[med-svn] [htslib] 01/01: htslib (1.2.1-1) unstable; urgency=medium
Charles Plessy
plessy at moszumanska.debian.org
Mon May 25 04:53:56 UTC 2015
This is an automated email from the git hooks/post-receive script.
plessy pushed a commit to branch debian/build/unstable/amd64
in repository htslib.
commit abda3ca80c98c7300bca0234539bd599eaf5ffb5
Author: Charles Plessy <plessy at riken.jp>
Date: Mon May 25 13:52:42 2015 +0900
htslib (1.2.1-1) unstable; urgency=medium
0662716 Merge tag '1.2.1' into debian/unstable
084f27d Install NEWS as upstream changelog.
316fb96 Override a Lintian false positive.
3363679 Clean test directory.
69bf167 Corrected a typo in tabix description.
---
log | 1594 ++++++++++++++++++++++++++++++++++---------------------------------
1 file changed, 798 insertions(+), 796 deletions(-)
diff --git a/log b/log
index 34adffc..e71f789 100644
--- a/log
+++ b/log
@@ -1,30 +1,33 @@
-sbuild (Debian sbuild) 0.64.1 (13 Oct 2013) on aqwa.igloo
+sbuild (Debian sbuild) 0.65.2 (24 Mar 2015) on anx191
╔══════════════════════════════════════════════════════════════════════════════╗
-║ htslib 1.1-1 (amd64) 24 sept. 2014 21:27 ║
+║ htslib 1.2.1-1 (amd64) 25 May 2015 13:42 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: htslib
-Version: 1.1-1
-Source Version: 1.1-1
+Version: 1.2.1-1
+Source Version: 1.2.1-1
Distribution: unstable
Machine Architecture: amd64
Host Architecture: amd64
Build Architecture: amd64
-I: NOTICE: Log filtering will replace 'build/htslib-5gwd1t/htslib-1.1' with '«PKGBUILDDIR»'
-I: NOTICE: Log filtering will replace 'build/htslib-5gwd1t' with '«BUILDDIR»'
-I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/unstable-amd64-sbuild-01d18392-263d-4179-86e4-09a8ce3256d9' with '«CHROOT»'
+I: NOTICE: Log filtering will replace 'build/htslib-PXPJQn/htslib-1.2.1' with '«PKGBUILDDIR»'
+I: NOTICE: Log filtering will replace 'build/htslib-PXPJQn' with '«BUILDDIR»'
+I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/sid-amd64-sbuild-e441b29f-5c95-49f1-83ea-c7c77928225a' with '«CHROOT»'
┌──────────────────────────────────────────────────────────────────────────────┐
│ Update chroot │
└──────────────────────────────────────────────────────────────────────────────┘
-Hit http://ftp.jp.debian.org unstable InRelease
-Get:1 http://ftp.jp.debian.org unstable/main Sources/DiffIndex [7876 B]
-Get:2 http://ftp.jp.debian.org unstable/main amd64 Packages/DiffIndex [7876 B]
-Get:3 http://ftp.jp.debian.org unstable/main Translation-en/DiffIndex [7876 B]
-Fetched 23.6 kB in 1s (13.3 kB/s)
+Get:1 http://ftp.jp.debian.org sid InRelease [204 kB]
+Get:2 http://ftp.jp.debian.org sid/main amd64 Packages/DiffIndex [7876 B]
+Get:3 http://ftp.jp.debian.org sid/main Translation-en/DiffIndex [7876 B]
+Get:4 http://ftp.jp.debian.org sid/main amd64 2015-05-25-0259.23.pdiff [7068 B]
+Get:5 http://ftp.jp.debian.org sid/main amd64 2015-05-25-0259.23.pdiff [7068 B]
+Get:6 http://ftp.jp.debian.org sid/main 2015-05-25-0259.23.pdiff [2119 B]
+Get:7 http://ftp.jp.debian.org sid/main 2015-05-25-0259.23.pdiff [2119 B]
+Fetched 229 kB in 2s (97.4 kB/s)
Reading package lists...
Reading package lists...
Building dependency tree...
@@ -39,15 +42,24 @@ Reading state information...
Local sources
─────────────
-htslib_1.1-1.dsc exists in .; copying to chroot
+htslib_1.2.1-1.dsc exists in .; copying to chroot
-Check arch
-──────────
+Check architectures
+───────────────────
+
+
+Check dependencies
+──────────────────
Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
-dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/«BUILDDIR»/resolver-qqvBHY/apt_archive/sbuild-build-depends-core-dummy.deb'.
+dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/«BUILDDIR»/resolver-rIrHjg/apt_archive/sbuild-build-depends-core-dummy.deb'.
OK
+Ign file: ./ InRelease
+Get:1 file: ./ Release.gpg [299 B]
+Get:2 file: ./ Release [2119 B]
+Ign file: ./ Translation-en
+Reading package lists...
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -58,21 +70,17 @@ Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
-The following NEW packages will be installed:
- sbuild-build-depends-core-dummy
-debconf: delaying package configuration, since apt-utils is not installed
-0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded.
-Need to get 0 B/822 B of archives.
-After this operation, 0 B of additional disk space will be used.
-Selecting previously unselected package sbuild-build-depends-core-dummy.
-(Reading database ... 11169 files and directories currently installed.)
-Preparing to unpack .../sbuild-build-depends-core-dummy.deb ...
-Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
-Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
+sbuild-build-depends-core-dummy is already the newest version.
+0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
Merged Build-Depends: base-files, base-passwd, bash, bsdutils, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, init, libc-bin, login, mount, ncurses-base, ncurses-bin, perl-base, sed, sysvinit-utils, tar, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.9.1), g++ (>= 4:4.9.1), make, dpkg-dev (>= 1.17.11), debhelper (>= 9), dh-exec, zlib1g-dev
Filtered Build-Depends: base-files, base-passwd, bash, bsdutils, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, init, libc-bin, login, mount, ncurses-base, ncurses-bin, perl-base, sed, sysvinit-utils, tar, util-linux, libc6-dev, gcc (>= 4:4.9.1), g++ (>= 4:4.9.1), make, dpkg-dev (>= 1.17.11), debhelper (>= 9), dh-exec, zlib1g-dev
-dpkg-deb: building package `sbuild-build-depends-htslib-dummy' in `/«BUILDDIR»/resolver-NVoury/apt_archive/sbuild-build-depends-htslib-dummy.deb'.
+dpkg-deb: building package 'sbuild-build-depends-htslib-dummy' in '/«BUILDDIR»/resolver-VUOQtT/apt_archive/sbuild-build-depends-htslib-dummy.deb'.
OK
+Ign file: ./ InRelease
+Get:1 file: ./ Release.gpg [299 B]
+Get:2 file: ./ Release [2119 B]
+Ign file: ./ Translation-en
+Reading package lists...
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -84,122 +92,136 @@ Reading package lists...
Building dependency tree...
Reading state information...
The following extra packages will be installed:
- bsdmainutils debhelper dh-exec file gettext gettext-base groff-base
- intltool-debian libasprintf0c2 libcroco3 libffi6 libglib2.0-0 libmagic1
+ debhelper dh-exec file gettext gettext-base groff-base intltool-debian
+ libasprintf0c2 libcroco3 libffi6 libglib2.0-0 libicu52 libmagic1
libpipeline1 libunistring0 libxml2 man-db po-debconf zlib1g-dev
Suggested packages:
- wamerican wordlist whois vacation dh-make gettext-doc groff less www-browser
- libmail-box-perl
+ dh-make gettext-doc groff less www-browser libmail-box-perl
Recommended packages:
curl wget lynx-cur autopoint libasprintf-dev libgettextpo-dev
libglib2.0-data shared-mime-info xdg-user-dirs xml-core
libmail-sendmail-perl
The following NEW packages will be installed:
- bsdmainutils debhelper dh-exec file gettext gettext-base groff-base
- intltool-debian libasprintf0c2 libcroco3 libffi6 libglib2.0-0 libmagic1
+ debhelper dh-exec file gettext gettext-base groff-base intltool-debian
+ libasprintf0c2 libcroco3 libffi6 libglib2.0-0 libicu52 libmagic1
libpipeline1 libunistring0 libxml2 man-db po-debconf
sbuild-build-depends-htslib-dummy zlib1g-dev
0 upgraded, 20 newly installed, 0 to remove and 0 not upgraded.
-Need to get 3484 kB/9117 kB of archives.
-After this operation, 27.1 MB of additional disk space will be used.
-Get:1 http://ftp.jp.debian.org/debian/ unstable/main man-db amd64 2.7.0.1-1 [999 kB]
-Get:2 http://ftp.jp.debian.org/debian/ unstable/main libglib2.0-0 amd64 2.42.0-1 [2485 kB]
+Need to get 15.9 MB/15.9 MB of archives.
+After this operation, 55.9 MB of additional disk space will be used.
+Get:1 http://ftp.jp.debian.org/debian/ sid/main libpipeline1 amd64 1.4.0-1 [27.9 kB]
+Get:2 http://ftp.jp.debian.org/debian/ sid/main groff-base amd64 1.22.3-1 [1205 kB]
+Get:3 http://ftp.jp.debian.org/debian/ sid/main man-db amd64 2.7.0.2-5 [1000 kB]
+Get:4 http://ftp.jp.debian.org/debian/ sid/main libasprintf0c2 amd64 0.19.4-1 [31.6 kB]
+Get:5 http://ftp.jp.debian.org/debian/ sid/main libmagic1 amd64 1:5.22+15-2 [249 kB]
+Get:6 http://ftp.jp.debian.org/debian/ sid/main libicu52 amd64 52.1-9 [6787 kB]
+Get:7 http://ftp.jp.debian.org/debian/ sid/main libxml2 amd64 2.9.2+dfsg1-3 [934 kB]
+Get:8 http://ftp.jp.debian.org/debian/ sid/main libffi6 amd64 3.1-2+b2 [20.1 kB]
+Get:9 http://ftp.jp.debian.org/debian/ sid/main libglib2.0-0 amd64 2.44.1-1 [2466 kB]
+Get:10 http://ftp.jp.debian.org/debian/ sid/main libcroco3 amd64 0.6.8-3+b1 [135 kB]
+Get:11 http://ftp.jp.debian.org/debian/ sid/main libunistring0 amd64 0.9.3-5.2+b1 [288 kB]
+Get:12 http://ftp.jp.debian.org/debian/ sid/main file amd64 1:5.22+15-2 [60.1 kB]
+Get:13 http://ftp.jp.debian.org/debian/ sid/main gettext-base amd64 0.19.4-1 [121 kB]
+Get:14 http://ftp.jp.debian.org/debian/ sid/main gettext amd64 0.19.4-1 [1241 kB]
+Get:15 http://ftp.jp.debian.org/debian/ sid/main intltool-debian all 0.35.0+20060710.2 [25.9 kB]
+Get:16 http://ftp.jp.debian.org/debian/ sid/main po-debconf all 1.0.18 [248 kB]
+Get:17 http://ftp.jp.debian.org/debian/ sid/main debhelper all 9.20150507 [824 kB]
+Get:18 http://ftp.jp.debian.org/debian/ sid/main zlib1g-dev amd64 1:1.2.8.dfsg-2+b1 [206 kB]
+Get:19 http://ftp.jp.debian.org/debian/ sid/main dh-exec amd64 0.14 [23.6 kB]
debconf: delaying package configuration, since apt-utils is not installed
-Fetched 3484 kB in 11s (305 kB/s)
-Selecting previously unselected package libpipeline1:amd64.
-(Reading database ... 11169 files and directories currently installed.)
-Preparing to unpack .../libpipeline1_1.3.1-1_amd64.deb ...
-Unpacking libpipeline1:amd64 (1.3.1-1) ...
-Selecting previously unselected package groff-base.
-Preparing to unpack .../groff-base_1.22.2-8_amd64.deb ...
-Unpacking groff-base (1.22.2-8) ...
-Selecting previously unselected package bsdmainutils.
-Preparing to unpack .../bsdmainutils_9.0.5_amd64.deb ...
-Unpacking bsdmainutils (9.0.5) ...
-Selecting previously unselected package man-db.
-Preparing to unpack .../man-db_2.7.0.1-1_amd64.deb ...
-Unpacking man-db (2.7.0.1-1) ...
-Selecting previously unselected package libasprintf0c2:amd64.
-Preparing to unpack .../libasprintf0c2_0.19.2-2_amd64.deb ...
-Unpacking libasprintf0c2:amd64 (0.19.2-2) ...
-Selecting previously unselected package libmagic1:amd64.
-Preparing to unpack .../libmagic1_1%3a5.19-2_amd64.deb ...
-Unpacking libmagic1:amd64 (1:5.19-2) ...
-Selecting previously unselected package libxml2:amd64.
-Preparing to unpack .../libxml2_2.9.1+dfsg1-4_amd64.deb ...
-Unpacking libxml2:amd64 (2.9.1+dfsg1-4) ...
-Selecting previously unselected package libffi6:amd64.
-Preparing to unpack .../libffi6_3.1-2_amd64.deb ...
-Unpacking libffi6:amd64 (3.1-2) ...
-Selecting previously unselected package libglib2.0-0:amd64.
-Preparing to unpack .../libglib2.0-0_2.42.0-1_amd64.deb ...
-Unpacking libglib2.0-0:amd64 (2.42.0-1) ...
-Selecting previously unselected package libcroco3:amd64.
-Preparing to unpack .../libcroco3_0.6.8-3_amd64.deb ...
-Unpacking libcroco3:amd64 (0.6.8-3) ...
-Selecting previously unselected package libunistring0:amd64.
-Preparing to unpack .../libunistring0_0.9.3-5.2_amd64.deb ...
-Unpacking libunistring0:amd64 (0.9.3-5.2) ...
-Selecting previously unselected package file.
-Preparing to unpack .../file_1%3a5.19-2_amd64.deb ...
-Unpacking file (1:5.19-2) ...
-Selecting previously unselected package gettext-base.
-Preparing to unpack .../gettext-base_0.19.2-2_amd64.deb ...
-Unpacking gettext-base (0.19.2-2) ...
-Selecting previously unselected package gettext.
-Preparing to unpack .../gettext_0.19.2-2_amd64.deb ...
-Unpacking gettext (0.19.2-2) ...
-Selecting previously unselected package intltool-debian.
-Preparing to unpack .../intltool-debian_0.35.0+20060710.1_all.deb ...
-Unpacking intltool-debian (0.35.0+20060710.1) ...
-Selecting previously unselected package po-debconf.
-Preparing to unpack .../po-debconf_1.0.16+nmu3_all.deb ...
-Unpacking po-debconf (1.0.16+nmu3) ...
-Selecting previously unselected package debhelper.
-Preparing to unpack .../debhelper_9.20140817_all.deb ...
-Unpacking debhelper (9.20140817) ...
-Selecting previously unselected package zlib1g-dev:amd64.
-Preparing to unpack .../zlib1g-dev_1%3a1.2.8.dfsg-2_amd64.deb ...
-Unpacking zlib1g-dev:amd64 (1:1.2.8.dfsg-2) ...
-Selecting previously unselected package dh-exec.
-Preparing to unpack .../dh-exec_0.13_amd64.deb ...
-Unpacking dh-exec (0.13) ...
-Selecting previously unselected package sbuild-build-depends-htslib-dummy.
-Preparing to unpack .../sbuild-build-depends-htslib-dummy.deb ...
-Unpacking sbuild-build-depends-htslib-dummy (0.invalid.0) ...
-Setting up libpipeline1:amd64 (1.3.1-1) ...
-Setting up groff-base (1.22.2-8) ...
-Setting up bsdmainutils (9.0.5) ...
-update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode
-update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode
-Setting up man-db (2.7.0.1-1) ...
-Not building database; man-db/auto-update is not 'true'.
-Setting up libasprintf0c2:amd64 (0.19.2-2) ...
-Setting up libmagic1:amd64 (1:5.19-2) ...
-Setting up libxml2:amd64 (2.9.1+dfsg1-4) ...
-Setting up libffi6:amd64 (3.1-2) ...
-Setting up libglib2.0-0:amd64 (2.42.0-1) ...
-No schema files found: doing nothing.
-Setting up libcroco3:amd64 (0.6.8-3) ...
-Setting up libunistring0:amd64 (0.9.3-5.2) ...
-Setting up file (1:5.19-2) ...
-Setting up gettext-base (0.19.2-2) ...
-Setting up gettext (0.19.2-2) ...
-Setting up intltool-debian (0.35.0+20060710.1) ...
-Setting up po-debconf (1.0.16+nmu3) ...
-Setting up debhelper (9.20140817) ...
-Setting up zlib1g-dev:amd64 (1:1.2.8.dfsg-2) ...
-Setting up dh-exec (0.13) ...
-Setting up sbuild-build-depends-htslib-dummy (0.invalid.0) ...
-Processing triggers for libc-bin (2.19-11) ...
+Fetched 15.9 MB in 1s (8288 kB/s)
+Selecting previously unselected package libpipeline1:amd64.
+(Reading database ...
(Reading database ... 5%
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(Reading database ... 11814 files and directories currently installed.)
+Preparing to unpack .../libpipeline1_1.4.0-1_amd64.deb ...
+Unpacking libpipeline1:amd64 (1.4.0-1) ...
+Selecting previously unselected package groff-base.
+Preparing to unpack .../groff-base_1.22.3-1_amd64.deb ...
+Unpacking groff-base (1.22.3-1) ...
+Selecting previously unselected package man-db.
+Preparing to unpack .../man-db_2.7.0.2-5_amd64.deb ...
+Unpacking man-db (2.7.0.2-5) ...
+Selecting previously unselected package libasprintf0c2:amd64.
+Preparing to unpack .../libasprintf0c2_0.19.4-1_amd64.deb ...
+Unpacking libasprintf0c2:amd64 (0.19.4-1) ...
+Selecting previously unselected package libmagic1:amd64.
+Preparing to unpack .../libmagic1_1%3a5.22+15-2_amd64.deb ...
+Unpacking libmagic1:amd64 (1:5.22+15-2) ...
+Selecting previously unselected package libicu52:amd64.
+Preparing to unpack .../libicu52_52.1-9_amd64.deb ...
+Unpacking libicu52:amd64 (52.1-9) ...
+Selecting previously unselected package libxml2:amd64.
+Preparing to unpack .../libxml2_2.9.2+dfsg1-3_amd64.deb ...
+Unpacking libxml2:amd64 (2.9.2+dfsg1-3) ...
+Selecting previously unselected package libffi6:amd64.
+Preparing to unpack .../libffi6_3.1-2+b2_amd64.deb ...
+Unpacking libffi6:amd64 (3.1-2+b2) ...
+Selecting previously unselected package libglib2.0-0:amd64.
+Preparing to unpack .../libglib2.0-0_2.44.1-1_amd64.deb ...
+Unpacking libglib2.0-0:amd64 (2.44.1-1) ...
+Selecting previously unselected package libcroco3:amd64.
+Preparing to unpack .../libcroco3_0.6.8-3+b1_amd64.deb ...
+Unpacking libcroco3:amd64 (0.6.8-3+b1) ...
+Selecting previously unselected package libunistring0:amd64.
+Preparing to unpack .../libunistring0_0.9.3-5.2+b1_amd64.deb ...
+Unpacking libunistring0:amd64 (0.9.3-5.2+b1) ...
+Selecting previously unselected package file.
+Preparing to unpack .../file_1%3a5.22+15-2_amd64.deb ...
+Unpacking file (1:5.22+15-2) ...
+Selecting previously unselected package gettext-base.
+Preparing to unpack .../gettext-base_0.19.4-1_amd64.deb ...
+Unpacking gettext-base (0.19.4-1) ...
+Selecting previously unselected package gettext.
+Preparing to unpack .../gettext_0.19.4-1_amd64.deb ...
+Unpacking gettext (0.19.4-1) ...
+Selecting previously unselected package intltool-debian.
+Preparing to unpack .../intltool-debian_0.35.0+20060710.2_all.deb ...
+Unpacking intltool-debian (0.35.0+20060710.2) ...
+Selecting previously unselected package po-debconf.
+Preparing to unpack .../po-debconf_1.0.18_all.deb ...
+Unpacking po-debconf (1.0.18) ...
+Selecting previously unselected package debhelper.
+Preparing to unpack .../debhelper_9.20150507_all.deb ...
+Unpacking debhelper (9.20150507) ...
+Selecting previously unselected package zlib1g-dev:amd64.
+Preparing to unpack .../zlib1g-dev_1%3a1.2.8.dfsg-2+b1_amd64.deb ...
+Unpacking zlib1g-dev:amd64 (1:1.2.8.dfsg-2+b1) ...
+Selecting previously unselected package dh-exec.
+Preparing to unpack .../dh-exec_0.14_amd64.deb ...
+Unpacking dh-exec (0.14) ...
+Selecting previously unselected package sbuild-build-depends-htslib-dummy.
+Preparing to unpack .../sbuild-build-depends-htslib-dummy.deb ...
+Unpacking sbuild-build-depends-htslib-dummy (0.invalid.0) ...
+Setting up libpipeline1:amd64 (1.4.0-1) ...
+Setting up groff-base (1.22.3-1) ...
+Setting up man-db (2.7.0.2-5) ...
+Not building database; man-db/auto-update is not 'true'.
+Setting up libasprintf0c2:amd64 (0.19.4-1) ...
+Setting up libmagic1:amd64 (1:5.22+15-2) ...
+Setting up libicu52:amd64 (52.1-9) ...
+Setting up libxml2:amd64 (2.9.2+dfsg1-3) ...
+Setting up libffi6:amd64 (3.1-2+b2) ...
+Setting up libglib2.0-0:amd64 (2.44.1-1) ...
+No schema files found: doing nothing.
+Setting up libcroco3:amd64 (0.6.8-3+b1) ...
+Setting up libunistring0:amd64 (0.9.3-5.2+b1) ...
+Setting up file (1:5.22+15-2) ...
+Setting up gettext-base (0.19.4-1) ...
+Setting up gettext (0.19.4-1) ...
+Setting up intltool-debian (0.35.0+20060710.2) ...
+Setting up po-debconf (1.0.18) ...
+Setting up debhelper (9.20150507) ...
+Setting up zlib1g-dev:amd64 (1:1.2.8.dfsg-2+b1) ...
+Setting up dh-exec (0.14) ...
+Setting up sbuild-build-depends-htslib-dummy (0.invalid.0) ...
+Processing triggers for libc-bin (2.19-18) ...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build environment │
└──────────────────────────────────────────────────────────────────────────────┘
-Kernel: Linux 3.16-1-amd64 amd64 (x86_64)
-Toolchain package versions: binutils_2.24.51.20140918-1 dpkg-dev_1.17.13 g++-4.9_4.9.1-15 gcc-4.9_4.9.1-15 libc6-dev_2.19-11 libstdc++-4.9-dev_4.9.1-15 libstdc++6_4.9.1-15 linux-libc-dev_3.16.3-2
-Package versions: apt_1.0.9.1 base-files_7.5 base-passwd_3.5.36 bash_4.3-9 binutils_2.24.51.20140918-1 bsdmainutils_9.0.5 bsdutils_1:2.20.1-5.8 build-essential_11.7 bzip2_1.0.6-7 coreutils_8.23-2 cpp_4:4.9.1-4 cpp-4.9_4.9.1-15 dash_0.5.7-4 debconf_1.5.53 debconf-i18n_1.5.53 debfoster_2.7-2 debhelper_9.20140817 debian-archive-keyring_2014.1 debianutils_4.4 dh-exec_0.13 diffutils_1:3.3-1 dpkg_1.17.13 dpkg-dev_1.17.13 e2fslibs_1.42.12-1 e2fsprogs_1.42.12-1 eatmydata_26-2 fakeroot_1.20.1-1.1 [...]
+Kernel: Linux 3.16.0-4-amd64 amd64 (x86_64)
+Toolchain package versions: binutils_2.25-7 dpkg-dev_1.18.0 g++-4.9_4.9.2-18 gcc-4.7_4.7.4-3 gcc-4.8_4.8.4-2 gcc-4.9_4.9.2-18 libc6-dev_2.19-18 libstdc++-4.9-dev_4.9.2-18 libstdc++6_5.1.1-7 linux-libc-dev_4.0.2-1
+Package versions: apt_1.0.9.10 base-files_9.2 base-passwd_3.5.37 bash_4.3-12 binutils_2.25-7 bsdmainutils_9.0.6 bsdutils_1:2.26.2-5 build-essential_11.7 bzip2_1.0.6-8 coreutils_8.23-4 cpp_4:4.9.2-4 cpp-4.7_4.7.4-3 cpp-4.8_4.8.4-2 cpp-4.9_4.9.2-18 dash_0.5.7-4+b1 debconf_1.5.56 debfoster_2.7-2 debhelper_9.20150507 debian-archive-keyring_2014.3 debianutils_4.5 dh-exec_0.14 diffutils_1:3.3-1+b1 dpkg_1.18.0 dpkg-dev_1.18.0 e2fslibs_1.42.13-1 e2fsprogs_1.42.13-1 fakeroot_1.20.2-1 file_1:5.22+ [...]
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -209,10 +231,10 @@ Package versions: apt_1.0.9.1 base-files_7.5 base-passwd_3.5.36 bash_4.3-9 binut
Unpack source
─────────────
-dpkg-source: warning: extracting unsigned source package (htslib_1.1-1.dsc)
-dpkg-source: info: extracting htslib in htslib-1.1
-dpkg-source: info: unpacking htslib_1.1.orig.tar.gz
-dpkg-source: info: unpacking htslib_1.1-1.debian.tar.xz
+dpkg-source: warning: extracting unsigned source package (htslib_1.2.1-1.dsc)
+dpkg-source: info: extracting htslib in htslib-1.2.1
+dpkg-source: info: unpacking htslib_1.2.1.orig.tar.gz
+dpkg-source: info: unpacking htslib_1.2.1-1.debian.tar.xz
dpkg-source: info: applying debian-changes
Check disc space
@@ -226,33 +248,33 @@ User Environment
HOME=/sbuild-nonexistent
LOGNAME=charles
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
-SCHROOT_ALIAS_NAME=unstable-amd64-sbuild
-SCHROOT_CHROOT_NAME=unstable-amd64-sbuild
+SCHROOT_ALIAS_NAME=unstable
+SCHROOT_CHROOT_NAME=sid-amd64-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=1000
SCHROOT_GROUP=charles
-SCHROOT_SESSION_ID=unstable-amd64-sbuild-01d18392-263d-4179-86e4-09a8ce3256d9
-SCHROOT_UID=1000
+SCHROOT_SESSION_ID=sid-amd64-sbuild-e441b29f-5c95-49f1-83ea-c7c77928225a
+SCHROOT_UID=31051
SCHROOT_USER=charles
SHELL=/bin/sh
TERM=xterm
USER=charles
USERNAME=charles
-XDG_RUNTIME_DIR=/run/user/1000
+XDG_RUNTIME_DIR=/run/user/31051
XDG_SEAT=seat0
-XDG_SESSION_ID=115
+XDG_SESSION_ID=3
XDG_VTNR=7
dpkg-buildpackage
─────────────────
dpkg-buildpackage: source package htslib
-dpkg-buildpackage: source version 1.1-1
+dpkg-buildpackage: source version 1.2.1-1
dpkg-buildpackage: source distribution unstable
dpkg-buildpackage: source changed by Charles Plessy <plessy at debian.org>
- dpkg-source --before-build htslib-1.1
+ dpkg-source --before-build htslib-1.2.1
dpkg-buildpackage: host architecture amd64
-dpkg-source: info: using options from htslib-1.1/debian/source/options: --single-debian-patch
+dpkg-source: info: using options from htslib-1.2.1/debian/source/options: --single-debian-patch
fakeroot debian/rules clean
dh clean --parallel
dh_testdir -O--parallel
@@ -262,7 +284,8 @@ make[1]: Entering directory '/«PKGBUILDDIR»'
rm -f test/*.tmp test/*.tmp.*
rm -f *.o *.pico cram/*.o cram/*.pico test/*.o test/*.dSYM version.h
rm -f libhts.so libhts.so.*
-rm -f libhts.a bgzip tabix test/fieldarith test/hfile test/sam test/test_view test/test-vcf-api test/test-vcf-sweep
+rm -f libhts.a bgzip htsfile tabix test/fieldarith test/hfile test/sam test/test-regidx test/test_view test/test-vcf-api test/test-vcf-sweep
+rm -f config.cache config.log config.mk config.status
rm -f TAGS *-uninstalled.pc
make[1]: Leaving directory '/«PKGBUILDDIR»'
dh_clean -O--parallel
@@ -280,7 +303,8 @@ make[1]: Leaving directory '/«PKGBUILDDIR»'
rm -rf debian/tabix/
rm -f debian/*.debhelper.log
rm -f debian/files
- find . \( \( -type f -a \
+ find . \( \( \
+ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS \) -prune -o -type f -a \
\( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \
-o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \
-o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \
@@ -288,16 +312,16 @@ make[1]: Leaving directory '/«PKGBUILDDIR»'
\) -exec rm -f {} + \) -o \
\( -type d -a -name autom4te.cache -prune -exec rm -rf {} + \) \)
rm -f *-stamp
- dpkg-source -b htslib-1.1
-dpkg-source: info: using options from htslib-1.1/debian/source/options: --single-debian-patch
-dpkg-source: info: using source format `3.0 (quilt)'
-dpkg-source: info: building htslib using existing ./htslib_1.1.orig.tar.gz
+ dpkg-source -b htslib-1.2.1
+dpkg-source: info: using options from htslib-1.2.1/debian/source/options: --single-debian-patch
+dpkg-source: info: using source format '3.0 (quilt)'
+dpkg-source: info: building htslib using existing ./htslib_1.2.1.orig.tar.gz
dpkg-source: info: local changes detected, the modified files are:
- htslib-1.1/.travis.yml
- htslib-1.1/README.md
-dpkg-source: info: local changes have been recorded in a new patch: htslib-1.1/debian/patches/debian-changes
-dpkg-source: info: building htslib in htslib_1.1-1.debian.tar.xz
-dpkg-source: info: building htslib in htslib_1.1-1.dsc
+ htslib-1.2.1/.travis.yml
+ htslib-1.2.1/README.md
+dpkg-source: info: local changes have been recorded in a new patch: htslib-1.2.1/debian/patches/debian-changes
+dpkg-source: info: building htslib in htslib_1.2.1-1.debian.tar.xz
+dpkg-source: info: building htslib in htslib_1.2.1-1.dsc
debian/rules build
dh build --parallel
dh_testdir -O--parallel
@@ -309,7 +333,7 @@ dh_auto_build -- \
CPPFLAGS="-I. -DSAMTOOLS=1 $(dpkg-buildflags --get CPPFLAGS)" \
LDFLAGS="$(dpkg-buildflags --get LDFLAGS)" \
# re-try later LDLIBS=-lhts \
- PACKAGE_VERSION="1.1-1" \
+ PACKAGE_VERSION="1.2.1-1" \
libdir=/usr/lib/x86_64-linux-gnu
make -j1 "CFLAGS=-g -O2 -fstack-protector-strong -Wformat -Werror=format-security" "CPPFLAGS=-I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2" LDFLAGS=-Wl,-z,relro
make[2]: Entering directory '/«PKGBUILDDIR»'
@@ -320,8 +344,9 @@ gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTO
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o faidx.o faidx.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o hfile.o hfile.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o hfile_net.o hfile_net.c
-echo '#define HTS_VERSION "1.1"' > version.h
+echo '#define HTS_VERSION "1.2.1"' > version.h
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o hts.o hts.c
+gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o regidx.o regidx.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o sam.o sam.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o synced_bcf_reader.o synced_bcf_reader.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o vcf_sweep.o vcf_sweep.c
@@ -340,12 +365,13 @@ gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTO
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o cram/md5.o cram/md5.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o cram/open_trace_file.o cram/open_trace_file.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o cram/pooled_alloc.o cram/pooled_alloc.c
+gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o cram/rANS_static.o cram/rANS_static.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o cram/sam_header.o cram/sam_header.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o cram/string_alloc.o cram/string_alloc.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o cram/thread_pool.o cram/thread_pool.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o cram/vlen.o cram/vlen.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o cram/zfio.o cram/zfio.c
-ar -rc libhts.a kfunc.o knetfile.o kstring.o bgzf.o faidx.o hfile.o hfile_net.o hts.o sam.o synced_bcf_reader.o vcf_sweep.o tbx.o vcf.o vcfutils.o cram/cram_codecs.o cram/cram_decode.o cram/cram_encode.o cram/cram_index.o cram/cram_io.o cram/cram_samtools.o cram/cram_stats.o cram/files.o cram/mFILE.o cram/md5.o cram/open_trace_file.o cram/pooled_alloc.o cram/sam_header.o cram/string_alloc.o cram/thread_pool.o cram/vlen.o cram/zfio.o
+ar -rc libhts.a kfunc.o knetfile.o kstring.o bgzf.o faidx.o hfile.o hfile_net.o hts.o regidx.o sam.o synced_bcf_reader.o vcf_sweep.o tbx.o vcf.o vcfutils.o cram/cram_codecs.o cram/cram_decode.o cram/cram_encode.o cram/cram_index.o cram/cram_io.o cram/cram_samtools.o cram/cram_stats.o cram/files.o cram/mFILE.o cram/md5.o cram/open_trace_file.o cram/pooled_alloc.o cram/rANS_static.o cram/sam_header.o cram/string_alloc.o cram/thread_pool.o cram/vlen.o cram/zfio.o
ranlib libhts.a
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o kfunc.pico kfunc.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o knetfile.pico knetfile.c
@@ -355,6 +381,7 @@ gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTO
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o hfile.pico hfile.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o hfile_net.pico hfile_net.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o hts.pico hts.c
+gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o regidx.pico regidx.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o sam.pico sam.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o synced_bcf_reader.pico synced_bcf_reader.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o vcf_sweep.pico vcf_sweep.c
@@ -373,15 +400,18 @@ gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTO
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o cram/md5.pico cram/md5.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o cram/open_trace_file.pico cram/open_trace_file.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o cram/pooled_alloc.pico cram/pooled_alloc.c
+gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o cram/rANS_static.pico cram/rANS_static.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o cram/sam_header.pico cram/sam_header.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o cram/string_alloc.pico cram/string_alloc.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o cram/thread_pool.pico cram/thread_pool.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o cram/vlen.pico cram/vlen.c
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -fpic -c -o cram/zfio.pico cram/zfio.c
-gcc -shared -Wl,-soname,libhts.so.1 -pthread -Wl,-z,relro -o libhts.so kfunc.pico knetfile.pico kstring.pico bgzf.pico faidx.pico hfile.pico hfile_net.pico hts.pico sam.pico synced_bcf_reader.pico vcf_sweep.pico tbx.pico vcf.pico vcfutils.pico cram/cram_codecs.pico cram/cram_decode.pico cram/cram_encode.pico cram/cram_index.pico cram/cram_io.pico cram/cram_samtools.pico cram/cram_stats.pico cram/files.pico cram/mFILE.pico cram/md5.pico cram/open_trace_file.pico cram/pooled_alloc.pico cra [...]
+gcc -shared -Wl,-soname,libhts.so.1 -pthread -Wl,-z,relro -o libhts.so kfunc.pico knetfile.pico kstring.pico bgzf.pico faidx.pico hfile.pico hfile_net.pico hts.pico regidx.pico sam.pico synced_bcf_reader.pico vcf_sweep.pico tbx.pico vcf.pico vcfutils.pico cram/cram_codecs.pico cram/cram_decode.pico cram/cram_encode.pico cram/cram_index.pico cram/cram_io.pico cram/cram_samtools.pico cram/cram_stats.pico cram/files.pico cram/mFILE.pico cram/md5.pico cram/open_trace_file.pico cram/pooled_al [...]
ln -sf libhts.so libhts.so.1
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o bgzip.o bgzip.c
gcc -pthread -Wl,-z,relro -o bgzip bgzip.o libhts.a -lz
+gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o htsfile.o htsfile.c
+gcc -pthread -Wl,-z,relro -o htsfile htsfile.o libhts.a -lz
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o tabix.o tabix.c
gcc -pthread -Wl,-z,relro -o tabix tabix.o libhts.a -lz
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o test/fieldarith.o test/fieldarith.c
@@ -390,6 +420,8 @@ gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTO
gcc -Wl,-z,relro -o test/hfile test/hfile.o libhts.a -lz
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o test/sam.o test/sam.c
gcc -pthread -Wl,-z,relro -o test/sam test/sam.o libhts.a -lz
+gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o test/test-regidx.o test/test-regidx.c
+gcc -pthread -Wl,-z,relro -o test/test-regidx test/test-regidx.o libhts.a -lz
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o test/test_view.o test/test_view.c
gcc -pthread -Wl,-z,relro -o test/test_view test/test_view.o libhts.a -lz
gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -I. -DSAMTOOLS=1 -D_FORTIFY_SOURCE=2 -c -o test/test-vcf-api.o test/test-vcf-api.c
@@ -405,20 +437,21 @@ dh_auto_test
make[2]: Entering directory '/«PKGBUILDDIR»'
test/fieldarith test/fieldarith.sam
test/hfile
-test/sam
+test/sam test/ce.fa
+test/test-regidx
cd test && REF_PATH=: ./test_view.pl
-=== Testing aux#aux.sam, ref aux.fa ===
- ./test_view -S -b aux#aux.sam > aux#aux.tmp.bam
- ./test_view aux#aux.tmp.bam > aux#aux.tmp.bam.sam_
- ./compare_sam.pl aux#aux.sam aux#aux.tmp.bam.sam_
- ./test_view -t aux.fa -S -C aux#aux.sam > aux#aux.tmp.cram
- ./test_view -D aux#aux.tmp.cram > aux#aux.tmp.cram.sam_
- ./compare_sam.pl -nomd aux#aux.sam aux#aux.tmp.cram.sam_
- ./test_view -t aux.fa -C aux#aux.tmp.bam > aux#aux.tmp.bam.cram
- ./test_view -b -D aux#aux.tmp.bam.cram > aux#aux.tmp.bam.cram.bam
- ./test_view aux#aux.tmp.bam.cram.bam > aux#aux.tmp.bam.cram.bam.sam_
- ./compare_sam.pl -nomd aux#aux.sam aux#aux.tmp.bam.cram.bam.sam_
+=== Testing auxf#values.sam, ref auxf.fa ===
+ ./test_view -S -b auxf#values.sam > auxf#values.tmp.bam
+ ./test_view auxf#values.tmp.bam > auxf#values.tmp.bam.sam_
+ ./compare_sam.pl auxf#values.sam auxf#values.tmp.bam.sam_
+ ./test_view -t auxf.fa -S -C auxf#values.sam > auxf#values.tmp.cram
+ ./test_view -D auxf#values.tmp.cram > auxf#values.tmp.cram.sam_
+ ./compare_sam.pl -nomd auxf#values.sam auxf#values.tmp.cram.sam_
+ ./test_view -t auxf.fa -C auxf#values.tmp.bam > auxf#values.tmp.bam.cram
+ ./test_view -b -D auxf#values.tmp.bam.cram > auxf#values.tmp.bam.cram.bam
+ ./test_view auxf#values.tmp.bam.cram.bam > auxf#values.tmp.bam.cram.bam.sam_
+ ./compare_sam.pl -nomd auxf#values.sam auxf#values.tmp.bam.cram.bam.sam_
=== Testing c1#bounds.sam, ref c1.fa ===
./test_view -S -b c1#bounds.sam > c1#bounds.tmp.bam
@@ -701,11 +734,11 @@ Successes 240
Failures 0
cd test && ./test.pl
test_vcf_api:
- /«PKGBUILDDIR»/test/test-vcf-api /tmp/NKVe0YPr_D/test-vcf-api.bcf
+ /«PKGBUILDDIR»/test/test-vcf-api /tmp/821oLeUgPI/test-vcf-api.bcf
.. ok
test_vcf_sweep:
- /«PKGBUILDDIR»/test/test-vcf-sweep /tmp/NKVe0YPr_D/test-vcf-api.bcf
+ /«PKGBUILDDIR»/test/test-vcf-sweep /tmp/821oLeUgPI/test-vcf-api.bcf
.. ok
@@ -736,198 +769,213 @@ dh binary --parallel
rm -rf debian/tabix/
debian/rules override_dh_auto_install
make[1]: Entering directory '/«PKGBUILDDIR»'
-rm /«PKGBUILDDIR»/test/sam
+rm /«PKGBUILDDIR»/test/sam /«PKGBUILDDIR»/test/test-regidx
dh_auto_install -- \
prefix=/usr \
libdir=/usr/lib/x86_64-linux-gnu \
- PACKAGE_VERSION="1.1-1"
+ PACKAGE_VERSION="1.2.1-1"
install -d debian/libhts1
install -d debian/libhts-dev
install -d debian/htslib-test
install -d debian/tabix
- make -j1 install DESTDIR=/«PKGBUILDDIR»/debian/tmp AM_UPDATE_INFO_DIR=no prefix=/usr libdir=/usr/lib/x86_64-linux-gnu PACKAGE_VERSION=1.1-1
+ make -j1 install DESTDIR=/«PKGBUILDDIR»/debian/tmp AM_UPDATE_INFO_DIR=no prefix=/usr libdir=/usr/lib/x86_64-linux-gnu PACKAGE_VERSION=1.2.1-1
make[2]: Entering directory '/«PKGBUILDDIR»'
mkdir -p -m 755 /«PKGBUILDDIR»/debian/tmp/usr/bin /«PKGBUILDDIR»/debian/tmp/usr/include /«PKGBUILDDIR»/debian/tmp/usr/include/htslib /«PKGBUILDDIR»/debian/tmp/usr/lib/x86_64-linux-gnu /«PKGBUILDDIR»/debian/tmp/usr/share/man/man1 /«PKGBUILDDIR»/debian/tmp/usr/share/man/man5 /«PKGBUILDDIR»/debian/tmp/usr/lib/x86_64-linux-gnu/pkgconfig
-install -p -m 644 libhts.so /«PKGBUILDDIR»/debian/tmp/usr/lib/x86_64-linux-gnu/libhts.so.1.1-1
-ln -sf libhts.so.1.1-1 /«PKGBUILDDIR»/debian/tmp/usr/lib/x86_64-linux-gnu/libhts.so
-ln -sf libhts.so.1.1-1 /«PKGBUILDDIR»/debian/tmp/usr/lib/x86_64-linux-gnu/libhts.so.1
-sed -e 's#@includedir@#/usr/include#g;s#@libdir@#/usr/lib/x86_64-linux-gnu#g;s#@PACKAGE_VERSION@#1.1-1#g' htslib.pc.in > /«PKGBUILDDIR»/debian/tmp/usr/lib/x86_64-linux-gnu/pkgconfig/htslib.pc
+install -p -m 644 libhts.so /«PKGBUILDDIR»/debian/tmp/usr/lib/x86_64-linux-gnu/libhts.so.1.2.1-1
+ln -sf libhts.so.1.2.1-1 /«PKGBUILDDIR»/debian/tmp/usr/lib/x86_64-linux-gnu/libhts.so
+ln -sf libhts.so.1.2.1-1 /«PKGBUILDDIR»/debian/tmp/usr/lib/x86_64-linux-gnu/libhts.so.1
+sed -e 's#@includedir@#/usr/include#g;s#@libdir@#/usr/lib/x86_64-linux-gnu#g;s#@PACKAGE_VERSION@#1.2.1-1#g' htslib.pc.in > /«PKGBUILDDIR»/debian/tmp/usr/lib/x86_64-linux-gnu/pkgconfig/htslib.pc
chmod 644 /«PKGBUILDDIR»/debian/tmp/usr/lib/x86_64-linux-gnu/pkgconfig/htslib.pc
-install -p bgzip tabix /«PKGBUILDDIR»/debian/tmp/usr/bin
+install -p bgzip htsfile tabix /«PKGBUILDDIR»/debian/tmp/usr/bin
install -p -m 644 htslib/*.h /«PKGBUILDDIR»/debian/tmp/usr/include/htslib
install -p -m 644 libhts.a /«PKGBUILDDIR»/debian/tmp/usr/lib/x86_64-linux-gnu/libhts.a
-install -p -m 644 tabix.1 /«PKGBUILDDIR»/debian/tmp/usr/share/man/man1
+install -p -m 644 htsfile.1 tabix.1 /«PKGBUILDDIR»/debian/tmp/usr/share/man/man1
install -p -m 644 faidx.5 sam.5 vcf.5 /«PKGBUILDDIR»/debian/tmp/usr/share/man/man5
make[2]: Leaving directory '/«PKGBUILDDIR»'
make[1]: Leaving directory '/«PKGBUILDDIR»'
dh_install -O--parallel
install -d debian/libhts1/usr/lib/x86_64-linux-gnu
- cp -a debian/tmp/usr/lib/x86_64-linux-gnu/libhts.so.1 debian/libhts1/usr/lib/x86_64-linux-gnu/
- cp -a debian/tmp/usr/lib/x86_64-linux-gnu/libhts.so.1.1-1 debian/libhts1/usr/lib/x86_64-linux-gnu/
+ cp --reflink=auto -a debian/tmp/usr/lib/x86_64-linux-gnu/libhts.so.1 debian/libhts1/usr/lib/x86_64-linux-gnu/
+ cp --reflink=auto -a debian/tmp/usr/lib/x86_64-linux-gnu/libhts.so.1.2.1-1 debian/libhts1/usr/lib/x86_64-linux-gnu/
install -d debian/libhts-dev/usr/include
- cp -a debian/tmp/usr/include/htslib debian/libhts-dev/usr/include/
+ cp --reflink=auto -a debian/tmp/usr/include/htslib debian/libhts-dev/usr/include/
install -d debian/libhts-dev/usr/lib/x86_64-linux-gnu
- cp -a debian/tmp/usr/lib/x86_64-linux-gnu/libhts.a debian/libhts-dev/usr/lib/x86_64-linux-gnu/
- cp -a debian/tmp/usr/lib/x86_64-linux-gnu/libhts.so debian/libhts-dev/usr/lib/x86_64-linux-gnu/
+ cp --reflink=auto -a debian/tmp/usr/lib/x86_64-linux-gnu/libhts.a debian/libhts-dev/usr/lib/x86_64-linux-gnu/
+ cp --reflink=auto -a debian/tmp/usr/lib/x86_64-linux-gnu/libhts.so debian/libhts-dev/usr/lib/x86_64-linux-gnu/
install -d debian/libhts-dev/usr/share/man/man5
- cp -a debian/tmp/usr/share/man/man5/faidx.5 debian/libhts-dev/usr/share/man/man5/
- cp -a debian/tmp/usr/share/man/man5/sam.5 debian/libhts-dev/usr/share/man/man5/
- cp -a debian/tmp/usr/share/man/man5/vcf.5 debian/libhts-dev/usr/share/man/man5/
+ cp --reflink=auto -a debian/tmp/usr/share/man/man5/faidx.5 debian/libhts-dev/usr/share/man/man5/
+ cp --reflink=auto -a debian/tmp/usr/share/man/man5/sam.5 debian/libhts-dev/usr/share/man/man5/
+ cp --reflink=auto -a debian/tmp/usr/share/man/man5/vcf.5 debian/libhts-dev/usr/share/man/man5/
install -d debian/libhts-dev/usr/lib/x86_64-linux-gnu/pkgconfig
- cp -a debian/tmp/usr/lib/x86_64-linux-gnu/pkgconfig/htslib.pc debian/libhts-dev/usr/lib/x86_64-linux-gnu/pkgconfig/
+ cp --reflink=auto -a debian/tmp/usr/lib/x86_64-linux-gnu/pkgconfig/htslib.pc debian/libhts-dev/usr/lib/x86_64-linux-gnu/pkgconfig/
install -d debian/htslib-test//usr/share/htslib-test
- cp -a ./test/aux\#aux.sam debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/aux.fa debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/aux.fa.fai debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/c1\#bounds.sam debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/c1\#clip.sam debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/c1\#pad1.sam debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/c1\#pad2.sam debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/c1\#pad3.sam debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/c1.fa debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/c1.fa.fai debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/ce\#1.sam debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/ce\#2.sam debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/ce\#5.sam debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/ce\#5b.sam debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/ce\#large_seq.sam debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/ce\#tag_depadded.sam debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/ce\#tag_padded.sam debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/ce\#unmap.sam debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/ce\#unmap1.sam debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/ce\#unmap2.sam debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/ce.fa debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/ce.fa.fai debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/compare_sam.pl debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/fieldarith.c debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/fieldarith.sam debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/hfile.c debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/sam.c debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/test-vcf-api.c debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/test-vcf-api.out debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/test-vcf-sweep.c debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/test-vcf-sweep.out debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/test.pl debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/test_view.c debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/test_view.pl debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/xx\#blank.sam debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/xx\#large_aux.sam debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/xx\#large_aux2.sam debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/xx\#minimal.sam debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/xx\#pair.sam debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/xx\#rg.sam debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/xx\#triplet.sam debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/xx\#unsorted.sam debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/xx.fa debian/htslib-test//usr/share/htslib-test/
- cp -a ./test/xx.fa.fai debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/auxf\#values.sam debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/auxf.fa debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/auxf.fa.fai debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/c1\#bounds.sam debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/c1\#clip.sam debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/c1\#pad1.sam debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/c1\#pad2.sam debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/c1\#pad3.sam debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/c1.fa debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/c1.fa.fai debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/ce\#1.sam debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/ce\#2.sam debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/ce\#5.sam debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/ce\#5b.sam debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/ce\#large_seq.sam debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/ce\#tag_depadded.sam debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/ce\#tag_padded.sam debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/ce\#unmap.sam debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/ce\#unmap1.sam debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/ce\#unmap2.sam debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/ce.fa debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/ce.fa.fai debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/compare_sam.pl debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/fieldarith.c debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/fieldarith.sam debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/hfile.c debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/sam.c debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/test-regidx.c debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/test-vcf-api.c debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/test-vcf-api.out debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/test-vcf-sweep.c debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/test-vcf-sweep.out debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/test.pl debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/test_view.c debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/test_view.pl debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/xx\#blank.sam debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/xx\#large_aux.sam debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/xx\#large_aux2.sam debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/xx\#minimal.sam debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/xx\#pair.sam debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/xx\#rg.sam debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/xx\#triplet.sam debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/xx\#unsorted.sam debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/xx.fa debian/htslib-test//usr/share/htslib-test/
+ cp --reflink=auto -a ./test/xx.fa.fai debian/htslib-test//usr/share/htslib-test/
install -d debian/tabix/usr/bin
- cp -a ./tabix debian/tabix/usr/bin/
- cp -a ./bgzip debian/tabix/usr/bin/
+ cp --reflink=auto -a ./tabix debian/tabix/usr/bin/
+ cp --reflink=auto -a ./bgzip debian/tabix/usr/bin/
dh_installdocs -O--parallel
- install -g 0 -o 0 -d debian/libhts1/usr/share/doc/libhts1
- install -g 0 -o 0 -m 644 -p debian/copyright debian/libhts1/usr/share/doc/libhts1/copyright
- install -g 0 -o 0 -d debian/libhts-dev/usr/share/doc/libhts-dev
- install -g 0 -o 0 -m 644 -p debian/copyright debian/libhts-dev/usr/share/doc/libhts-dev/copyright
- install -g 0 -o 0 -d debian/htslib-test/usr/share/doc/htslib-test
- install -g 0 -o 0 -m 644 -p debian/copyright debian/htslib-test/usr/share/doc/htslib-test/copyright
- install -g 0 -o 0 -d debian/tabix/usr/share/doc/tabix
- install -g 0 -o 0 -m 644 -p debian/copyright debian/tabix/usr/share/doc/tabix/copyright
- dh_installchangelogs -O--parallel
- install -o 0 -g 0 -p -m644 debian/changelog debian/libhts1/usr/share/doc/libhts1/changelog.Debian
- install -o 0 -g 0 -p -m644 debian/changelog debian/libhts-dev/usr/share/doc/libhts-dev/changelog.Debian
- install -o 0 -g 0 -p -m644 debian/changelog debian/htslib-test/usr/share/doc/htslib-test/changelog.Debian
- install -o 0 -g 0 -p -m644 debian/changelog debian/tabix/usr/share/doc/tabix/changelog.Debian
+ install -d debian/libhts1/usr/share/doc/libhts1
+ install -p -m0644 debian/copyright debian/libhts1/usr/share/doc/libhts1/copyright
+ install -d debian/libhts-dev/usr/share/doc/libhts-dev
+ install -p -m0644 debian/copyright debian/libhts-dev/usr/share/doc/libhts-dev/copyright
+ install -d debian/htslib-test/usr/share/doc/htslib-test
+ install -p -m0644 debian/copyright debian/htslib-test/usr/share/doc/htslib-test/copyright
+ install -d debian/tabix/usr/share/doc/tabix
+ install -p -m0644 debian/copyright debian/tabix/usr/share/doc/tabix/copyright
+ debian/rules override_dh_installchangelogs
+make[1]: Entering directory '/«PKGBUILDDIR»'
+dh_installchangelogs NEWS
+ install -p -m0644 debian/changelog debian/libhts1/usr/share/doc/libhts1/changelog.Debian
+ install -p -m0644 NEWS debian/libhts1/usr/share/doc/libhts1/changelog
+ install -p -m0644 debian/changelog debian/libhts-dev/usr/share/doc/libhts-dev/changelog.Debian
+ install -p -m0644 NEWS debian/libhts-dev/usr/share/doc/libhts-dev/changelog
+ install -p -m0644 debian/changelog debian/htslib-test/usr/share/doc/htslib-test/changelog.Debian
+ install -p -m0644 NEWS debian/htslib-test/usr/share/doc/htslib-test/changelog
+ install -p -m0644 debian/changelog debian/tabix/usr/share/doc/tabix/changelog.Debian
+ install -p -m0644 NEWS debian/tabix/usr/share/doc/tabix/changelog
+make[1]: Leaving directory '/«PKGBUILDDIR»'
dh_installman -O--parallel
- man --recode UTF-8 ./vcf\.5 > vcf\.5\.new
- chmod 644 vcf.5.new
- mv -f vcf.5.new vcf.5
- man --recode UTF-8 ./faidx\.5 > faidx\.5\.new
- chmod 644 faidx.5.new
- mv -f faidx.5.new faidx.5
man --recode UTF-8 ./sam\.5 > sam\.5\.new
chmod 644 sam.5.new
mv -f sam.5.new sam.5
+ man --recode UTF-8 ./faidx\.5 > faidx\.5\.new
+ chmod 644 faidx.5.new
+ mv -f faidx.5.new faidx.5
+ man --recode UTF-8 ./vcf\.5 > vcf\.5\.new
+ chmod 644 vcf.5.new
+ mv -f vcf.5.new vcf.5
install -d debian/tabix/usr/share/man/man1/
- install -p -m644 tabix.1 debian/tabix/usr/share/man/man1/tabix.1
+ install -p -m0644 tabix.1 debian/tabix/usr/share/man/man1/tabix.1
man --recode UTF-8 ./tabix\.1 > tabix\.1\.new
chmod 644 tabix.1.new
mv -f tabix.1.new tabix.1
+ dh_lintian -O--parallel
+ install -d debian/libhts1/usr/share/lintian/overrides
+ install -p -m0644 debian/libhts1.lintian-overrides debian/libhts1/usr/share/lintian/overrides/libhts1
+ install -d debian/tabix/usr/share/lintian/overrides
+ install -p -m0644 debian/tabix.lintian-overrides debian/tabix/usr/share/lintian/overrides/tabix
dh_perl -O--parallel
(grep -s -v perl:Depends debian/htslib-test.substvars; echo perl:Depends=perl) > debian/htslib-test.substvars.new
mv debian/htslib-test.substvars.new debian/htslib-test.substvars
dh_link -O--parallel
rm -f debian/libhts1/usr/lib/x86_64-linux-gnu/libhts.so.1
- ln -sf libhts.so.1.1-1 debian/libhts1/usr/lib/x86_64-linux-gnu/libhts.so.1
+ ln -sf libhts.so.1.2.1-1 debian/libhts1/usr/lib/x86_64-linux-gnu/libhts.so.1
rm -f debian/libhts-dev/usr/lib/x86_64-linux-gnu/libhts.so
- ln -sf libhts.so.1.1-1 debian/libhts-dev/usr/lib/x86_64-linux-gnu/libhts.so
+ ln -sf libhts.so.1.2.1-1 debian/libhts-dev/usr/lib/x86_64-linux-gnu/libhts.so
rm -f debian/tabix/usr/share/man/man1/bgzip.1.gz
ln -sf tabix.1.gz debian/tabix/usr/share/man/man1/bgzip.1.gz
dh_compress -O--parallel
cd debian/libhts1
- chmod a-x usr/share/doc/libhts1/changelog.Debian
- gzip -9nf usr/share/doc/libhts1/changelog.Debian
+ chmod a-x usr/share/doc/libhts1/changelog.Debian usr/share/doc/libhts1/changelog
+ gzip -9nf usr/share/doc/libhts1/changelog.Debian usr/share/doc/libhts1/changelog
cd '/«PKGBUILDDIR»'
cd debian/libhts-dev
- chmod a-x usr/share/man/man5/vcf.5 usr/share/man/man5/faidx.5 usr/share/man/man5/sam.5 usr/share/doc/libhts-dev/changelog.Debian
- gzip -9nf usr/share/man/man5/vcf.5 usr/share/man/man5/faidx.5 usr/share/man/man5/sam.5 usr/share/doc/libhts-dev/changelog.Debian
+ chmod a-x usr/share/man/man5/sam.5 usr/share/man/man5/faidx.5 usr/share/man/man5/vcf.5 usr/share/doc/libhts-dev/changelog.Debian usr/share/doc/libhts-dev/changelog
+ gzip -9nf usr/share/man/man5/sam.5 usr/share/man/man5/faidx.5 usr/share/man/man5/vcf.5 usr/share/doc/libhts-dev/changelog.Debian usr/share/doc/libhts-dev/changelog
cd '/«PKGBUILDDIR»'
cd debian/htslib-test
- chmod a-x usr/share/doc/htslib-test/changelog.Debian
- gzip -9nf usr/share/doc/htslib-test/changelog.Debian
+ chmod a-x usr/share/doc/htslib-test/changelog.Debian usr/share/doc/htslib-test/changelog
+ gzip -9nf usr/share/doc/htslib-test/changelog.Debian usr/share/doc/htslib-test/changelog
cd '/«PKGBUILDDIR»'
cd debian/tabix
- chmod a-x usr/share/man/man1/tabix.1 usr/share/doc/tabix/changelog.Debian
- gzip -9nf usr/share/man/man1/tabix.1 usr/share/doc/tabix/changelog.Debian
+ chmod a-x usr/share/man/man1/tabix.1 usr/share/doc/tabix/changelog.Debian usr/share/doc/tabix/changelog
+ gzip -9nf usr/share/man/man1/tabix.1 usr/share/doc/tabix/changelog.Debian usr/share/doc/tabix/changelog
cd '/«PKGBUILDDIR»'
dh_fixperms -O--parallel
find debian/libhts1 -print0 2>/dev/null | xargs -0r chown --no-dereference 0:0
find debian/libhts1 ! -type l -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s
- find debian/libhts1/usr/share/doc -type f ! -regex 'debian/libhts1/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 644
- find debian/libhts1/usr/share/doc -type d -print0 2>/dev/null | xargs -0r chmod 755
- find debian/libhts1/usr/share/man debian/libhts1/usr/man/ debian/libhts1/usr/X11*/man/ -type f -print0 2>/dev/null | xargs -0r chmod 644
- find debian/libhts1 -perm -5 -type f \( -name '*.so.*' -or -name '*.so' -or -name '*.la' -or -name '*.a' \) -print0 2>/dev/null | xargs -0r chmod 644
- find debian/libhts1/usr/include -type f -print0 2>/dev/null | xargs -0r chmod 644
- find debian/libhts1/usr/share/applications -type f -print0 2>/dev/null | xargs -0r chmod 644
- find debian/libhts1 -perm -5 -type f \( -name '*.cmxs' \) -print0 2>/dev/null | xargs -0r chmod 644
+ find debian/libhts1/usr/share/doc -type f ! -regex 'debian/libhts1/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644
+ find debian/libhts1/usr/share/doc -type d -print0 2>/dev/null | xargs -0r chmod 0755
+ find debian/libhts1/usr/share/man debian/libhts1/usr/man/ debian/libhts1/usr/X11*/man/ -type f -print0 2>/dev/null | xargs -0r chmod 0644
+ find debian/libhts1 -perm -5 -type f \( -name '*.so.*' -or -name '*.so' -or -name '*.la' -or -name '*.a' \) -print0 2>/dev/null | xargs -0r chmod 0644
+ find debian/libhts1/usr/include -type f -print0 2>/dev/null | xargs -0r chmod 0644
+ find debian/libhts1/usr/share/applications -type f -print0 2>/dev/null | xargs -0r chmod 0644
+ find debian/libhts1 -perm -5 -type f \( -name '*.cmxs' \) -print0 2>/dev/null | xargs -0r chmod 0644
find debian/libhts1/usr/lib/x86_64-linux-gnu/perl5/5.20 debian/libhts1/usr/share/perl5 -type f -perm -5 -name '*.pm' -print0 2>/dev/null | xargs -0r chmod a-X
find debian/libhts1/usr/lib -type f -name '*.ali' -print0 2>/dev/null | xargs -0r chmod uga-w
+ find debian/libhts1/usr/share/lintian/overrides -type f -print0 2>/dev/null | xargs -0r chmod 0644
find debian/libhts-dev -print0 2>/dev/null | xargs -0r chown --no-dereference 0:0
find debian/libhts-dev ! -type l -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s
- find debian/libhts-dev/usr/share/doc -type f ! -regex 'debian/libhts-dev/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 644
- find debian/libhts-dev/usr/share/doc -type d -print0 2>/dev/null | xargs -0r chmod 755
- find debian/libhts-dev/usr/share/man debian/libhts-dev/usr/man/ debian/libhts-dev/usr/X11*/man/ -type f -print0 2>/dev/null | xargs -0r chmod 644
- find debian/libhts-dev -perm -5 -type f \( -name '*.so.*' -or -name '*.so' -or -name '*.la' -or -name '*.a' \) -print0 2>/dev/null | xargs -0r chmod 644
- find debian/libhts-dev/usr/include -type f -print0 2>/dev/null | xargs -0r chmod 644
- find debian/libhts-dev/usr/share/applications -type f -print0 2>/dev/null | xargs -0r chmod 644
- find debian/libhts-dev -perm -5 -type f \( -name '*.cmxs' \) -print0 2>/dev/null | xargs -0r chmod 644
+ find debian/libhts-dev/usr/share/doc -type f ! -regex 'debian/libhts-dev/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644
+ find debian/libhts-dev/usr/share/doc -type d -print0 2>/dev/null | xargs -0r chmod 0755
+ find debian/libhts-dev/usr/share/man debian/libhts-dev/usr/man/ debian/libhts-dev/usr/X11*/man/ -type f -print0 2>/dev/null | xargs -0r chmod 0644
+ find debian/libhts-dev -perm -5 -type f \( -name '*.so.*' -or -name '*.so' -or -name '*.la' -or -name '*.a' \) -print0 2>/dev/null | xargs -0r chmod 0644
+ find debian/libhts-dev/usr/include -type f -print0 2>/dev/null | xargs -0r chmod 0644
+ find debian/libhts-dev/usr/share/applications -type f -print0 2>/dev/null | xargs -0r chmod 0644
+ find debian/libhts-dev -perm -5 -type f \( -name '*.cmxs' \) -print0 2>/dev/null | xargs -0r chmod 0644
find debian/libhts-dev/usr/lib/x86_64-linux-gnu/perl5/5.20 debian/libhts-dev/usr/share/perl5 -type f -perm -5 -name '*.pm' -print0 2>/dev/null | xargs -0r chmod a-X
find debian/libhts-dev/usr/lib -type f -name '*.ali' -print0 2>/dev/null | xargs -0r chmod uga-w
find debian/htslib-test -print0 2>/dev/null | xargs -0r chown --no-dereference 0:0
find debian/htslib-test ! -type l -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s
- find debian/htslib-test/usr/share/doc -type f ! -regex 'debian/htslib-test/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 644
- find debian/htslib-test/usr/share/doc -type d -print0 2>/dev/null | xargs -0r chmod 755
- find debian/htslib-test/usr/share/man debian/htslib-test/usr/man/ debian/htslib-test/usr/X11*/man/ -type f -print0 2>/dev/null | xargs -0r chmod 644
- find debian/htslib-test -perm -5 -type f \( -name '*.so.*' -or -name '*.so' -or -name '*.la' -or -name '*.a' \) -print0 2>/dev/null | xargs -0r chmod 644
- find debian/htslib-test/usr/include -type f -print0 2>/dev/null | xargs -0r chmod 644
- find debian/htslib-test/usr/share/applications -type f -print0 2>/dev/null | xargs -0r chmod 644
- find debian/htslib-test -perm -5 -type f \( -name '*.cmxs' \) -print0 2>/dev/null | xargs -0r chmod 644
+ find debian/htslib-test/usr/share/doc -type f ! -regex 'debian/htslib-test/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644
+ find debian/htslib-test/usr/share/doc -type d -print0 2>/dev/null | xargs -0r chmod 0755
+ find debian/htslib-test/usr/share/man debian/htslib-test/usr/man/ debian/htslib-test/usr/X11*/man/ -type f -print0 2>/dev/null | xargs -0r chmod 0644
+ find debian/htslib-test -perm -5 -type f \( -name '*.so.*' -or -name '*.so' -or -name '*.la' -or -name '*.a' \) -print0 2>/dev/null | xargs -0r chmod 0644
+ find debian/htslib-test/usr/include -type f -print0 2>/dev/null | xargs -0r chmod 0644
+ find debian/htslib-test/usr/share/applications -type f -print0 2>/dev/null | xargs -0r chmod 0644
+ find debian/htslib-test -perm -5 -type f \( -name '*.cmxs' \) -print0 2>/dev/null | xargs -0r chmod 0644
find debian/htslib-test/usr/lib/x86_64-linux-gnu/perl5/5.20 debian/htslib-test/usr/share/perl5 -type f -perm -5 -name '*.pm' -print0 2>/dev/null | xargs -0r chmod a-X
find debian/htslib-test/usr/lib -type f -name '*.ali' -print0 2>/dev/null | xargs -0r chmod uga-w
find debian/tabix -print0 2>/dev/null | xargs -0r chown --no-dereference 0:0
find debian/tabix ! -type l -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s
- find debian/tabix/usr/share/doc -type f ! -regex 'debian/tabix/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 644
- find debian/tabix/usr/share/doc -type d -print0 2>/dev/null | xargs -0r chmod 755
- find debian/tabix/usr/share/man debian/tabix/usr/man/ debian/tabix/usr/X11*/man/ -type f -print0 2>/dev/null | xargs -0r chmod 644
- find debian/tabix -perm -5 -type f \( -name '*.so.*' -or -name '*.so' -or -name '*.la' -or -name '*.a' \) -print0 2>/dev/null | xargs -0r chmod 644
- find debian/tabix/usr/include -type f -print0 2>/dev/null | xargs -0r chmod 644
- find debian/tabix/usr/share/applications -type f -print0 2>/dev/null | xargs -0r chmod 644
- find debian/tabix -perm -5 -type f \( -name '*.cmxs' \) -print0 2>/dev/null | xargs -0r chmod 644
+ find debian/tabix/usr/share/doc -type f ! -regex 'debian/tabix/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644
+ find debian/tabix/usr/share/doc -type d -print0 2>/dev/null | xargs -0r chmod 0755
+ find debian/tabix/usr/share/man debian/tabix/usr/man/ debian/tabix/usr/X11*/man/ -type f -print0 2>/dev/null | xargs -0r chmod 0644
+ find debian/tabix -perm -5 -type f \( -name '*.so.*' -or -name '*.so' -or -name '*.la' -or -name '*.a' \) -print0 2>/dev/null | xargs -0r chmod 0644
+ find debian/tabix/usr/include -type f -print0 2>/dev/null | xargs -0r chmod 0644
+ find debian/tabix/usr/share/applications -type f -print0 2>/dev/null | xargs -0r chmod 0644
+ find debian/tabix -perm -5 -type f \( -name '*.cmxs' \) -print0 2>/dev/null | xargs -0r chmod 0644
find debian/tabix/usr/lib/x86_64-linux-gnu/perl5/5.20 debian/tabix/usr/share/perl5 -type f -perm -5 -name '*.pm' -print0 2>/dev/null | xargs -0r chmod a-X
find debian/tabix/usr/bin -type f -print0 2>/dev/null | xargs -0r chmod a+x
find debian/tabix/usr/lib -type f -name '*.ali' -print0 2>/dev/null | xargs -0r chmod uga-w
+ find debian/tabix/usr/share/lintian/overrides -type f -print0 2>/dev/null | xargs -0r chmod 0644
dh_strip -O--parallel
- strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libhts1/usr/lib/x86_64-linux-gnu/libhts.so.1.1-1
- strip --strip-debug debian/libhts-dev/usr/lib/x86_64-linux-gnu/libhts.a
+ strip --remove-section=.comment --remove-section=.note --strip-unneeded debian/libhts1/usr/lib/x86_64-linux-gnu/libhts.so.1.2.1-1
+ strip --strip-debug --enable-deterministic-archives debian/libhts-dev/usr/lib/x86_64-linux-gnu/libhts.a
strip --remove-section=.comment --remove-section=.note debian/tabix/usr/bin/tabix
strip --remove-section=.comment --remove-section=.note debian/tabix/usr/bin/bgzip
dh_makeshlibs -O--parallel
@@ -940,20 +988,18 @@ make[1]: Leaving directory '/«PKGBUILDDIR»'
echo "# Automatically added by dh_makeshlibs">> debian/libhts1.postrm.debhelper
sed "" /usr/share/debhelper/autoscripts/postrm-makeshlibs >> debian/libhts1.postrm.debhelper
echo '# End automatically added section' >> debian/libhts1.postrm.debhelper
- chmod 644 debian/libhts1/DEBIAN/shlibs
+ chmod 0644 debian/libhts1/DEBIAN/shlibs
chown 0:0 debian/libhts1/DEBIAN/shlibs
- dpkg-gensymbols -plibhts1 -Idebian/libhts1.symbols -Pdebian/libhts1 "-edebian/libhts1/usr/lib/x86_64-linux-gnu/libhts.so.1.1-1\
+ dpkg-gensymbols -plibhts1 -Idebian/libhts1.symbols -Pdebian/libhts1 "-edebian/libhts1/usr/lib/x86_64-linux-gnu/libhts.so.1.2.1-1\
"
- (grep -s -v misc:Pre-Depends debian/libhts1.substvars; echo misc:Pre-Depends=multiarch-support) > debian/libhts1.substvars.new
- mv debian/libhts1.substvars.new debian/libhts1.substvars
rm -f debian/libhts-dev/DEBIAN/shlibs
rm -f debian/htslib-test/DEBIAN/shlibs
rm -f debian/tabix/DEBIAN/shlibs
dh_shlibdeps -O--parallel
- dpkg-shlibdeps -Tdebian/libhts1.substvars debian/libhts1/usr/lib/x86_64-linux-gnu/libhts.so.1.1-1
- install -o 0 -g 0 -d debian/libhts-dev/DEBIAN
- install -o 0 -g 0 -d debian/htslib-test/DEBIAN
- install -o 0 -g 0 -d debian/tabix/DEBIAN
+ dpkg-shlibdeps -Tdebian/libhts1.substvars debian/libhts1/usr/lib/x86_64-linux-gnu/libhts.so.1.2.1-1
+ install -d debian/libhts-dev/DEBIAN
+ install -d debian/htslib-test/DEBIAN
+ install -d debian/tabix/DEBIAN
dpkg-shlibdeps -Tdebian/tabix.substvars debian/tabix/usr/bin/tabix debian/tabix/usr/bin/bgzip
dh_installdeb -O--parallel
printf '#!/bin/sh
@@ -961,63 +1007,63 @@ set -e
' > debian/libhts1/DEBIAN/postinst
cat debian/libhts1.postinst.debhelper >> debian/libhts1/DEBIAN/postinst
chown 0:0 debian/libhts1/DEBIAN/postinst
- chmod 755 debian/libhts1/DEBIAN/postinst
+ chmod 0755 debian/libhts1/DEBIAN/postinst
printf '#!/bin/sh
set -e
' > debian/libhts1/DEBIAN/postrm
cat debian/libhts1.postrm.debhelper >> debian/libhts1/DEBIAN/postrm
chown 0:0 debian/libhts1/DEBIAN/postrm
- chmod 755 debian/libhts1/DEBIAN/postrm
+ chmod 0755 debian/libhts1/DEBIAN/postrm
dh_gencontrol -O--parallel
echo misc:Depends= >> debian/libhts1.substvars
+ echo misc:Pre-Depends= >> debian/libhts1.substvars
dpkg-gencontrol -plibhts1 -ldebian/changelog -Tdebian/libhts1.substvars -Pdebian/libhts1
-dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
- chmod 644 debian/libhts1/DEBIAN/control
+ chmod 0644 debian/libhts1/DEBIAN/control
chown 0:0 debian/libhts1/DEBIAN/control
echo misc:Depends= >> debian/libhts-dev.substvars
+ echo misc:Pre-Depends= >> debian/libhts-dev.substvars
dpkg-gencontrol -plibhts-dev -ldebian/changelog -Tdebian/libhts-dev.substvars -Pdebian/libhts-dev
-dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
- chmod 644 debian/libhts-dev/DEBIAN/control
+ chmod 0644 debian/libhts-dev/DEBIAN/control
chown 0:0 debian/libhts-dev/DEBIAN/control
echo misc:Depends= >> debian/htslib-test.substvars
+ echo misc:Pre-Depends= >> debian/htslib-test.substvars
dpkg-gencontrol -phtslib-test -ldebian/changelog -Tdebian/htslib-test.substvars -Pdebian/htslib-test
-dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
- chmod 644 debian/htslib-test/DEBIAN/control
+ chmod 0644 debian/htslib-test/DEBIAN/control
chown 0:0 debian/htslib-test/DEBIAN/control
echo misc:Depends= >> debian/tabix.substvars
+ echo misc:Pre-Depends= >> debian/tabix.substvars
dpkg-gencontrol -ptabix -ldebian/changelog -Tdebian/tabix.substvars -Pdebian/tabix
-dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
- chmod 644 debian/tabix/DEBIAN/control
+ chmod 0644 debian/tabix/DEBIAN/control
chown 0:0 debian/tabix/DEBIAN/control
dh_md5sums -O--parallel
(cd debian/libhts1 >/dev/null ; find . -type f ! -regex './DEBIAN/.*' -printf '%P\0' | LC_ALL=C sort -z | xargs -r0 md5sum > DEBIAN/md5sums) >/dev/null
- chmod 644 debian/libhts1/DEBIAN/md5sums
+ chmod 0644 debian/libhts1/DEBIAN/md5sums
chown 0:0 debian/libhts1/DEBIAN/md5sums
(cd debian/libhts-dev >/dev/null ; find . -type f ! -regex './DEBIAN/.*' -printf '%P\0' | LC_ALL=C sort -z | xargs -r0 md5sum > DEBIAN/md5sums) >/dev/null
- chmod 644 debian/libhts-dev/DEBIAN/md5sums
+ chmod 0644 debian/libhts-dev/DEBIAN/md5sums
chown 0:0 debian/libhts-dev/DEBIAN/md5sums
(cd debian/htslib-test >/dev/null ; find . -type f ! -regex './DEBIAN/.*' -printf '%P\0' | LC_ALL=C sort -z | xargs -r0 md5sum > DEBIAN/md5sums) >/dev/null
- chmod 644 debian/htslib-test/DEBIAN/md5sums
+ chmod 0644 debian/htslib-test/DEBIAN/md5sums
chown 0:0 debian/htslib-test/DEBIAN/md5sums
(cd debian/tabix >/dev/null ; find . -type f ! -regex './DEBIAN/.*' -printf '%P\0' | LC_ALL=C sort -z | xargs -r0 md5sum > DEBIAN/md5sums) >/dev/null
- chmod 644 debian/tabix/DEBIAN/md5sums
+ chmod 0644 debian/tabix/DEBIAN/md5sums
chown 0:0 debian/tabix/DEBIAN/md5sums
dh_builddeb -O--parallel
dpkg-deb --build debian/libhts1 ..
-dpkg-deb: building package `libhts1' in `../libhts1_1.1-1_amd64.deb'.
+dpkg-deb: building package 'libhts1' in '../libhts1_1.2.1-1_amd64.deb'.
dpkg-deb --build debian/libhts-dev ..
-dpkg-deb: building package `libhts-dev' in `../libhts-dev_1.1-1_amd64.deb'.
+dpkg-deb: building package 'libhts-dev' in '../libhts-dev_1.2.1-1_amd64.deb'.
dpkg-deb --build debian/htslib-test ..
-dpkg-deb: building package `htslib-test' in `../htslib-test_1.1-1_all.deb'.
+dpkg-deb: building package 'htslib-test' in '../htslib-test_1.2.1-1_all.deb'.
dpkg-deb --build debian/tabix ..
-dpkg-deb: building package `tabix' in `../tabix_1.1-1_amd64.deb'.
- dpkg-genchanges >../htslib_1.1-1_amd64.changes
+dpkg-deb: building package 'tabix' in '../tabix_1.2.1-1_amd64.deb'.
+ dpkg-genchanges >../htslib_1.2.1-1_amd64.changes
dpkg-genchanges: including full source code in upload
- dpkg-source --after-build htslib-1.1
-dpkg-source: info: using options from htslib-1.1/debian/source/options: --single-debian-patch
+ dpkg-source --after-build htslib-1.2.1
+dpkg-source: info: using options from htslib-1.2.1/debian/source/options: --single-debian-patch
dpkg-buildpackage: full upload (original source is included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20140924-2129
+Build finished at 20150525-1343
Finished
────────
@@ -1034,8 +1080,13 @@ lintian
Merged Build-Depends: lintian
Filtered Build-Depends: lintian
-dpkg-deb: building package `sbuild-build-depends-lintian-dummy' in `/«BUILDDIR»/resolver-InEKDh/apt_archive/sbuild-build-depends-lintian-dummy.deb'.
+dpkg-deb: building package 'sbuild-build-depends-lintian-dummy' in '/«BUILDDIR»/resolver-ziXNJ4/apt_archive/sbuild-build-depends-lintian-dummy.deb'.
OK
+Ign file: ./ InRelease
+Get:1 file: ./ Release.gpg [299 B]
+Get:2 file: ./ Release [2119 B]
+Ign file: ./ Translation-en
+Reading package lists...
Reading package lists...
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -1049,177 +1100,209 @@ Reading state information...
The following extra packages will be installed:
diffstat hardening-includes libapt-pkg-perl libarchive-zip-perl
libclass-accessor-perl libclone-perl libdigest-hmac-perl libemail-valid-perl
- libfile-basedir-perl libio-pty-perl libio-socket-inet6-perl
- libio-socket-ssl-perl libio-string-perl libipc-run-perl
- liblist-moreutils-perl libmailtools-perl libnet-dns-perl
- libnet-domain-tld-perl libnet-ip-perl libnet-smtp-ssl-perl
- libnet-ssleay-perl libparse-debianchangelog-perl libsocket6-perl libssl1.0.0
- libsub-name-perl libtext-levenshtein-perl liburi-perl lintian netbase
- patchutils t1utils
+ libexporter-tiny-perl libfile-basedir-perl libio-pty-perl
+ libio-socket-inet6-perl libio-socket-ssl-perl libio-string-perl
+ libipc-run-perl liblist-moreutils-perl liblocale-gettext-perl
+ libmailtools-perl libnet-dns-perl libnet-domain-tld-perl libnet-ip-perl
+ libnet-smtp-ssl-perl libnet-ssleay-perl libparse-debianchangelog-perl
+ libsocket6-perl libssl1.0.0 libsub-name-perl libtext-levenshtein-perl
+ lintian netbase patchutils t1utils
Suggested packages:
- ca-certificates libhtml-parser-perl libhtml-template-perl libxml-simple-perl
- libwww-perl binutils-multiarch libyaml-perl
+ ca-certificates libhtml-template-perl libxml-simple-perl binutils-multiarch
+ libyaml-perl
Recommended packages:
libauthen-sasl-perl libperlio-gzip-perl ifupdown
The following NEW packages will be installed:
diffstat hardening-includes libapt-pkg-perl libarchive-zip-perl
libclass-accessor-perl libclone-perl libdigest-hmac-perl libemail-valid-perl
- libfile-basedir-perl libio-pty-perl libio-socket-inet6-perl
- libio-socket-ssl-perl libio-string-perl libipc-run-perl
- liblist-moreutils-perl libmailtools-perl libnet-dns-perl
- libnet-domain-tld-perl libnet-ip-perl libnet-smtp-ssl-perl
- libnet-ssleay-perl libparse-debianchangelog-perl libsocket6-perl libssl1.0.0
- libsub-name-perl libtext-levenshtein-perl liburi-perl lintian netbase
- patchutils sbuild-build-depends-lintian-dummy t1utils
+ libexporter-tiny-perl libfile-basedir-perl libio-pty-perl
+ libio-socket-inet6-perl libio-socket-ssl-perl libio-string-perl
+ libipc-run-perl liblist-moreutils-perl liblocale-gettext-perl
+ libmailtools-perl libnet-dns-perl libnet-domain-tld-perl libnet-ip-perl
+ libnet-smtp-ssl-perl libnet-ssleay-perl libparse-debianchangelog-perl
+ libsocket6-perl libssl1.0.0 libsub-name-perl libtext-levenshtein-perl
+ lintian netbase patchutils sbuild-build-depends-lintian-dummy t1utils
+0 upgraded, 33 newly installed, 0 to remove and 0 not upgraded.
+Need to get 3905 kB/3906 kB of archives.
+After this operation, 12.7 MB of additional disk space will be used.
+Get:1 http://ftp.jp.debian.org/debian/ sid/main libssl1.0.0 amd64 1.0.2a-1 [1274 kB]
+Get:2 http://ftp.jp.debian.org/debian/ sid/main liblocale-gettext-perl amd64 1.05-8+b1 [19.0 kB]
+Get:3 http://ftp.jp.debian.org/debian/ sid/main netbase all 5.3 [19.0 kB]
+Get:4 http://ftp.jp.debian.org/debian/ sid/main diffstat amd64 1.58-1 [29.4 kB]
+Get:5 http://ftp.jp.debian.org/debian/ sid/main hardening-includes all 2.7 [17.5 kB]
+Get:6 http://ftp.jp.debian.org/debian/ sid/main libapt-pkg-perl amd64 0.1.29+b2 [77.4 kB]
+Get:7 http://ftp.jp.debian.org/debian/ sid/main libarchive-zip-perl all 1.39-1 [95.9 kB]
+Get:8 http://ftp.jp.debian.org/debian/ sid/main libsub-name-perl amd64 0.12-1 [12.1 kB]
+Get:9 http://ftp.jp.debian.org/debian/ sid/main libclass-accessor-perl all 0.34-1 [25.9 kB]
+Get:10 http://ftp.jp.debian.org/debian/ sid/main libclone-perl amd64 0.38-1 [14.3 kB]
+Get:11 http://ftp.jp.debian.org/debian/ sid/main libdigest-hmac-perl all 1.03+dfsg-1 [12.3 kB]
+Get:12 http://ftp.jp.debian.org/debian/ sid/main libnet-ssleay-perl amd64 1.68-1 [281 kB]
+Get:13 http://ftp.jp.debian.org/debian/ sid/main libio-socket-ssl-perl all 2.015-1 [179 kB]
+Get:14 http://ftp.jp.debian.org/debian/ sid/main libnet-smtp-ssl-perl all 1.01-3 [5996 B]
+Get:15 http://ftp.jp.debian.org/debian/ sid/main libmailtools-perl all 2.13-1 [96.6 kB]
+Get:16 http://ftp.jp.debian.org/debian/ sid/main libsocket6-perl amd64 0.25-1+b1 [28.5 kB]
+Get:17 http://ftp.jp.debian.org/debian/ sid/main libio-socket-inet6-perl all 2.72-1 [16.6 kB]
+Get:18 http://ftp.jp.debian.org/debian/ sid/main libnet-ip-perl all 1.26-1 [33.2 kB]
+Get:19 http://ftp.jp.debian.org/debian/ sid/main libnet-dns-perl amd64 0.81-2 [331 kB]
+Get:20 http://ftp.jp.debian.org/debian/ sid/main libnet-domain-tld-perl all 1.73-1 [25.5 kB]
+Get:21 http://ftp.jp.debian.org/debian/ sid/main libemail-valid-perl all 1.195-1 [22.2 kB]
+Get:22 http://ftp.jp.debian.org/debian/ sid/main libexporter-tiny-perl all 0.042-1 [32.4 kB]
+Get:23 http://ftp.jp.debian.org/debian/ sid/main libfile-basedir-perl all 0.03-1 [10.4 kB]
+Get:24 http://ftp.jp.debian.org/debian/ sid/main libio-pty-perl amd64 1:1.08-1+b4 [35.8 kB]
+Get:25 http://ftp.jp.debian.org/debian/ sid/main libio-string-perl all 1.08-3 [12.3 kB]
+Get:26 http://ftp.jp.debian.org/debian/ sid/main libipc-run-perl all 0.94-1 [102 kB]
+Get:27 http://ftp.jp.debian.org/debian/ sid/main liblist-moreutils-perl amd64 0.410-1 [71.2 kB]
+Get:28 http://ftp.jp.debian.org/debian/ sid/main libparse-debianchangelog-perl all 1.2.0-2 [58.4 kB]
+Get:29 http://ftp.jp.debian.org/debian/ sid/main libtext-levenshtein-perl all 0.12-1 [10.8 kB]
+Get:30 http://ftp.jp.debian.org/debian/ sid/main patchutils amd64 0.3.4-1 [89.1 kB]
+Get:31 http://ftp.jp.debian.org/debian/ sid/main t1utils amd64 1.38-4 [58.2 kB]
+Get:32 http://ftp.jp.debian.org/debian/ sid/main lintian all 2.5.31 [808 kB]
debconf: delaying package configuration, since apt-utils is not installed
-0 upgraded, 32 newly installed, 0 to remove and 0 not upgraded.
-Need to get 0 B/3597 kB of archives.
-After this operation, 12.0 MB of additional disk space will be used.
-Selecting previously unselected package libssl1.0.0:amd64.
-(Reading database ... 12655 files and directories currently installed.)
-Preparing to unpack .../libssl1.0.0_1.0.1i-2_amd64.deb ...
-Unpacking libssl1.0.0:amd64 (1.0.1i-2) ...
-Selecting previously unselected package netbase.
-Preparing to unpack .../archives/netbase_5.2_all.deb ...
-Unpacking netbase (5.2) ...
-Selecting previously unselected package diffstat.
-Preparing to unpack .../diffstat_1.58-1_amd64.deb ...
-Unpacking diffstat (1.58-1) ...
-Selecting previously unselected package hardening-includes.
-Preparing to unpack .../hardening-includes_2.5+nmu1_all.deb ...
-Unpacking hardening-includes (2.5+nmu1) ...
-Selecting previously unselected package libapt-pkg-perl.
-Preparing to unpack .../libapt-pkg-perl_0.1.29+b2_amd64.deb ...
-Unpacking libapt-pkg-perl (0.1.29+b2) ...
-Selecting previously unselected package libarchive-zip-perl.
-Preparing to unpack .../libarchive-zip-perl_1.38-1_all.deb ...
-Unpacking libarchive-zip-perl (1.38-1) ...
-Selecting previously unselected package libsub-name-perl.
-Preparing to unpack .../libsub-name-perl_0.07-1+b1_amd64.deb ...
-Unpacking libsub-name-perl (0.07-1+b1) ...
-Selecting previously unselected package libclass-accessor-perl.
-Preparing to unpack .../libclass-accessor-perl_0.34-1_all.deb ...
-Unpacking libclass-accessor-perl (0.34-1) ...
-Selecting previously unselected package libclone-perl.
-Preparing to unpack .../libclone-perl_0.37-1+b1_amd64.deb ...
-Unpacking libclone-perl (0.37-1+b1) ...
-Selecting previously unselected package libdigest-hmac-perl.
-Preparing to unpack .../libdigest-hmac-perl_1.03+dfsg-1_all.deb ...
-Unpacking libdigest-hmac-perl (1.03+dfsg-1) ...
-Selecting previously unselected package libnet-ssleay-perl.
-Preparing to unpack .../libnet-ssleay-perl_1.65-1+b1_amd64.deb ...
-Unpacking libnet-ssleay-perl (1.65-1+b1) ...
-Selecting previously unselected package libio-socket-ssl-perl.
-Preparing to unpack .../libio-socket-ssl-perl_1.998-1_all.deb ...
-Unpacking libio-socket-ssl-perl (1.998-1) ...
-Selecting previously unselected package libnet-smtp-ssl-perl.
-Preparing to unpack .../libnet-smtp-ssl-perl_1.01-3_all.deb ...
-Unpacking libnet-smtp-ssl-perl (1.01-3) ...
-Selecting previously unselected package libmailtools-perl.
-Preparing to unpack .../libmailtools-perl_2.13-1_all.deb ...
-Unpacking libmailtools-perl (2.13-1) ...
-Selecting previously unselected package libsocket6-perl.
-Preparing to unpack .../libsocket6-perl_0.25-1+b1_amd64.deb ...
-Unpacking libsocket6-perl (0.25-1+b1) ...
-Selecting previously unselected package libio-socket-inet6-perl.
-Preparing to unpack .../libio-socket-inet6-perl_2.72-1_all.deb ...
-Unpacking libio-socket-inet6-perl (2.72-1) ...
-Selecting previously unselected package libnet-ip-perl.
-Preparing to unpack .../libnet-ip-perl_1.26-1_all.deb ...
-Unpacking libnet-ip-perl (1.26-1) ...
-Selecting previously unselected package libnet-dns-perl.
-Preparing to unpack .../libnet-dns-perl_0.79-2_amd64.deb ...
-Unpacking libnet-dns-perl (0.79-2) ...
-Selecting previously unselected package libnet-domain-tld-perl.
-Preparing to unpack .../libnet-domain-tld-perl_1.72-1_all.deb ...
-Unpacking libnet-domain-tld-perl (1.72-1) ...
-Selecting previously unselected package libemail-valid-perl.
-Preparing to unpack .../libemail-valid-perl_1.195-1_all.deb ...
-Unpacking libemail-valid-perl (1.195-1) ...
-Selecting previously unselected package libfile-basedir-perl.
-Preparing to unpack .../libfile-basedir-perl_0.03-1_all.deb ...
-Unpacking libfile-basedir-perl (0.03-1) ...
-Selecting previously unselected package libio-pty-perl.
-Preparing to unpack .../libio-pty-perl_1%3a1.08-1+b4_amd64.deb ...
-Unpacking libio-pty-perl (1:1.08-1+b4) ...
-Selecting previously unselected package libio-string-perl.
-Preparing to unpack .../libio-string-perl_1.08-3_all.deb ...
-Unpacking libio-string-perl (1.08-3) ...
-Selecting previously unselected package libipc-run-perl.
-Preparing to unpack .../libipc-run-perl_0.92-1_all.deb ...
-Unpacking libipc-run-perl (0.92-1) ...
-Selecting previously unselected package liblist-moreutils-perl.
-Preparing to unpack .../liblist-moreutils-perl_0.33-2+b1_amd64.deb ...
-Unpacking liblist-moreutils-perl (0.33-2+b1) ...
-Selecting previously unselected package libparse-debianchangelog-perl.
-Preparing to unpack .../libparse-debianchangelog-perl_1.2.0-1.1_all.deb ...
-Unpacking libparse-debianchangelog-perl (1.2.0-1.1) ...
-Selecting previously unselected package libtext-levenshtein-perl.
-Preparing to unpack .../libtext-levenshtein-perl_0.09-1_all.deb ...
-Unpacking libtext-levenshtein-perl (0.09-1) ...
-Selecting previously unselected package liburi-perl.
-Preparing to unpack .../liburi-perl_1.64-1_all.deb ...
-Unpacking liburi-perl (1.64-1) ...
-Selecting previously unselected package patchutils.
-Preparing to unpack .../patchutils_0.3.3-1_amd64.deb ...
-Unpacking patchutils (0.3.3-1) ...
-Selecting previously unselected package t1utils.
-Preparing to unpack .../t1utils_1.37-2.1_amd64.deb ...
-Unpacking t1utils (1.37-2.1) ...
-Selecting previously unselected package lintian.
-Preparing to unpack .../lintian_2.5.27_all.deb ...
-Unpacking lintian (2.5.27) ...
-Selecting previously unselected package sbuild-build-depends-lintian-dummy.
-Preparing to unpack .../sbuild-build-depends-lintian-dummy.deb ...
-Unpacking sbuild-build-depends-lintian-dummy (0.invalid.0) ...
-Processing triggers for man-db (2.7.0.1-1) ...
-Not building database; man-db/auto-update is not 'true'.
-Setting up libssl1.0.0:amd64 (1.0.1i-2) ...
-Setting up netbase (5.2) ...
-Setting up diffstat (1.58-1) ...
-Setting up hardening-includes (2.5+nmu1) ...
-Setting up libapt-pkg-perl (0.1.29+b2) ...
-Setting up libarchive-zip-perl (1.38-1) ...
-Setting up libsub-name-perl (0.07-1+b1) ...
-Setting up libclass-accessor-perl (0.34-1) ...
-Setting up libclone-perl (0.37-1+b1) ...
-Setting up libdigest-hmac-perl (1.03+dfsg-1) ...
-Setting up libnet-ssleay-perl (1.65-1+b1) ...
-Setting up libio-socket-ssl-perl (1.998-1) ...
-Setting up libnet-smtp-ssl-perl (1.01-3) ...
-Setting up libmailtools-perl (2.13-1) ...
-Setting up libsocket6-perl (0.25-1+b1) ...
-Setting up libio-socket-inet6-perl (2.72-1) ...
-Setting up libnet-ip-perl (1.26-1) ...
-Setting up libnet-dns-perl (0.79-2) ...
-Setting up libnet-domain-tld-perl (1.72-1) ...
-Setting up libemail-valid-perl (1.195-1) ...
-Setting up libfile-basedir-perl (0.03-1) ...
-Setting up libio-pty-perl (1:1.08-1+b4) ...
-Setting up libio-string-perl (1.08-3) ...
-Setting up libipc-run-perl (0.92-1) ...
-Setting up liblist-moreutils-perl (0.33-2+b1) ...
-Setting up libparse-debianchangelog-perl (1.2.0-1.1) ...
-Setting up libtext-levenshtein-perl (0.09-1) ...
-Setting up liburi-perl (1.64-1) ...
-Setting up patchutils (0.3.3-1) ...
-Setting up t1utils (1.37-2.1) ...
-Setting up lintian (2.5.27) ...
-Setting up sbuild-build-depends-lintian-dummy (0.invalid.0) ...
-Processing triggers for libc-bin (2.19-11) ...
+Fetched 3905 kB in 1s (2049 kB/s)
+Selecting previously unselected package libssl1.0.0:amd64.
+(Reading database ...
(Reading database ... 5%
(Reading database ... 10%
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(Reading database ... 13226 files and directories currently installed.)
+Preparing to unpack .../libssl1.0.0_1.0.2a-1_amd64.deb ...
+Unpacking libssl1.0.0:amd64 (1.0.2a-1) ...
+Selecting previously unselected package liblocale-gettext-perl.
+Preparing to unpack .../liblocale-gettext-perl_1.05-8+b1_amd64.deb ...
+Unpacking liblocale-gettext-perl (1.05-8+b1) ...
+Selecting previously unselected package netbase.
+Preparing to unpack .../archives/netbase_5.3_all.deb ...
+Unpacking netbase (5.3) ...
+Selecting previously unselected package diffstat.
+Preparing to unpack .../diffstat_1.58-1_amd64.deb ...
+Unpacking diffstat (1.58-1) ...
+Selecting previously unselected package hardening-includes.
+Preparing to unpack .../hardening-includes_2.7_all.deb ...
+Unpacking hardening-includes (2.7) ...
+Selecting previously unselected package libapt-pkg-perl.
+Preparing to unpack .../libapt-pkg-perl_0.1.29+b2_amd64.deb ...
+Unpacking libapt-pkg-perl (0.1.29+b2) ...
+Selecting previously unselected package libarchive-zip-perl.
+Preparing to unpack .../libarchive-zip-perl_1.39-1_all.deb ...
+Unpacking libarchive-zip-perl (1.39-1) ...
+Selecting previously unselected package libsub-name-perl.
+Preparing to unpack .../libsub-name-perl_0.12-1_amd64.deb ...
+Unpacking libsub-name-perl (0.12-1) ...
+Selecting previously unselected package libclass-accessor-perl.
+Preparing to unpack .../libclass-accessor-perl_0.34-1_all.deb ...
+Unpacking libclass-accessor-perl (0.34-1) ...
+Selecting previously unselected package libclone-perl.
+Preparing to unpack .../libclone-perl_0.38-1_amd64.deb ...
+Unpacking libclone-perl (0.38-1) ...
+Selecting previously unselected package libdigest-hmac-perl.
+Preparing to unpack .../libdigest-hmac-perl_1.03+dfsg-1_all.deb ...
+Unpacking libdigest-hmac-perl (1.03+dfsg-1) ...
+Selecting previously unselected package libnet-ssleay-perl.
+Preparing to unpack .../libnet-ssleay-perl_1.68-1_amd64.deb ...
+Unpacking libnet-ssleay-perl (1.68-1) ...
+Selecting previously unselected package libio-socket-ssl-perl.
+Preparing to unpack .../libio-socket-ssl-perl_2.015-1_all.deb ...
+Unpacking libio-socket-ssl-perl (2.015-1) ...
+Selecting previously unselected package libnet-smtp-ssl-perl.
+Preparing to unpack .../libnet-smtp-ssl-perl_1.01-3_all.deb ...
+Unpacking libnet-smtp-ssl-perl (1.01-3) ...
+Selecting previously unselected package libmailtools-perl.
+Preparing to unpack .../libmailtools-perl_2.13-1_all.deb ...
+Unpacking libmailtools-perl (2.13-1) ...
+Selecting previously unselected package libsocket6-perl.
+Preparing to unpack .../libsocket6-perl_0.25-1+b1_amd64.deb ...
+Unpacking libsocket6-perl (0.25-1+b1) ...
+Selecting previously unselected package libio-socket-inet6-perl.
+Preparing to unpack .../libio-socket-inet6-perl_2.72-1_all.deb ...
+Unpacking libio-socket-inet6-perl (2.72-1) ...
+Selecting previously unselected package libnet-ip-perl.
+Preparing to unpack .../libnet-ip-perl_1.26-1_all.deb ...
+Unpacking libnet-ip-perl (1.26-1) ...
+Selecting previously unselected package libnet-dns-perl.
+Preparing to unpack .../libnet-dns-perl_0.81-2_amd64.deb ...
+Unpacking libnet-dns-perl (0.81-2) ...
+Selecting previously unselected package libnet-domain-tld-perl.
+Preparing to unpack .../libnet-domain-tld-perl_1.73-1_all.deb ...
+Unpacking libnet-domain-tld-perl (1.73-1) ...
+Selecting previously unselected package libemail-valid-perl.
+Preparing to unpack .../libemail-valid-perl_1.195-1_all.deb ...
+Unpacking libemail-valid-perl (1.195-1) ...
+Selecting previously unselected package libexporter-tiny-perl.
+Preparing to unpack .../libexporter-tiny-perl_0.042-1_all.deb ...
+Unpacking libexporter-tiny-perl (0.042-1) ...
+Selecting previously unselected package libfile-basedir-perl.
+Preparing to unpack .../libfile-basedir-perl_0.03-1_all.deb ...
+Unpacking libfile-basedir-perl (0.03-1) ...
+Selecting previously unselected package libio-pty-perl.
+Preparing to unpack .../libio-pty-perl_1%3a1.08-1+b4_amd64.deb ...
+Unpacking libio-pty-perl (1:1.08-1+b4) ...
+Selecting previously unselected package libio-string-perl.
+Preparing to unpack .../libio-string-perl_1.08-3_all.deb ...
+Unpacking libio-string-perl (1.08-3) ...
+Selecting previously unselected package libipc-run-perl.
+Preparing to unpack .../libipc-run-perl_0.94-1_all.deb ...
+Unpacking libipc-run-perl (0.94-1) ...
+Selecting previously unselected package liblist-moreutils-perl.
+Preparing to unpack .../liblist-moreutils-perl_0.410-1_amd64.deb ...
+Unpacking liblist-moreutils-perl (0.410-1) ...
+Selecting previously unselected package libparse-debianchangelog-perl.
+Preparing to unpack .../libparse-debianchangelog-perl_1.2.0-2_all.deb ...
+Unpacking libparse-debianchangelog-perl (1.2.0-2) ...
+Selecting previously unselected package libtext-levenshtein-perl.
+Preparing to unpack .../libtext-levenshtein-perl_0.12-1_all.deb ...
+Unpacking libtext-levenshtein-perl (0.12-1) ...
+Selecting previously unselected package patchutils.
+Preparing to unpack .../patchutils_0.3.4-1_amd64.deb ...
+Unpacking patchutils (0.3.4-1) ...
+Selecting previously unselected package t1utils.
+Preparing to unpack .../t1utils_1.38-4_amd64.deb ...
+Unpacking t1utils (1.38-4) ...
+Selecting previously unselected package lintian.
+Preparing to unpack .../lintian_2.5.31_all.deb ...
+Unpacking lintian (2.5.31) ...
+Selecting previously unselected package sbuild-build-depends-lintian-dummy.
+Preparing to unpack .../sbuild-build-depends-lintian-dummy.deb ...
+Unpacking sbuild-build-depends-lintian-dummy (0.invalid.0) ...
+Processing triggers for man-db (2.7.0.2-5) ...
+Not building database; man-db/auto-update is not 'true'.
+Setting up libssl1.0.0:amd64 (1.0.2a-1) ...
+Setting up liblocale-gettext-perl (1.05-8+b1) ...
+Setting up netbase (5.3) ...
+Setting up diffstat (1.58-1) ...
+Setting up hardening-includes (2.7) ...
+Setting up libapt-pkg-perl (0.1.29+b2) ...
+Setting up libarchive-zip-perl (1.39-1) ...
+Setting up libsub-name-perl (0.12-1) ...
+Setting up libclass-accessor-perl (0.34-1) ...
+Setting up libclone-perl (0.38-1) ...
+Setting up libdigest-hmac-perl (1.03+dfsg-1) ...
+Setting up libnet-ssleay-perl (1.68-1) ...
+Setting up libio-socket-ssl-perl (2.015-1) ...
+Setting up libnet-smtp-ssl-perl (1.01-3) ...
+Setting up libmailtools-perl (2.13-1) ...
+Setting up libsocket6-perl (0.25-1+b1) ...
+Setting up libio-socket-inet6-perl (2.72-1) ...
+Setting up libnet-ip-perl (1.26-1) ...
+Setting up libnet-dns-perl (0.81-2) ...
+Setting up libnet-domain-tld-perl (1.73-1) ...
+Setting up libemail-valid-perl (1.195-1) ...
+Setting up libexporter-tiny-perl (0.042-1) ...
+Setting up libfile-basedir-perl (0.03-1) ...
+Setting up libio-pty-perl (1:1.08-1+b4) ...
+Setting up libio-string-perl (1.08-3) ...
+Setting up libipc-run-perl (0.94-1) ...
+Setting up liblist-moreutils-perl (0.410-1) ...
+Setting up libparse-debianchangelog-perl (1.2.0-2) ...
+Setting up libtext-levenshtein-perl (0.12-1) ...
+Setting up patchutils (0.3.4-1) ...
+Setting up t1utils (1.38-4) ...
+Setting up lintian (2.5.31) ...
+Setting up sbuild-build-depends-lintian-dummy (0.invalid.0) ...
+Processing triggers for libc-bin (2.19-18) ...
I: htslib source: quilt-patch-using-template-description debian-changes
-W: htslib source: newer-standards-version 3.9.6 (current is 3.9.5)
P: htslib source: debian-watch-may-check-gpg-signature
-P: libhts-dev: no-upstream-changelog
I: libhts-dev: extended-description-is-probably-too-short
W: libhts-dev: manpage-has-errors-from-man usr/share/man/man5/vcf.5.gz file `<standard input>', around line 39:
-P: tabix: no-upstream-changelog
-W: tabix: manpage-has-errors-from-man usr/share/man/man1/tabix.1.gz `R' is a string (producing the registered sign), not a macro.
-I: tabix: hyphen-used-as-minus-sign usr/share/man/man1/tabix.1.gz:124
-I: tabix: hyphen-used-as-minus-sign usr/share/man/man1/tabix.1.gz:126
-P: htslib-test: no-upstream-changelog
I: htslib-test: extended-description-is-probably-too-short
-P: libhts1: no-upstream-changelog
+I: tabix: hyphen-used-as-minus-sign usr/share/man/man1/tabix.1.gz:149
+I: tabix: hyphen-used-as-minus-sign usr/share/man/man1/tabix.1.gz:151
+N: 3 tags overridden (3 info)
I: Lintian run was successful.
@@ -1228,15 +1311,15 @@ I: Lintian run was successful.
└──────────────────────────────────────────────────────────────────────────────┘
-htslib_1.1-1_amd64.changes:
-───────────────────────────
+htslib_1.2.1-1_amd64.changes:
+─────────────────────────────
Format: 1.8
-Date: Wed, 24 Sep 2014 21:24:11 +0900
+Date: Mon, 25 May 2015 13:35:03 +0900
Source: htslib
Binary: libhts1 libhts-dev htslib-test tabix
-Architecture: source amd64 all
-Version: 1.1-1
+Architecture: source all amd64
+Version: 1.2.1-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
@@ -1247,105 +1330,133 @@ Description:
libhts1 - C library for high-throughput sequencing data formats
tabix - generic indexer for TAB-delimited genome position files
Changes:
- htslib (1.1-1) unstable; urgency=medium
+ htslib (1.2.1-1) unstable; urgency=medium
.
- 1357fbd Merge tag '1.1' into debian/unstable
- 87549cd Updated symbols file. One symbol is missing.
- 873ea9b Removed orphan paragraph in machine-readable copyright file.
- 49de2b9 Allow parallel build.
- 7fe3bb5 Normalise control file (VCS-Browser, Pre-Depends).
- 0e5e9e6 Conforms to Policy 3.9.6.
+ 0662716 Merge tag '1.2.1' into debian/unstable
+ 084f27d Install NEWS as upstream changelog.
+ 316fb96 Override a Lintian false positive.
+ 3363679 Clean test directory.
+ 69bf167 Corrected a typo in tabix description.
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- 75e0ce0dbd48da4f8ca0609d5adaefec 249544 libdevel optional libhts-dev_1.1-1_amd64.deb
- 1bd2059de9bb0186449165ec1f409e42 516462 science optional htslib-test_1.1-1_all.deb
- 0a7109428dd7b989d82e80f6c6e72bdb 189910 science optional tabix_1.1-1_amd64.deb
- b46a895274c92ed28530251f1dcf42be 1200 science optional htslib_1.1-1.dsc
- d0be108a121ace289fc960b854625f84 957217 science optional htslib_1.1.orig.tar.gz
- 2f74134e218c9e7c00c8ba7a6229bbea 8228 science optional htslib_1.1-1.debian.tar.xz
+ ea745392431446f4bccd9e4474732865 1214 science optional htslib_1.2.1-1.dsc
+ 81f5f1aa17a188a6b6250ca67d83384d 997625 science optional htslib_1.2.1.orig.tar.gz
+ 2e9d981f54993a6a0f00c86ac0eedc59 8852 science optional htslib_1.2.1-1.debian.tar.xz
+ a9a8d0c307034f6cebfd4104d7f33750 525034 science optional htslib-test_1.2.1-1_all.deb
+ 8a7b1f36be6f67568760631736d62627 278086 libdevel optional libhts-dev_1.2.1-1_amd64.deb
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+ 94c59d5865b38c4a35a5d4b2db8f2341 223174 science optional tabix_1.2.1-1_amd64.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-libhts1_1.1-1_amd64.deb
-───────────────────────
+htslib-test_1.2.1-1_all.deb
+───────────────────────────
new debian package, version 2.0.
- size 204556 bytes: control archive=4412 bytes.
- 979 bytes, 22 lines control
- 217 bytes, 3 lines md5sums
- 135 bytes, 7 lines * postinst #!/bin/sh
- 132 bytes, 7 lines * postrm #!/bin/sh
- 17 bytes, 1 lines shlibs
- 13564 bytes, 533 lines symbols
- Package: libhts1
+ size 525034 bytes: control archive=1821 bytes.
+ 368 bytes, 12 lines control
+ 3310 bytes, 48 lines md5sums
+ Package: htslib-test
Source: htslib
- Version: 1.1-1
- Architecture: amd64
+ Version: 1.2.1-1
+ Architecture: all
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 542
- Pre-Depends: multiarch-support
- Depends: libc6 (>= 2.15), zlib1g (>= 1:1.2.0.2)
- Section: libs
+ Installed-Size: 4137
+ Depends: perl
+ Section: science
Priority: optional
- Multi-Arch: same
Homepage: https://github.com/samtools/htslib
- Description: C library for high-throughput sequencing data formats
- HTSlib is an implementation of a unified C library for accessing common file
- formats, such as SAM (Sequence Alignment/Map), CRAM and VCF (Variant Call
- Format), used for high-throughput sequencing data, and is the core library
- used by samtools and bcftools. HTSlib only depends on zlib. It is known to be
- compatible with gcc, g++ and clang.
- .
- HTSlib implements a generalized BAM (binary SAM) index, with file extension
- ‘csi’ (coordinate-sorted index). The HTSlib file reader first looks for the
- new index and then for the old if the new index is absent.
-
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/lib/
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/lib/x86_64-linux-gnu/
-lrwxrwxrwx root/root 0 2014-09-24 21:29 ./usr/lib/x86_64-linux-gnu/libhts.so.1 -> libhts.so.1.1-1
--rw-r--r-- root/root 501296 2014-09-24 21:29 ./usr/lib/x86_64-linux-gnu/libhts.so.1.1-1
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/share/
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/share/doc/
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/share/doc/libhts1/
--rw-r--r-- root/root 816 2014-09-24 21:25 ./usr/share/doc/libhts1/changelog.Debian.gz
--rw-r--r-- root/root 5779 2014-09-24 21:20 ./usr/share/doc/libhts1/copyright
-
+ Description: Test data for HTSlib
+ This package contains test files and scripts for the HTSlib.
-libhts-dev_1.1-1_amd64.deb
-──────────────────────────
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/share/
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/share/doc/
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/share/doc/htslib-test/
+-rw-r--r-- root/root 946 2015-05-25 13:35 ./usr/share/doc/htslib-test/changelog.Debian.gz
+-rw-r--r-- root/root 1182 2015-02-04 01:22 ./usr/share/doc/htslib-test/changelog.gz
+-rw-r--r-- root/root 5781 2015-05-25 13:00 ./usr/share/doc/htslib-test/copyright
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/share/htslib-test/
+-rw-r--r-- root/root 727 2015-02-04 01:22 ./usr/share/htslib-test/auxf#values.sam
+-rw-r--r-- root/root 29 2015-02-04 01:22 ./usr/share/htslib-test/auxf.fa
+-rw-r--r-- root/root 18 2015-02-04 01:22 ./usr/share/htslib-test/auxf.fa.fai
+-rw-r--r-- root/root 148 2015-02-04 01:22 ./usr/share/htslib-test/c1#bounds.sam
+-rw-r--r-- root/root 337 2015-02-04 01:22 ./usr/share/htslib-test/c1#clip.sam
+-rw-r--r-- root/root 388 2015-02-04 01:22 ./usr/share/htslib-test/c1#pad1.sam
+-rw-r--r-- root/root 527 2015-02-04 01:22 ./usr/share/htslib-test/c1#pad2.sam
+-rw-r--r-- root/root 665 2015-02-04 01:22 ./usr/share/htslib-test/c1#pad3.sam
+-rw-r--r-- root/root 15 2015-02-04 01:22 ./usr/share/htslib-test/c1.fa
+-rw-r--r-- root/root 14 2015-02-04 01:22 ./usr/share/htslib-test/c1.fa.fai
+-rw-r--r-- root/root 342 2015-02-04 01:22 ./usr/share/htslib-test/ce#1.sam
+-rw-r--r-- root/root 646 2015-02-04 01:22 ./usr/share/htslib-test/ce#2.sam
+-rw-r--r-- root/root 1889 2015-02-04 01:22 ./usr/share/htslib-test/ce#5.sam
+-rw-r--r-- root/root 1853 2015-02-04 01:22 ./usr/share/htslib-test/ce#5b.sam
+-rw-r--r-- root/root 2147245 2015-02-04 01:22 ./usr/share/htslib-test/ce#large_seq.sam
+-rw-r--r-- root/root 1634 2015-02-04 01:22 ./usr/share/htslib-test/ce#tag_depadded.sam
+-rw-r--r-- root/root 1646 2015-02-04 01:22 ./usr/share/htslib-test/ce#tag_padded.sam
+-rw-r--r-- root/root 1325 2015-02-04 01:22 ./usr/share/htslib-test/ce#unmap.sam
+-rw-r--r-- root/root 2769 2015-02-04 01:22 ./usr/share/htslib-test/ce#unmap1.sam
+-rw-r--r-- root/root 5547 2015-02-04 01:22 ./usr/share/htslib-test/ce#unmap2.sam
+-rw-r--r-- root/root 1060702 2015-02-04 01:22 ./usr/share/htslib-test/ce.fa
+-rw-r--r-- root/root 230 2015-02-04 01:22 ./usr/share/htslib-test/ce.fa.fai
+-rwxr-xr-x root/root 4351 2015-02-04 01:22 ./usr/share/htslib-test/compare_sam.pl
+-rw-r--r-- root/root 2409 2015-02-04 01:22 ./usr/share/htslib-test/fieldarith.c
+-rw-r--r-- root/root 916 2015-02-04 01:22 ./usr/share/htslib-test/fieldarith.sam
+-rw-r--r-- root/root 6831 2015-02-04 01:22 ./usr/share/htslib-test/hfile.c
+-rw-r--r-- root/root 6591 2015-02-04 01:22 ./usr/share/htslib-test/sam.c
+-rw-r--r-- root/root 4271 2015-02-04 01:22 ./usr/share/htslib-test/test-regidx.c
+-rw-r--r-- root/root 10121 2015-02-04 01:22 ./usr/share/htslib-test/test-vcf-api.c
+-rw-r--r-- root/root 1936 2015-02-04 01:22 ./usr/share/htslib-test/test-vcf-api.out
+-rw-r--r-- root/root 3802 2015-02-04 01:22 ./usr/share/htslib-test/test-vcf-sweep.c
+-rw-r--r-- root/root 92 2015-02-04 01:22 ./usr/share/htslib-test/test-vcf-sweep.out
+-rwxr-xr-x root/root 6226 2015-02-04 01:22 ./usr/share/htslib-test/test.pl
+-rw-r--r-- root/root 7813 2015-02-04 01:22 ./usr/share/htslib-test/test_view.c
+-rwxr-xr-x root/root 2329 2015-02-04 01:22 ./usr/share/htslib-test/test_view.pl
+-rw-r--r-- root/root 0 2015-02-04 01:22 ./usr/share/htslib-test/xx#blank.sam
+-rw-r--r-- root/root 905485 2015-02-04 01:22 ./usr/share/htslib-test/xx#large_aux.sam
+-rw-r--r-- root/root 651 2015-02-04 01:22 ./usr/share/htslib-test/xx#large_aux2.sam
+-rw-r--r-- root/root 254 2015-02-04 01:22 ./usr/share/htslib-test/xx#minimal.sam
+-rw-r--r-- root/root 304 2015-02-04 01:22 ./usr/share/htslib-test/xx#pair.sam
+-rw-r--r-- root/root 517 2015-02-04 01:22 ./usr/share/htslib-test/xx#rg.sam
+-rw-r--r-- root/root 267 2015-02-04 01:22 ./usr/share/htslib-test/xx#triplet.sam
+-rw-r--r-- root/root 320 2015-02-04 01:22 ./usr/share/htslib-test/xx#unsorted.sam
+-rw-r--r-- root/root 51 2015-02-04 01:22 ./usr/share/htslib-test/xx.fa
+-rw-r--r-- root/root 29 2015-02-04 01:22 ./usr/share/htslib-test/xx.fa.fai
+
+
+libhts-dev_1.2.1-1_amd64.deb
+────────────────────────────
new debian package, version 2.0.
- size 249544 bytes: control archive=1300 bytes.
- 449 bytes, 14 lines control
- 1667 bytes, 26 lines md5sums
+ size 278086 bytes: control archive=1366 bytes.
+ 454 bytes, 14 lines control
+ 1801 bytes, 28 lines md5sums
Package: libhts-dev
Source: htslib
- Version: 1.1-1
+ Version: 1.2.1-1
Architecture: amd64
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 945
- Depends: libhts1 (= 1.1-1)
+ Installed-Size: 1002
+ Depends: libhts1 (= 1.2.1-1)
Section: libdevel
Priority: optional
Multi-Arch: same
@@ -1354,141 +1465,119 @@ libhts-dev_1.1-1_amd64.deb
This package contains development files for the HTSlib: headers, static
library, manual pages, etc.
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/include/
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/include/htslib/
--rw-r--r-- root/root 10450 2014-09-23 23:39 ./usr/include/htslib/bgzf.h
--rw-r--r-- root/root 4475 2014-09-23 23:39 ./usr/include/htslib/faidx.h
--rw-r--r-- root/root 6558 2014-09-23 23:39 ./usr/include/htslib/hfile.h
--rw-r--r-- root/root 10673 2014-09-23 23:39 ./usr/include/htslib/hts.h
--rw-r--r-- root/root 1721 2014-09-23 23:39 ./usr/include/htslib/hts_defs.h
--rw-r--r-- root/root 2647 2014-09-23 23:39 ./usr/include/htslib/kfunc.h
--rw-r--r-- root/root 21224 2014-09-23 23:39 ./usr/include/htslib/khash.h
--rw-r--r-- root/root 3798 2014-09-23 23:39 ./usr/include/htslib/khash_str2int.h
--rw-r--r-- root/root 4651 2014-09-23 23:39 ./usr/include/htslib/klist.h
--rw-r--r-- root/root 2828 2014-09-23 23:39 ./usr/include/htslib/knetfile.h
--rw-r--r-- root/root 8934 2014-09-23 23:39 ./usr/include/htslib/kseq.h
--rw-r--r-- root/root 10125 2014-09-23 23:39 ./usr/include/htslib/ksort.h
--rw-r--r-- root/root 6657 2014-09-23 23:39 ./usr/include/htslib/kstring.h
--rw-r--r-- root/root 15120 2014-09-23 23:39 ./usr/include/htslib/sam.h
--rw-r--r-- root/root 12203 2014-09-23 23:39 ./usr/include/htslib/synced_bcf_reader.h
--rw-r--r-- root/root 2747 2014-09-23 23:39 ./usr/include/htslib/tbx.h
--rw-r--r-- root/root 38337 2014-09-23 23:39 ./usr/include/htslib/vcf.h
--rw-r--r-- root/root 1517 2014-09-23 23:39 ./usr/include/htslib/vcf_sweep.h
--rw-r--r-- root/root 3988 2014-09-23 23:39 ./usr/include/htslib/vcfutils.h
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/lib/
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/lib/x86_64-linux-gnu/
--rw-r--r-- root/root 733376 2014-09-24 21:29 ./usr/lib/x86_64-linux-gnu/libhts.a
-lrwxrwxrwx root/root 0 2014-09-24 21:29 ./usr/lib/x86_64-linux-gnu/libhts.so -> libhts.so.1.1-1
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/lib/x86_64-linux-gnu/pkgconfig/
--rw-r--r-- root/root 270 2014-09-24 21:29 ./usr/lib/x86_64-linux-gnu/pkgconfig/htslib.pc
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/share/
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/share/doc/
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/share/doc/libhts-dev/
--rw-r--r-- root/root 816 2014-09-24 21:25 ./usr/share/doc/libhts-dev/changelog.Debian.gz
--rw-r--r-- root/root 5779 2014-09-24 21:20 ./usr/share/doc/libhts-dev/copyright
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/share/man/
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/share/man/man5/
--rw-r--r-- root/root 2081 2014-09-24 21:29 ./usr/share/man/man5/faidx.5.gz
--rw-r--r-- root/root 1535 2014-09-24 21:29 ./usr/share/man/man5/sam.5.gz
--rw-r--r-- root/root 1854 2014-09-24 21:29 ./usr/share/man/man5/vcf.5.gz
-
-
-htslib-test_1.1-1_all.deb
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/include/
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/include/htslib/
+-rw-r--r-- root/root 10524 2015-02-04 01:22 ./usr/include/htslib/bgzf.h
+-rw-r--r-- root/root 4475 2015-02-04 01:22 ./usr/include/htslib/faidx.h
+-rw-r--r-- root/root 6883 2015-02-04 01:22 ./usr/include/htslib/hfile.h
+-rw-r--r-- root/root 14886 2015-02-04 01:22 ./usr/include/htslib/hts.h
+-rw-r--r-- root/root 1721 2015-02-04 01:22 ./usr/include/htslib/hts_defs.h
+-rw-r--r-- root/root 2647 2015-02-04 01:22 ./usr/include/htslib/kfunc.h
+-rw-r--r-- root/root 21313 2015-02-04 01:22 ./usr/include/htslib/khash.h
+-rw-r--r-- root/root 3990 2015-02-04 01:22 ./usr/include/htslib/khash_str2int.h
+-rw-r--r-- root/root 4651 2015-02-04 01:22 ./usr/include/htslib/klist.h
+-rw-r--r-- root/root 2828 2015-02-04 01:22 ./usr/include/htslib/knetfile.h
+-rw-r--r-- root/root 8900 2015-02-04 01:22 ./usr/include/htslib/kseq.h
+-rw-r--r-- root/root 10125 2015-02-04 01:22 ./usr/include/htslib/ksort.h
+-rw-r--r-- root/root 6657 2015-02-04 01:22 ./usr/include/htslib/kstring.h
+-rw-r--r-- root/root 5730 2015-02-04 01:22 ./usr/include/htslib/regidx.h
+-rw-r--r-- root/root 15123 2015-02-04 01:22 ./usr/include/htslib/sam.h
+-rw-r--r-- root/root 12511 2015-02-04 01:22 ./usr/include/htslib/synced_bcf_reader.h
+-rw-r--r-- root/root 2747 2015-02-04 01:22 ./usr/include/htslib/tbx.h
+-rw-r--r-- root/root 38445 2015-02-04 01:22 ./usr/include/htslib/vcf.h
+-rw-r--r-- root/root 1517 2015-02-04 01:22 ./usr/include/htslib/vcf_sweep.h
+-rw-r--r-- root/root 3988 2015-02-04 01:22 ./usr/include/htslib/vcfutils.h
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/lib/
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/lib/x86_64-linux-gnu/
+-rw-r--r-- root/root 806606 2015-05-25 13:43 ./usr/lib/x86_64-linux-gnu/libhts.a
+lrwxrwxrwx root/root 0 2015-05-25 13:43 ./usr/lib/x86_64-linux-gnu/libhts.so -> libhts.so.1.2.1-1
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/lib/x86_64-linux-gnu/pkgconfig/
+-rw-r--r-- root/root 272 2015-05-25 13:43 ./usr/lib/x86_64-linux-gnu/pkgconfig/htslib.pc
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/share/
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/share/doc/
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/share/doc/libhts-dev/
+-rw-r--r-- root/root 946 2015-05-25 13:35 ./usr/share/doc/libhts-dev/changelog.Debian.gz
+-rw-r--r-- root/root 1182 2015-02-04 01:22 ./usr/share/doc/libhts-dev/changelog.gz
+-rw-r--r-- root/root 5781 2015-05-25 13:00 ./usr/share/doc/libhts-dev/copyright
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/share/man/
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/share/man/man5/
+-rw-r--r-- root/root 2081 2015-05-25 13:43 ./usr/share/man/man5/faidx.5.gz
+-rw-r--r-- root/root 1535 2015-05-25 13:43 ./usr/share/man/man5/sam.5.gz
+-rw-r--r-- root/root 1854 2015-05-25 13:43 ./usr/share/man/man5/vcf.5.gz
+
+
+libhts1_1.2.1-1_amd64.deb
─────────────────────────
new debian package, version 2.0.
- size 516462 bytes: control archive=1777 bytes.
- 366 bytes, 12 lines control
- 3161 bytes, 46 lines md5sums
- Package: htslib-test
+ size 228730 bytes: control archive=4669 bytes.
+ 950 bytes, 21 lines control
+ 358 bytes, 5 lines md5sums
+ 135 bytes, 7 lines * postinst #!/bin/sh
+ 132 bytes, 7 lines * postrm #!/bin/sh
+ 17 bytes, 1 lines shlibs
+ 14282 bytes, 559 lines symbols
+ Package: libhts1
Source: htslib
- Version: 1.1-1
- Architecture: all
+ Version: 1.2.1-1
+ Architecture: amd64
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 4121
- Depends: perl
- Section: science
+ Installed-Size: 584
+ Depends: libc6 (>= 2.15), zlib1g (>= 1:1.2.0.2)
+ Section: libs
Priority: optional
+ Multi-Arch: same
Homepage: https://github.com/samtools/htslib
- Description: Test data for HTSlib
- This package contains test files and scripts for the HTSlib.
+ Description: C library for high-throughput sequencing data formats
+ HTSlib is an implementation of a unified C library for accessing common file
+ formats, such as SAM (Sequence Alignment/Map), CRAM and VCF (Variant Call
+ Format), used for high-throughput sequencing data, and is the core library
+ used by samtools and bcftools. HTSlib only depends on zlib. It is known to be
+ compatible with gcc, g++ and clang.
+ .
+ HTSlib implements a generalized BAM (binary SAM) index, with file extension
+ ‘csi’ (coordinate-sorted index). The HTSlib file reader first looks for the
+ new index and then for the old if the new index is absent.
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/share/
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/share/doc/
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/share/doc/htslib-test/
--rw-r--r-- root/root 816 2014-09-24 21:25 ./usr/share/doc/htslib-test/changelog.Debian.gz
--rw-r--r-- root/root 5779 2014-09-24 21:20 ./usr/share/doc/htslib-test/copyright
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/share/htslib-test/
--rw-r--r-- root/root 727 2014-09-23 23:39 ./usr/share/htslib-test/aux#aux.sam
--rw-r--r-- root/root 29 2014-09-23 23:39 ./usr/share/htslib-test/aux.fa
--rw-r--r-- root/root 18 2014-09-23 23:39 ./usr/share/htslib-test/aux.fa.fai
--rw-r--r-- root/root 148 2014-09-23 23:39 ./usr/share/htslib-test/c1#bounds.sam
--rw-r--r-- root/root 337 2014-09-23 23:39 ./usr/share/htslib-test/c1#clip.sam
--rw-r--r-- root/root 388 2014-09-23 23:39 ./usr/share/htslib-test/c1#pad1.sam
--rw-r--r-- root/root 527 2014-09-23 23:39 ./usr/share/htslib-test/c1#pad2.sam
--rw-r--r-- root/root 665 2014-09-23 23:39 ./usr/share/htslib-test/c1#pad3.sam
--rw-r--r-- root/root 15 2014-09-23 23:39 ./usr/share/htslib-test/c1.fa
--rw-r--r-- root/root 14 2014-09-23 23:39 ./usr/share/htslib-test/c1.fa.fai
--rw-r--r-- root/root 342 2014-09-23 23:39 ./usr/share/htslib-test/ce#1.sam
--rw-r--r-- root/root 646 2014-09-23 23:39 ./usr/share/htslib-test/ce#2.sam
--rw-r--r-- root/root 1889 2014-09-23 23:39 ./usr/share/htslib-test/ce#5.sam
--rw-r--r-- root/root 1853 2014-09-23 23:39 ./usr/share/htslib-test/ce#5b.sam
--rw-r--r-- root/root 2147245 2014-09-23 23:39 ./usr/share/htslib-test/ce#large_seq.sam
--rw-r--r-- root/root 1634 2014-09-23 23:39 ./usr/share/htslib-test/ce#tag_depadded.sam
--rw-r--r-- root/root 1646 2014-09-23 23:39 ./usr/share/htslib-test/ce#tag_padded.sam
--rw-r--r-- root/root 1325 2014-09-23 23:39 ./usr/share/htslib-test/ce#unmap.sam
--rw-r--r-- root/root 2769 2014-09-23 23:39 ./usr/share/htslib-test/ce#unmap1.sam
--rw-r--r-- root/root 5547 2014-09-23 23:39 ./usr/share/htslib-test/ce#unmap2.sam
--rw-r--r-- root/root 1060702 2014-09-23 23:39 ./usr/share/htslib-test/ce.fa
--rw-r--r-- root/root 230 2014-09-23 23:39 ./usr/share/htslib-test/ce.fa.fai
--rwxr-xr-x root/root 4351 2014-09-23 23:39 ./usr/share/htslib-test/compare_sam.pl
--rw-r--r-- root/root 2409 2014-09-23 23:39 ./usr/share/htslib-test/fieldarith.c
--rw-r--r-- root/root 916 2014-09-23 23:39 ./usr/share/htslib-test/fieldarith.sam
--rw-r--r-- root/root 6824 2014-09-23 23:39 ./usr/share/htslib-test/hfile.c
--rw-r--r-- root/root 4751 2014-09-23 23:39 ./usr/share/htslib-test/sam.c
--rw-r--r-- root/root 8946 2014-09-23 23:39 ./usr/share/htslib-test/test-vcf-api.c
--rw-r--r-- root/root 1936 2014-09-23 23:39 ./usr/share/htslib-test/test-vcf-api.out
--rw-r--r-- root/root 3802 2014-09-23 23:39 ./usr/share/htslib-test/test-vcf-sweep.c
--rw-r--r-- root/root 92 2014-09-23 23:39 ./usr/share/htslib-test/test-vcf-sweep.out
--rwxr-xr-x root/root 6226 2014-09-23 23:39 ./usr/share/htslib-test/test.pl
--rw-r--r-- root/root 4830 2014-09-23 23:39 ./usr/share/htslib-test/test_view.c
--rwxr-xr-x root/root 2329 2014-09-23 23:39 ./usr/share/htslib-test/test_view.pl
--rw-r--r-- root/root 0 2014-09-23 23:39 ./usr/share/htslib-test/xx#blank.sam
--rw-r--r-- root/root 905485 2014-09-23 23:39 ./usr/share/htslib-test/xx#large_aux.sam
--rw-r--r-- root/root 651 2014-09-23 23:39 ./usr/share/htslib-test/xx#large_aux2.sam
--rw-r--r-- root/root 254 2014-09-23 23:39 ./usr/share/htslib-test/xx#minimal.sam
--rw-r--r-- root/root 304 2014-09-23 23:39 ./usr/share/htslib-test/xx#pair.sam
--rw-r--r-- root/root 517 2014-09-23 23:39 ./usr/share/htslib-test/xx#rg.sam
--rw-r--r-- root/root 267 2014-09-23 23:39 ./usr/share/htslib-test/xx#triplet.sam
--rw-r--r-- root/root 320 2014-09-23 23:39 ./usr/share/htslib-test/xx#unsorted.sam
--rw-r--r-- root/root 51 2014-09-23 23:39 ./usr/share/htslib-test/xx.fa
--rw-r--r-- root/root 29 2014-09-23 23:39 ./usr/share/htslib-test/xx.fa.fai
-
-
-tabix_1.1-1_amd64.deb
-─────────────────────
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/lib/
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/lib/x86_64-linux-gnu/
+lrwxrwxrwx root/root 0 2015-05-25 13:43 ./usr/lib/x86_64-linux-gnu/libhts.so.1 -> libhts.so.1.2.1-1
+-rw-r--r-- root/root 558784 2015-05-25 13:43 ./usr/lib/x86_64-linux-gnu/libhts.so.1.2.1-1
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/share/
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/share/doc/
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/share/doc/libhts1/
+-rw-r--r-- root/root 946 2015-05-25 13:35 ./usr/share/doc/libhts1/changelog.Debian.gz
+-rw-r--r-- root/root 1182 2015-02-04 01:22 ./usr/share/doc/libhts1/changelog.gz
+-rw-r--r-- root/root 5781 2015-05-25 13:00 ./usr/share/doc/libhts1/copyright
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/share/lintian/
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/share/lintian/overrides/
+-rw-r--r-- root/root 102 2015-05-25 13:25 ./usr/share/lintian/overrides/libhts1
+
+
+tabix_1.2.1-1_amd64.deb
+───────────────────────
new debian package, version 2.0.
- size 189910 bytes: control archive=930 bytes.
- 844 bytes, 19 lines control
- 298 bytes, 5 lines md5sums
+ size 223174 bytes: control archive=986 bytes.
+ 847 bytes, 19 lines control
+ 433 bytes, 7 lines md5sums
Package: tabix
Source: htslib
- Version: 1.1-1
+ Version: 1.2.1-1
Architecture: amd64
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 760
+ Installed-Size: 869
Depends: libc6 (>= 2.15), zlib1g (>= 1:1.2.0.2)
Section: science
Priority: optional
Homepage: https://github.com/samtools/htslib
Description: generic indexer for TAB-delimited genome position files
Tabix indexes files where some columns indicate sequence coordinates: name
- (usually a chromosme), start and stop. The input data file must be position
+ (usually a chromosome), start and stop. The input data file must be position
sorted and compressed by bgzip (provided in this package), which has a gzip
like interface. After indexing, tabix is able to quickly retrieve data lines by
chromosomal coordinates. Fast data retrieval also works over network if an URI
@@ -1496,20 +1585,24 @@ tabix_1.1-1_amd64.deb
.
This version of tabix is built from the HTSlib source.
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/bin/
--rwxr-xr-x root/root 326968 2014-09-24 21:29 ./usr/bin/bgzip
--rwxr-xr-x root/root 405176 2014-09-24 21:29 ./usr/bin/tabix
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/share/
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/share/doc/
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/share/doc/tabix/
--rw-r--r-- root/root 816 2014-09-24 21:25 ./usr/share/doc/tabix/changelog.Debian.gz
--rw-r--r-- root/root 5779 2014-09-24 21:20 ./usr/share/doc/tabix/copyright
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/share/man/
-drwxr-xr-x root/root 0 2014-09-24 21:29 ./usr/share/man/man1/
-lrwxrwxrwx root/root 0 2014-09-24 21:29 ./usr/share/man/man1/bgzip.1.gz -> tabix.1.gz
--rw-r--r-- root/root 2483 2014-09-24 21:29 ./usr/share/man/man1/tabix.1.gz
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/bin/
+-rwxr-xr-x root/root 388472 2015-05-25 13:43 ./usr/bin/bgzip
+-rwxr-xr-x root/root 474904 2015-05-25 13:43 ./usr/bin/tabix
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/share/
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/share/doc/
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/share/doc/tabix/
+-rw-r--r-- root/root 946 2015-05-25 13:35 ./usr/share/doc/tabix/changelog.Debian.gz
+-rw-r--r-- root/root 1182 2015-02-04 01:22 ./usr/share/doc/tabix/changelog.gz
+-rw-r--r-- root/root 5781 2015-05-25 13:00 ./usr/share/doc/tabix/copyright
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/share/lintian/
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/share/lintian/overrides/
+-rw-r--r-- root/root 129 2015-05-25 13:25 ./usr/share/lintian/overrides/tabix
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/share/man/
+drwxr-xr-x root/root 0 2015-05-25 13:43 ./usr/share/man/man1/
+lrwxrwxrwx root/root 0 2015-05-25 13:43 ./usr/share/man/man1/bgzip.1.gz -> tabix.1.gz
+-rw-r--r-- root/root 2781 2015-05-25 13:43 ./usr/share/man/man1/tabix.1.gz
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -1522,118 +1615,27 @@ lrwxrwxrwx root/root 0 2014-09-24 21:29 ./usr/share/man/man1/bgzip.1.gz
└──────────────────────────────────────────────────────────────────────────────┘
Purging /«BUILDDIR»
-Reading package lists...
-Building dependency tree...
-Reading state information...
-0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
-Reading package lists...
-Building dependency tree...
-Reading state information...
-The following packages will be REMOVED:
- bsdmainutils* debhelper* dh-exec* diffstat* file* gettext* gettext-base*
- groff-base* hardening-includes* intltool-debian* libapt-pkg-perl*
- libarchive-zip-perl* libasprintf0c2* libclass-accessor-perl* libclone-perl*
- libcroco3* libdigest-hmac-perl* libemail-valid-perl* libffi6*
- libfile-basedir-perl* libglib2.0-0* libio-pty-perl* libio-socket-inet6-perl*
- libio-socket-ssl-perl* libio-string-perl* libipc-run-perl*
- liblist-moreutils-perl* libmagic1* libmailtools-perl* libnet-dns-perl*
- libnet-domain-tld-perl* libnet-ip-perl* libnet-smtp-ssl-perl*
- libnet-ssleay-perl* libparse-debianchangelog-perl* libpipeline1*
- libsocket6-perl* libssl1.0.0* libsub-name-perl* libtext-levenshtein-perl*
- libunistring0* liburi-perl* libxml2* lintian* man-db* netbase* patchutils*
- po-debconf* sbuild-build-depends-core-dummy*
- sbuild-build-depends-htslib-dummy* sbuild-build-depends-lintian-dummy*
- t1utils* zlib1g-dev*
-0 upgraded, 0 newly installed, 53 to remove and 0 not upgraded.
-After this operation, 39.0 MB disk space will be freed.
-(Reading database ... 13879 files and directories currently installed.)
-Removing sbuild-build-depends-lintian-dummy (0.invalid.0) ...
-Removing lintian (2.5.27) ...
-Purging configuration files for lintian (2.5.27) ...
-Removing sbuild-build-depends-htslib-dummy (0.invalid.0) ...
-Removing dh-exec (0.13) ...
-Removing diffstat (1.58-1) ...
-Removing hardening-includes (2.5+nmu1) ...
-Removing libapt-pkg-perl (0.1.29+b2) ...
-Removing libarchive-zip-perl (1.38-1) ...
-Removing libparse-debianchangelog-perl (1.2.0-1.1) ...
-Removing libclass-accessor-perl (0.34-1) ...
-Removing libclone-perl (0.37-1+b1) ...
-Removing libemail-valid-perl (1.195-1) ...
-Removing libnet-dns-perl (0.79-2) ...
-Removing libdigest-hmac-perl (1.03+dfsg-1) ...
-Removing libfile-basedir-perl (0.03-1) ...
-Removing libipc-run-perl (0.92-1) ...
-Removing libio-pty-perl (1:1.08-1+b4) ...
-Removing libio-socket-inet6-perl (2.72-1) ...
-Removing libmailtools-perl (2.13-1) ...
-Removing libnet-smtp-ssl-perl (1.01-3) ...
-Removing libio-socket-ssl-perl (1.998-1) ...
-Removing libio-string-perl (1.08-3) ...
-Removing liblist-moreutils-perl (0.33-2+b1) ...
-Removing libnet-domain-tld-perl (1.72-1) ...
-Removing libnet-ip-perl (1.26-1) ...
-Removing libnet-ssleay-perl (1.65-1+b1) ...
-Removing libsocket6-perl (0.25-1+b1) ...
-Removing libssl1.0.0:amd64 (1.0.1i-2) ...
-Purging configuration files for libssl1.0.0:amd64 (1.0.1i-2) ...
-Removing libsub-name-perl (0.07-1+b1) ...
-Removing libtext-levenshtein-perl (0.09-1) ...
-Removing liburi-perl (1.64-1) ...
-Removing netbase (5.2) ...
-Purging configuration files for netbase (5.2) ...
-Removing patchutils (0.3.3-1) ...
-Removing sbuild-build-depends-core-dummy (0.invalid.0) ...
-Removing t1utils (1.37-2.1) ...
-Removing zlib1g-dev:amd64 (1:1.2.8.dfsg-2) ...
-Removing debhelper (9.20140817) ...
-Removing man-db (2.7.0.1-1) ...
-Purging configuration files for man-db (2.7.0.1-1) ...
-Removing bsdmainutils (9.0.5) ...
-Purging configuration files for bsdmainutils (9.0.5) ...
-Removing file (1:5.19-2) ...
-Removing po-debconf (1.0.16+nmu3) ...
-Removing intltool-debian (0.35.0+20060710.1) ...
-Removing gettext (0.19.2-2) ...
-Removing gettext-base (0.19.2-2) ...
-Removing groff-base (1.22.2-8) ...
-Purging configuration files for groff-base (1.22.2-8) ...
-Removing libasprintf0c2:amd64 (0.19.2-2) ...
-Removing libcroco3:amd64 (0.6.8-3) ...
-Purging configuration files for libcroco3:amd64 (0.6.8-3) ...
-Removing libglib2.0-0:amd64 (2.42.0-1) ...
-Purging configuration files for libglib2.0-0:amd64 (2.42.0-1) ...
-Removing libffi6:amd64 (3.1-2) ...
-Purging configuration files for libffi6:amd64 (3.1-2) ...
-Removing libmagic1:amd64 (1:5.19-2) ...
-Purging configuration files for libmagic1:amd64 (1:5.19-2) ...
-Removing libpipeline1:amd64 (1.3.1-1) ...
-Purging configuration files for libpipeline1:amd64 (1.3.1-1) ...
-Removing libunistring0:amd64 (0.9.3-5.2) ...
-Purging configuration files for libunistring0:amd64 (0.9.3-5.2) ...
-Removing libxml2:amd64 (2.9.1+dfsg1-4) ...
-Purging configuration files for libxml2:amd64 (2.9.1+dfsg1-4) ...
-Processing triggers for libc-bin (2.19-11) ...
+Not cleaning session: cloned chroot in use
┌──────────────────────────────────────────────────────────────────────────────┐
│ Summary │
└──────────────────────────────────────────────────────────────────────────────┘
Build Architecture: amd64
-Build-Space: 37700
-Build-Time: 82
+Build-Space: 45544
+Build-Time: 64
Distribution: unstable
Host Architecture: amd64
-Install-Time: 25
-Job: htslib_1.1-1.dsc
+Install-Time: 8
+Job: htslib_1.2.1-1.dsc
Lintian: pass
Machine Architecture: amd64
Package: htslib
-Package-Time: 114
-Source-Version: 1.1-1
-Space: 37700
+Package-Time: 77
+Source-Version: 1.2.1-1
+Space: 45544
Status: successful
-Version: 1.1-1
+Version: 1.2.1-1
────────────────────────────────────────────────────────────────────────────────
-Finished at 20140924-2129
-Build needed 00:01:54, 37700k disc space
+Finished at 20150525-1343
+Build needed 00:01:17, 45544k disc space
--
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