[med-svn] [SCM] BEDtools branch, meta, updated. 2190da8bb302b27ed5452d2eacdd72fcc1160253
Charles Plessy
plessy at debian.org
Wed Jun 8 08:33:39 UTC 2011
The following commit has been merged in the meta branch:
commit 2190da8bb302b27ed5452d2eacdd72fcc1160253
Author: Charles Plessy <plessy at debian.org>
Date: Wed Jun 8 17:29:38 2011 +0900
Uploaded bedtools_2.12.0-1_amd64.changes to Debian.
diff --git a/amd64.changes b/amd64.changes
new file mode 100644
index 0000000..23b2880
--- /dev/null
+++ b/amd64.changes
@@ -0,0 +1,53 @@
+-----BEGIN PGP SIGNED MESSAGE-----
+Hash: SHA256
+
+Format: 1.8
+Date: Wed, 08 Jun 2011 17:01:19 +0900
+Source: bedtools
+Binary: bedtools
+Architecture: source amd64
+Version: 2.12.0-1
+Distribution: unstable
+Urgency: low
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
+Description:
+ bedtools - suite of utilities for comparing genomic features
+Closes: 629597
+Changes:
+ bedtools (2.12.0-1) unstable; urgency=low
+ .
+ * Initial release (Closes: #629597)
+Checksums-Sha1:
+ 3fae9bb7385c3956a0ef2e6f10e0f61d58f460d9 1924 bedtools_2.12.0-1.dsc
+ 2ba712dc9a2642ae2172402983811855309f7ae1 790069 bedtools_2.12.0.orig.tar.bz2
+ e8fcc348a7548dd0aea5c53668420f8e91b089cb 4198 bedtools_2.12.0-1.debian.tar.gz
+ 04880b3f2b1d8f0b640d65431a974f477b55dd28 1614122 bedtools_2.12.0-1_amd64.deb
+Checksums-Sha256:
+ 64027e710d0f3269424cf73a19cdb97e790246ed55aa2013510cc29b317c8baf 1924 bedtools_2.12.0-1.dsc
+ 9b57249d8891f2da2c6adc55b3088b3f5b10c35b01a106bbd129824c51290a98 790069 bedtools_2.12.0.orig.tar.bz2
+ 82758e0c528cf60f44e4f4488a03b1aa4d0b65dbedc06216724152d460230c72 4198 bedtools_2.12.0-1.debian.tar.gz
+ 5f7d3e1b741e860549fca03274bbe0036c64d94eb5032b941d42b7c56bd3966e 1614122 bedtools_2.12.0-1_amd64.deb
+Files:
+ ef10a326b91840b669a2019cffa420a2 1924 science optional bedtools_2.12.0-1.dsc
+ cf6c7cd9d457605c7602005b9037abfd 790069 science optional bedtools_2.12.0.orig.tar.bz2
+ 578d850a5a0439b34a4a407897b02dbb 4198 science optional bedtools_2.12.0-1.debian.tar.gz
+ 3de472bdc6e0e95d969ac4b0bfc89482 1614122 science optional bedtools_2.12.0-1_amd64.deb
+
+-----BEGIN PGP SIGNATURE-----
+Version: GnuPG v1.4.10 (GNU/Linux)
+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+=3uye
+-----END PGP SIGNATURE-----
diff --git a/amd64.log b/amd64.log
index 3c2cc46..36d4346 100644
--- a/amd64.log
+++ b/amd64.log
@@ -1,18 +1,25 @@
-sbuild (Debian sbuild) 0.60.8 (12 Dec 2010) on anx178.gsc.riken.jp
+sbuild (Debian sbuild) 0.62.2 (05 Apr 2011) on anx191
╔══════════════════════════════════════════════════════════════════════════════╗
-║ bedtools 2.11.0-1 (amd64) 25 Jan 2011 21:46 ║
+║ bedtools 2.12.0-1 (amd64) 08 Jun 2011 17:20 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: bedtools
-Version: 2.11.0-1
-Source Version: 2.11.0-1
+Version: 2.12.0-1
+Source Version: 2.12.0-1
+Distribution: unstable
Architecture: amd64
-Hit http://ftp.riken.jp unstable Release.gpg
-Ign http://ftp.riken.jp/Linux/debian/debian/ unstable/main Translation-en
-Hit http://ftp.riken.jp unstable Release
-Hit http://ftp.riken.jp unstable/main Sources/DiffIndex
-Hit http://ftp.riken.jp unstable/main amd64 Packages/DiffIndex
+
+I: NOTICE: Log filtering will replace 'build/bedtools-Ghn37g' with '«BUILDDIR»'
+I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/sid-amd64-sbuild-29088341-52c6-42fd-8a13-78bdff77cf92' with '«CHROOT»'
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Update chroot │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Hit http://ftp.jp.debian.org sid InRelease
+Hit http://ftp.jp.debian.org sid/main amd64 Packages/DiffIndex
+Hit http://ftp.jp.debian.org sid/main TranslationIndex
Reading package lists...
Reading package lists...
Building dependency tree...
@@ -27,161 +34,99 @@ Reading state information...
Local sources
─────────────
-bedtools_2.11.0-1.dsc exists in .; copying to chroot
+bedtools_2.12.0-1.dsc exists in .; copying to chroot
Check arch
──────────
+Merged Build-Depends: build-essential, fakeroot
+Filtered Build-Depends: build-essential, fakeroot
+dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/«BUILDDIR»/resolver-XV0Q8j/apt_archive/sbuild-build-depends-core-dummy.deb'.
+OK
+Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install core build dependencies (internal resolver) │
+│ Install core build dependencies (apt-based resolver) │
└──────────────────────────────────────────────────────────────────────────────┘
-Build-Depends: build-essential, fakeroot
-Checking for already installed dependencies...
-build-essential: already installed (11.5)
-fakeroot: already installed (1.14.5-1)
-Checking for dependency conflicts...
-Installing positive dependencies:
+Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
-0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
-Removing negative dependencies:
+The following NEW packages will be installed:
+ sbuild-build-depends-core-dummy
+debconf: delaying package configuration, since apt-utils is not installed
+0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded.
+Need to get 0 B/706 B of archives.
+After this operation, 0 B of additional disk space will be used.
+Selecting previously deselected package sbuild-build-depends-core-dummy.
+(Reading database ... 10807 files and directories currently installed.)
+Unpacking sbuild-build-depends-core-dummy (from .../sbuild-build-depends-core-dummy.deb) ...
+Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
+Merged Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), cdbs, debhelper (>= 8), quilt, zlib1g-dev
+Filtered Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), cdbs, debhelper (>= 8), quilt, zlib1g-dev
+dpkg-deb: building package `sbuild-build-depends-bedtools-dummy' in `/«BUILDDIR»/resolver-JPNhUl/apt_archive/sbuild-build-depends-bedtools-dummy.deb'.
+OK
Reading package lists...
-Building dependency tree...
-Reading state information...
-0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
-Checking correctness of dependencies...
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Install bedtools build dependencies (internal resolver) │
+│ Install bedtools build dependencies (apt-based 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), git, quilt, zlib1g-dev
-Checking for already installed dependencies...
-base-files: already installed (6.0)
-base-passwd: already installed (3.5.22)
-bash: already installed (4.1-3)
-coreutils: already installed (8.5-1)
-dash: already installed (0.5.5.1-7.4)
-debianutils: already installed (3.4.3)
-diffutils: already installed (1:3.0-1)
-dpkg: already installed (1.15.8.8)
-e2fsprogs: already installed (1.41.12-2)
-findutils: already installed (4.4.2-1+b1)
-grep: already installed (2.6.3-3)
-gzip: already installed (1.3.12-9)
-hostname: already installed (3.05)
-ncurses-base: already installed (5.7+20100313-5)
-ncurses-bin: already installed (5.7+20100313-5)
-perl-base: already installed (5.10.1-17)
-sed: already installed (4.2.1-8)
-login: already installed (1:4.1.4.2+svn3283-2)
-sysvinit-utils: already installed (2.88dsf-13.1)
-sysvinit: already installed (2.88dsf-13.1)
-tar: already installed (1.25-3)
-bsdutils: already installed (1:2.17.2-7.1)
-mount: already installed (2.17.2-7.1)
-util-linux: already installed (2.17.2-7.1)
-libc6-dev: already installed (2.11.2-10)
-gcc: already installed (4:4.4.5-2 >= 4:4.4.3 is satisfied)
-g++: already installed (4:4.4.5-2 >= 4:4.4.3 is satisfied)
-make: already installed (3.81-8)
-dpkg-dev: already installed (1.15.8.8 >= 1.13.5 is satisfied)
-cdbs: missing
-debhelper: missing
-Using default version 8.0.0
-git: missing
-quilt: missing
-zlib1g-dev: missing
-Checking for dependency conflicts...
-Installing positive dependencies: cdbs debhelper git quilt zlib1g-dev
+Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following extra packages will be installed:
- bsdmainutils ca-certificates diffstat file gettext gettext-base groff-base
- html2text intltool-debian libcroco3 libcurl3-gnutls liberror-perl libexpat1
- libgcrypt11 libglib2.0-0 libgnutls26 libgpg-error0 libgssapi-krb5-2 libidn11
- libk5crypto3 libkeyutils1 libkrb5-3 libkrb5support0 libldap-2.4-2 libmagic1
- libpcre3 libsasl2-2 libssl0.9.8 libtasn1-3 libunistring0 libxml2 man-db
- openssl po-debconf
+ 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
Suggested packages:
- wamerican wordlist whois vacation devscripts doc-base dh-make gettext-doc
- git-doc git-arch git-cvs git-svn git-email git-daemon-run git-gui gitk
- gitweb groff rng-tools gnutls-bin krb5-doc krb5-user www-browser
- libmail-box-perl procmail graphviz
+ wamerican wordlist whois vacation devscripts dh-make gettext-doc groff less
+ www-browser libmail-box-perl procmail graphviz
Recommended packages:
- autotools-dev curl wget lynx-cur autopoint less rsync ssh-client
- libglib2.0-data shared-mime-info libsasl2-modules xml-core
- libmail-sendmail-perl
+ autotools-dev curl wget lynx-cur autopoint libglib2.0-data shared-mime-info
+ xml-core libmail-sendmail-perl
The following NEW packages will be installed:
- bsdmainutils ca-certificates cdbs debhelper diffstat file gettext
- gettext-base git groff-base html2text intltool-debian libcroco3
- libcurl3-gnutls liberror-perl libexpat1 libgcrypt11 libglib2.0-0 libgnutls26
- libgpg-error0 libgssapi-krb5-2 libidn11 libk5crypto3 libkeyutils1 libkrb5-3
- libkrb5support0 libldap-2.4-2 libmagic1 libpcre3 libsasl2-2 libssl0.9.8
- libtasn1-3 libunistring0 libxml2 man-db openssl po-debconf quilt zlib1g-dev
+ bsdmainutils cdbs debhelper diffstat file gettext gettext-base groff-base
+ html2text intltool-debian libcroco3 libglib2.0-0 libmagic1 libpcre3
+ libpipeline1 libunistring0 libxml2 man-db po-debconf quilt
+ sbuild-build-depends-bedtools-dummy zlib1g-dev
+0 upgraded, 22 newly installed, 0 to remove and 0 not upgraded.
+Need to get 2248 kB/9858 kB of archives.
+After this operation, 28.8 MB of additional disk space will be used.
+Get:1 http://ftp.jp.debian.org/debian/ sid/main bsdmainutils amd64 8.2.3 [208 kB]
+Get:2 http://ftp.jp.debian.org/debian/ sid/main groff-base amd64 1.21-6 [1150 kB]
+Get:3 http://ftp.jp.debian.org/debian/ sid/main libxml2 amd64 2.7.8.dfsg-3 [890 kB]
debconf: delaying package configuration, since apt-utils is not installed
-0 upgraded, 39 newly installed, 0 to remove and 0 not upgraded.
-Need to get 0 B/20.9 MB of archives.
-After this operation, 52.5 MB of additional disk space will be used.
+Fetched 2248 kB in 0s (4582 kB/s)
Selecting previously deselected package bsdmainutils.
-(Reading database ... 10134 files and directories currently installed.)
-Unpacking bsdmainutils (from .../bsdmainutils_8.2.1_amd64.deb) ...
+(Reading database ... 10807 files and directories currently installed.)
+Unpacking bsdmainutils (from .../bsdmainutils_8.2.3_amd64.deb) ...
Selecting previously deselected package groff-base.
-Unpacking groff-base (from .../groff-base_1.20.1-10_amd64.deb) ...
-Selecting previously deselected package libssl0.9.8.
-Unpacking libssl0.9.8 (from .../libssl0.9.8_0.9.8o-4_amd64.deb) ...
+Unpacking groff-base (from .../groff-base_1.21-6_amd64.deb) ...
+Selecting previously deselected package libpipeline1.
+Unpacking libpipeline1 (from .../libpipeline1_1.2.0-2_amd64.deb) ...
Selecting previously deselected package man-db.
-Unpacking man-db (from .../man-db_2.5.7-8_amd64.deb) ...
+Unpacking man-db (from .../man-db_2.6.0.2-1_amd64.deb) ...
Selecting previously deselected package libmagic1.
-Unpacking libmagic1 (from .../libmagic1_5.04-5_amd64.deb) ...
+Unpacking libmagic1 (from .../libmagic1_5.04-5+b1_amd64.deb) ...
Selecting previously deselected package file.
-Unpacking file (from .../archives/file_5.04-5_amd64.deb) ...
+Unpacking file (from .../file_5.04-5+b1_amd64.deb) ...
Selecting previously deselected package gettext-base.
Unpacking gettext-base (from .../gettext-base_0.18.1.1-3_amd64.deb) ...
-Selecting previously deselected package libgpg-error0.
-Unpacking libgpg-error0 (from .../libgpg-error0_1.6-1_amd64.deb) ...
-Selecting previously deselected package libgcrypt11.
-Unpacking libgcrypt11 (from .../libgcrypt11_1.4.5-2_amd64.deb) ...
-Selecting previously deselected package libtasn1-3.
-Unpacking libtasn1-3 (from .../libtasn1-3_2.7-1_amd64.deb) ...
-Selecting previously deselected package libgnutls26.
-Unpacking libgnutls26 (from .../libgnutls26_2.8.6-1_amd64.deb) ...
-Selecting previously deselected package libkeyutils1.
-Unpacking libkeyutils1 (from .../libkeyutils1_1.4-4_amd64.deb) ...
-Selecting previously deselected package libkrb5support0.
-Unpacking libkrb5support0 (from .../libkrb5support0_1.8.3+dfsg-4_amd64.deb) ...
-Selecting previously deselected package libk5crypto3.
-Unpacking libk5crypto3 (from .../libk5crypto3_1.8.3+dfsg-4_amd64.deb) ...
-Selecting previously deselected package libkrb5-3.
-Unpacking libkrb5-3 (from .../libkrb5-3_1.8.3+dfsg-4_amd64.deb) ...
-Selecting previously deselected package libgssapi-krb5-2.
-Unpacking libgssapi-krb5-2 (from .../libgssapi-krb5-2_1.8.3+dfsg-4_amd64.deb) ...
-Selecting previously deselected package libidn11.
-Unpacking libidn11 (from .../libidn11_1.18-1_amd64.deb) ...
-Selecting previously deselected package libsasl2-2.
-Unpacking libsasl2-2 (from .../libsasl2-2_2.1.23.dfsg1-7_amd64.deb) ...
-Selecting previously deselected package libldap-2.4-2.
-Unpacking libldap-2.4-2 (from .../libldap-2.4-2_2.4.23-7_amd64.deb) ...
Selecting previously deselected package libpcre3.
-Unpacking libpcre3 (from .../libpcre3_8.02-1.1_amd64.deb) ...
+Unpacking libpcre3 (from .../libpcre3_8.12-3_amd64.deb) ...
Selecting previously deselected package libxml2.
-Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-2_amd64.deb) ...
-Selecting previously deselected package openssl.
-Unpacking openssl (from .../openssl_0.9.8o-4_amd64.deb) ...
-Selecting previously deselected package ca-certificates.
-Unpacking ca-certificates (from .../ca-certificates_20090814+nmu2_all.deb) ...
+Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-3_amd64.deb) ...
Selecting previously deselected package html2text.
Unpacking html2text (from .../html2text_1.3.2a-15_amd64.deb) ...
Selecting previously deselected package libglib2.0-0.
-Unpacking libglib2.0-0 (from .../libglib2.0-0_2.24.2-1_amd64.deb) ...
+Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.6-1_amd64.deb) ...
Selecting previously deselected package libcroco3.
Unpacking libcroco3 (from .../libcroco3_0.6.2-1_amd64.deb) ...
Selecting previously deselected package libunistring0.
-Unpacking libunistring0 (from .../libunistring0_0.9.3-3_amd64.deb) ...
+Unpacking libunistring0 (from .../libunistring0_0.9.3-4_amd64.deb) ...
Selecting previously deselected package gettext.
Unpacking gettext (from .../gettext_0.18.1.1-3_amd64.deb) ...
Selecting previously deselected package intltool-debian.
@@ -189,86 +134,51 @@ 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_8.0.0_all.deb) ...
+Unpacking debhelper (from .../debhelper_8.1.6_all.deb) ...
Selecting previously deselected package cdbs.
-Unpacking cdbs (from .../archives/cdbs_0.4.89_all.deb) ...
+Unpacking cdbs (from .../archives/cdbs_0.4.94_all.deb) ...
Selecting previously deselected package diffstat.
Unpacking diffstat (from .../diffstat_1.54-1_amd64.deb) ...
-Selecting previously deselected package libcurl3-gnutls.
-Unpacking libcurl3-gnutls (from .../libcurl3-gnutls_7.21.3-1_amd64.deb) ...
-Selecting previously deselected package libexpat1.
-Unpacking libexpat1 (from .../libexpat1_2.0.1-7_amd64.deb) ...
-Selecting previously deselected package liberror-perl.
-Unpacking liberror-perl (from .../liberror-perl_0.17-1_all.deb) ...
-Selecting previously deselected package git.
-Unpacking git (from .../git_1%3a1.7.2.3-2.2_amd64.deb) ...
Selecting previously deselected package quilt.
Unpacking quilt (from .../archives/quilt_0.48-7_all.deb) ...
Selecting previously deselected package zlib1g-dev.
Unpacking zlib1g-dev (from .../zlib1g-dev_1%3a1.2.3.4.dfsg-3_amd64.deb) ...
-Setting up bsdmainutils (8.2.1) ...
+Selecting previously deselected package sbuild-build-depends-bedtools-dummy.
+Unpacking sbuild-build-depends-bedtools-dummy (from .../sbuild-build-depends-bedtools-dummy.deb) ...
+Setting up bsdmainutils (8.2.3) ...
update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode.
update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode.
-Setting up groff-base (1.20.1-10) ...
-Setting up libssl0.9.8 (0.9.8o-4) ...
-debconf: unable to initialize frontend: Dialog
-debconf: (TERM is not set, so the dialog frontend is not usable.)
-debconf: falling back to frontend: Readline
-Setting up man-db (2.5.7-8) ...
-debconf: unable to initialize frontend: Dialog
-debconf: (TERM is not set, so the dialog frontend is not usable.)
-debconf: falling back to frontend: Readline
+Setting up groff-base (1.21-6) ...
+Setting up libpipeline1 (1.2.0-2) ...
+Setting up man-db (2.6.0.2-1) ...
Building database of manual pages ...
-Setting up libmagic1 (5.04-5) ...
-Setting up file (5.04-5) ...
+Setting up libmagic1 (5.04-5+b1) ...
+Setting up file (5.04-5+b1) ...
Setting up gettext-base (0.18.1.1-3) ...
-Setting up libgpg-error0 (1.6-1) ...
-Setting up libgcrypt11 (1.4.5-2) ...
-Setting up libtasn1-3 (2.7-1) ...
-Setting up libgnutls26 (2.8.6-1) ...
-Setting up libkeyutils1 (1.4-4) ...
-Setting up libkrb5support0 (1.8.3+dfsg-4) ...
-Setting up libk5crypto3 (1.8.3+dfsg-4) ...
-Setting up libkrb5-3 (1.8.3+dfsg-4) ...
-Setting up libgssapi-krb5-2 (1.8.3+dfsg-4) ...
-Setting up libidn11 (1.18-1) ...
-Setting up libsasl2-2 (2.1.23.dfsg1-7) ...
-Setting up libldap-2.4-2 (2.4.23-7) ...
-Setting up libpcre3 (8.02-1.1) ...
-Setting up libxml2 (2.7.8.dfsg-2) ...
-Setting up openssl (0.9.8o-4) ...
-Setting up ca-certificates (20090814+nmu2) ...
-debconf: unable to initialize frontend: Dialog
-debconf: (TERM is not set, so the dialog frontend is not usable.)
-debconf: falling back to frontend: Readline
-Updating certificates in /etc/ssl/certs... WARNING: Skipping duplicate certificate ca-certificates.crt
-141 added, 0 removed; done.
-Running hooks in /etc/ca-certificates/update.d....done.
+Setting up libpcre3 (8.12-3) ...
+Setting up libxml2 (2.7.8.dfsg-3) ...
Setting up html2text (1.3.2a-15) ...
-Setting up libglib2.0-0 (2.24.2-1) ...
+Setting up libglib2.0-0 (2.28.6-1) ...
+No schema files found: doing nothing.
Setting up libcroco3 (0.6.2-1) ...
-Setting up libunistring0 (0.9.3-3) ...
+Setting up libunistring0 (0.9.3-4) ...
Setting up gettext (0.18.1.1-3) ...
Setting up intltool-debian (0.35.0+20060710.1) ...
Setting up po-debconf (1.0.16+nmu1) ...
-Setting up debhelper (8.0.0) ...
-Setting up cdbs (0.4.89) ...
+Setting up debhelper (8.1.6) ...
+Setting up cdbs (0.4.94) ...
Setting up diffstat (1.54-1) ...
-Setting up libcurl3-gnutls (7.21.3-1) ...
-Setting up libexpat1 (2.0.1-7) ...
-Setting up liberror-perl (0.17-1) ...
-Setting up git (1:1.7.2.3-2.2) ...
Setting up quilt (0.48-7) ...
Setting up zlib1g-dev (1:1.2.3.4.dfsg-3) ...
-Removing negative dependencies:
-Reading package lists...
-Building dependency tree...
-Reading state information...
-0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
-Checking correctness of dependencies...
-Kernel: Linux 2.6.32-trunk-vserver-amd64 amd64 (x86_64)
-Toolchain package versions: binutils_2.20.1-15 dpkg-dev_1.15.8.8 g++-4.4_4.4.5-10 gcc-4.4_4.4.5-10 libc6-dev_2.11.2-10 libstdc++6_4.4.5-10 libstdc++6-4.4-dev_4.4.5-10 linux-libc-dev_2.6.32-30
-Package versions: apt_0.8.10.1 base-files_6.0 base-passwd_3.5.22 bash_4.1-3 binutils_2.20.1-15 bsdmainutils_8.2.1 bsdutils_1:2.17.2-7.1 build-essential_11.5 bzip2_1.0.5-6 ca-certificates_20090814+nmu2 cdbs_0.4.89 coreutils_8.5-1 cpp_4:4.4.5-2 cpp-4.4_4.4.5-10 dash_0.5.5.1-7.4 debconf_1.5.38 debconf-i18n_1.5.38 debfoster_2.7-1.1 debhelper_8.0.0 debian-archive-keyring_2010.08.28 debianutils_3.4.3 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.15.8.8 dpkg-dev_1.15.8.8 e2fslibs_1.41.12-2 e2fsprogs_1.41.12-2 fakeroot_1.14.5-1 file_5.04-5 findutils_4.4.2-1+b1 g++_4:4.4.5-2 g++-4.4_4.4.5-10 gcc_4:4.4.5-2 gcc-4.4_4.4.5-10 gcc-4.4-base_4.4.5-10 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 git_1:1.7.2.3-2.2 gnupg_1.4.10-4 gpgv_1.4.10-4 grep_2.6.3-3 groff-base_1.20.1-10 gzip_1.3.12-9 hostname_3.05 html2text_1.3.2a-15 initscripts_2.88dsf-13.1 insserv_1.14.0-2 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-4 libattr1_1:2.4.44-2 libblkid1_2.17.2-7.1 libbz2-1.0_1.0.5-6 libc-bin_2.11.2-10 libc-dev-bin_2.11.2-10 libc6_2.11.2-10 libc6-dev_2.11.2-10 libcomerr2_1.41.12-2 libcroco3_0.6.2-1 libcurl3-gnutls_7.21.3-1 libdb4.7_4.7.25-12 libdb4.8_4.8.30-3 libdpkg-perl_1.15.8.8 liberror-perl_0.17-1 libexpat1_2.0.1-7 libgc1c2_1:6.8-1.2 libgcc1_1:4.4.5-10 libgcrypt11_1.4.5-2 libgdbm3_1.8.3-9 libglib2.0-0_2.24.2-1 libgmp3c2_2:4.3.2+dfsg-1 libgnutls26_2.8.6-1 libgomp1_4.4.5-10 libgpg-error0_1.6-1 libgssapi-krb5-2_1.8.3+dfsg-4 libidn11_1.18-1 libk5crypto3_1.8.3+dfsg-4 libkeyutils1_1.4-4 libkrb5-3_1.8.3+dfsg-4 libkrb5support0_1.8.3+dfsg-4 libldap-2.4-2_2.4.23-7 liblocale-gettext-perl_1.05-6 liblzma2_5.0.0-2 libmagic1_5.04-5 libmpfr4_3.0.0-2 libncurses5_5.7+20100313-5 libpam-modules_1.1.1-6.1 libpam-runtime_1.1.1-6.1 libpam0g_1.1.1-6.1 libpcre3_8.02-1.1 libreadline6_6.1-3 libsasl2-2_2.1.23.dfsg1-7 libselinux1_2.0.96-1 libsepol1_2.0.42-1 libslang2_2.2.2-4 libss2_1.41.12-2 libssl0.9.8_0.9.8o-4 libstdc++6_4.4.5-10 libstdc++6-4.4-dev_4.4.5-10 libtasn1-3_2.7-1 libtext-charwidth-perl_0.04-6 libtext-iconv-perl_1.7-2 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-3 libusb-0.1-4_2:0.1.12-16 libuuid1_2.17.2-7.1 libxml2_2.7.8.dfsg-2 linux-libc-dev_2.6.32-30 login_1:4.1.4.2+svn3283-2 lsb-base_3.2-27 make_3.81-8 man-db_2.5.7-8 mawk_1.3.3-15 mount_2.17.2-7.1 ncurses-base_5.7+20100313-5 ncurses-bin_5.7+20100313-5 openssl_0.9.8o-4 passwd_1:4.1.4.2+svn3283-2 patch_2.6-3 perl_5.10.1-17 perl-base_5.10.1-17 perl-modules_5.10.1-17 po-debconf_1.0.16+nmu1 quilt_0.48-7 readline-common_6.1-3 sed_4.2.1-8 sensible-utils_0.0.6 sysv-rc_2.88dsf-13.1 sysvinit_2.88dsf-13.1 sysvinit-utils_2.88dsf-13.1 tar_1.25-3 tzdata_2010o-1 util-linux_2.17.2-7.1 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
+Setting up sbuild-build-depends-bedtools-dummy (0.invalid.0) ...
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Build environment │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+Kernel: Linux 2.6.32-5-amd64 amd64 (x86_64)
+Toolchain package versions: binutils_2.21.52.20110606-1 dpkg-dev_1.16.0.3 g++-4.6_4.6.0-11 gcc-4.6_4.6.0-11 libc6-dev_2.13-5 libstdc++6_4.6.0-11 libstdc++6-4.6-dev_4.6.0-11 linux-libc-dev_2.6.39-1+b1
+Package versions: apt_0.8.14.1 base-files_6.4 base-passwd_3.5.22 bash_4.1-3 binutils_2.21.52.20110606-1 bsdmainutils_8.2.3 bsdutils_1:2.17.2-9.1 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.94 coreutils_8.5-1 cpp_4:4.6.0-5 cpp-4.6_4.6.0-11 dash_0.5.5.1-7.4 debconf_1.5.39 debconf-i18n_1.5.39 debfoster_2.7-1.1 debhelper_8.1.6 debian-archive-keyring_2010.08.28 debianutils_4.0.1 diffstat_1.54-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.41.12-4 e2fsprogs_1.41.12-4 fakeroot_1.15.1-1 file_5.04-5+b1 findutils_4.4.2-1+b1 g++_4:4.6.0-5 g++-4.6_4.6.0-11 gcc_4:4.6.0-5 gcc-4.6_4.6.0-11 gcc-4.6-base_4.6.0-11 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.8-2 groff-base_1.21-6 gzip_1.3.12-9 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.7 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.49-5 libattr1_1:2.4.44-3 libblkid1_2.17.2-9.1 libbz2-1.0_1.0.5-6 libc-bin_2.13-5 libc-dev-bin_2.13-5 libc6_2.13-5 libc6-dev_2.13-5 libclass-isa-perl_0.36-1 libcloog-ppl0_0.15.9-3 libcomerr2_1.41.12-4 libcroco3_0.6.2-1 libdb4.7_4.7.25-20 libdb4.8_4.8.30-8 libdb5.1_5.1.25-10 libdpkg-perl_1.16.0.3 libelfg0_0.8.13-1 libgc1c2_1:7.1-8 libgcc1_1:4.6.0-11 libgdbm3_1.8.3-9 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.1+dfsg-7 libgmpxx4ldbl_2:5.0.1+dfsg-7 libgomp1_4.6.0-11 liblocale-gettext-perl_1.05-6+b1 liblzma2_5.0.0-2 libmagic1_5.04-5+b1 libmpc2_0.9-3 libmpfr4_3.0.1-3 libncurses5_5.9-1 libpam-modules_1.1.3-1 libpam-runtime_1.1.3-1 libpam0g_1.1.3-1 libpcre3_8.12-3 libpipeline1_1.2.0-2 libpod-plainer-perl_1.03-1 libppl-c4_0.11.2-3 libppl9_0.11.2-3 libpwl5_0.11.2-3 libquadmath0_4.6.0-11 libreadline6_6.2-2 libselinux1_2.0.98-1+b1 libsepol1_2.0.42-1 libslang2_2.2.4-2 libss2_1.41.12-4 libstdc++6_4.6.0-11 libstdc++6-4.6-dev_4.6.0-11 libswitch-perl_2.16-1 libtext-charwidth-perl_0.04-6+b1 libtext-iconv-perl_1.7-2+b1 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-17 libuuid1_2.17.2-9.1 libxml2_2.7.8.dfsg-3 linux-libc-dev_2.6.39-1+b1 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-27 make_3.81-8.1 man-db_2.6.0.2-1 mawk_1.3.3-15 mount_2.17.2-9.1 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.3-7 perl-base_5.12.3-7 perl-modules_5.12.3-7 po-debconf_1.0.16+nmu1 quilt_0.48-7 readline-common_6.2-2 sbuild-build-depends-bedtools-dummy_0.invalid.0 sbuild-build-depends-core-dummy_0.invalid.0 sed_4.2.1-9 sensible-utils_0.0.6 sysv-rc_2.88dsf-13.7 sysvinit_2.88dsf-13.7 sysvinit-utils_2.88dsf-13.7 tar_1.25-3 tzdata_2011g-1 util-linux_2.17.2-9.1 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3 zlib1g-dev_1:1.2.3.4.dfsg-3
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -278,13 +188,16 @@ Package versions: apt_0.8.10.1 base-files_6.0 base-passwd_3.5.22 bash_4.1-3 binu
Unpack source
─────────────
-dpkg-source: warning: extracting unsigned source package (bedtools_2.11.0-1.dsc)
-dpkg-source: info: extracting bedtools in bedtools-2.11.0
-dpkg-source: info: cloning bedtools_2.11.0-1.git
+dpkg-source: warning: extracting unsigned source package (bedtools_2.12.0-1.dsc)
+dpkg-source: info: extracting bedtools in bedtools-2.12.0
+dpkg-source: info: unpacking bedtools_2.12.0.orig.tar.bz2
+dpkg-source: info: unpacking bedtools_2.12.0-1.debian.tar.gz
+dpkg-source: info: applying gzstream.h.patch
Check disc space
────────────────
+Sufficient free space for build
dpkg-buildpackage
─────────────────
@@ -295,52 +208,55 @@ 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 2.11.0-1
+dpkg-buildpackage: source version 2.12.0-1
dpkg-buildpackage: source changed by Charles Plessy <plessy at debian.org>
- dpkg-source --before-build bedtools-2.11.0
+ dpkg-source --before-build bedtools-2.12.0
dpkg-buildpackage: host architecture amd64
fakeroot debian/rules clean
test -x debian/rules
dh_testroot
rm -f debian/stamp-makefile-build debian/stamp-makefile-install
-/usr/bin/make -C . CFLAGS="-g -O2 -g -Wall -O2" CXXFLAGS="-g -O2 -g -Wall -O2" CPPFLAGS="" LDFLAGS="" -k clean
-make[1]: Entering directory `/build/charles-bedtools_2.11.0-1-amd64-8j9J9l/bedtools-2.11.0'
+/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" CPPFLAGS="" LDFLAGS="" -k clean
+make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
Cleaning up.
-make[1]: Leaving directory `/build/charles-bedtools_2.11.0-1-amd64-8j9J9l/bedtools-2.11.0'
+make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
dh_clean
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/build/charles-bedtools_2.11.0-1-amd64-8j9J9l/bedtools-2.11.0'
+make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/build/charles-bedtools_2.11.0-1-amd64-8j9J9l/bedtools-2.11.0'
+make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
if [ -d "." ]; then \
- cd . && QUILT_PATCHES=/build/charles-bedtools_2.11.0-1-amd64-8j9J9l/bedtools-2.11.0/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
+ cd . && QUILT_PATCHES=/«BUILDDIR»/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null pop -a -R || test $? = 2 ; \
fi
-No patch removed
+Removing patch gzstream.h.patch
+Restoring src/utils/gzstream/gzstream.C
+
+No patches applied
rm -rf ./.pc
rm -f debian/stamp-patch*
- dpkg-source -b bedtools-2.11.0
-dpkg-source: info: using source format `3.0 (git)'
-dpkg-source: info: bundling: --all
-dpkg-source: info: building bedtools in bedtools_2.11.0-1.dsc
+ dpkg-source -b bedtools-2.12.0
+dpkg-source: info: using source format `3.0 (quilt)'
+dpkg-source: warning: patches have not been applied, applying them now (use --no-preparation to override)
+dpkg-source: info: applying gzstream.h.patch
+dpkg-source: info: building bedtools using existing ./bedtools_2.12.0.orig.tar.bz2
+dpkg-source: info: building bedtools in bedtools_2.12.0-1.debian.tar.gz
+dpkg-source: info: building bedtools in bedtools_2.12.0-1.dsc
debian/rules build
test -x debian/rules
mkdir -p "."
/usr/bin/make -f debian/rules reverse-config
-make[1]: Entering directory `/build/charles-bedtools_2.11.0-1-amd64-8j9J9l/bedtools-2.11.0'
+make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
make[1]: Nothing to be done for `reverse-config'.
-make[1]: Leaving directory `/build/charles-bedtools_2.11.0-1-amd64-8j9J9l/bedtools-2.11.0'
-cd . && QUILT_PATCHES=/build/charles-bedtools_2.11.0-1-amd64-8j9J9l/bedtools-2.11.0/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
-Applying patch gzstream.h.patch
-patching file src/utils/gzstream/gzstream.C
-
-Now at patch gzstream.h.patch
+make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
+cd . && QUILT_PATCHES=/«BUILDDIR»/bedtools-2.12.0/debian/patches quilt --quiltrc /dev/null push -a || test $? = 2
+File series fully applied, ends at patch gzstream.h.patch
touch debian/stamp-patched
/usr/bin/make -f debian/rules update-config
-make[1]: Entering directory `/build/charles-bedtools_2.11.0-1-amd64-8j9J9l/bedtools-2.11.0'
+make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
make[1]: Nothing to be done for `update-config'.
-make[1]: Leaving directory `/build/charles-bedtools_2.11.0-1-amd64-8j9J9l/bedtools-2.11.0'
-/usr/bin/make -C . CFLAGS="-g -O2 -g -Wall -O2" CXXFLAGS="-g -O2 -g -Wall -O2" CPPFLAGS="" LDFLAGS=""
-make[1]: Entering directory `/build/charles-bedtools_2.11.0-1-amd64-8j9J9l/bedtools-2.11.0'
+make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
+/usr/bin/make -C . CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" CPPFLAGS="" LDFLAGS=""
+make[1]: Entering directory `/«BUILDDIR»/bedtools-2.12.0'
[ -d obj ] || mkdir -p obj
[ -d bin ] || mkdir -p bin
Building BEDTools:
@@ -359,9 +275,11 @@ Building BEDTools:
- Building in src/utils/genomeFile
* compiling genomeFile.cpp
+genomeFile.cpp: In member function 'void GenomeFile::loadGenomeFileIntoMap()':
+genomeFile.cpp:51:26: warning: variable 'c2' set but not used [-Wunused-but-set-variable]
- Building in src/utils/gzstream
-g++ -g -O2 -g -Wall -O2 -c -o ../../../obj//gzstream.o gzstream.C -I.
+g++ -g -O2 -g -O2 -Wall -c -o ../../../obj//gzstream.o gzstream.C -I.
- Building in src/utils/fileType
* compiling fileType.cpp
@@ -378,18 +296,28 @@ g++ -g -O2 -g -Wall -O2 -c -o ../../../obj//gzstream.o gzstream.C -I.
* compiling BGZF.cpp
* compiling BamAncillary.cpp
* compiling BamIndex.cpp
+BamIndex.cpp: In member function 'virtual bool BamTools::BamDefaultIndex::Load(const string&)':
+BamIndex.cpp:405:12: warning: variable 'elementsRead' set but not used [-Wunused-but-set-variable]
+BamIndex.cpp: In member function 'virtual bool BamTools::BamToolsIndex::Load(const string&)':
+BamIndex.cpp:818:12: warning: variable 'elementsRead' set but not used [-Wunused-but-set-variable]
- Building in src/annotateBed
* compiling annotateMain.cpp
+annotateMain.cpp: In function 'int main(int, char**)':
+annotateMain.cpp:38:10: warning: variable 'haveTitles' set but not used [-Wunused-but-set-variable]
* compiling annotateBed.cpp
* linking annotateBed
- Building in src/bamToBed
* compiling bamToBed.cpp
+bamToBed.cpp: In function 'int main(int, char**)':
+bamToBed.cpp:70:10: warning: variable 'useAlignmentScore' set but not used [-Wunused-but-set-variable]
* linking bamToBed
- Building in src/bedToBam
* compiling bedToBam.cpp
+bedToBam.cpp: In function 'int main(int, char**)':
+bedToBam.cpp:59:10: warning: variable 'haveMapQual' set but not used [-Wunused-but-set-variable]
* linking bedToBam
- Building in src/bedToIgv
@@ -415,11 +343,27 @@ g++ -g -O2 -g -Wall -O2 -c -o ../../../obj//gzstream.o gzstream.C -I.
* compiling coverageBed.cpp
* linking coverageBed
+- Building in src/cuffToTrans
+ * compiling cuffToTransMain.cpp
+ * compiling cuffToTrans.cpp
+ * compiling Fasta.cpp
+Fasta.cpp: In member function 'void FastaIndexEntry::clear()':
+Fasta.cpp:28:14: warning: converting to non-pointer type 'int' from NULL [-Wconversion-null]
+Fasta.cpp:31:17: warning: converting to non-pointer type 'int' from NULL [-Wconversion-null]
+Fasta.cpp:32:16: warning: converting to non-pointer type 'int' from NULL [-Wconversion-null]
+ * compiling split.cpp
+ * linking cuffToTrans
+
- Building in src/fastaFromBed
* compiling fastaFromBedMain.cpp
* compiling fastaFromBed.cpp
* linking fastaFromBed
+- Building in src/flankBed
+ * compiling flankBedMain.cpp
+ * compiling flankBed.cpp
+ * linking flankBed
+
- Building in src/fjoin
* compiling fjoinMain.cpp
* compiling fjoin.cpp
@@ -447,21 +391,36 @@ g++ -g -O2 -g -Wall -O2 -c -o ../../../obj//gzstream.o gzstream.C -I.
- Building in src/mergeBed
* compiling mergeMain.cpp
+mergeMain.cpp: In function 'int main(int, char**)':
+mergeMain.cpp:40:10: warning: variable 'haveMaxDistance' set but not used [-Wunused-but-set-variable]
* compiling mergeBed.cpp
* linking mergeBed
- Building in src/overlap
* compiling overlap.cpp
+overlap.cpp: In function 'int main(int, char**)':
+overlap.cpp:44:10: warning: variable 'haveColumns' set but not used [-Wunused-but-set-variable]
* linking overlap
- Building in src/pairToBed
* compiling pairToBedMain.cpp
+pairToBedMain.cpp: In function 'int main(int, char**)':
+pairToBedMain.cpp:43:10: warning: variable 'haveFraction' set but not used [-Wunused-but-set-variable]
* compiling pairToBed.cpp
+pairToBed.cpp: In member function 'void BedIntersectPE::FindSpanningOverlaps(const BEDPE&, std::vector<BED>&, const string&)':
+pairToBed.cpp:253:12: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
+pairToBed.cpp: In member function 'bool BedIntersectPE::FindOneOrMoreSpanningOverlaps(const BEDPE&, const string&)':
+pairToBed.cpp:305:9: warning: variable 'spanLength' set but not used [-Wunused-but-set-variable]
* linking pairToBed
- Building in src/pairToPair
* compiling pairToPairMain.cpp
+pairToPairMain.cpp: In function 'int main(int, char**)':
+pairToPairMain.cpp:44:10: warning: variable 'haveFraction' set but not used [-Wunused-but-set-variable]
* compiling pairToPair.cpp
+pairToPair.cpp: In member function 'void PairToPair::FindOverlaps(const BEDPE&)':
+pairToPair.cpp:112:14: warning: variable 'found1' set but not used [-Wunused-but-set-variable]
+pairToPair.cpp:113:14: warning: variable 'found2' set but not used [-Wunused-but-set-variable]
* linking pairToPair
- Building in src/shuffleBed
@@ -481,12 +440,18 @@ g++ -g -O2 -g -Wall -O2 -c -o ../../../obj//gzstream.o gzstream.C -I.
- Building in src/subtractBed
* compiling subtractMain.cpp
+subtractMain.cpp: In function 'int main(int, char**)':
+subtractMain.cpp:41:10: warning: variable 'haveFraction' set but not used [-Wunused-but-set-variable]
* compiling subtractBed.cpp
* linking subtractBed
- Building in src/unionBedGraphs
* compiling unionBedGraphs.cpp
* compiling unionBedGraphsMain.cpp
+unionBedGraphsMain.cpp: In function 'int main(int, char**)':
+unionBedGraphsMain.cpp:46:10: warning: variable 'haveFiles' set but not used [-Wunused-but-set-variable]
+unionBedGraphsMain.cpp:48:10: warning: variable 'haveGenome' set but not used [-Wunused-but-set-variable]
+unionBedGraphsMain.cpp:49:10: warning: variable 'haveFiller' set but not used [-Wunused-but-set-variable]
* linking unionBedGraphs
- Building in src/windowBed
@@ -494,7 +459,7 @@ g++ -g -O2 -g -Wall -O2 -c -o ../../../obj//gzstream.o gzstream.C -I.
* compiling windowBed.cpp
* linking windowBed
-make[1]: Leaving directory `/build/charles-bedtools_2.11.0-1-amd64-8j9J9l/bedtools-2.11.0'
+make[1]: Leaving directory `/«BUILDDIR»/bedtools-2.12.0'
touch debian/stamp-makefile-build
DEB_MAKE_CHECK_TARGET unset, not running checks
fakeroot debian/rules binary
@@ -520,12 +485,14 @@ dh_installcatalogs -pbedtools
dh_installpam -pbedtools
dh_installlogrotate -pbedtools
dh_installlogcheck -pbedtools
-dh_installchangelogs -pbedtools
+dh_installchangelogs -pbedtools RELEASE_HISTORY
dh_installudev -pbedtools
dh_lintian -pbedtools
+dh_bugfiles -pbedtools
dh_install -pbedtools
dh_link -pbedtools
dh_installmime -pbedtools
+dh_installgsettings -pbedtools
dh_strip -pbedtools
dh_compress -pbedtools
dh_fixperms -pbedtools
@@ -536,61 +503,77 @@ dh_shlibdeps -pbedtools
dh_gencontrol -pbedtools
dh_md5sums -pbedtools
dh_builddeb -pbedtools
-dpkg-deb: building package `bedtools' in `../bedtools_2.11.0-1_amd64.deb'.
- dpkg-genchanges >../bedtools_2.11.0-1_amd64.changes
+dpkg-deb: building package `bedtools' in `../bedtools_2.12.0-1_amd64.deb'.
+ dpkg-genchanges >../bedtools_2.12.0-1_amd64.changes
dpkg-genchanges: including full source code in upload
- dpkg-source --after-build bedtools-2.11.0
-dpkg-buildpackage: full upload; Debian-native package (full source is included)
+ dpkg-source --after-build bedtools-2.12.0
+dpkg-buildpackage: full upload (original source is included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110125-2147
+Build finished at 20110608-1722
+
+Finished
+────────
+
+I: Built successfully
+
+┌──────────────────────────────────────────────────────────────────────────────┐
+│ Changes │
+└──────────────────────────────────────────────────────────────────────────────┘
+
+
+bedtools_2.12.0-1_amd64.changes:
+────────────────────────────────
-bedtools_2.11.0-1_amd64.changes:
Format: 1.8
-Date: Tue, 25 Jan 2011 21:00:40 +0900
+Date: Wed, 08 Jun 2011 17:01:19 +0900
Source: bedtools
Binary: bedtools
Architecture: source amd64
-Version: 2.11.0-1
+Version: 2.12.0-1
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
Changed-By: Charles Plessy <plessy at debian.org>
Description:
bedtools - suite of utilities for comparing genomic features
+Closes: 629597
Changes:
- bedtools (2.11.0-1) UNRELEASED; urgency=low
+ bedtools (2.12.0-1) unstable; urgency=low
.
- * Initial release (Closes: #nnnn) <nnnn is the bug number of your ITP>
+ * Initial release (Closes: #629597)
Checksums-Sha1:
- 9f8f90a02d13fb27d4d954f4189434a87d1362c3 770 bedtools_2.11.0-1.dsc
- f2151dd8d5850c95600d2266ebc520268ee9a88d 1154314 bedtools_2.11.0-1.git
- 4025f03115d0f611cd3b010f594cc8a6cf0257e8 1297906 bedtools_2.11.0-1_amd64.deb
+ a9095eb961b38ca925d1f55e19f125f442acdbb6 1038 bedtools_2.12.0-1.dsc
+ 2ba712dc9a2642ae2172402983811855309f7ae1 790069 bedtools_2.12.0.orig.tar.bz2
+ e8fcc348a7548dd0aea5c53668420f8e91b089cb 4198 bedtools_2.12.0-1.debian.tar.gz
+ 04880b3f2b1d8f0b640d65431a974f477b55dd28 1614122 bedtools_2.12.0-1_amd64.deb
Checksums-Sha256:
- 0bf0b61a2bc9fbc4971d0fb1dcf72632c6255bd0ec74a2ff84b162499b19b7fd 770 bedtools_2.11.0-1.dsc
- 0d80f559a6236cb3d0624a1db1e3cacfc955d4a3bd7f263018988aa6a2ca30c8 1154314 bedtools_2.11.0-1.git
- 91a185800f0560bc9a3d063ca2d62479253d9e952ec7ec5d03d9fe15e7e8e2f6 1297906 bedtools_2.11.0-1_amd64.deb
+ 173926b694c984031b7c0a0f1230225aaa4440c59571c31e1e8589490bc607ba 1038 bedtools_2.12.0-1.dsc
+ 9b57249d8891f2da2c6adc55b3088b3f5b10c35b01a106bbd129824c51290a98 790069 bedtools_2.12.0.orig.tar.bz2
+ 82758e0c528cf60f44e4f4488a03b1aa4d0b65dbedc06216724152d460230c72 4198 bedtools_2.12.0-1.debian.tar.gz
+ 5f7d3e1b741e860549fca03274bbe0036c64d94eb5032b941d42b7c56bd3966e 1614122 bedtools_2.12.0-1_amd64.deb
Files:
- 77c021e3e9e318141aeb0acb3e300bda 770 science optional bedtools_2.11.0-1.dsc
- 9e0da85be20d7546a212ce215924b29d 1154314 science optional bedtools_2.11.0-1.git
- 4fddae27715ddd35617f7ddd06ffccef 1297906 science optional bedtools_2.11.0-1_amd64.deb
+ 1c725960544ec5f66c442b7db17331c3 1038 science optional bedtools_2.12.0-1.dsc
+ cf6c7cd9d457605c7602005b9037abfd 790069 science optional bedtools_2.12.0.orig.tar.bz2
+ 578d850a5a0439b34a4a407897b02dbb 4198 science optional bedtools_2.12.0-1.debian.tar.gz
+ 3de472bdc6e0e95d969ac4b0bfc89482 1614122 science optional bedtools_2.12.0-1_amd64.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-bedtools_2.11.0-1_amd64.deb
+bedtools_2.12.0-1_amd64.deb
───────────────────────────
new debian package, version 2.0.
- size 1297906 bytes: control archive= 1568 bytes.
+ size 1614122 bytes: control archive= 1651 bytes.
763 bytes, 15 lines control
- 1803 bytes, 31 lines md5sums
+ 1978 bytes, 34 lines md5sums
Package: bedtools
- Version: 2.11.0-1
+ Version: 2.12.0-1
Architecture: amd64
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 3072
+ Installed-Size: 3720
Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libstdc++6 (>= 4.4.0), zlib1g (>= 1:1.1.4)
Section: science
Priority: optional
@@ -602,59 +585,60 @@ bedtools_2.11.0-1_amd64.deb
BEDTools, one can develop sophisticated pipelines that answer complicated
research questions by streaming several BEDTools together.
-drwxr-xr-x root/root 0 2011-01-25 21:47 ./
-drwxr-xr-x root/root 0 2011-01-25 21:47 ./usr/
-drwxr-xr-x root/root 0 2011-01-25 21:47 ./usr/bin/
--rwxr-xr-x root/root 179824 2011-01-25 21:47 ./usr/bin/intersectBed
--rwxr-xr-x root/root 69024 2011-01-25 21:47 ./usr/bin/unionBedGraphs
--rwxr-xr-x root/root 101752 2011-01-25 21:47 ./usr/bin/complementBed
--rwxr-xr-x root/root 101760 2011-01-25 21:47 ./usr/bin/fastaFromBed
--rwxr-xr-x root/root 102352 2011-01-25 21:47 ./usr/bin/closestBed
--rwxr-xr-x root/root 98368 2011-01-25 21:47 ./usr/bin/linksBed
--rwxr-xr-x root/root 115200 2011-01-25 21:47 ./usr/bin/shuffleBed
--rwxr-xr-x root/root 122424 2011-01-25 21:47 ./usr/bin/bedToBam
--rwxr-xr-x root/root 89432 2011-01-25 21:47 ./usr/bin/bed12ToBed6
--rwxr-xr-x root/root 105832 2011-01-25 21:47 ./usr/bin/sortBed
--rwxr-xr-x root/root 97640 2011-01-25 21:47 ./usr/bin/mergeBed
--rwxr-xr-x root/root 126344 2011-01-25 21:47 ./usr/bin/pairToPair
--rwxr-xr-x root/root 167624 2011-01-25 21:47 ./usr/bin/windowBed
--rwxr-xr-x root/root 179824 2011-01-25 21:47 ./usr/bin/fjoin
--rwxr-xr-x root/root 163416 2011-01-25 21:47 ./usr/bin/coverageBed
--rwxr-xr-x root/root 101768 2011-01-25 21:47 ./usr/bin/maskFastaFromBed
--rwxr-xr-x root/root 196248 2011-01-25 21:47 ./usr/bin/pairToBed
--rwxr-xr-x root/root 93528 2011-01-25 21:47 ./usr/bin/overlap
--rwxr-xr-x root/root 163432 2011-01-25 21:47 ./usr/bin/annotateBed
--rwxr-xr-x root/root 97648 2011-01-25 21:47 ./usr/bin/subtractBed
--rwxr-xr-x root/root 101760 2011-01-25 21:47 ./usr/bin/slopBed
--rwxr-xr-x root/root 109944 2011-01-25 21:47 ./usr/bin/bedToIgv
--rwxr-xr-x root/root 97784 2011-01-25 21:47 ./usr/bin/bamToBed
--rwxr-xr-x root/root 179832 2011-01-25 21:47 ./usr/bin/genomeCoverageBed
-drwxr-xr-x root/root 0 2011-01-25 21:47 ./usr/share/
-drwxr-xr-x root/root 0 2011-01-25 21:47 ./usr/share/bedtools/
-drwxr-xr-x root/root 0 2011-01-25 21:46 ./usr/share/bedtools/genomes/
--rwxr-xr-x root/root 856 2011-01-25 21:46 ./usr/share/bedtools/genomes/human.hg18.genome
--rwxr-xr-x root/root 565 2011-01-25 21:46 ./usr/share/bedtools/genomes/mouse.mm8.genome
--rwxr-xr-x root/root 1972 2011-01-25 21:46 ./usr/share/bedtools/genomes/human.hg19.genome
--rwxr-xr-x root/root 585 2011-01-25 21:46 ./usr/share/bedtools/genomes/mouse.mm9.genome
-drwxr-xr-x root/root 0 2011-01-25 21:47 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-01-25 21:47 ./usr/share/doc/bedtools/
--rw-r--r-- root/root 181 2011-01-25 21:46 ./usr/share/doc/bedtools/changelog.Debian.gz
--rw-r--r-- root/root 1586 2011-01-25 21:46 ./usr/share/doc/bedtools/README.rst.gz
--rw-r--r-- root/root 3075 2011-01-25 21:46 ./usr/share/doc/bedtools/copyright
+drwxr-xr-x root/root 0 2011-06-08 17:22 ./
+drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/
+drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/bin/
+-rwxr-xr-x root/root 126456 2011-06-08 17:22 ./usr/bin/bedToIgv
+-rwxr-xr-x root/root 138920 2011-06-08 17:22 ./usr/bin/bedToBam
+-rwxr-xr-x root/root 69112 2011-06-08 17:22 ./usr/bin/unionBedGraphs
+-rwxr-xr-x root/root 175808 2011-06-08 17:22 ./usr/bin/coverageBed
+-rwxr-xr-x root/root 123024 2011-06-08 17:22 ./usr/bin/bamToBed
+-rwxr-xr-x root/root 118496 2011-06-08 17:22 ./usr/bin/subtractBed
+-rwxr-xr-x root/root 114136 2011-06-08 17:22 ./usr/bin/mergeBed
+-rwxr-xr-x root/root 114280 2011-06-08 17:22 ./usr/bin/maskFastaFromBed
+-rwxr-xr-x root/root 257792 2011-06-08 17:22 ./usr/bin/pairToBed
+-rwxr-xr-x root/root 196320 2011-06-08 17:22 ./usr/bin/intersectBed
+-rwxr-xr-x root/root 110752 2011-06-08 17:22 ./usr/bin/complementBed
+-rwxr-xr-x root/root 200416 2011-06-08 17:22 ./usr/bin/fjoin
+-rwxr-xr-x root/root 147088 2011-06-08 17:22 ./usr/bin/fastaFromBed
+-rwxr-xr-x root/root 171728 2011-06-08 17:22 ./usr/bin/annotateBed
+-rwxr-xr-x root/root 183800 2011-06-08 17:22 ./usr/bin/pairToPair
+-rwxr-xr-x root/root 114160 2011-06-08 17:22 ./usr/bin/linksBed
+-rwxr-xr-x root/root 118224 2011-06-08 17:22 ./usr/bin/flankBed
+-rwxr-xr-x root/root 150976 2011-06-08 17:22 ./usr/bin/sortBed
+-rwxr-xr-x root/root 110032 2011-06-08 17:22 ./usr/bin/slopBed
+-rwxr-xr-x root/root 188128 2011-06-08 17:22 ./usr/bin/genomeCoverageBed
+-rwxr-xr-x root/root 175800 2011-06-08 17:22 ./usr/bin/windowBed
+-rwxr-xr-x root/root 101832 2011-06-08 17:22 ./usr/bin/bed12ToBed6
+-rwxr-xr-x root/root 126424 2011-06-08 17:22 ./usr/bin/closestBed
+-rwxr-xr-x root/root 93640 2011-06-08 17:22 ./usr/bin/overlap
+-rwxr-xr-x root/root 147088 2011-06-08 17:22 ./usr/bin/cuffToTrans
+-rwxr-xr-x root/root 134672 2011-06-08 17:22 ./usr/bin/shuffleBed
+drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/share/
+drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/share/bedtools/
+drwxr-xr-x root/root 0 2011-06-08 17:21 ./usr/share/bedtools/genomes/
+-rwxr-xr-x root/root 585 2011-04-04 10:30 ./usr/share/bedtools/genomes/mouse.mm9.genome
+-rwxr-xr-x root/root 856 2011-04-04 10:30 ./usr/share/bedtools/genomes/human.hg18.genome
+-rwxr-xr-x root/root 565 2011-04-04 10:30 ./usr/share/bedtools/genomes/mouse.mm8.genome
+-rwxr-xr-x root/root 1972 2011-04-04 10:30 ./usr/share/bedtools/genomes/human.hg19.genome
+drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/share/doc/
+drwxr-xr-x root/root 0 2011-06-08 17:22 ./usr/share/doc/bedtools/
+-rw-r--r-- root/root 1586 2011-04-04 10:30 ./usr/share/doc/bedtools/README.rst.gz
+-rw-r--r-- root/root 8577 2011-04-04 10:30 ./usr/share/doc/bedtools/changelog.gz
+-rw-r--r-- root/root 4611 2011-06-08 16:59 ./usr/share/doc/bedtools/copyright
+-rw-r--r-- root/root 156 2011-06-08 17:01 ./usr/share/doc/bedtools/changelog.Debian.gz
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Finished │
+│ Post Build │
└──────────────────────────────────────────────────────────────────────────────┘
-Built successfully
-────────────────────────────────────────────────────────────────────────────────
┌──────────────────────────────────────────────────────────────────────────────┐
-│ Post Build │
+│ Cleanup │
└──────────────────────────────────────────────────────────────────────────────┘
-Purging /var/lib/schroot/mount/unstable-amd64-sbuild-cef57196-ca64-4b6f-90a1-f5309cced28d/build/charles-bedtools_2.11.0-1-amd64-8j9J9l
+Purging /«CHROOT»/«BUILDDIR»
Reading package lists...
Building dependency tree...
Reading state information...
@@ -663,36 +647,21 @@ Reading package lists...
Building dependency tree...
Reading state information...
The following packages will be REMOVED:
- bsdmainutils* ca-certificates* cdbs* debhelper* diffstat* file* gettext*
- gettext-base* git* groff-base* html2text* intltool-debian* libcroco3*
- libcurl3-gnutls* liberror-perl* libexpat1* libgcrypt11* libglib2.0-0*
- libgnutls26* libgpg-error0* libgssapi-krb5-2* libidn11* libk5crypto3*
- libkeyutils1* libkrb5-3* libkrb5support0* libldap-2.4-2* libmagic1*
- libpcre3* libsasl2-2* libssl0.9.8* libtasn1-3* libunistring0* libxml2*
- man-db* openssl* po-debconf* quilt* zlib1g-dev*
-0 upgraded, 0 newly installed, 39 to remove and 0 not upgraded.
-After this operation, 52.5 MB disk space will be freed.
-(Reading database ... 12789 files and directories currently installed.)
+ bsdmainutils* cdbs* debhelper* diffstat* file* gettext* gettext-base*
+ groff-base* html2text* intltool-debian* libcroco3* libglib2.0-0* libmagic1*
+ libpcre3* libpipeline1* libunistring0* libxml2* man-db* po-debconf* quilt*
+ sbuild-build-depends-bedtools-dummy* sbuild-build-depends-core-dummy*
+ zlib1g-dev*
+0 upgraded, 0 newly installed, 23 to remove and 0 not upgraded.
+After this operation, 28.8 MB disk space will be freed.
+(Reading database ... 12285 files and directories currently installed.)
+Removing sbuild-build-depends-bedtools-dummy ...
Removing cdbs ...
Removing debhelper ...
Removing man-db ...
Purging configuration files for man-db ...
-debconf: unable to initialize frontend: Dialog
-debconf: (TERM is not set, so the dialog frontend is not usable.)
-debconf: falling back to frontend: Readline
Removing bsdmainutils ...
Purging configuration files for bsdmainutils ...
-Removing git ...
-Purging configuration files for git ...
-Removing libcurl3-gnutls ...
-Purging configuration files for libcurl3-gnutls ...
-Removing ca-certificates ...
-Removing dangling symlinks from /etc/ssl/certs... done.
-Purging configuration files for ca-certificates ...
-debconf: unable to initialize frontend: Dialog
-debconf: (TERM is not set, so the dialog frontend is not usable.)
-debconf: falling back to frontend: Readline
-Removing dangling symlinks from /etc/ssl/certs... done.
Removing quilt ...
Purging configuration files for quilt ...
Removing diffstat ...
@@ -707,50 +676,19 @@ Removing html2text ...
Purging configuration files for html2text ...
Removing libcroco3 ...
Purging configuration files for libcroco3 ...
-Removing liberror-perl ...
-Removing libexpat1 ...
-Purging configuration files for libexpat1 ...
-Removing libldap-2.4-2 ...
-Purging configuration files for libldap-2.4-2 ...
-Removing libgnutls26 ...
-Purging configuration files for libgnutls26 ...
-Removing libgcrypt11 ...
-Purging configuration files for libgcrypt11 ...
Removing libglib2.0-0 ...
Purging configuration files for libglib2.0-0 ...
-Removing libgpg-error0 ...
-Purging configuration files for libgpg-error0 ...
-Removing libgssapi-krb5-2 ...
-Purging configuration files for libgssapi-krb5-2 ...
-Removing libidn11 ...
-Purging configuration files for libidn11 ...
-Removing libkrb5-3 ...
-Purging configuration files for libkrb5-3 ...
-Removing libk5crypto3 ...
-Purging configuration files for libk5crypto3 ...
-Removing libkrb5support0 ...
-Purging configuration files for libkrb5support0 ...
-Removing libkeyutils1 ...
-Purging configuration files for libkeyutils1 ...
Removing libmagic1 ...
Purging configuration files for libmagic1 ...
Removing libpcre3 ...
Purging configuration files for libpcre3 ...
-Removing libsasl2-2 ...
-Purging configuration files for libsasl2-2 ...
-Removing openssl ...
-Purging configuration files for openssl ...
-Removing libssl0.9.8 ...
-Purging configuration files for libssl0.9.8 ...
-debconf: unable to initialize frontend: Dialog
-debconf: (TERM is not set, so the dialog frontend is not usable.)
-debconf: falling back to frontend: Readline
-Removing libtasn1-3 ...
-Purging configuration files for libtasn1-3 ...
+Removing libpipeline1 ...
+Purging configuration files for libpipeline1 ...
Removing libunistring0 ...
Purging configuration files for libunistring0 ...
Removing libxml2 ...
Purging configuration files for libxml2 ...
+Removing sbuild-build-depends-core-dummy ...
Removing zlib1g-dev ...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -758,17 +696,17 @@ Removing zlib1g-dev ...
└──────────────────────────────────────────────────────────────────────────────┘
Architecture: amd64
-Build-Space: 65772
-Build-Time: 61
+Build-Space: 103228
+Build-Time: 67
Distribution: unstable
-Install-Time: 9
-Job: bedtools_2.11.0-1.dsc
+Install-Time: 27
+Job: bedtools_2.12.0-1.dsc
Package: bedtools
-Package-Time: 79
-Source-Version: 2.11.0-1
-Space: 65772
+Package-Time: 98
+Source-Version: 2.12.0-1
+Space: 103228
Status: successful
-Version: 2.11.0-1
+Version: 2.12.0-1
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110125-2147
-Build needed 00:01:19, 65772k disc space
+Finished at 20110608-1722
+Build needed 00:01:38, 103228k disc space
diff --git a/dsc b/dsc
index 40a06ef..922a0f9 100644
--- a/dsc
+++ b/dsc
@@ -1,19 +1,43 @@
-Format: 3.0 (git)
+-----BEGIN PGP SIGNED MESSAGE-----
+Hash: SHA256
+
+Format: 3.0 (quilt)
Source: bedtools
Binary: bedtools
Architecture: any
-Version: 2.11.0-1
+Version: 2.12.0-1
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
Uploaders: Charles Plessy <plessy at debian.org>
Dm-Upload-Allowed: yes
Homepage: http://code.google.com/p/bedtools/
-Standards-Version: 3.9.1
+Standards-Version: 3.9.2
Vcs-Browser: http://git.debian.org/?p=debian-med/bedtools.git
Vcs-Git: git://git.debian.org/git/debian-med/bedtools.git
-Build-Depends: cdbs, debhelper (>= 8), git, quilt, zlib1g-dev
+Build-Depends: cdbs, debhelper (>= 8), quilt, zlib1g-dev
Checksums-Sha1:
- f2151dd8d5850c95600d2266ebc520268ee9a88d 1154314 bedtools_2.11.0-1.git
+ 2ba712dc9a2642ae2172402983811855309f7ae1 790069 bedtools_2.12.0.orig.tar.bz2
+ e8fcc348a7548dd0aea5c53668420f8e91b089cb 4198 bedtools_2.12.0-1.debian.tar.gz
Checksums-Sha256:
- 0d80f559a6236cb3d0624a1db1e3cacfc955d4a3bd7f263018988aa6a2ca30c8 1154314 bedtools_2.11.0-1.git
+ 9b57249d8891f2da2c6adc55b3088b3f5b10c35b01a106bbd129824c51290a98 790069 bedtools_2.12.0.orig.tar.bz2
+ 82758e0c528cf60f44e4f4488a03b1aa4d0b65dbedc06216724152d460230c72 4198 bedtools_2.12.0-1.debian.tar.gz
Files:
- 9e0da85be20d7546a212ce215924b29d 1154314 bedtools_2.11.0-1.git
+ cf6c7cd9d457605c7602005b9037abfd 790069 bedtools_2.12.0.orig.tar.bz2
+ 578d850a5a0439b34a4a407897b02dbb 4198 bedtools_2.12.0-1.debian.tar.gz
+
+-----BEGIN PGP SIGNATURE-----
+Version: GnuPG v1.4.10 (GNU/Linux)
+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+=bXcc
+-----END PGP SIGNATURE-----
--
Suite of utilities for comparing genomic features.
More information about the debian-med-commit
mailing list