tar: already installed (1.26-2)
bsdutils: already installed (1:2.19.1-5)
mount: already installed (2.19.1-5)
util-linux: already installed (2.19.1-5)
-libc6-dev: already installed (2.13-18)
+libc6-dev: already installed (2.13-21)
gcc: already installed (4:4.6.1-2 >= 4:4.4.3 is satisfied)
g++: already installed (4:4.6.1-2 >= 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 8.9.6
+Using default version 8.9.7
quilt: missing
zlib1g-dev: missing
Checking for dependency conflicts...
@@ -175,9 +175,9 @@ 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 18 not upgraded.
-Need to get 9697 kB of archives.
-After this operation, 29.8 MB of additional disk space will be used.
+0 upgraded, 21 newly installed, 0 to remove and 3 not upgraded.
+Need to get 9691 kB of archives.
+After this operation, 29.7 MB of additional disk space will be used.
Get:1 http://ftp.uk.debian.org/debian/ unstable/main libpipeline1 powerpc 1.2.0-3 [37.2 kB]
Get:2 http://ftp.uk.debian.org/debian/ unstable/main libpcre3 powerpc 8.12-4 [222 kB]
Get:3 http://ftp.uk.debian.org/debian/ unstable/main bsdmainutils powerpc 8.2.3 [207 kB]
@@ -187,22 +187,22 @@ Get:6 http://ftp.uk.debian.org/debian/ unstable/main libmagic1 powerpc 5.08-1 [2
Get:7 http://ftp.uk.debian.org/debian/ unstable/main file powerpc 5.08-1 [51.9 kB]
Get:8 http://ftp.uk.debian.org/debian/ unstable/main gettext-base powerpc 0.18.1.1-4 [134 kB]
Get:9 http://ftp.uk.debian.org/debian/ unstable/main libxml2 powerpc 2.7.8.dfsg-4 [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 0.18.1.1-4 [2032 kB]
-Get:15 http://ftp.uk.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
-Get:16 http://ftp.uk.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
-Get:17 http://ftp.uk.debian.org/debian/ unstable/main debhelper all 8.9.6 [562 kB]
-Get:18 http://ftp.uk.debian.org/debian/ unstable/main cdbs all 0.4.96 [75.8 kB]
+Get:10 http://ftp.uk.debian.org/debian/ unstable/main cdbs all 0.4.99 [77.1 kB]
+Get:11 http://ftp.uk.debian.org/debian/ unstable/main html2text powerpc 1.3.2a-15 [105 kB]
+Get:12 http://ftp.uk.debian.org/debian/ unstable/main libglib2.0-0 powerpc 2.28.6-1 [1611 kB]
+Get:13 http://ftp.uk.debian.org/debian/ unstable/main libcroco3 powerpc 0.6.2-1 [128 kB]
+Get:14 http://ftp.uk.debian.org/debian/ unstable/main libunistring0 powerpc 0.9.3-4 [422 kB]
+Get:15 http://ftp.uk.debian.org/debian/ unstable/main gettext powerpc 0.18.1.1-4 [2032 kB]
+Get:16 http://ftp.uk.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get:17 http://ftp.uk.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get:18 http://ftp.uk.debian.org/debian/ unstable/main debhelper all 8.9.7 [552 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:20 http://ftp.uk.debian.org/debian/ unstable/main quilt all 0.48-8 [357 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 9697 kB in 1s (6955 kB/s)
+Fetched 9691 kB in 1s (5128 kB/s)
Selecting previously deselected package libpipeline1.
-(Reading database ... 10610 files and directories currently installed.)
+(Reading database ... 10625 files and directories currently installed.)
Unpacking libpipeline1 (from .../libpipeline1_1.2.0-3_powerpc.deb) ...
Selecting previously deselected package libpcre3.
Unpacking libpcre3 (from .../libpcre3_8.12-4_powerpc.deb) ...
@@ -220,6 +220,8 @@ Selecting previously deselected package gettext-base.
Unpacking gettext-base (from .../gettext-base_0.18.1.1-4_powerpc.deb) ...
Selecting previously deselected package libxml2.
Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-4_powerpc.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.99_all.deb) ...
Selecting previously deselected package html2text.
Unpacking html2text (from .../html2text_1.3.2a-15_powerpc.deb) ...
Selecting previously deselected package libglib2.0-0.
@@ -235,13 +237,11 @@ 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_8.9.6_all.deb) ...
-Selecting previously deselected package cdbs.
-Unpacking cdbs (from .../archives/cdbs_0.4.96_all.deb) ...
+Unpacking debhelper (from .../debhelper_8.9.7_all.deb) ...
Selecting previously deselected package diffstat.
Unpacking diffstat (from .../diffstat_1.54-1_powerpc.deb) ...
Selecting previously deselected package quilt.
-Unpacking quilt (from .../archives/quilt_0.48-7_all.deb) ...
+Unpacking quilt (from .../archives/quilt_0.48-8_all.deb) ...
Selecting previously deselected package zlib1g-dev.
Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_powerpc.deb) ...
Setting up libpipeline1 (1.2.0-3) ...
@@ -256,6 +256,7 @@ Setting up libmagic1 (5.08-1) ...
Setting up file (5.08-1) ...
Setting up gettext-base (0.18.1.1-4) ...
Setting up libxml2 (2.7.8.dfsg-4) ...
+Setting up cdbs (0.4.99) ...
Setting up html2text (1.3.2a-15) ...
Setting up libglib2.0-0 (2.28.6-1) ...
No schema files found: doing nothing.
@@ -264,20 +265,19 @@ Setting up libunistring0 (0.9.3-4) ...
Setting up gettext (0.18.1.1-4) ...
Setting up intltool-debian (0.35.0+20060710.1) ...
Setting up po-debconf (1.0.16+nmu1) ...
-Setting up debhelper (8.9.6) ...
-Setting up cdbs (0.4.96) ...
+Setting up debhelper (8.9.7) ...
Setting up diffstat (1.54-1) ...
-Setting up quilt (0.48-7) ...
+Setting up quilt (0.48-8) ...
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 18 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 3 not upgraded.
Checking correctness of dependencies...
Kernel: Linux 2.6.32-5-powerpc64 powerpc (ppc64)
-Toolchain package versions: binutils_2.21.53.20110823-3 dpkg-dev_1.16.0.3 g++-4.6_4.6.1-8 gcc-4.6_4.6.1-8 libc6-dev_2.13-18 libstdc++6_4.6.1-8 libstdc++6-4.6-dev_4.6.1-8 linux-libc-dev_3.0.0-3
-Package versions: apt_0.8.15.6 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.53.20110823-3 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.96 coreutils_8.5-1 cpp_4:4.6.1-2 cpp-4.6_4.6.1-8 dash_0.5.7-1 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.6 debian-archive-keyring_2010.08.28 debianutils_4.0.2 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.42~WIP-2011-07-02-1 e2fsprogs_1.42~WIP-2011-07-02-1 fakeroot_1.18-1 file_5.08-1 findutils_4.4.2-1+b1 g++_4:4.6.1-2 g++-4.6_4.6.1-8 gcc_4:4.6.1-2 gcc-4.6_4.6.1-8 gcc-4.6-base_4.6.1-8 gettext_0.18.1.1-4 gettext-base_0.18.1.1-4 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.11 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-3 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbz2-1.0_1.0.5-6 libc-bin_2.13-18 libc-dev-bin_2.13-18 libc6_2.13-18 libc6-dev_2.13-18 libcomerr2_1.42~WIP-2011-07-02-1 libcroco3_0.6.2-1 libdb5.1_5.1.25-10 libdpkg-perl_1.16.0.3 libgc1c2_1:7.1-8 libgcc1_1:4.6.1-8 libgdbm3_1.8.3-10 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.2+dfsg-1 libgomp1_4.6.1-8 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.08-1 libmount1_2.19.1-5 libmpc2_0.9-3 libmpfr4_3.0.1-6 libncurses5_5.9-1 libpam-modules_1.1.3-2 libpam-modules-bin_1.1.3-2 libpam-runtime_1.1.3-2 libpam0g_1.1.3-2 libpcre3_8.12-4 libpipeline1_1.2.0-3 libreadline6_6.2-4 libselinux1_2.1.0-1 libsepol1_2.1.0-1.1 libslang2_2.2.4-3 libss2_1.42~WIP-2011-07-02-1 libstdc++6_4.6.1-8 libstdc++6-4.6-dev_4.6.1-8 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-4 linux-libc-dev_3.0.0-3 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-15 mount_2.19.1-5 multiarch-support_2.13-18 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-4 perl-base_5.12.4-4 perl-modules_5.12.4-4 po-debconf_1.0.16+nmu1 quilt_0.48-7 readline-common_6.2-4 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.2-1 sysv-rc_2.88dsf-13.11 sysvinit_2.88dsf-13.11 sysvinit-utils_2.88dsf-13.11 tar_1.26-2 tzdata_2011h-4 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+Toolchain package versions: binutils_2.21.53.20110910-1 dpkg-dev_1.16.0.3 g++-4.6_4.6.1-11 gcc-4.6_4.6.1-11 libc6-dev_2.13-21 libstdc++6_4.6.1-11 libstdc++6-4.6-dev_4.6.1-11 linux-libc-dev_3.0.0-4
+Package versions: apt_0.8.15.8 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.53.20110910-1 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 cdbs_0.4.99 coreutils_8.5-1 cpp_4:4.6.1-2 cpp-4.6_4.6.1-11 dash_0.5.7-1 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.7 debian-archive-keyring_2010.08.28 debianutils_4.0.2 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.42~WIP-2011-07-02-1 e2fsprogs_1.42~WIP-2011-07-02-1 fakeroot_1.18-1 file_5.08-1 findutils_4.4.2-1+b1 g++_4:4.6.1-2 g++-4.6_4.6.1-11 gcc_4:4.6.1-2 gcc-4.6_4.6.1-11 gcc-4.6-base_4.6.1-11 gettext_0.18.1.1-4 gettext-base_0.18.1.1-4 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.11 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-3 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbz2-1.0_1.0.5-7 libc-bin_2.13-21 libc-dev-bin_2.13-21 libc6_2.13-21 libc6-dev_2.13-21 libcomerr2_1.42~WIP-2011-07-02-1 libcroco3_0.6.2-1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.0.3 libgc1c2_1:7.1-8 libgcc1_1:4.6.1-11 libgdbm3_1.8.3-10 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.2+dfsg-1 libgomp1_4.6.1-11 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.08-1 libmount1_2.19.1-5 libmpc2_0.9-3 libmpfr4_3.0.1-6 libncurses5_5.9-1 libpam-modules_1.1.3-2 libpam-modules-bin_1.1.3-2 libpam-runtime_1.1.3-2 libpam0g_1.1.3-2 libpcre3_8.12-4 libpipeline1_1.2.0-3 libreadline6_6.2-4 libselinux1_2.1.0-1 libsepol1_2.1.0-1.1 libslang2_2.2.4-3 libss2_1.42~WIP-2011-07-02-1 libstdc++6_4.6.1-11 libstdc++6-4.6-dev_4.6.1-11 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-4 linux-libc-dev_3.0.0-4 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-15 mount_2.19.1-5 multiarch-support_2.13-21 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-4 perl-base_5.12.4-4 perl-modules_5.12.4-4 po-debconf_1.0.16+nmu1 quilt_0.48-8 readline-common_6.2-4 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.2-1 sysv-rc_2.88dsf-13.11 sysvinit_2.88dsf-13.11 sysvinit-utils_2.88dsf-13.11 tar_1.26-2 tzdata_2011j-1 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -288,12 +288,12 @@ Unpack source
─────────────
gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
-gpgv: Signature made Sun Sep 11 00:44:52 2011 UTC using RSA key ID 2295D502
+gpgv: Signature made Sat Sep 24 01:39:55 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_2.13.1-1.dsc
-dpkg-source: info: extracting bedtools in bedtools-2.13.1
-dpkg-source: info: unpacking bedtools_2.13.1.orig.tar.xz
-dpkg-source: info: unpacking bedtools_2.13.1-1.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bedtools_2.13.2-1.dsc
+dpkg-source: info: extracting bedtools in bedtools-2.13.2
+dpkg-source: info: unpacking bedtools_2.13.2.orig.tar.xz
+dpkg-source: info: unpacking bedtools_2.13.2-1.debian.tar.gz
dpkg-source: info: applying gzstream.h.patch
Check disc space
@@ -309,24 +309,24 @@ 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 2.13.1-1
- dpkg-source --before-build bedtools-2.13.1
+dpkg-buildpackage: source version 2.13.2-1
+ dpkg-source --before-build bedtools-2.13.2
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 `/build/buildd-bedtools_2.13.1-1-powerpc-EOtipC/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-powerpc-R4GStM/bedtools-2.13.2'
Cleaning up.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-powerpc-EOtipC/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-powerpc-R4GStM/bedtools-2.13.2'
dh_clean
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/build/buildd-bedtools_2.13.1-1-powerpc-EOtipC/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-powerpc-R4GStM/bedtools-2.13.2'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-powerpc-EOtipC/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-powerpc-R4GStM/bedtools-2.13.2'
if [ -d "." ]; then \
- cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.1-1-powerpc-EOtipC/bedtools-2.13.1/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
+ cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.2-1-powerpc-R4GStM/bedtools-2.13.2/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
fi
Removing patch gzstream.h.patch
Restoring src/utils/gzstream/gzstream.C
@@ -339,21 +339,21 @@ test -x debian/rules
mkdir -p "."
/usr/share/cdbs/1/rules/buildcore.mk:109: WARNING: DEB_DH_BUILDDEB_ARGS is a deprecated variable
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/build/buildd-bedtools_2.13.1-1-powerpc-EOtipC/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-powerpc-R4GStM/bedtools-2.13.2'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-powerpc-EOtipC/bedtools-2.13.1'
-cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.1-1-powerpc-EOtipC/bedtools-2.13.1/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-powerpc-R4GStM/bedtools-2.13.2'
+cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.2-1-powerpc-R4GStM/bedtools-2.13.2/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_2.13.1-1-powerpc-EOtipC/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-powerpc-R4GStM/bedtools-2.13.2'
make[1]: Nothing to be done for `update-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-powerpc-EOtipC/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-powerpc-R4GStM/bedtools-2.13.2'
/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_2.13.1-1-powerpc-EOtipC/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-powerpc-R4GStM/bedtools-2.13.2'
[ -d obj ] || mkdir -p obj
[ -d bin ] || mkdir -p bin
Building BEDTools:
@@ -367,10 +367,8 @@ Building BEDTools:
- Building in src/utils/bedGraphFile
* compiling bedGraphFile.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/chromsweep
+ * compiling chromsweep.cpp
- Building in src/utils/gzstream
g++ -g -O2 -g -O2 -Wall -c -o ../../../obj//gzstream.o gzstream.C -I.
@@ -435,6 +433,11 @@ Fasta.cpp:31:17: warning: converting to non-pointer type 'int' from NULL [-Wconv
Fasta.cpp:32:17: warning: converting to non-pointer type 'int' from NULL [-Wconversion-null]
* compiling split.cpp
+- Building in src/utils/genomeFile
+ * compiling genomeFile.cpp
+genomeFile.cpp: In member function 'void GenomeFile::loadGenomeFileIntoMap()':
+genomeFile.cpp:61:26: warning: variable 'c2' set but not used [-Wunused-but-set-variable]
+
- Building in src/annotateBed
* compiling annotateMain.cpp
annotateMain.cpp: In function 'int main(int, char**)':
@@ -539,9 +542,9 @@ 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:254:12: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp:255:12: 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:306:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp:307:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
* linking pairToBed
- Building in src/pairToPair
@@ -597,7 +600,7 @@ unionBedGraphsMain.cpp:49:10: warning: variable 'haveFiller' set but not used [-
* compiling windowBed.cpp
* linking windowBed
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-powerpc-EOtipC/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-powerpc-R4GStM/bedtools-2.13.2'
touch debian/stamp-makefile-build
DEB_MAKE_CHECK_TARGET unset, not running checks
fakeroot debian/rules binary-arch
@@ -642,22 +645,22 @@ dh_shlibdeps -pbedtools
dh_gencontrol -pbedtools
dh_md5sums -pbedtools
dh_builddeb -pbedtools -- -Z xz
-dpkg-deb: building package `bedtools' in `../bedtools_2.13.1-1_powerpc.deb'.
- dpkg-genchanges -B -mpowerpc Build Daemon (poulenc) <buildd_powerpc-poulenc at buildd.debian.org> >../bedtools_2.13.1-1_powerpc.changes
+dpkg-deb: building package `bedtools' in `../bedtools_2.13.2-1_powerpc.deb'.
+ dpkg-genchanges -B -mpowerpc Build Daemon (poulenc) <buildd_powerpc-poulenc at buildd.debian.org> >../bedtools_2.13.2-1_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-2.13.1
+ dpkg-source --after-build bedtools-2.13.2
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110911-0114
+Build finished at 20110924-0328
-bedtools_2.13.1-1_powerpc.changes:
+bedtools_2.13.2-1_powerpc.changes:
Format: 1.8
-Date: Sat, 10 Sep 2011 23:32:43 +0900
+Date: Sat, 24 Sep 2011 09:34:29 +0900
Source: bedtools
Binary: bedtools
Architecture: powerpc
-Version: 2.13.1-1
+Version: 2.13.2-1
Distribution: sid
Urgency: low
Maintainer: powerpc Build Daemon (poulenc) <buildd_powerpc-poulenc at buildd.debian.org>
@@ -665,38 +668,33 @@ Changed-By: Charles Plessy <plessy at debian.org>
Description:
bedtools - suite of utilities for comparing genomic features
Changes:
- bedtools (2.13.1-1) unstable; urgency=low
+ bedtools (2.13.2-1) unstable; urgency=low
.
- [2e3fe5e] New upstream release.
- [ff5450e] Compress source and binary packages with xz.
- [ef58a33] Suggest filo for the groupBy command.
- [df206c0] Mangle debian/watch download URL.
- [2fe7cff] Simplified repacking as upstream tarballs do not contain
- ‘*/*DS_Store’ files anymore.
+ [1930a26] New upstream release.
Checksums-Sha1:
- fe4c8c81fffae22cc159ac847da38777fada6f8c 575800 bedtools_2.13.1-1_powerpc.deb
+ 3d1cb46a915d7058954652ebda2e0d0d4a4db91f 590392 bedtools_2.13.2-1_powerpc.deb
Checksums-Sha256:
- d32e44d3adb207709ad93e576eb24a673090c851aee0690e9d23609be6b83cca 575800 bedtools_2.13.1-1_powerpc.deb
+ 775a831e804714c974a3f474fd870535ca6e106a7113035b7bec162bde82e5cb 590392 bedtools_2.13.2-1_powerpc.deb
Files:
- 347c074a49f4be13d4703e6e1798600b 575800 science optional bedtools_2.13.1-1_powerpc.deb
+ 5d64ab381234ae8136107d2c92fa47de 590392 science optional bedtools_2.13.2-1_powerpc.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bedtools_2.13.1-1_powerpc.deb
+bedtools_2.13.2-1_powerpc.deb
─────────────────────────────
new debian package, version 2.0.
- size 575800 bytes: control archive= 1719 bytes.
+ size 590392 bytes: control archive= 1723 bytes.
837 bytes, 18 lines control
- 2028 bytes, 35 lines md5sums
+ 2025 bytes, 35 lines md5sums
Package: bedtools
- Version: 2.13.1-1
+ Version: 2.13.2-1
Architecture: powerpc
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 4916
+ Installed-Size: 4976
Depends: libc6 (>= 2.4), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
Suggests: filo
Section: science
@@ -711,49 +709,49 @@ bedtools_2.13.1-1_powerpc.deb
.
The groupBy utility is distribued in the filo package.
-drwxr-xr-x root/root 0 2011-09-11 01:14 ./
-drwxr-xr-x root/root 0 2011-09-11 01:14 ./usr/
-drwxr-xr-x root/root 0 2011-09-11 01:14 ./usr/share/
-drwxr-xr-x root/root 0 2011-09-11 01:14 ./usr/share/bedtools/
-drwxr-xr-x root/root 0 2011-09-11 01:10 ./usr/share/bedtools/genomes/
--rwxr-xr-x root/root 1972 2011-09-07 00:36 ./usr/share/bedtools/genomes/human.hg19.genome
--rwxr-xr-x root/root 586 2011-09-07 00:36 ./usr/share/bedtools/genomes/mouse.mm9.genome
--rwxr-xr-x root/root 856 2011-09-07 00:36 ./usr/share/bedtools/genomes/human.hg18.genome
--rwxr-xr-x root/root 565 2011-09-07 00:36 ./usr/share/bedtools/genomes/mouse.mm8.genome
-drwxr-xr-x root/root 0 2011-09-11 01:13 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-09-11 01:14 ./usr/share/doc/bedtools/
--rw-r--r-- root/root 1586 2011-09-07 00:36 ./usr/share/doc/bedtools/README.rst.gz
--rw-r--r-- root/root 10990 2011-09-07 00:36 ./usr/share/doc/bedtools/changelog.gz
--rw-r--r-- root/root 4611 2011-09-10 14:21 ./usr/share/doc/bedtools/copyright
--rw-r--r-- root/root 391 2011-09-10 14:32 ./usr/share/doc/bedtools/changelog.Debian.gz
-drwxr-xr-x root/root 0 2011-09-11 01:14 ./usr/bin/
--rwxr-xr-x root/root 231864 2011-09-11 01:14 ./usr/bin/bamToBed
--rwxr-xr-x root/root 122044 2011-09-11 01:14 ./usr/bin/bedToIgv
--rwxr-xr-x root/root 108780 2011-09-11 01:14 ./usr/bin/linksBed
--rwxr-xr-x root/root 285264 2011-09-11 01:14 ./usr/bin/tagBam
--rwxr-xr-x root/root 371312 2011-09-11 01:14 ./usr/bin/pairToBed
--rwxr-xr-x root/root 147500 2011-09-11 01:14 ./usr/bin/fastaFromBed
--rwxr-xr-x root/root 63764 2011-09-11 01:14 ./usr/bin/unionBedGraphs
--rwxr-xr-x root/root 314792 2011-09-11 01:14 ./usr/bin/multiBamCov
--rwxr-xr-x root/root 112868 2011-09-11 01:14 ./usr/bin/mergeBed
--rwxr-xr-x root/root 100644 2011-09-11 01:14 ./usr/bin/bed12ToBed6
--rwxr-xr-x root/root 108964 2011-09-11 01:14 ./usr/bin/complementBed
--rwxr-xr-x root/root 174332 2011-09-11 01:14 ./usr/bin/pairToPair
--rwxr-xr-x root/root 108788 2011-09-11 01:14 ./usr/bin/slopBed
--rwxr-xr-x root/root 148068 2011-09-11 01:14 ./usr/bin/nucBed
--rwxr-xr-x root/root 131604 2011-09-11 01:14 ./usr/bin/shuffleBed
--rwxr-xr-x root/root 121116 2011-09-11 01:14 ./usr/bin/closestBed
--rwxr-xr-x root/root 293440 2011-09-11 01:14 ./usr/bin/coverageBed
--rwxr-xr-x root/root 108764 2011-09-11 01:14 ./usr/bin/annotateBed
--rwxr-xr-x root/root 309848 2011-09-11 01:14 ./usr/bin/genomeCoverageBed
--rwxr-xr-x root/root 236012 2011-09-11 01:14 ./usr/bin/bedToBam
--rwxr-xr-x root/root 297544 2011-09-11 01:14 ./usr/bin/windowBed
--rwxr-xr-x root/root 112932 2011-09-11 01:14 ./usr/bin/maskFastaFromBed
--rwxr-xr-x root/root 92404 2011-09-11 01:14 ./usr/bin/overlap
--rwxr-xr-x root/root 115236 2011-09-11 01:14 ./usr/bin/flankBed
--rwxr-xr-x root/root 114020 2011-09-11 01:14 ./usr/bin/subtractBed
--rwxr-xr-x root/root 313936 2011-09-11 01:14 ./usr/bin/intersectBed
--rwxr-xr-x root/root 144012 2011-09-11 01:14 ./usr/bin/sortBed
+drwxr-xr-x root/root 0 2011-09-24 03:28 ./
+drwxr-xr-x root/root 0 2011-09-24 03:28 ./usr/
+drwxr-xr-x root/root 0 2011-09-24 03:28 ./usr/share/
+drwxr-xr-x root/root 0 2011-09-24 03:28 ./usr/share/bedtools/
+drwxr-xr-x root/root 0 2011-09-24 03:24 ./usr/share/bedtools/genomes/
+-rwxr-xr-x root/root 1972 2011-09-23 15:57 ./usr/share/bedtools/genomes/human.hg19.genome
+-rwxr-xr-x root/root 585 2011-09-23 15:57 ./usr/share/bedtools/genomes/mouse.mm9.genome
+-rwxr-xr-x root/root 856 2011-09-23 15:57 ./usr/share/bedtools/genomes/human.hg18.genome
+-rwxr-xr-x root/root 565 2011-09-23 15:57 ./usr/share/bedtools/genomes/mouse.mm8.genome
+drwxr-xr-x root/root 0 2011-09-24 03:28 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-09-24 03:28 ./usr/share/doc/bedtools/
+-rw-r--r-- root/root 11135 2011-09-23 15:57 ./usr/share/doc/bedtools/changelog.gz
+-rw-r--r-- root/root 4611 2011-09-24 00:33 ./usr/share/doc/bedtools/copyright
+-rw-r--r-- root/root 1442 2011-09-23 15:57 ./usr/share/doc/bedtools/README.rst
+-rw-r--r-- root/root 417 2011-09-24 00:36 ./usr/share/doc/bedtools/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-09-24 03:28 ./usr/bin/
+-rwxr-xr-x root/root 231864 2011-09-24 03:28 ./usr/bin/bamToBed
+-rwxr-xr-x root/root 125196 2011-09-24 03:28 ./usr/bin/bedToIgv
+-rwxr-xr-x root/root 109300 2011-09-24 03:28 ./usr/bin/linksBed
+-rwxr-xr-x root/root 289368 2011-09-24 03:28 ./usr/bin/tagBam
+-rwxr-xr-x root/root 371864 2011-09-24 03:28 ./usr/bin/pairToBed
+-rwxr-xr-x root/root 149852 2011-09-24 03:28 ./usr/bin/fastaFromBed
+-rwxr-xr-x root/root 63764 2011-09-24 03:28 ./usr/bin/unionBedGraphs
+-rwxr-xr-x root/root 318040 2011-09-24 03:28 ./usr/bin/multiBamCov
+-rwxr-xr-x root/root 112884 2011-09-24 03:28 ./usr/bin/mergeBed
+-rwxr-xr-x root/root 100652 2011-09-24 03:28 ./usr/bin/bed12ToBed6
+-rwxr-xr-x root/root 110516 2011-09-24 03:28 ./usr/bin/complementBed
+-rwxr-xr-x root/root 174372 2011-09-24 03:28 ./usr/bin/pairToPair
+-rwxr-xr-x root/root 109876 2011-09-24 03:28 ./usr/bin/slopBed
+-rwxr-xr-x root/root 149868 2011-09-24 03:28 ./usr/bin/nucBed
+-rwxr-xr-x root/root 133404 2011-09-24 03:28 ./usr/bin/shuffleBed
+-rwxr-xr-x root/root 121708 2011-09-24 03:28 ./usr/bin/closestBed
+-rwxr-xr-x root/root 293448 2011-09-24 03:28 ./usr/bin/coverageBed
+-rwxr-xr-x root/root 108772 2011-09-24 03:28 ./usr/bin/annotateBed
+-rwxr-xr-x root/root 310360 2011-09-24 03:28 ./usr/bin/genomeCoverageBed
+-rwxr-xr-x root/root 237276 2011-09-24 03:28 ./usr/bin/bedToBam
+-rwxr-xr-x root/root 297776 2011-09-24 03:28 ./usr/bin/windowBed
+-rwxr-xr-x root/root 113524 2011-09-24 03:28 ./usr/bin/maskFastaFromBed
+-rwxr-xr-x root/root 92412 2011-09-24 03:28 ./usr/bin/overlap
+-rwxr-xr-x root/root 116988 2011-09-24 03:28 ./usr/bin/flankBed
+-rwxr-xr-x root/root 114700 2011-09-24 03:28 ./usr/bin/subtractBed
+-rwxr-xr-x root/root 359008 2011-09-24 03:28 ./usr/bin/intersectBed
+-rwxr-xr-x root/root 145628 2011-09-24 03:28 ./usr/bin/sortBed
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -767,7 +765,7 @@ Built successfully
│ Post Build │
└──────────────────────────────────────────────────────────────────────────────┘
-Purging /var/lib/schroot/mount/sid-powerpc-sbuild-ffcebc77-bfd7-43e3-966c-893136fdc0c0/build/buildd-bedtools_2.13.1-1-powerpc-EOtipC
+Purging /var/lib/schroot/mount/sid-powerpc-sbuild-3e930e01-48e6-4749-93bd-dc6d89fdd641/build/buildd-bedtools_2.13.2-1-powerpc-R4GStM
Not cleaning session: cloned chroot in use
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -775,18 +773,18 @@ Not cleaning session: cloned chroot in use
└──────────────────────────────────────────────────────────────────────────────┘
Architecture: powerpc
-Build-Space: 101956
-Build-Time: 252
+Build-Space: 104436
+Build-Time: 263
Distribution: sid
Install-Time: 43
-Job: bedtools_2.13.1-1
+Job: bedtools_2.13.2-1
Package: bedtools
-Package-Time: 336
-Source-Version: 2.13.1-1
-Space: 101956
+Package-Time: 346
+Source-Version: 2.13.2-1
+Space: 104436
Status: successful
-Version: 2.13.1-1
+Version: 2.13.2-1
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110911-0114
-Build needed 00:05:36, 101956k disc space
+Finished at 20110924-0328
+Build needed 00:05:46, 104436k disc space
Signature with key '779E1DD6' requested:
diff --git a/s390.log b/s390.log
index 9875306..5ced078 100644
--- a/s390.log
+++ b/s390.log
@@ -1,69 +1,69 @@
-From buildd at zandonai.debian.org Sun Sep 11 01:23:46 2011
+From buildd at zandonai.debian.org Sat Sep 24 03:43:22 2011
Return-path: <buildd at zandonai.debian.org>
-Received: from merikanto.debian.org ([2001:858:2:2:216:35ff:fec4:a49a])
+Received: from kokkonen.debian.org ([2001:41b8:202:deb:1a1a:0:52c3:4b61])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
- CN=merikanto.debian.org,
- EMAIL=hostmaster at merikanto.debian.org (verified)
+ CN=kokkonen.debian.org,
+ EMAIL=hostmaster at kokkonen.debian.org (verified)
by grieg.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
(Exim 4.72) (envelope-from <buildd at zandonai.debian.org>)
- id 1R2Yls-0006xz-KQ
- for logs at buildd.debian.org; Sun, 11 Sep 2011 01:23:45 +0000
+ id 1R7J98-0003it-Nm
+ for logs at buildd.debian.org; Sat, 24 Sep 2011 03:43:22 +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)
+ by kokkonen.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
(Exim 4.72) (envelope-from <buildd at zandonai.debian.org>)
- id 1R2Ylr-00088S-Cg; Sun, 11 Sep 2011 01:23:43 +0000
+ id 1R7J98-0002zn-08; Sat, 24 Sep 2011 03:43:22 +0000
Received: from buildd by zandonai.debian.org with local (Exim 4.72)
(envelope-from <buildd at zandonai.debian.org>)
- id 1R2Ylq-0008Ny-Up; Sun, 11 Sep 2011 01:23:42 +0000
-Message-Id: <E1R2Ylq-0008Ny-Up at zandonai.debian.org>
+ id 1R7J97-0003hw-MO; Sat, 24 Sep 2011 03:43:21 +0000
+Message-Id: <E1R7J97-0003hw-MO 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: Sun, 11 Sep 2011 01:23:42 +0000
+Date: Sat, 24 Sep 2011 03:43:21 +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_2.13.1-1 on s390 (dist=sid)
+Subject: Log for successful build of bedtools_2.13.2-1 on s390 (dist=sid)
Key-Id: 2D941D26
Delivered-To: logs at buildd.debian.org
sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on zandonai.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bedtools 2.13.1-1 (s390) 11 Sep 2011 01:20 ║
+║ bedtools 2.13.2-1 (s390) 24 Sep 2011 03:39 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bedtools
-Version: 2.13.1-1
-Source Version: 2.13.1-1
+Version: 2.13.2-1
+Source Version: 2.13.2-1
Architecture: s390
Get:1 http://ftp.de.debian.org unstable InRelease [146 kB]
-Get:2 http://ftp.de.debian.org unstable/main Sources [5755 kB]
-Get:3 http://incoming.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 [5773 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 [5755 kB]
-Get:6 http://ftp.de.debian.org unstable/contrib Sources [57.4 kB]
+Get:5 http://incoming.debian.org unstable/main Sources [5783 kB]
+Get:6 http://ftp.de.debian.org unstable/contrib Sources [56.5 kB]
Get:7 http://ftp.de.debian.org unstable/non-free Sources [102 kB]
-Get:8 http://ftp.de.debian.org unstable/main s390 Packages [7491 kB]
-Get:9 http://ftp.de.debian.org unstable/contrib s390 Packages [54.8 kB]
+Get:8 http://ftp.de.debian.org unstable/main s390 Packages [7527 kB]
+Get:9 http://ftp.de.debian.org unstable/contrib s390 Packages [54.0 kB]
Ign http://ftp.de.debian.org unstable/contrib TranslationIndex
Get:10 http://ftp.de.debian.org unstable/main TranslationIndex [2045 B]
Ign http://ftp.de.debian.org unstable/contrib Translation-en
-Get:11 http://incoming.debian.org unstable/contrib Sources [57.4 kB]
+Get:11 http://incoming.debian.org unstable/contrib Sources [56.5 kB]
Get:12 http://incoming.debian.org unstable/non-free Sources [102 kB]
-Get:13 http://incoming.debian.org unstable/main s390 Packages [7491 kB]
-Get:14 http://incoming.debian.org unstable/contrib s390 Packages [54.8 kB]
+Get:13 http://incoming.debian.org unstable/main s390 Packages [7537 kB]
+Get:14 http://incoming.debian.org unstable/contrib s390 Packages [54.0 kB]
Ign http://incoming.debian.org unstable/contrib TranslationIndex
Get:15 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
Get:16 http://incoming.debian.org Release [1604 B]
-Get:17 http://incoming.debian.org Sources [32.4 kB]
-Get:18 http://incoming.debian.org Packages [290 kB]
+Get:17 http://incoming.debian.org Sources [32.8 kB]
+Get:18 http://incoming.debian.org Packages [562 kB]
Ign http://incoming.debian.org unstable/contrib Translation-en
Ign http://incoming.debian.org Translation-en
-Fetched 27.5 MB in 24s (1136 kB/s)
+Fetched 27.9 MB in 24s (1135 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -84,11 +84,11 @@ 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 664 kB of source archives.
-Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (dsc) [1921 B]
-Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (tar) [658 kB]
-Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.1-1 (diff) [4254 B]
-Fetched 664 kB in 1s (435 kB/s)
+Need to get 666 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (dsc) [1967 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (tar) [659 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (diff) [4285 B]
+Fetched 666 kB in 1s (426 kB/s)
Download complete and in download only mode
Check arch
@@ -108,12 +108,12 @@ Installing positive dependencies:
Reading package lists...
Building dependency tree...
Reading state information...
-0 upgraded, 0 newly installed, 0 to remove and 9 not upgraded.
+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 9 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 3 not upgraded.
Checking correctness of dependencies...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -125,7 +125,7 @@ Checking for already installed dependencies...
base-files: already installed (6.5)
base-passwd: already installed (3.5.23)
bash: already installed (4.1-3)
-coreutils: already installed (8.5-1)
+coreutils: already installed (8.13-2)
dash: already installed (0.5.7-1)
debianutils: already installed (4.0.2)
diffutils: already installed (1:3.0-1)
@@ -146,14 +146,14 @@ tar: already installed (1.26-2)
bsdutils: already installed (1:2.19.1-5)
mount: already installed (2.19.1-5)
util-linux: already installed (2.19.1-5)
-libc6-dev: already installed (2.13-20)
+libc6-dev: already installed (2.13-21)
gcc: already installed (4:4.6.1-2 >= 4:4.4.3 is satisfied)
g++: already installed (4:4.6.1-2 >= 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 8.9.6
+Using default version 8.9.7
quilt: missing
zlib1g-dev: missing
Checking for dependency conflicts...
@@ -175,9 +175,9 @@ 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 9 not upgraded.
-Need to get 9829 kB of archives.
-After this operation, 29.7 MB of additional disk space will be used.
+0 upgraded, 21 newly installed, 0 to remove and 3 not upgraded.
+Need to get 9823 kB of archives.
+After this operation, 29.6 MB of additional disk space will be used.
Get:1 http://ftp.de.debian.org/debian/ unstable/main libpipeline1 s390 1.2.0-3 [39.0 kB]
Get:2 http://ftp.de.debian.org/debian/ unstable/main libpcre3 s390 8.12-4 [228 kB]
Get:3 http://ftp.de.debian.org/debian/ unstable/main bsdmainutils s390 8.2.3 [209 kB]
@@ -187,22 +187,22 @@ Get:6 http://ftp.de.debian.org/debian/ unstable/main libmagic1 s390 5.08-1 [255
Get:7 http://ftp.de.debian.org/debian/ unstable/main file s390 5.08-1 [52.2 kB]
Get:8 http://ftp.de.debian.org/debian/ unstable/main gettext-base s390 0.18.1.1-4 [143 kB]
Get:9 http://ftp.de.debian.org/debian/ unstable/main libxml2 s390 2.7.8.dfsg-4 [879 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 0.18.1.1-4 [2073 kB]
-Get:15 http://ftp.de.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
-Get:16 http://ftp.de.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
-Get:17 http://ftp.de.debian.org/debian/ unstable/main debhelper all 8.9.6 [562 kB]
-Get:18 http://ftp.de.debian.org/debian/ unstable/main cdbs all 0.4.96 [75.8 kB]
+Get:10 http://ftp.de.debian.org/debian/ unstable/main cdbs all 0.4.99 [77.1 kB]
+Get:11 http://ftp.de.debian.org/debian/ unstable/main html2text s390 1.3.2a-15 [101 kB]
+Get:12 http://ftp.de.debian.org/debian/ unstable/main libglib2.0-0 s390 2.28.6-1 [1639 kB]
+Get:13 http://ftp.de.debian.org/debian/ unstable/main libcroco3 s390 0.6.2-1 [128 kB]
+Get:14 http://ftp.de.debian.org/debian/ unstable/main libunistring0 s390 0.9.3-4 [431 kB]
+Get:15 http://ftp.de.debian.org/debian/ unstable/main gettext s390 0.18.1.1-4 [2073 kB]
+Get:16 http://ftp.de.debian.org/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get:17 http://ftp.de.debian.org/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get:18 http://ftp.de.debian.org/debian/ unstable/main debhelper all 8.9.7 [552 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:20 http://ftp.de.debian.org/debian/ unstable/main quilt all 0.48-8 [357 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 9829 kB in 2s (3492 kB/s)
+Fetched 9823 kB in 2s (3385 kB/s)
Selecting previously deselected package libpipeline1.
-(Reading database ... 10560 files and directories currently installed.)
+(Reading database ... 10632 files and directories currently installed.)
Unpacking libpipeline1 (from .../libpipeline1_1.2.0-3_s390.deb) ...
Selecting previously deselected package libpcre3.
Unpacking libpcre3 (from .../libpcre3_8.12-4_s390.deb) ...
@@ -220,6 +220,8 @@ Selecting previously deselected package gettext-base.
Unpacking gettext-base (from .../gettext-base_0.18.1.1-4_s390.deb) ...
Selecting previously deselected package libxml2.
Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-4_s390.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.99_all.deb) ...
Selecting previously deselected package html2text.
Unpacking html2text (from .../html2text_1.3.2a-15_s390.deb) ...
Selecting previously deselected package libglib2.0-0.
@@ -235,13 +237,11 @@ 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_8.9.6_all.deb) ...
-Selecting previously deselected package cdbs.
-Unpacking cdbs (from .../archives/cdbs_0.4.96_all.deb) ...
+Unpacking debhelper (from .../debhelper_8.9.7_all.deb) ...
Selecting previously deselected package diffstat.
Unpacking diffstat (from .../diffstat_1.54-1_s390.deb) ...
Selecting previously deselected package quilt.
-Unpacking quilt (from .../archives/quilt_0.48-7_all.deb) ...
+Unpacking quilt (from .../archives/quilt_0.48-8_all.deb) ...
Selecting previously deselected package zlib1g-dev.
Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_s390.deb) ...
Setting up libpipeline1 (1.2.0-3) ...
@@ -256,6 +256,7 @@ Setting up libmagic1 (5.08-1) ...
Setting up file (5.08-1) ...
Setting up gettext-base (0.18.1.1-4) ...
Setting up libxml2 (2.7.8.dfsg-4) ...
+Setting up cdbs (0.4.99) ...
Setting up html2text (1.3.2a-15) ...
Setting up libglib2.0-0 (2.28.6-1) ...
No schema files found: doing nothing.
@@ -264,20 +265,19 @@ Setting up libunistring0 (0.9.3-4) ...
Setting up gettext (0.18.1.1-4) ...
Setting up intltool-debian (0.35.0+20060710.1) ...
Setting up po-debconf (1.0.16+nmu1) ...
-Setting up debhelper (8.9.6) ...
-Setting up cdbs (0.4.96) ...
+Setting up debhelper (8.9.7) ...
Setting up diffstat (1.54-1) ...
-Setting up quilt (0.48-7) ...
+Setting up quilt (0.48-8) ...
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 9 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 3 not upgraded.
Checking correctness of dependencies...
Kernel: Linux 2.6.32-5-s390x s390 (s390x)
-Toolchain package versions: binutils_2.21.53.20110823-3 dpkg-dev_1.16.0.3 g++-4.6_4.6.1-9 gcc-4.6_4.6.1-9 libc6-dev_2.13-20 libstdc++6_4.6.1-9 libstdc++6-4.6-dev_4.6.1-9 linux-libc-dev_3.0.0-3
-Package versions: apt_0.8.15.6 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.53.20110823-3 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 cdbs_0.4.96 coreutils_8.5-1 cpp_4:4.6.1-2 cpp-4.6_4.6.1-9 dash_0.5.7-1 debconf_1.5.41 debconf-english_1.5.38 debfoster_2.7-1.1 debhelper_8.9.6 debian-archive-keyring_2010.08.28 debianutils_4.0.2 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.42~WIP-2011-07-02-1 e2fsprogs_1.42~WIP-2011-07-02-1 fakeroot_1.18-1 file_5.08-1 findutils_4.4.2-1+b1 g++_4:4.6.1-2 g++-4.6_4.6.1-9 gcc_4:4.6.1-2 gcc-4.4-base_4.4.6-10 gcc-4.5-base_4.5.3-8 gcc-4.6_4.6.1-9 gcc-4.6-base_4.6.1-9 gettext_0.18.1.1-4 gettext-base_0.18.1.1-4 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.11 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-3 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbz2-1.0_1.0.5-7 libc-bin_2.13-20 libc-dev-bin_2.13-20 libc6_2.13-20 libc6-dev_2.13-20 libcomerr2_1.42~WIP-2011-07-02-1 libcroco3_0.6.2-1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.0.3 libgc1c2_1:7.1-8 libgcc1_1:4.6.1-9 libgdbm3_1.8.3-10 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.2+dfsg-1 libgomp1_4.6.1-9 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.08-1 libmount1_2.19.1-5 libmpc2_0.9-3 libmpfr4_3.0.1-6 libncurses5_5.9-1 libpam-modules_1.1.3-2 libpam-modules-bin_1.1.3-2 libpam-runtime_1.1.3-2 libpam0g_1.1.3-2 libpcre3_8.12-4 libpipeline1_1.2.0-3 libreadline6_6.2-4 libselinux1_2.1.0-1 libsepol1_2.1.0-1.1 libslang2_2.2.4-3 libss2_1.42~WIP-2011-07-02-1 libstdc++6_4.6.1-9 libstdc++6-4.6-dev_4.6.1-9 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-4 linux-libc-dev_3.0.0-3 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-15 mount_2.19.1-5 multiarch-support_2.13-20 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-4 perl-base_5.12.4-4 perl-modules_5.12.4-4 po-debconf_1.0.16+nmu1 quilt_0.48-7 readline-common_6.2-4 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.2-1 sysv-rc_2.88dsf-13.11 sysvinit_2.88dsf-13.11 sysvinit-utils_2.88dsf-13.11 tar_1.26-2 tzdata_2011i-2 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+Toolchain package versions: binutils_2.21.53.20110910-1 dpkg-dev_1.16.0.3 g++-4.6_4.6.1-11 gcc-4.6_4.6.1-11 libc6-dev_2.13-21 libstdc++6_4.6.1-11 libstdc++6-4.6-dev_4.6.1-11 linux-libc-dev_3.0.0-4
+Package versions: apt_0.8.15.8 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.53.20110910-1 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 cdbs_0.4.99 coreutils_8.13-2 cpp_4:4.6.1-2 cpp-4.6_4.6.1-11 dash_0.5.7-1 debconf_1.5.41 debconf-i18n_1.5.41 debfoster_2.7-1.1 debhelper_8.9.7 debian-archive-keyring_2010.08.28 debianutils_4.0.2 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.42~WIP-2011-07-02-1 e2fsprogs_1.42~WIP-2011-07-02-1 fakeroot_1.18-1 file_5.08-1 findutils_4.4.2-1+b1 g++_4:4.6.1-2 g++-4.6_4.6.1-11 gcc_4:4.6.1-2 gcc-4.4-base_4.4.6-11 gcc-4.5-base_4.5.3-9 gcc-4.6_4.6.1-11 gcc-4.6-base_4.6.1-11 gettext_0.18.1.1-4 gettext-base_0.18.1.1-4 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.11 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-3 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbz2-1.0_1.0.5-7 libc-bin_2.13-21 libc-dev-bin_2.13-21 libc6_2.13-21 libc6-dev_2.13-21 libcomerr2_1.42~WIP-2011-07-02-1 libcroco3_0.6.2-1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.0.3 libgc1c2_1:7.1-8 libgcc1_1:4.6.1-11 libgdbm3_1.8.3-10 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.2+dfsg-1 libgomp1_4.6.1-11 liblocale-gettext-perl_1.05-7 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.08-1 libmount1_2.19.1-5 libmpc2_0.9-3 libmpfr4_3.0.1-6 libncurses5_5.9-1 libpam-modules_1.1.3-2 libpam-modules-bin_1.1.3-2 libpam-runtime_1.1.3-2 libpam0g_1.1.3-2 libpcre3_8.12-4 libpipeline1_1.2.0-3 libreadline6_6.2-4 libselinux1_2.1.0-1 libsepol1_2.1.0-1.1 libslang2_2.2.4-3 libss2_1.42~WIP-2011-07-02-1 libstdc++6_4.6.1-11 libstdc++6-4.6-dev_4.6.1-11 libtext-charwidth-perl_0.04-7 libtext-iconv-perl_1.7-4 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-4 linux-libc-dev_3.0.0-4 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-15 mount_2.19.1-5 multiarch-support_2.13-21 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-4 perl-base_5.12.4-4 perl-modules_5.12.4-4 po-debconf_1.0.16+nmu1 quilt_0.48-8 readline-common_6.2-4 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.2-1 sysv-rc_2.88dsf-13.11 sysvinit_2.88dsf-13.11 sysvinit-utils_2.88dsf-13.11 tar_1.26-2 tzdata_2011j-1 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -288,12 +288,12 @@ Unpack source
─────────────
gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
-gpgv: Signature made Sun Sep 11 00:44:52 2011 UTC using RSA key ID 2295D502
+gpgv: Signature made Sat Sep 24 01:39:55 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_2.13.1-1.dsc
-dpkg-source: info: extracting bedtools in bedtools-2.13.1
-dpkg-source: info: unpacking bedtools_2.13.1.orig.tar.xz
-dpkg-source: info: unpacking bedtools_2.13.1-1.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bedtools_2.13.2-1.dsc
+dpkg-source: info: extracting bedtools in bedtools-2.13.2
+dpkg-source: info: unpacking bedtools_2.13.2.orig.tar.xz
+dpkg-source: info: unpacking bedtools_2.13.2-1.debian.tar.gz
dpkg-source: info: applying gzstream.h.patch
Check disc space
@@ -309,24 +309,24 @@ 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 2.13.1-1
- dpkg-source --before-build bedtools-2.13.1
+dpkg-buildpackage: source version 2.13.2-1
+ dpkg-source --before-build bedtools-2.13.2
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 `/build/buildd-bedtools_2.13.1-1-s390-h0Qq00/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-s390-Ao9dea/bedtools-2.13.2'
Cleaning up.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-s390-h0Qq00/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-s390-Ao9dea/bedtools-2.13.2'
dh_clean
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/build/buildd-bedtools_2.13.1-1-s390-h0Qq00/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-s390-Ao9dea/bedtools-2.13.2'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-s390-h0Qq00/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-s390-Ao9dea/bedtools-2.13.2'
if [ -d "." ]; then \
- cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.1-1-s390-h0Qq00/bedtools-2.13.1/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
+ cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.2-1-s390-Ao9dea/bedtools-2.13.2/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
fi
Removing patch gzstream.h.patch
Restoring src/utils/gzstream/gzstream.C
@@ -339,21 +339,21 @@ test -x debian/rules
mkdir -p "."
/usr/share/cdbs/1/rules/buildcore.mk:109: WARNING: DEB_DH_BUILDDEB_ARGS is a deprecated variable
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/build/buildd-bedtools_2.13.1-1-s390-h0Qq00/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-s390-Ao9dea/bedtools-2.13.2'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-s390-h0Qq00/bedtools-2.13.1'
-cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.1-1-s390-h0Qq00/bedtools-2.13.1/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-s390-Ao9dea/bedtools-2.13.2'
+cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.2-1-s390-Ao9dea/bedtools-2.13.2/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_2.13.1-1-s390-h0Qq00/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-s390-Ao9dea/bedtools-2.13.2'
make[1]: Nothing to be done for `update-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-s390-h0Qq00/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-s390-Ao9dea/bedtools-2.13.2'
/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_2.13.1-1-s390-h0Qq00/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-s390-Ao9dea/bedtools-2.13.2'
[ -d obj ] || mkdir -p obj
[ -d bin ] || mkdir -p bin
Building BEDTools:
@@ -367,10 +367,8 @@ Building BEDTools:
- Building in src/utils/bedGraphFile
* compiling bedGraphFile.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/chromsweep
+ * compiling chromsweep.cpp
- Building in src/utils/gzstream
g++ -g -O2 -g -O2 -Wall -c -o ../../../obj//gzstream.o gzstream.C -I.
@@ -435,6 +433,11 @@ Fasta.cpp:31:17: warning: converting to non-pointer type 'int' from NULL [-Wconv
Fasta.cpp:32:17: warning: converting to non-pointer type 'int' from NULL [-Wconversion-null]
* compiling split.cpp
+- Building in src/utils/genomeFile
+ * compiling genomeFile.cpp
+genomeFile.cpp: In member function 'void GenomeFile::loadGenomeFileIntoMap()':
+genomeFile.cpp:61:26: warning: variable 'c2' set but not used [-Wunused-but-set-variable]
+
- Building in src/annotateBed
* compiling annotateMain.cpp
annotateMain.cpp: In function 'int main(int, char**)':
@@ -539,9 +542,9 @@ 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:254:12: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp:255:12: 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:306:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp:307:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
* linking pairToBed
- Building in src/pairToPair
@@ -597,7 +600,7 @@ unionBedGraphsMain.cpp:49:10: warning: variable 'haveFiller' set but not used [-
* compiling windowBed.cpp
* linking windowBed
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-s390-h0Qq00/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-s390-Ao9dea/bedtools-2.13.2'
touch debian/stamp-makefile-build
DEB_MAKE_CHECK_TARGET unset, not running checks
fakeroot debian/rules binary-arch
@@ -642,22 +645,22 @@ dh_shlibdeps -pbedtools
dh_gencontrol -pbedtools
dh_md5sums -pbedtools
dh_builddeb -pbedtools -- -Z xz
-dpkg-deb: building package `bedtools' in `../bedtools_2.13.1-1_s390.deb'.
- dpkg-genchanges -B -ms390 Build Daemon (zandonai) <buildd_s390-zandonai at buildd.debian.org> >../bedtools_2.13.1-1_s390.changes
+dpkg-deb: building package `bedtools' in `../bedtools_2.13.2-1_s390.deb'.
+ dpkg-genchanges -B -ms390 Build Daemon (zandonai) <buildd_s390-zandonai at buildd.debian.org> >../bedtools_2.13.2-1_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-2.13.1
+ dpkg-source --after-build bedtools-2.13.2
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110911-0123
+Build finished at 20110924-0343
-bedtools_2.13.1-1_s390.changes:
+bedtools_2.13.2-1_s390.changes:
Format: 1.8
-Date: Sat, 10 Sep 2011 23:32:43 +0900
+Date: Sat, 24 Sep 2011 09:34:29 +0900
Source: bedtools
Binary: bedtools
Architecture: s390
-Version: 2.13.1-1
+Version: 2.13.2-1
Distribution: sid
Urgency: low
Maintainer: s390 Build Daemon (zandonai) <buildd_s390-zandonai at buildd.debian.org>
@@ -665,38 +668,33 @@ Changed-By: Charles Plessy <plessy at debian.org>
Description:
bedtools - suite of utilities for comparing genomic features
Changes:
- bedtools (2.13.1-1) unstable; urgency=low
+ bedtools (2.13.2-1) unstable; urgency=low
.
- [2e3fe5e] New upstream release.
- [ff5450e] Compress source and binary packages with xz.
- [ef58a33] Suggest filo for the groupBy command.
- [df206c0] Mangle debian/watch download URL.
- [2fe7cff] Simplified repacking as upstream tarballs do not contain
- ‘*/*DS_Store’ files anymore.
+ [1930a26] New upstream release.
Checksums-Sha1:
- b92806928fffe9d4b9514a106bbd6d7a450e33eb 507594 bedtools_2.13.1-1_s390.deb
+ e7a4e5318d7991308096426fc79e34c7e994bb0b 521918 bedtools_2.13.2-1_s390.deb
Checksums-Sha256:
- 0785dba1fef198131fd29fe5146670a991d90d5816bb57612dea33e1011e463c 507594 bedtools_2.13.1-1_s390.deb
+ f1908cf845b67c475baa72db519cafe31b4347991c6f4c79cb579d692f236fc7 521918 bedtools_2.13.2-1_s390.deb
Files:
- be2ce6d3880ce7e913fc9f6cbf9ee531 507594 science optional bedtools_2.13.1-1_s390.deb
+ b3f8fb410f50aad5b8260751c7d81da8 521918 science optional bedtools_2.13.2-1_s390.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bedtools_2.13.1-1_s390.deb
+bedtools_2.13.2-1_s390.deb
──────────────────────────
new debian package, version 2.0.
- size 507594 bytes: control archive= 1721 bytes.
+ size 521918 bytes: control archive= 1710 bytes.
834 bytes, 18 lines control
- 2028 bytes, 35 lines md5sums
+ 2025 bytes, 35 lines md5sums
Package: bedtools
- Version: 2.13.1-1
+ Version: 2.13.2-1
Architecture: s390
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 4824
+ Installed-Size: 4884
Depends: libc6 (>= 2.4), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
Suggests: filo
Section: science
@@ -711,49 +709,49 @@ bedtools_2.13.1-1_s390.deb
.
The groupBy utility is distribued in the filo package.
-drwxr-xr-x root/root 0 2011-09-11 01:23 ./
-drwxr-xr-x root/root 0 2011-09-11 01:23 ./usr/
-drwxr-xr-x root/root 0 2011-09-11 01:23 ./usr/bin/
--rwxr-xr-x root/root 284936 2011-09-11 01:23 ./usr/bin/coverageBed
--rwxr-xr-x root/root 105300 2011-09-11 01:23 ./usr/bin/linksBed
--rwxr-xr-x root/root 289320 2011-09-11 01:23 ./usr/bin/windowBed
--rwxr-xr-x root/root 112776 2011-09-11 01:23 ./usr/bin/subtractBed
--rwxr-xr-x root/root 276760 2011-09-11 01:23 ./usr/bin/tagBam
--rwxr-xr-x root/root 113232 2011-09-11 01:23 ./usr/bin/flankBed
--rwxr-xr-x root/root 88092 2011-09-11 01:23 ./usr/bin/overlap
--rwxr-xr-x root/root 228656 2011-09-11 01:23 ./usr/bin/bamToBed
--rwxr-xr-x root/root 108584 2011-09-11 01:23 ./usr/bin/complementBed
--rwxr-xr-x root/root 301340 2011-09-11 01:23 ./usr/bin/genomeCoverageBed
--rwxr-xr-x root/root 112712 2011-09-11 01:23 ./usr/bin/maskFastaFromBed
--rwxr-xr-x root/root 143496 2011-09-11 01:23 ./usr/bin/fastaFromBed
--rwxr-xr-x root/root 63540 2011-09-11 01:23 ./usr/bin/unionBedGraphs
--rwxr-xr-x root/root 370984 2011-09-11 01:23 ./usr/bin/pairToBed
--rwxr-xr-x root/root 231920 2011-09-11 01:23 ./usr/bin/bedToBam
--rwxr-xr-x root/root 96960 2011-09-11 01:23 ./usr/bin/bed12ToBed6
--rwxr-xr-x root/root 108556 2011-09-11 01:23 ./usr/bin/mergeBed
--rwxr-xr-x root/root 120880 2011-09-11 01:23 ./usr/bin/bedToIgv
--rwxr-xr-x root/root 176580 2011-09-11 01:23 ./usr/bin/pairToPair
--rwxr-xr-x root/root 104452 2011-09-11 01:23 ./usr/bin/annotateBed
--rwxr-xr-x root/root 130704 2011-09-11 01:23 ./usr/bin/shuffleBed
--rwxr-xr-x root/root 143660 2011-09-11 01:23 ./usr/bin/nucBed
--rwxr-xr-x root/root 120844 2011-09-11 01:23 ./usr/bin/closestBed
--rwxr-xr-x root/root 305536 2011-09-11 01:23 ./usr/bin/multiBamCov
--rwxr-xr-x root/root 305432 2011-09-11 01:23 ./usr/bin/intersectBed
--rwxr-xr-x root/root 145408 2011-09-11 01:23 ./usr/bin/sortBed
--rwxr-xr-x root/root 105488 2011-09-11 01:23 ./usr/bin/slopBed
-drwxr-xr-x root/root 0 2011-09-11 01:23 ./usr/share/
-drwxr-xr-x root/root 0 2011-09-11 01:23 ./usr/share/bedtools/
-drwxr-xr-x root/root 0 2011-09-11 01:21 ./usr/share/bedtools/genomes/
--rwxr-xr-x root/root 856 2011-09-07 00:36 ./usr/share/bedtools/genomes/human.hg18.genome
--rwxr-xr-x root/root 565 2011-09-07 00:36 ./usr/share/bedtools/genomes/mouse.mm8.genome
--rwxr-xr-x root/root 1972 2011-09-07 00:36 ./usr/share/bedtools/genomes/human.hg19.genome
--rwxr-xr-x root/root 586 2011-09-07 00:36 ./usr/share/bedtools/genomes/mouse.mm9.genome
-drwxr-xr-x root/root 0 2011-09-11 01:23 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-09-11 01:23 ./usr/share/doc/bedtools/
--rw-r--r-- root/root 1586 2011-09-07 00:36 ./usr/share/doc/bedtools/README.rst.gz
--rw-r--r-- root/root 10990 2011-09-07 00:36 ./usr/share/doc/bedtools/changelog.gz
--rw-r--r-- root/root 391 2011-09-10 14:32 ./usr/share/doc/bedtools/changelog.Debian.gz
--rw-r--r-- root/root 4611 2011-09-10 14:21 ./usr/share/doc/bedtools/copyright
+drwxr-xr-x root/root 0 2011-09-24 03:43 ./
+drwxr-xr-x root/root 0 2011-09-24 03:43 ./usr/
+drwxr-xr-x root/root 0 2011-09-24 03:43 ./usr/bin/
+-rwxr-xr-x root/root 284944 2011-09-24 03:43 ./usr/bin/coverageBed
+-rwxr-xr-x root/root 105532 2011-09-24 03:43 ./usr/bin/linksBed
+-rwxr-xr-x root/root 289552 2011-09-24 03:43 ./usr/bin/windowBed
+-rwxr-xr-x root/root 113008 2011-09-24 03:43 ./usr/bin/subtractBed
+-rwxr-xr-x root/root 280864 2011-09-24 03:43 ./usr/bin/tagBam
+-rwxr-xr-x root/root 114472 2011-09-24 03:43 ./usr/bin/flankBed
+-rwxr-xr-x root/root 88196 2011-09-24 03:43 ./usr/bin/overlap
+-rwxr-xr-x root/root 228656 2011-09-24 03:43 ./usr/bin/bamToBed
+-rwxr-xr-x root/root 109336 2011-09-24 03:43 ./usr/bin/complementBed
+-rwxr-xr-x root/root 301784 2011-09-24 03:43 ./usr/bin/genomeCoverageBed
+-rwxr-xr-x root/root 112720 2011-09-24 03:43 ./usr/bin/maskFastaFromBed
+-rwxr-xr-x root/root 145544 2011-09-24 03:43 ./usr/bin/fastaFromBed
+-rwxr-xr-x root/root 63620 2011-09-24 03:43 ./usr/bin/unionBedGraphs
+-rwxr-xr-x root/root 370992 2011-09-24 03:43 ./usr/bin/pairToBed
+-rwxr-xr-x root/root 235748 2011-09-24 03:43 ./usr/bin/bedToBam
+-rwxr-xr-x root/root 97192 2011-09-24 03:43 ./usr/bin/bed12ToBed6
+-rwxr-xr-x root/root 108792 2011-09-24 03:43 ./usr/bin/mergeBed
+-rwxr-xr-x root/root 121736 2011-09-24 03:43 ./usr/bin/bedToIgv
+-rwxr-xr-x root/root 176088 2011-09-24 03:43 ./usr/bin/pairToPair
+-rwxr-xr-x root/root 104460 2011-09-24 03:43 ./usr/bin/annotateBed
+-rwxr-xr-x root/root 133192 2011-09-24 03:43 ./usr/bin/shuffleBed
+-rwxr-xr-x root/root 145556 2011-09-24 03:43 ./usr/bin/nucBed
+-rwxr-xr-x root/root 120852 2011-09-24 03:43 ./usr/bin/closestBed
+-rwxr-xr-x root/root 305768 2011-09-24 03:43 ./usr/bin/multiBamCov
+-rwxr-xr-x root/root 355256 2011-09-24 03:43 ./usr/bin/intersectBed
+-rwxr-xr-x root/root 145416 2011-09-24 03:43 ./usr/bin/sortBed
+-rwxr-xr-x root/root 106720 2011-09-24 03:43 ./usr/bin/slopBed
+drwxr-xr-x root/root 0 2011-09-24 03:43 ./usr/share/
+drwxr-xr-x root/root 0 2011-09-24 03:43 ./usr/share/bedtools/
+drwxr-xr-x root/root 0 2011-09-24 03:40 ./usr/share/bedtools/genomes/
+-rwxr-xr-x root/root 856 2011-09-23 15:57 ./usr/share/bedtools/genomes/human.hg18.genome
+-rwxr-xr-x root/root 565 2011-09-23 15:57 ./usr/share/bedtools/genomes/mouse.mm8.genome
+-rwxr-xr-x root/root 1972 2011-09-23 15:57 ./usr/share/bedtools/genomes/human.hg19.genome
+-rwxr-xr-x root/root 585 2011-09-23 15:57 ./usr/share/bedtools/genomes/mouse.mm9.genome
+drwxr-xr-x root/root 0 2011-09-24 03:43 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-09-24 03:43 ./usr/share/doc/bedtools/
+-rw-r--r-- root/root 11135 2011-09-23 15:57 ./usr/share/doc/bedtools/changelog.gz
+-rw-r--r-- root/root 417 2011-09-24 00:36 ./usr/share/doc/bedtools/changelog.Debian.gz
+-rw-r--r-- root/root 4611 2011-09-24 00:33 ./usr/share/doc/bedtools/copyright
+-rw-r--r-- root/root 1442 2011-09-23 15:57 ./usr/share/doc/bedtools/README.rst
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -767,7 +765,7 @@ Built successfully
│ Post Build │
└──────────────────────────────────────────────────────────────────────────────┘
-Purging /var/lib/schroot/mount/sid-s390-sbuild-db1373a3-d9e1-481d-ab17-381d2076e7e2/build/buildd-bedtools_2.13.1-1-s390-h0Qq00
+Purging /var/lib/schroot/mount/sid-s390-sbuild-e31d633e-7e1b-40d9-b9f1-36b200357d2c/build/buildd-bedtools_2.13.2-1-s390-Ao9dea
Not cleaning session: cloned chroot in use
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -775,18 +773,18 @@ Not cleaning session: cloned chroot in use
└──────────────────────────────────────────────────────────────────────────────┘
Architecture: s390
-Build-Space: 106176
-Build-Time: 155
+Build-Space: 108664
+Build-Time: 162
Distribution: sid
Install-Time: 10
-Job: bedtools_2.13.1-1
+Job: bedtools_2.13.2-1
Package: bedtools
-Package-Time: 206
-Source-Version: 2.13.1-1
-Space: 106176
+Package-Time: 213
+Source-Version: 2.13.2-1
+Space: 108664
Status: successful
-Version: 2.13.1-1
+Version: 2.13.2-1
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110911-0123
-Build needed 00:03:26, 106176k disc space
+Finished at 20110924-0343
+Build needed 00:03:33, 108664k disc space
Signature with key '2D941D26' requested:
diff --git a/sparc.log b/sparc.log
index 86031a7..e9791c7 100644
--- a/sparc.log
+++ b/sparc.log
@@ -1,69 +1,70 @@
-From buildd at lebrun.debian.org Sun Sep 11 03:48:04 2011
-Return-path: <buildd at lebrun.debian.org>
+From buildd at schroeder.debian.org Sat Sep 24 05:02:27 2011
+Return-path: <buildd at schroeder.debian.org>
Received: from kokkonen.debian.org ([2001:41b8:202:deb:1a1a:0:52c3:4b61])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
CN=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 lebrun.debian.org>)
- id 1R2b1Y-0005CT-EH
- for logs at buildd.debian.org; Sun, 11 Sep 2011 03:48:04 +0000
-Received: from lebrun.debian.org ([193.198.184.10])
+ (Exim 4.72) (envelope-from <buildd at schroeder.debian.org>)
+ id 1R7KNf-0006Tw-6B
+ for logs at buildd.debian.org; Sat, 24 Sep 2011 05:02:27 +0000
+Received: from schroeder.debian.org ([193.198.184.11])
from C=NA, ST=NA, L=Ankh Morpork, O=Debian SMTP, OU=Debian SMTP CA,
- CN=lebrun.debian.org, EMAIL=hostmaster at lebrun.debian.org (verified)
+ CN=schroeder.debian.org,
+ EMAIL=hostmaster at schroeder.debian.org (verified)
by kokkonen.debian.org with esmtps (TLS1.0:RSA_AES_256_CBC_SHA1:32)
- (Exim 4.72) (envelope-from <buildd at lebrun.debian.org>)
- id 1R2b1X-0001gZ-H2
- for logs at buildd.debian.org; Sun, 11 Sep 2011 03:48:03 +0000
-Received: from buildd by lebrun.debian.org with local (Exim 4.72)
- (envelope-from <buildd at lebrun.debian.org>)
- id 1R2b1V-0001Wz-NB; Sun, 11 Sep 2011 03:48:01 +0000
-Message-Id: <E1R2b1V-0001Wz-NB at lebrun.debian.org>
+ (Exim 4.72) (envelope-from <buildd at schroeder.debian.org>)
+ id 1R7KNe-0006Gq-DX
+ for logs at buildd.debian.org; Sat, 24 Sep 2011 05:02:26 +0000
+Received: from buildd by schroeder.debian.org with local (Exim 4.72)
+ (envelope-from <buildd at schroeder.debian.org>)
+ id 1R7KNc-0005iG-F3; Sat, 24 Sep 2011 05:02:24 +0000
+Message-Id: <E1R7KNc-0005iG-F3 at schroeder.debian.org>
MIME-Version: 1.0
Content-Transfer-Encoding: binary
X-Mailer: MIME::Lite 3.027 (F2.77; B3.08; Q3.08)
-Date: Sun, 11 Sep 2011 03:48:01 +0000
-From: buildd on lebrun <buildd at lebrun.debian.org>
-To: logs at buildd.debian.org,buildd-admin at lebrun.debian.org
-Subject: Log for successful build of bedtools_2.13.1-1 on sparc (dist=sid)
-Key-Id: 632E3DB6
+Date: Sat, 24 Sep 2011 05:02:24 +0000
+From: buildd on schroeder <buildd at schroeder.debian.org>
+To: logs at buildd.debian.org,buildd-admin at schroeder.debian.org
+Subject: Log for successful build of bedtools_2.13.2-1 on sparc (dist=sid)
+Key-Id: 7C392B18
Delivered-To: logs at buildd.debian.org
-sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on lebrun.debian.org
+sbuild (Debian sbuild) 0.61.0 (23 Feb 2011) on schroeder.debian.org
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bedtools 2.13.1-1 (sparc) 11 Sep 2011 03:36 ║
+║ bedtools 2.13.2-1 (sparc) 24 Sep 2011 04:50 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bedtools
-Version: 2.13.1-1
-Source Version: 2.13.1-1
+Version: 2.13.2-1
+Source Version: 2.13.2-1
Architecture: sparc
-Get:1 http://debian.carnet.hr unstable InRelease [146 kB]
+Get:1 http://ftp.carnet.hr unstable InRelease [146 kB]
Get:2 http://incoming.debian.org unstable InRelease [146 kB]
-Get:3 http://debian.carnet.hr unstable/main Sources [5756 kB]
+Get:3 http://ftp.carnet.hr unstable/main Sources [5783 kB]
+Get:4 http://ftp.carnet.hr unstable/contrib Sources [56.5 kB]
Ign http://incoming.debian.org InRelease
-Get:4 http://debian.carnet.hr unstable/contrib Sources [57.4 kB]
Get:5 http://incoming.debian.org Release.gpg [836 B]
-Get:6 http://incoming.debian.org Release [1604 B]
-Get:7 http://incoming.debian.org unstable/main Sources [5756 kB]
-Get:8 http://debian.carnet.hr unstable/non-free Sources [102 kB]
-Get:9 http://debian.carnet.hr unstable/main sparc Packages [7528 kB]
-Get:10 http://debian.carnet.hr unstable/contrib sparc Packages [55.8 kB]
-Ign http://debian.carnet.hr unstable/contrib TranslationIndex
-Get:11 http://debian.carnet.hr unstable/main TranslationIndex [2045 B]
-Get:12 http://incoming.debian.org unstable/contrib Sources [57.4 kB]
-Get:13 http://incoming.debian.org unstable/non-free Sources [102 kB]
-Get:14 http://incoming.debian.org unstable/main sparc Packages [7528 kB]
-Ign http://debian.carnet.hr unstable/contrib Translation-en
-Get:15 http://incoming.debian.org unstable/contrib sparc Packages [55.8 kB]
+Get:6 http://ftp.carnet.hr unstable/non-free Sources [102 kB]
+Get:7 http://incoming.debian.org unstable/main Sources [5783 kB]
+Get:8 http://ftp.carnet.hr unstable/main sparc Packages [7578 kB]
+Get:9 http://ftp.carnet.hr unstable/contrib sparc Packages [55.0 kB]
+Ign http://ftp.carnet.hr unstable/contrib TranslationIndex
+Get:10 http://ftp.carnet.hr unstable/main TranslationIndex [2045 B]
+Get:11 http://incoming.debian.org unstable/contrib Sources [56.5 kB]
+Get:12 http://incoming.debian.org unstable/non-free Sources [102 kB]
+Get:13 http://incoming.debian.org unstable/main sparc Packages [7578 kB]
+Ign http://ftp.carnet.hr unstable/contrib Translation-en
+Get:14 http://incoming.debian.org unstable/contrib sparc Packages [55.0 kB]
Ign http://incoming.debian.org unstable/contrib TranslationIndex
-Get:16 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
-Get:17 http://incoming.debian.org Sources [32.4 kB]
-Get:18 http://incoming.debian.org Packages [280 kB]
-Ign http://incoming.debian.org Translation-en
+Get:15 http://incoming.debian.org unstable/main TranslationIndex [2045 B]
+Get:16 http://incoming.debian.org Release [1604 B]
+Get:17 http://incoming.debian.org Sources [33.1 kB]
+Get:18 http://incoming.debian.org Packages [582 kB]
Ign http://incoming.debian.org unstable/contrib Translation-en
-Fetched 27.6 MB in 29s (928 kB/s)
+Ign http://incoming.debian.org Translation-en
+Fetched 28.1 MB in 29s (966 kB/s)
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -84,11 +85,11 @@ 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 664 kB of source archives.
-Get:1 http://debian.carnet.hr/debian/ unstable/main bedtools 2.13.1-1 (dsc) [1921 B]
-Get:2 http://debian.carnet.hr/debian/ unstable/main bedtools 2.13.1-1 (tar) [658 kB]
-Get:3 http://debian.carnet.hr/debian/ unstable/main bedtools 2.13.1-1 (diff) [4254 B]
-Fetched 664 kB in 0s (761 kB/s)
+Need to get 666 kB of source archives.
+Get:1 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (dsc) [1967 B]
+Get:2 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (tar) [659 kB]
+Get:3 http://incoming.debian.org/buildd-unstable/ bedtools 2.13.2-1 (diff) [4285 B]
+Fetched 666 kB in 1s (379 kB/s)
Download complete and in download only mode
Check arch
@@ -108,12 +109,12 @@ Installing positive dependencies:
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 5 not upgraded.
Removing negative dependencies:
Reading package lists...
Building dependency tree...
Reading state information...
-0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 5 not upgraded.
Checking correctness of dependencies...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -125,7 +126,7 @@ Checking for already installed dependencies...
base-files: already installed (6.5)
base-passwd: already installed (3.5.23)
bash: already installed (4.1-3)
-coreutils: already installed (8.5-1)
+coreutils: already installed (8.13-1)
dash: already installed (0.5.7-1)
debianutils: already installed (4.0.2)
diffutils: already installed (1:3.0-1)
@@ -146,15 +147,15 @@ tar: already installed (1.26-2)
bsdutils: already installed (1:2.19.1-5)
mount: already installed (2.19.1-5)
util-linux: already installed (2.19.1-5)
-libc6-dev: already installed (2.13-20)
-libc6-dev-sparc64: already installed (2.13-20)
+libc6-dev: already installed (2.13-21)
+libc6-dev-sparc64: already installed (2.13-21)
gcc: already installed (4:4.6.1-2 >= 4:4.4.3 is satisfied)
g++: already installed (4:4.6.1-2 >= 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 8.9.6
+Using default version 8.9.7
quilt: missing
zlib1g-dev: missing
Checking for dependency conflicts...
@@ -176,34 +177,34 @@ 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 0 not upgraded.
-Need to get 9525 kB of archives.
-After this operation, 29.3 MB of additional disk space will be used.
-Get:1 http://debian.carnet.hr/debian/ unstable/main libpipeline1 sparc 1.2.0-3 [36.0 kB]
-Get:2 http://debian.carnet.hr/debian/ unstable/main libpcre3 sparc 8.12-4 [231 kB]
-Get:3 http://debian.carnet.hr/debian/ unstable/main bsdmainutils sparc 8.2.3 [206 kB]
-Get:4 http://debian.carnet.hr/debian/ unstable/main groff-base sparc 1.21-6 [1155 kB]
-Get:5 http://debian.carnet.hr/debian/ unstable/main man-db sparc 2.6.0.2-2 [1005 kB]
-Get:6 http://debian.carnet.hr/debian/ unstable/main libmagic1 sparc 5.08-1 [246 kB]
-Get:7 http://debian.carnet.hr/debian/ unstable/main file sparc 5.08-1 [51.0 kB]
-Get:8 http://debian.carnet.hr/debian/ unstable/main gettext-base sparc 0.18.1.1-4 [132 kB]
-Get:9 http://debian.carnet.hr/debian/ unstable/main libxml2 sparc 2.7.8.dfsg-4 [816 kB]
-Get:10 http://debian.carnet.hr/debian/ unstable/main html2text sparc 1.3.2a-15 [100 kB]
-Get:11 http://debian.carnet.hr/debian/ unstable/main libglib2.0-0 sparc 2.28.6-1 [1556 kB]
-Get:12 http://debian.carnet.hr/debian/ unstable/main libcroco3 sparc 0.6.2-1 [119 kB]
-Get:13 http://debian.carnet.hr/debian/ unstable/main libunistring0 sparc 0.9.3-4 [424 kB]
-Get:14 http://debian.carnet.hr/debian/ unstable/main gettext sparc 0.18.1.1-4 [1985 kB]
-Get:15 http://debian.carnet.hr/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
-Get:16 http://debian.carnet.hr/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
-Get:17 http://debian.carnet.hr/debian/ unstable/main debhelper all 8.9.6 [562 kB]
-Get:18 http://debian.carnet.hr/debian/ unstable/main cdbs all 0.4.96 [75.8 kB]
-Get:19 http://debian.carnet.hr/debian/ unstable/main diffstat sparc 1.54-1 [28.3 kB]
-Get:20 http://debian.carnet.hr/debian/ unstable/main quilt all 0.48-7 [354 kB]
-Get:21 http://debian.carnet.hr/debian/ unstable/main zlib1g-dev sparc 1:1.2.3.4.dfsg-3 [189 kB]
+0 upgraded, 21 newly installed, 0 to remove and 5 not upgraded.
+Need to get 9519 kB of archives.
+After this operation, 29.1 MB of additional disk space will be used.
+Get:1 http://ftp.carnet.hr/debian/ unstable/main libpipeline1 sparc 1.2.0-3 [36.0 kB]
+Get:2 http://ftp.carnet.hr/debian/ unstable/main libpcre3 sparc 8.12-4 [231 kB]
+Get:3 http://ftp.carnet.hr/debian/ unstable/main bsdmainutils sparc 8.2.3 [206 kB]
+Get:4 http://ftp.carnet.hr/debian/ unstable/main groff-base sparc 1.21-6 [1155 kB]
+Get:5 http://ftp.carnet.hr/debian/ unstable/main man-db sparc 2.6.0.2-2 [1005 kB]
+Get:6 http://ftp.carnet.hr/debian/ unstable/main libmagic1 sparc 5.08-1 [246 kB]
+Get:7 http://ftp.carnet.hr/debian/ unstable/main file sparc 5.08-1 [51.0 kB]
+Get:8 http://ftp.carnet.hr/debian/ unstable/main gettext-base sparc 0.18.1.1-4 [132 kB]
+Get:9 http://ftp.carnet.hr/debian/ unstable/main libxml2 sparc 2.7.8.dfsg-4 [816 kB]
+Get:10 http://ftp.carnet.hr/debian/ unstable/main cdbs all 0.4.99 [77.1 kB]
+Get:11 http://ftp.carnet.hr/debian/ unstable/main html2text sparc 1.3.2a-15 [100 kB]
+Get:12 http://ftp.carnet.hr/debian/ unstable/main libglib2.0-0 sparc 2.28.6-1 [1556 kB]
+Get:13 http://ftp.carnet.hr/debian/ unstable/main libcroco3 sparc 0.6.2-1 [119 kB]
+Get:14 http://ftp.carnet.hr/debian/ unstable/main libunistring0 sparc 0.9.3-4 [424 kB]
+Get:15 http://ftp.carnet.hr/debian/ unstable/main gettext sparc 0.18.1.1-4 [1985 kB]
+Get:16 http://ftp.carnet.hr/debian/ unstable/main intltool-debian all 0.35.0+20060710.1 [30.8 kB]
+Get:17 http://ftp.carnet.hr/debian/ unstable/main po-debconf all 1.0.16+nmu1 [223 kB]
+Get:18 http://ftp.carnet.hr/debian/ unstable/main debhelper all 8.9.7 [552 kB]
+Get:19 http://ftp.carnet.hr/debian/ unstable/main diffstat sparc 1.54-1 [28.3 kB]
+Get:20 http://ftp.carnet.hr/debian/ unstable/main quilt all 0.48-8 [357 kB]
+Get:21 http://ftp.carnet.hr/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 9525 kB in 8s (1143 kB/s)
+Fetched 9519 kB in 8s (1168 kB/s)
Selecting previously deselected package libpipeline1.
-(Reading database ... 10977 files and directories currently installed.)
+(Reading database ... 10910 files and directories currently installed.)
Unpacking libpipeline1 (from .../libpipeline1_1.2.0-3_sparc.deb) ...
Selecting previously deselected package libpcre3.
Unpacking libpcre3 (from .../libpcre3_8.12-4_sparc.deb) ...
@@ -221,6 +222,8 @@ Selecting previously deselected package gettext-base.
Unpacking gettext-base (from .../gettext-base_0.18.1.1-4_sparc.deb) ...
Selecting previously deselected package libxml2.
Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-4_sparc.deb) ...
+Selecting previously deselected package cdbs.
+Unpacking cdbs (from .../archives/cdbs_0.4.99_all.deb) ...
Selecting previously deselected package html2text.
Unpacking html2text (from .../html2text_1.3.2a-15_sparc.deb) ...
Selecting previously deselected package libglib2.0-0.
@@ -236,13 +239,11 @@ 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_8.9.6_all.deb) ...
-Selecting previously deselected package cdbs.
-Unpacking cdbs (from .../archives/cdbs_0.4.96_all.deb) ...
+Unpacking debhelper (from .../debhelper_8.9.7_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) ...
+Unpacking quilt (from .../archives/quilt_0.48-8_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 libpipeline1 (1.2.0-3) ...
@@ -257,6 +258,7 @@ Setting up libmagic1 (5.08-1) ...
Setting up file (5.08-1) ...
Setting up gettext-base (0.18.1.1-4) ...
Setting up libxml2 (2.7.8.dfsg-4) ...
+Setting up cdbs (0.4.99) ...
Setting up html2text (1.3.2a-15) ...
Setting up libglib2.0-0 (2.28.6-1) ...
No schema files found: doing nothing.
@@ -265,20 +267,19 @@ Setting up libunistring0 (0.9.3-4) ...
Setting up gettext (0.18.1.1-4) ...
Setting up intltool-debian (0.35.0+20060710.1) ...
Setting up po-debconf (1.0.16+nmu1) ...
-Setting up debhelper (8.9.6) ...
-Setting up cdbs (0.4.96) ...
+Setting up debhelper (8.9.7) ...
Setting up diffstat (1.54-1) ...
-Setting up quilt (0.48-7) ...
+Setting up quilt (0.48-8) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
Removing negative dependencies:
Reading package lists...
Building dependency tree...
Reading state information...
-0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
+0 upgraded, 0 newly installed, 0 to remove and 5 not upgraded.
Checking correctness of dependencies...
Kernel: Linux 2.6.32-5-sparc64-smp sparc (sparc64)
-Toolchain package versions: binutils_2.21.53.20110910-1 dpkg-dev_1.16.0.3 g++-4.6_4.6.1-9 gcc-4.6_4.6.1-9 libc6-dev_2.13-20 libstdc++6_4.6.1-9 libstdc++6-4.6-dev_4.6.1-9 linux-libc-dev_3.0.0-3
-Package versions: apt_0.8.15.6 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.53.20110910-1 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 cdbs_0.4.96 coreutils_8.5-1 cpp_4:4.6.1-2 cpp-4.6_4.6.1-9 dash_0.5.7-1 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.6 debian-archive-keyring_2010.08.28 debianutils_4.0.2 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.42~WIP-2011-07-02-1 e2fsprogs_1.42~WIP-2011-07-02-1 fakeroot_1.18-1 file_5.08-1 findutils_4.4.2-1+b2 g++_4:4.6.1-2 g++-4.6_4.6.1-9 gcc_4:4.6.1-2 gcc-4.6_4.6.1-9 gcc-4.6-base_4.6.1-9 gettext_0.18.1.1-4 gettext-base_0.18.1.1-4 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.11 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-3 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbz2-1.0_1.0.5-7 libc-bin_2.13-20 libc-dev-bin_2.13-20 libc6_2.13-20 libc6-dev_2.13-20 libc6-dev-sparc64_2.13-20 libc6-sparc64_2.13-20 libcomerr2_1.42~WIP-2011-07-02-1 libcroco3_0.6.2-1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.0.3 libgc1c2_1:7.1-8 libgcc1_1:4.6.1-9 libgdbm3_1.8.3-10 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.2+dfsg-1 libgomp1_4.6.1-9 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.08-1 libmount1_2.19.1-5 libmpc2_0.9-3 libmpfr4_3.0.1-6 libncurses5_5.9-1 libpam-modules_1.1.3-2 libpam-modules-bin_1.1.3-2 libpam-runtime_1.1.3-2 libpam0g_1.1.3-2 libpcre3_8.12-4 libpipeline1_1.2.0-3 libreadline6_6.2-4 libselinux1_2.1.0-1 libsepol1_2.1.0-1.1 libss2_1.42~WIP-2011-07-02-1 libstdc++6_4.6.1-9 libstdc++6-4.6-dev_4.6.1-9 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-4 linux-libc-dev_3.0.0-3 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-15+b1 mount_2.19.1-5 multiarch-support_2.13-20 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-4 perl-base_5.12.4-4 perl-modules_5.12.4-4 po-debconf_1.0.16+nmu1 quilt_0.48-7 readline-common_6.2-4 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.2-1 sysv-rc_2.88dsf-13.11 sysvinit_2.88dsf-13.11 sysvinit-utils_2.88dsf-13.11 tar_1.26-2 tzdata_2011i-2 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+Toolchain package versions: binutils_2.21.53.20110910-1 dpkg-dev_1.16.0.3 g++-4.6_4.6.1-11 gcc-4.6_4.6.1-11 libc6-dev_2.13-21 libstdc++6_4.6.1-11 libstdc++6-4.6-dev_4.6.1-11 linux-libc-dev_3.0.0-3
+Package versions: apt_0.8.15.8 base-files_6.5 base-passwd_3.5.23 bash_4.1-3 binutils_2.21.53.20110910-1 bsdmainutils_8.2.3 bsdutils_1:2.19.1-5 build-essential_11.5 bzip2_1.0.5-7 cdbs_0.4.99 coreutils_8.13-1 cpp_4:4.6.1-2 cpp-4.6_4.6.1-11 dash_0.5.7-1 debconf_1.5.41 debfoster_2.7-1.1 debhelper_8.9.7 debian-archive-keyring_2010.08.28 debianutils_4.0.2 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.42~WIP-2011-07-02-1 e2fsprogs_1.42~WIP-2011-07-02-1 fakeroot_1.18-1 file_5.08-1 findutils_4.4.2-1+b2 g++_4:4.6.1-2 g++-4.6_4.6.1-11 gcc_4:4.6.1-2 gcc-4.6_4.6.1-11 gcc-4.6-base_4.6.1-11 gettext_0.18.1.1-4 gettext-base_0.18.1.1-4 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.9-2 groff-base_1.21-6 gzip_1.4-1 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.11 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-3 libattr1_1:2.4.46-3 libblkid1_2.19.1-5 libbz2-1.0_1.0.5-7 libc-bin_2.13-21 libc-dev-bin_2.13-21 libc6_2.13-21 libc6-dev_2.13-21 libc6-dev-sparc64_2.13-21 libc6-sparc64_2.13-21 libcomerr2_1.42~WIP-2011-07-02-1 libcroco3_0.6.2-1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.0.3 libgc1c2_1:7.1-8 libgcc1_1:4.6.1-11 libgdbm3_1.8.3-10 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.2+dfsg-1 libgomp1_4.6.1-11 liblzma2_5.1.1alpha+20110809-2 libmagic1_5.08-1 libmount1_2.19.1-5 libmpc2_0.9-3 libmpfr4_3.0.1-6 libncurses5_5.9-1 libpam-modules_1.1.3-2 libpam-modules-bin_1.1.3-2 libpam-runtime_1.1.3-2 libpam0g_1.1.3-2 libpcre3_8.12-4 libpipeline1_1.2.0-3 libreadline6_6.2-4 libselinux1_2.1.0-1 libsepol1_2.1.0-1.1 libss2_1.42~WIP-2011-07-02-1 libstdc++6_4.6.1-11 libstdc++6-4.6-dev_4.6.1-11 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-19 libuuid1_2.19.1-5 libxml2_2.7.8.dfsg-4 linux-libc-dev_3.0.0-3 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-28 make_3.81-8.1 man-db_2.6.0.2-2 mawk_1.3.3-15+b1 mount_2.19.1-5 multiarch-support_2.13-21 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-4 perl-base_5.12.4-4 perl-modules_5.12.4-4 po-debconf_1.0.16+nmu1 quilt_0.48-8 readline-common_6.2-4 sed_4.2.1-9 sensible-utils_0.0.6 sudo_1.8.2-1 sysv-rc_2.88dsf-13.11 sysvinit_2.88dsf-13.11 sysvinit-utils_2.88dsf-13.11 tar_1.26-2 tzdata_2011j-1 util-linux_2.19.1-5 xz-utils_5.1.1alpha+20110809-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -289,12 +290,12 @@ Unpack source
─────────────
gpgv: keyblock resource `/home/buildd/.gnupg/trustedkeys.gpg': file open error
-gpgv: Signature made Sun Sep 11 00:44:52 2011 UTC using RSA key ID 2295D502
+gpgv: Signature made Sat Sep 24 01:39:55 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_2.13.1-1.dsc
-dpkg-source: info: extracting bedtools in bedtools-2.13.1
-dpkg-source: info: unpacking bedtools_2.13.1.orig.tar.xz
-dpkg-source: info: unpacking bedtools_2.13.1-1.debian.tar.gz
+dpkg-source: warning: failed to verify signature on ./bedtools_2.13.2-1.dsc
+dpkg-source: info: extracting bedtools in bedtools-2.13.2
+dpkg-source: info: unpacking bedtools_2.13.2.orig.tar.xz
+dpkg-source: info: unpacking bedtools_2.13.2-1.debian.tar.gz
dpkg-source: info: applying gzstream.h.patch
Check disc space
@@ -310,24 +311,24 @@ 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 2.13.1-1
- dpkg-source --before-build bedtools-2.13.1
+dpkg-buildpackage: source version 2.13.2-1
+ dpkg-source --before-build bedtools-2.13.2
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_2.13.1-1-sparc-UUAkMM/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-sparc-9x_xrv/bedtools-2.13.2'
Cleaning up.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-sparc-UUAkMM/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-sparc-9x_xrv/bedtools-2.13.2'
dh_clean
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/build/buildd-bedtools_2.13.1-1-sparc-UUAkMM/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-sparc-9x_xrv/bedtools-2.13.2'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-sparc-UUAkMM/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-sparc-9x_xrv/bedtools-2.13.2'
if [ -d "." ]; then \
- cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.1-1-sparc-UUAkMM/bedtools-2.13.1/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
+ cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.2-1-sparc-9x_xrv/bedtools-2.13.2/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
fi
Removing patch gzstream.h.patch
Restoring src/utils/gzstream/gzstream.C
@@ -340,21 +341,21 @@ test -x debian/rules
mkdir -p "."
/usr/share/cdbs/1/rules/buildcore.mk:109: WARNING: DEB_DH_BUILDDEB_ARGS is a deprecated variable
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/build/buildd-bedtools_2.13.1-1-sparc-UUAkMM/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-sparc-9x_xrv/bedtools-2.13.2'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-sparc-UUAkMM/bedtools-2.13.1'
-cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.1-1-sparc-UUAkMM/bedtools-2.13.1/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-sparc-9x_xrv/bedtools-2.13.2'
+cd . && QUILT_PATCHES=/build/buildd-bedtools_2.13.2-1-sparc-9x_xrv/bedtools-2.13.2/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_2.13.1-1-sparc-UUAkMM/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-sparc-9x_xrv/bedtools-2.13.2'
make[1]: Nothing to be done for `update-config'.
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-sparc-UUAkMM/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-sparc-9x_xrv/bedtools-2.13.2'
/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_2.13.1-1-sparc-UUAkMM/bedtools-2.13.1'
+make[1]: Entering directory `/build/buildd-bedtools_2.13.2-1-sparc-9x_xrv/bedtools-2.13.2'
[ -d obj ] || mkdir -p obj
[ -d bin ] || mkdir -p bin
Building BEDTools:
@@ -368,10 +369,8 @@ Building BEDTools:
- Building in src/utils/bedGraphFile
* compiling bedGraphFile.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/chromsweep
+ * compiling chromsweep.cpp
- Building in src/utils/gzstream
g++ -g -O2 -g -O2 -Wall -c -o ../../../obj//gzstream.o gzstream.C -I.
@@ -436,6 +435,11 @@ Fasta.cpp:31:17: warning: converting to non-pointer type 'int' from NULL [-Wconv
Fasta.cpp:32:17: warning: converting to non-pointer type 'int' from NULL [-Wconversion-null]
* compiling split.cpp
+- Building in src/utils/genomeFile
+ * compiling genomeFile.cpp
+genomeFile.cpp: In member function 'void GenomeFile::loadGenomeFileIntoMap()':
+genomeFile.cpp:61:26: warning: variable 'c2' set but not used [-Wunused-but-set-variable]
+
- Building in src/annotateBed
* compiling annotateMain.cpp
annotateMain.cpp: In function 'int main(int, char**)':
@@ -540,9 +544,9 @@ 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:254:12: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp:255:12: 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:306:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp:307:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
* linking pairToBed
- Building in src/pairToPair
@@ -598,7 +602,7 @@ unionBedGraphsMain.cpp:49:10: warning: variable 'haveFiller' set but not used [-
* compiling windowBed.cpp
* linking windowBed
-make[1]: Leaving directory `/build/buildd-bedtools_2.13.1-1-sparc-UUAkMM/bedtools-2.13.1'
+make[1]: Leaving directory `/build/buildd-bedtools_2.13.2-1-sparc-9x_xrv/bedtools-2.13.2'
touch debian/stamp-makefile-build
DEB_MAKE_CHECK_TARGET unset, not running checks
fakeroot debian/rules binary-arch
@@ -643,61 +647,56 @@ dh_shlibdeps -pbedtools
dh_gencontrol -pbedtools
dh_md5sums -pbedtools
dh_builddeb -pbedtools -- -Z xz
-dpkg-deb: building package `bedtools' in `../bedtools_2.13.1-1_sparc.deb'.
- dpkg-genchanges -B -msparc Build Daemon (lebrun) <buildd_sparc-lebrun at buildd.debian.org> >../bedtools_2.13.1-1_sparc.changes
+dpkg-deb: building package `bedtools' in `../bedtools_2.13.2-1_sparc.deb'.
+ dpkg-genchanges -B -msparc Build Daemon (schroeder) <buildd_sparc-schroeder at buildd.debian.org> >../bedtools_2.13.2-1_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-2.13.1
+ dpkg-source --after-build bedtools-2.13.2
dpkg-buildpackage: binary only upload (no source included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110911-0347
+Build finished at 20110924-0502
-bedtools_2.13.1-1_sparc.changes:
+bedtools_2.13.2-1_sparc.changes:
Format: 1.8
-Date: Sat, 10 Sep 2011 23:32:43 +0900
+Date: Sat, 24 Sep 2011 09:34:29 +0900
Source: bedtools
Binary: bedtools
Architecture: sparc
-Version: 2.13.1-1
+Version: 2.13.2-1
Distribution: sid
Urgency: low
-Maintainer: sparc Build Daemon (lebrun) <buildd_sparc-lebrun at buildd.debian.org>
+Maintainer: sparc Build Daemon (schroeder) <buildd_sparc-schroeder at buildd.debian.org>
Changed-By: Charles Plessy <plessy at debian.org>
Description:
bedtools - suite of utilities for comparing genomic features
Changes:
- bedtools (2.13.1-1) unstable; urgency=low
+ bedtools (2.13.2-1) unstable; urgency=low
.
- [2e3fe5e] New upstream release.
- [ff5450e] Compress source and binary packages with xz.
- [ef58a33] Suggest filo for the groupBy command.
- [df206c0] Mangle debian/watch download URL.
- [2fe7cff] Simplified repacking as upstream tarballs do not contain
- ‘*/*DS_Store’ files anymore.
+ [1930a26] New upstream release.
Checksums-Sha1:
- c37108b496bfa2ac562cb16fc863f10000259995 551098 bedtools_2.13.1-1_sparc.deb
+ b3ad4b837e8575bb425e161992873f279e46ad33 564698 bedtools_2.13.2-1_sparc.deb
Checksums-Sha256:
- 67f99f0f8e7646abaeefeaed1a121b07924ddc4ae7942d82afe3441053b8c1c1 551098 bedtools_2.13.1-1_sparc.deb
+ bada4915cb9f25370e21de89d7daa1d35a16150206c3844be618f3e1653e3a15 564698 bedtools_2.13.2-1_sparc.deb
Files:
- 901158715531a96c6e820ec0b4e10adc 551098 science optional bedtools_2.13.1-1_sparc.deb
+ d95e2e1aef3475f6acd284231ebad240 564698 science optional bedtools_2.13.2-1_sparc.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bedtools_2.13.1-1_sparc.deb
+bedtools_2.13.2-1_sparc.deb
───────────────────────────
new debian package, version 2.0.
- size 551098 bytes: control archive= 1725 bytes.
+ size 564698 bytes: control archive= 1721 bytes.
835 bytes, 18 lines control
- 2028 bytes, 35 lines md5sums
+ 2025 bytes, 35 lines md5sums
Package: bedtools
- Version: 2.13.1-1
+ Version: 2.13.2-1
Architecture: sparc
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 4660
+ Installed-Size: 4732
Depends: libc6 (>= 2.6), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
Suggests: filo
Section: science
@@ -712,49 +711,49 @@ bedtools_2.13.1-1_sparc.deb
.
The groupBy utility is distribued in the filo package.
-drwxr-xr-x root/root 0 2011-09-11 03:47 ./
-drwxr-xr-x root/root 0 2011-09-11 03:47 ./usr/
-drwxr-xr-x root/root 0 2011-09-11 03:47 ./usr/bin/
--rwxr-xr-x root/root 293428 2011-09-11 03:47 ./usr/bin/multiBamCov
--rwxr-xr-x root/root 290196 2011-09-11 03:47 ./usr/bin/genomeCoverageBed
--rwxr-xr-x root/root 101748 2011-09-11 03:47 ./usr/bin/complementBed
--rwxr-xr-x root/root 174864 2011-09-11 03:47 ./usr/bin/pairToPair
--rwxr-xr-x root/root 266364 2011-09-11 03:47 ./usr/bin/tagBam
--rwxr-xr-x root/root 139124 2011-09-11 03:47 ./usr/bin/nucBed
--rwxr-xr-x root/root 281968 2011-09-11 03:47 ./usr/bin/windowBed
--rwxr-xr-x root/root 138584 2011-09-11 03:47 ./usr/bin/fastaFromBed
--rwxr-xr-x root/root 106980 2011-09-11 03:47 ./usr/bin/maskFastaFromBed
--rwxr-xr-x root/root 57444 2011-09-11 03:47 ./usr/bin/unionBedGraphs
--rwxr-xr-x root/root 298368 2011-09-11 03:47 ./usr/bin/intersectBed
--rwxr-xr-x root/root 101124 2011-09-11 03:47 ./usr/bin/slopBed
--rwxr-xr-x root/root 109240 2011-09-11 03:47 ./usr/bin/subtractBed
--rwxr-xr-x root/root 117456 2011-09-11 03:47 ./usr/bin/closestBed
--rwxr-xr-x root/root 105432 2011-09-11 03:47 ./usr/bin/mergeBed
--rwxr-xr-x root/root 117564 2011-09-11 03:47 ./usr/bin/bedToIgv
--rwxr-xr-x root/root 358836 2011-09-11 03:47 ./usr/bin/pairToBed
--rwxr-xr-x root/root 93284 2011-09-11 03:47 ./usr/bin/bed12ToBed6
--rwxr-xr-x root/root 125796 2011-09-11 03:47 ./usr/bin/shuffleBed
--rwxr-xr-x root/root 103412 2011-09-11 03:47 ./usr/bin/linksBed
--rwxr-xr-x root/root 84744 2011-09-11 03:47 ./usr/bin/overlap
--rwxr-xr-x root/root 273920 2011-09-11 03:47 ./usr/bin/coverageBed
--rwxr-xr-x root/root 143084 2011-09-11 03:47 ./usr/bin/sortBed
--rwxr-xr-x root/root 224264 2011-09-11 03:47 ./usr/bin/bamToBed
--rwxr-xr-x root/root 101048 2011-09-11 03:47 ./usr/bin/annotateBed
--rwxr-xr-x root/root 109316 2011-09-11 03:47 ./usr/bin/flankBed
--rwxr-xr-x root/root 224524 2011-09-11 03:47 ./usr/bin/bedToBam
-drwxr-xr-x root/root 0 2011-09-11 03:47 ./usr/share/
-drwxr-xr-x root/root 0 2011-09-11 03:47 ./usr/share/bedtools/
-drwxr-xr-x root/root 0 2011-09-11 03:38 ./usr/share/bedtools/genomes/
--rwxr-xr-x root/root 586 2011-09-07 00:36 ./usr/share/bedtools/genomes/mouse.mm9.genome
--rwxr-xr-x root/root 1972 2011-09-07 00:36 ./usr/share/bedtools/genomes/human.hg19.genome
--rwxr-xr-x root/root 856 2011-09-07 00:36 ./usr/share/bedtools/genomes/human.hg18.genome
--rwxr-xr-x root/root 565 2011-09-07 00:36 ./usr/share/bedtools/genomes/mouse.mm8.genome
-drwxr-xr-x root/root 0 2011-09-11 03:47 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-09-11 03:47 ./usr/share/doc/bedtools/
--rw-r--r-- root/root 4611 2011-09-10 14:21 ./usr/share/doc/bedtools/copyright
--rw-r--r-- root/root 10990 2011-09-07 00:36 ./usr/share/doc/bedtools/changelog.gz
--rw-r--r-- root/root 1586 2011-09-07 00:36 ./usr/share/doc/bedtools/README.rst.gz
--rw-r--r-- root/root 391 2011-09-10 14:32 ./usr/share/doc/bedtools/changelog.Debian.gz
+drwxr-xr-x root/root 0 2011-09-24 05:01 ./
+drwxr-xr-x root/root 0 2011-09-24 05:01 ./usr/
+drwxr-xr-x root/root 0 2011-09-24 05:01 ./usr/bin/
+-rwxr-xr-x root/root 224264 2011-09-24 05:01 ./usr/bin/bamToBed
+-rwxr-xr-x root/root 109468 2011-09-24 05:01 ./usr/bin/maskFastaFromBed
+-rwxr-xr-x root/root 60224 2011-09-24 05:01 ./usr/bin/unionBedGraphs
+-rwxr-xr-x root/root 139100 2011-09-24 05:01 ./usr/bin/fastaFromBed
+-rwxr-xr-x root/root 117480 2011-09-24 05:01 ./usr/bin/closestBed
+-rwxr-xr-x root/root 103036 2011-09-24 05:01 ./usr/bin/complementBed
+-rwxr-xr-x root/root 117588 2011-09-24 05:01 ./usr/bin/bedToIgv
+-rwxr-xr-x root/root 290220 2011-09-24 05:01 ./usr/bin/genomeCoverageBed
+-rwxr-xr-x root/root 127160 2011-09-24 05:01 ./usr/bin/shuffleBed
+-rwxr-xr-x root/root 110372 2011-09-24 05:01 ./usr/bin/flankBed
+-rwxr-xr-x root/root 93800 2011-09-24 05:01 ./usr/bin/bed12ToBed6
+-rwxr-xr-x root/root 103928 2011-09-24 05:01 ./usr/bin/linksBed
+-rwxr-xr-x root/root 293976 2011-09-24 05:01 ./usr/bin/multiBamCov
+-rwxr-xr-x root/root 274436 2011-09-24 05:01 ./usr/bin/coverageBed
+-rwxr-xr-x root/root 224548 2011-09-24 05:01 ./usr/bin/bedToBam
+-rwxr-xr-x root/root 84768 2011-09-24 05:01 ./usr/bin/overlap
+-rwxr-xr-x root/root 281992 2011-09-24 05:01 ./usr/bin/windowBed
+-rwxr-xr-x root/root 359456 2011-09-24 05:01 ./usr/bin/pairToBed
+-rwxr-xr-x root/root 143824 2011-09-24 05:01 ./usr/bin/sortBed
+-rwxr-xr-x root/root 269320 2011-09-24 05:01 ./usr/bin/tagBam
+-rwxr-xr-x root/root 105884 2011-09-24 05:01 ./usr/bin/mergeBed
+-rwxr-xr-x root/root 347548 2011-09-24 05:01 ./usr/bin/intersectBed
+-rwxr-xr-x root/root 101400 2011-09-24 05:01 ./usr/bin/annotateBed
+-rwxr-xr-x root/root 109732 2011-09-24 05:01 ./usr/bin/subtractBed
+-rwxr-xr-x root/root 139640 2011-09-24 05:01 ./usr/bin/nucBed
+-rwxr-xr-x root/root 174888 2011-09-24 05:01 ./usr/bin/pairToPair
+-rwxr-xr-x root/root 102496 2011-09-24 05:01 ./usr/bin/slopBed
+drwxr-xr-x root/root 0 2011-09-24 05:01 ./usr/share/
+drwxr-xr-x root/root 0 2011-09-24 05:01 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-09-24 05:01 ./usr/share/doc/bedtools/
+-rw-r--r-- root/root 11135 2011-09-23 15:57 ./usr/share/doc/bedtools/changelog.gz
+-rw-r--r-- root/root 4611 2011-09-24 00:33 ./usr/share/doc/bedtools/copyright
+-rw-r--r-- root/root 417 2011-09-24 00:36 ./usr/share/doc/bedtools/changelog.Debian.gz
+-rw-r--r-- root/root 1442 2011-09-23 15:57 ./usr/share/doc/bedtools/README.rst
+drwxr-xr-x root/root 0 2011-09-24 05:01 ./usr/share/bedtools/
+drwxr-xr-x root/root 0 2011-09-24 04:52 ./usr/share/bedtools/genomes/
+-rwxr-xr-x root/root 856 2011-09-23 15:57 ./usr/share/bedtools/genomes/human.hg18.genome
+-rwxr-xr-x root/root 1972 2011-09-23 15:57 ./usr/share/bedtools/genomes/human.hg19.genome
+-rwxr-xr-x root/root 585 2011-09-23 15:57 ./usr/share/bedtools/genomes/mouse.mm9.genome
+-rwxr-xr-x root/root 565 2011-09-23 15:57 ./usr/share/bedtools/genomes/mouse.mm8.genome
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -768,7 +767,7 @@ Built successfully
│ Post Build │
└──────────────────────────────────────────────────────────────────────────────┘
-Purging /var/lib/schroot/mount/sid-sparc-sbuild-5c95ad46-e4ab-466d-b350-feb701e4c93e/build/buildd-bedtools_2.13.1-1-sparc-UUAkMM
+Purging /var/lib/schroot/mount/sid-sparc-sbuild-2c15d191-6efb-4e44-9df4-c8282f44f07e/build/buildd-bedtools_2.13.2-1-sparc-9x_xrv
Not cleaning session: cloned chroot in use
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -776,18 +775,18 @@ Not cleaning session: cloned chroot in use
└──────────────────────────────────────────────────────────────────────────────┘
Architecture: sparc
-Build-Space: 99016
-Build-Time: 581
+Build-Space: 101528
+Build-Time: 610
Distribution: sid
-Install-Time: 63
-Job: bedtools_2.13.1-1
+Install-Time: 55
+Job: bedtools_2.13.2-1
Package: bedtools
-Package-Time: 695
-Source-Version: 2.13.1-1
-Space: 99016
+Package-Time: 716
+Source-Version: 2.13.2-1
+Space: 101528
Status: successful
-Version: 2.13.1-1
+Version: 2.13.2-1
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110911-0347
-Build needed 00:11:35, 99016k disc space
-Signature with key '632E3DB6' requested:
+Finished at 20110924-0502
+Build needed 00:11:56, 101528k disc space
+Signature with key '7C392B18' requested:
--
Suite of utilities for comparing genomic features.
More information about the debian-med-commit
mailing list