[med-svn] [SCM] fastx-toolkit branch, meta, updated. meta/0.0.13-1-4-g4977daf
Charles Plessy
plessy at debian.org
Tue May 15 12:16:45 UTC 2012
The following commit has been merged in the meta branch:
commit 4977daf85f72caa9f8ceb5e2b721778c62e690a5
Author: Charles Plessy <plessy at debian.org>
Date: Tue May 15 21:13:46 2012 +0900
fastx-toolkit (0.0.13.2-1) unstable; urgency=low
diff --git a/amd64.changes b/amd64.changes
index 041f9ac..0c62977 100644
--- a/amd64.changes
+++ b/amd64.changes
@@ -1,53 +1,56 @@
-----BEGIN PGP SIGNED MESSAGE-----
-Hash: SHA1
+Hash: SHA256
Format: 1.8
-Date: Wed, 25 Apr 2012 22:31:55 +0200
+Date: Tue, 15 May 2012 21:02:22 +0900
Source: fastx-toolkit
Binary: fastx-toolkit
Architecture: source amd64
-Version: 0.0.13.1-2
+Version: 0.0.13.2-1
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
-Changed-By: Andreas Tille <tille at debian.org>
+Changed-By: Charles Plessy <plessy at debian.org>
Description:
fastx-toolkit - FASTQ/A short nucleotide reads pre-processing tools
-Closes: 667161
Changes:
- fastx-toolkit (0.0.13.1-2) unstable; urgency=low
+ fastx-toolkit (0.0.13.2-1) unstable; urgency=low
.
- * debian/control:
- - Added myself to Uploaders
- - Standards-Version: 3.9.3 (no changes needed)
- - Add missing dependencies of Perl scripts
- - Add Build-Depends help2man
- - Add Perl modules also ad Build-Depends to enable also
- running help2man on Perl scripts
- * debian/patches/gcc-4.7.patch: Fix build issue with gcc-4.7
- Closes: #667161
- * debian/rules:
- - convert from cdbs to dh to finally enable hardening flags
- - use help2man to creat manpages where possible
- * debhelper 9 (control+compat) to support hardening flags
- * debian/README.Debian: Add hint for useful web page
+ 1313f16 Imported Upstream version 0.0.13.2
+ dbfb3ae Removed debian/patches/gcc-4.7.patch, applied upstream.
+ 182cd30 Include 7 digits of the commit ID in the changelog entry.
+ 2ae7b63 Spellchecked common “See also” section of the manpages.
+ 363856c Verbose Debhelper.
Checksums-Sha1:
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- ec5c63be31a58fe992a9debccf0ed74053ed70c7 16762 fastx-toolkit_0.0.13.1-2.debian.tar.gz
- 821206dee6076c4fd43c404e32cdc3f86f9c28a4 129778 fastx-toolkit_0.0.13.1-2_amd64.deb
+ 0d373685cea385736ef2c23ec87deb0cf6529fb8 2148 fastx-toolkit_0.0.13.2-1.dsc
+ 51fd9ddc1fc1ffea29d7cabc02e46dd8a1b860ec 545387 fastx-toolkit_0.0.13.2.orig.tar.bz2
+ 28269c0138ca47fcbfcc307524f96a957b5a075d 16854 fastx-toolkit_0.0.13.2-1.debian.tar.gz
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Checksums-Sha256:
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- 3eda52a67788cb8d7232fc1ebfdbf08c6a18156db5faa8edacb459d400f5f193 129778 fastx-toolkit_0.0.13.1-2_amd64.deb
+ e2d7eebc3094c654aaa845327b52424976018d4b787bce9117c0adaf5404969f 2148 fastx-toolkit_0.0.13.2-1.dsc
+ df154f785c35d1f8b6f3568ea80c52f742ec03f75564adfe8e1bb0f8de8b1aed 545387 fastx-toolkit_0.0.13.2.orig.tar.bz2
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+ 93eba6fbf09c463485718f2662c666deaaa6fe54f9b32f7c3357ab573d6806b8 130548 fastx-toolkit_0.0.13.2-1_amd64.deb
Files:
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- 89d94bd7be8bd6bfdcada098ac0f6c10 16762 science optional fastx-toolkit_0.0.13.1-2.debian.tar.gz
- 18ffbe890ec6293644e5c41b24866b67 129778 science optional fastx-toolkit_0.0.13.1-2_amd64.deb
+ 76e481aa0b83110e9db158f3c9d4bdf3 2148 science optional fastx-toolkit_0.0.13.2-1.dsc
+ 1d1238cb3029cb1c5d1a3eea7d7d2ca8 545387 science optional fastx-toolkit_0.0.13.2.orig.tar.bz2
+ 4b374b3244db3ca6f4886bfd6fd680f8 16854 science optional fastx-toolkit_0.0.13.2-1.debian.tar.gz
+ 7fc226e466b1d7360746cb9d179a53ac 130548 science optional fastx-toolkit_0.0.13.2-1_amd64.deb
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diff --git a/amd64.log b/amd64.log
index 4741452..e143b73 100644
--- a/amd64.log
+++ b/amd64.log
@@ -1,18 +1,18 @@
-sbuild (Debian sbuild) 0.62.4 (25 Jun 2011) on anx191
+sbuild (Debian sbuild) 0.62.6 (07 Dec 2011) on anx191
╔══════════════════════════════════════════════════════════════════════════════╗
-║ fastx-toolkit 0.0.13.1-1 (amd64) 08 Jul 2011 13:40 ║
+║ fastx-toolkit 0.0.13.2-1 (amd64) 15 May 2012 21:07 ║
╚══════════════════════════════════════════════════════════════════════════════╝
Package: fastx-toolkit
-Version: 0.0.13.1-1
-Source Version: 0.0.13.1-1
+Version: 0.0.13.2-1
+Source Version: 0.0.13.2-1
Distribution: unstable
Architecture: amd64
-I: NOTICE: Log filtering will replace 'build/fastx-toolkit-CdUyoC/fastx-toolkit-0.0.13.1' with '«PKGBUILDDIR»'
-I: NOTICE: Log filtering will replace 'build/fastx-toolkit-CdUyoC' with '«BUILDDIR»'
-I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/sid-amd64-sbuild-ac4d8d47-34e4-42d2-a485-5f039dabc23b' with '«CHROOT»'
+I: NOTICE: Log filtering will replace 'build/fastx-toolkit-FIOi2t/fastx-toolkit-0.0.13.2' with '«PKGBUILDDIR»'
+I: NOTICE: Log filtering will replace 'build/fastx-toolkit-FIOi2t' with '«BUILDDIR»'
+I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/sid-amd64-sbuild-37b3991d-0a43-46f1-b573-c1b678c18077' with '«CHROOT»'
┌──────────────────────────────────────────────────────────────────────────────┐
│ Update chroot │
@@ -20,7 +20,7 @@ I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/sid-amd64-sbuild-ac
Hit http://ftp.jp.debian.org sid InRelease
Hit http://ftp.jp.debian.org sid/main amd64 Packages/DiffIndex
-Hit http://ftp.jp.debian.org sid/main TranslationIndex
+Hit http://ftp.jp.debian.org sid/main Translation-en/DiffIndex
Reading package lists...
Reading package lists...
Building dependency tree...
@@ -35,14 +35,14 @@ Reading state information...
Local sources
─────────────
-fastx-toolkit_0.0.13.1-1.dsc exists in .; copying to chroot
+fastx-toolkit_0.0.13.2-1.dsc exists in .; copying to chroot
Check arch
──────────
Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
-dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/«BUILDDIR»/resolver-7E888t/apt_archive/sbuild-build-depends-core-dummy.deb'.
+dpkg-deb: building package `sbuild-build-depends-core-dummy' in `/«BUILDDIR»/resolver-Er60d1/apt_archive/sbuild-build-depends-core-dummy.deb'.
OK
Reading package lists...
@@ -56,12 +56,12 @@ Building dependency tree...
Reading state information...
sbuild-build-depends-core-dummy is already the newest version.
The following packages were automatically installed and are no longer required:
- gettext-base libncursesw5 dialog
+ g++-4.6 libstdc++6-4.6-dev
Use 'apt-get autoremove' to remove them.
0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
-Merged Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), cdbs, debhelper (>= 8), autotools-dev, pkg-config, libgtextutils-dev
-Filtered Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), cdbs, debhelper (>= 8), autotools-dev, pkg-config, libgtextutils-dev
-dpkg-deb: building package `sbuild-build-depends-fastx-toolkit-dummy' in `/«BUILDDIR»/resolver-vs0Xm_/apt_archive/sbuild-build-depends-fastx-toolkit-dummy.deb'.
+Merged Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev | libc-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 9), autotools-dev, pkg-config, libgtextutils-dev, help2man, libgd-graph-perl, libperlio-gzip-perl
+Filtered Build-Depends: base-files, base-passwd, bash, coreutils, dash, debianutils, diffutils, dpkg, e2fsprogs, findutils, grep, gzip, hostname, ncurses-base, ncurses-bin, perl-base, sed, login, sysvinit-utils, sysvinit, tar, bsdutils, mount, util-linux, libc6-dev, gcc (>= 4:4.4.3), g++ (>= 4:4.4.3), make, dpkg-dev (>= 1.13.5), debhelper (>= 9), autotools-dev, pkg-config, libgtextutils-dev, help2man, libgd-graph-perl, libperlio-gzip-perl
+dpkg-deb: building package `sbuild-build-depends-fastx-toolkit-dummy' in `/«BUILDDIR»/resolver-gompNs/apt_archive/sbuild-build-depends-fastx-toolkit-dummy.deb'.
OK
Reading package lists...
@@ -74,104 +74,213 @@ Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
- libncursesw5 dialog
+ g++-4.6 libstdc++6-4.6-dev
Use 'apt-get autoremove' to remove them.
The following extra packages will be installed:
- autotools-dev cdbs debhelper file gettext groff-base html2text
- intltool-debian libcroco3 libglib2.0-0 libgtextutils-dev libgtextutils0
- libmagic1 libpcre3 libpipeline1 libpopt0 libunistring0 libxml2 man-db
- pkg-config po-debconf
+ autotools-dev debhelper file fontconfig-config gettext gettext-base
+ groff-base help2man html2text intltool-debian libasprintf0c2 libcroco3
+ libexpat1 libffi5 libfontconfig1 libfreetype6 libgd-gd2-perl
+ libgd-graph-perl libgd-text-perl libgd2-xpm libgettextpo0 libglib2.0-0
+ libgtextutils-dev libgtextutils0 libjpeg8 liblocale-gettext-perl libmagic1
+ libpcre3 libperlio-gzip-perl libpipeline1 libpopt0 libunistring0 libx11-6
+ libx11-data libxau6 libxcb1 libxdmcp6 libxml2 libxpm4 man-db pkg-config
+ po-debconf ttf-dejavu-core
Suggested packages:
- devscripts dh-make gettext-doc groff less www-browser libmail-box-perl
+ dh-make gettext-doc groff ttf-dustin libgd-tools less www-browser
+ libmail-box-perl
Recommended packages:
curl wget lynx-cur autopoint libglib2.0-data shared-mime-info xml-core
libmail-sendmail-perl
The following NEW packages will be installed:
- autotools-dev cdbs debhelper file gettext groff-base html2text
- intltool-debian libcroco3 libglib2.0-0 libgtextutils-dev libgtextutils0
- libmagic1 libpcre3 libpipeline1 libpopt0 libunistring0 libxml2 man-db
- pkg-config po-debconf sbuild-build-depends-fastx-toolkit-dummy
+ autotools-dev debhelper file fontconfig-config gettext gettext-base
+ groff-base help2man html2text intltool-debian libasprintf0c2 libcroco3
+ libexpat1 libffi5 libfontconfig1 libfreetype6 libgd-gd2-perl
+ libgd-graph-perl libgd-text-perl libgd2-xpm libgettextpo0 libglib2.0-0
+ libgtextutils-dev libgtextutils0 libjpeg8 liblocale-gettext-perl libmagic1
+ libpcre3 libperlio-gzip-perl libpipeline1 libpopt0 libunistring0 libx11-6
+ libx11-data libxau6 libxcb1 libxdmcp6 libxml2 libxpm4 man-db pkg-config
+ po-debconf sbuild-build-depends-fastx-toolkit-dummy ttf-dejavu-core
+0 upgraded, 44 newly installed, 0 to remove and 0 not upgraded.
+Need to get 12.5 MB/15.0 MB of archives.
+After this operation, 37.7 MB of additional disk space will be used.
+Get:1 http://ftp.jp.debian.org/debian/ sid/main libpipeline1 amd64 1.2.1-1 [39.2 kB]
+Get:2 http://ftp.jp.debian.org/debian/ sid/main libpopt0 amd64 1.16-5 [56.2 kB]
+Get:3 http://ftp.jp.debian.org/debian/ sid/main libasprintf0c2 amd64 0.18.1.1-7 [26.5 kB]
+Get:4 http://ftp.jp.debian.org/debian/ sid/main libmagic1 amd64 5.11-1 [250 kB]
+Get:5 http://ftp.jp.debian.org/debian/ sid/main libpcre3 amd64 1:8.30-5 [242 kB]
+Get:6 http://ftp.jp.debian.org/debian/ sid/main libxml2 amd64 2.7.8.dfsg-9 [895 kB]
+Get:7 http://ftp.jp.debian.org/debian/ sid/main libglib2.0-0 amd64 2.32.2-1 [2076 kB]
+Get:8 http://ftp.jp.debian.org/debian/ sid/main libcroco3 amd64 0.6.5-1 [151 kB]
+Get:9 http://ftp.jp.debian.org/debian/ sid/main libexpat1 amd64 2.1.0-1 [141 kB]
+Get:10 http://ftp.jp.debian.org/debian/ sid/main libfreetype6 amd64 2.4.9-1 [450 kB]
+Get:11 http://ftp.jp.debian.org/debian/ sid/main fontconfig-config all 2.9.0-5 [231 kB]
+Get:12 http://ftp.jp.debian.org/debian/ sid/main libfontconfig1 amd64 2.9.0-5 [299 kB]
+Get:13 http://ftp.jp.debian.org/debian/ sid/main libjpeg8 amd64 8d-1 [134 kB]
+Get:14 http://ftp.jp.debian.org/debian/ sid/main libxau6 amd64 1:1.0.7-1 [18.8 kB]
+Get:15 http://ftp.jp.debian.org/debian/ sid/main libxdmcp6 amd64 1:1.1.1-1 [26.3 kB]
+Get:16 http://ftp.jp.debian.org/debian/ sid/main libxcb1 amd64 1.8.1-1 [50.0 kB]
+Get:17 http://ftp.jp.debian.org/debian/ sid/main libx11-data all 2:1.4.99.901-2 [186 kB]
+Get:18 http://ftp.jp.debian.org/debian/ sid/main libx11-6 amd64 2:1.4.99.901-2 [898 kB]
+Get:19 http://ftp.jp.debian.org/debian/ sid/main libxpm4 amd64 1:3.5.10-1 [49.4 kB]
+Get:20 http://ftp.jp.debian.org/debian/ sid/main libgd2-xpm amd64 2.0.36~rc1~dfsg-6.1 [232 kB]
+Get:21 http://ftp.jp.debian.org/debian/ sid/main libgettextpo0 amd64 0.18.1.1-7 [142 kB]
+Get:22 http://ftp.jp.debian.org/debian/ sid/main groff-base amd64 1.21-7 [1151 kB]
+Get:23 http://ftp.jp.debian.org/debian/ sid/main man-db amd64 2.6.1-2 [1057 kB]
+Get:24 http://ftp.jp.debian.org/debian/ sid/main file amd64 5.11-1 [53.2 kB]
+Get:25 http://ftp.jp.debian.org/debian/ sid/main gettext-base amd64 0.18.1.1-7 [152 kB]
+Get:26 http://ftp.jp.debian.org/debian/ sid/main autotools-dev all 20120210.1 [72.7 kB]
+Get:27 http://ftp.jp.debian.org/debian/ sid/main gettext amd64 0.18.1.1-7 [1966 kB]
+Get:28 http://ftp.jp.debian.org/debian/ sid/main debhelper all 9.20120513 [694 kB]
+Get:29 http://ftp.jp.debian.org/debian/ sid/main help2man amd64 1.40.9 [95.7 kB]
+Get:30 http://ftp.jp.debian.org/debian/ sid/main libperlio-gzip-perl amd64 0.18-1+b2 [19.0 kB]
+Get:31 http://ftp.jp.debian.org/debian/ sid/main libgd-gd2-perl amd64 1:2.46-3+b1 [200 kB]
+Get:32 http://ftp.jp.debian.org/debian/ sid/main libgd-text-perl all 0.86-8 [42.4 kB]
+Get:33 http://ftp.jp.debian.org/debian/ sid/main libgd-graph-perl all 1.44-6 [393 kB]
debconf: delaying package configuration, since apt-utils is not installed
-0 upgraded, 22 newly installed, 0 to remove and 0 not upgraded.
-Need to get 0 B/9158 kB of archives.
-After this operation, 26.7 MB of additional disk space will be used.
-Selecting previously deselected package libpipeline1.
-(Reading database ... 11278 files and directories currently installed.)
-Unpacking libpipeline1 (from .../libpipeline1_1.2.0-3_amd64.deb) ...
-Selecting previously deselected package groff-base.
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-Selecting previously deselected package libpopt0.
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-Selecting previously deselected package man-db.
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-Selecting previously deselected package libmagic1.
-Unpacking libmagic1 (from .../libmagic1_5.04-5+b1_amd64.deb) ...
-Selecting previously deselected package file.
-Unpacking file (from .../file_5.04-5+b1_amd64.deb) ...
-Selecting previously deselected package libpcre3.
-Unpacking libpcre3 (from .../libpcre3_8.12-3_amd64.deb) ...
-Selecting previously deselected package libxml2.
-Unpacking libxml2 (from .../libxml2_2.7.8.dfsg-3_amd64.deb) ...
-Selecting previously deselected package autotools-dev.
-Unpacking autotools-dev (from .../autotools-dev_20110511.1_all.deb) ...
-Selecting previously deselected package html2text.
+Fetched 12.5 MB in 4s (2582 kB/s)
+Selecting previously unselected package libpipeline1:amd64.
+(Reading database ... 11771 files and directories currently installed.)
+Unpacking libpipeline1:amd64 (from .../libpipeline1_1.2.1-1_amd64.deb) ...
+Selecting previously unselected package libpopt0:amd64.
+Unpacking libpopt0:amd64 (from .../libpopt0_1.16-5_amd64.deb) ...
+Selecting previously unselected package liblocale-gettext-perl.
+Unpacking liblocale-gettext-perl (from .../liblocale-gettext-perl_1.05-7+b1_amd64.deb) ...
+Selecting previously unselected package libasprintf0c2:amd64.
+Unpacking libasprintf0c2:amd64 (from .../libasprintf0c2_0.18.1.1-7_amd64.deb) ...
+Selecting previously unselected package libmagic1:amd64.
+Unpacking libmagic1:amd64 (from .../libmagic1_5.11-1_amd64.deb) ...
+Selecting previously unselected package libpcre3:amd64.
+Unpacking libpcre3:amd64 (from .../libpcre3_1%3a8.30-5_amd64.deb) ...
+Selecting previously unselected package libxml2:amd64.
+Unpacking libxml2:amd64 (from .../libxml2_2.7.8.dfsg-9_amd64.deb) ...
+Selecting previously unselected package libffi5:amd64.
+Unpacking libffi5:amd64 (from .../libffi5_3.0.10-3_amd64.deb) ...
+Selecting previously unselected package libglib2.0-0:amd64.
+Unpacking libglib2.0-0:amd64 (from .../libglib2.0-0_2.32.2-1_amd64.deb) ...
+Selecting previously unselected package libcroco3:amd64.
+Unpacking libcroco3:amd64 (from .../libcroco3_0.6.5-1_amd64.deb) ...
+Selecting previously unselected package libexpat1:amd64.
+Unpacking libexpat1:amd64 (from .../libexpat1_2.1.0-1_amd64.deb) ...
+Selecting previously unselected package libfreetype6:amd64.
+Unpacking libfreetype6:amd64 (from .../libfreetype6_2.4.9-1_amd64.deb) ...
+Selecting previously unselected package ttf-dejavu-core.
+Unpacking ttf-dejavu-core (from .../ttf-dejavu-core_2.33-2_all.deb) ...
+Selecting previously unselected package fontconfig-config.
+Unpacking fontconfig-config (from .../fontconfig-config_2.9.0-5_all.deb) ...
+Selecting previously unselected package libfontconfig1:amd64.
+Unpacking libfontconfig1:amd64 (from .../libfontconfig1_2.9.0-5_amd64.deb) ...
+Selecting previously unselected package libjpeg8:amd64.
+Unpacking libjpeg8:amd64 (from .../libjpeg8_8d-1_amd64.deb) ...
+Selecting previously unselected package libxau6:amd64.
+Unpacking libxau6:amd64 (from .../libxau6_1%3a1.0.7-1_amd64.deb) ...
+Selecting previously unselected package libxdmcp6:amd64.
+Unpacking libxdmcp6:amd64 (from .../libxdmcp6_1%3a1.1.1-1_amd64.deb) ...
+Selecting previously unselected package libxcb1:amd64.
+Unpacking libxcb1:amd64 (from .../libxcb1_1.8.1-1_amd64.deb) ...
+Selecting previously unselected package libx11-data.
+Unpacking libx11-data (from .../libx11-data_2%3a1.4.99.901-2_all.deb) ...
+Selecting previously unselected package libx11-6:amd64.
+Unpacking libx11-6:amd64 (from .../libx11-6_2%3a1.4.99.901-2_amd64.deb) ...
+Selecting previously unselected package libxpm4:amd64.
+Unpacking libxpm4:amd64 (from .../libxpm4_1%3a3.5.10-1_amd64.deb) ...
+Selecting previously unselected package libgd2-xpm:amd64.
+Unpacking libgd2-xpm:amd64 (from .../libgd2-xpm_2.0.36~rc1~dfsg-6.1_amd64.deb) ...
+Selecting previously unselected package libunistring0:amd64.
+Unpacking libunistring0:amd64 (from .../libunistring0_0.9.3-5_amd64.deb) ...
+Selecting previously unselected package libgettextpo0:amd64.
+Unpacking libgettextpo0:amd64 (from .../libgettextpo0_0.18.1.1-7_amd64.deb) ...
+Selecting previously unselected package groff-base.
+Unpacking groff-base (from .../groff-base_1.21-7_amd64.deb) ...
+Selecting previously unselected package man-db.
+Unpacking man-db (from .../man-db_2.6.1-2_amd64.deb) ...
+Selecting previously unselected package file.
+Unpacking file (from .../archives/file_5.11-1_amd64.deb) ...
+Selecting previously unselected package gettext-base.
+Unpacking gettext-base (from .../gettext-base_0.18.1.1-7_amd64.deb) ...
+Selecting previously unselected package autotools-dev.
+Unpacking autotools-dev (from .../autotools-dev_20120210.1_all.deb) ...
+Selecting previously unselected package html2text.
Unpacking html2text (from .../html2text_1.3.2a-15_amd64.deb) ...
-Selecting previously deselected package libglib2.0-0.
-Unpacking libglib2.0-0 (from .../libglib2.0-0_2.28.6-1_amd64.deb) ...
-Selecting previously deselected package libcroco3.
-Unpacking libcroco3 (from .../libcroco3_0.6.2-1_amd64.deb) ...
-Selecting previously deselected package libunistring0.
-Unpacking libunistring0 (from .../libunistring0_0.9.3-4_amd64.deb) ...
-Selecting previously deselected package gettext.
-Unpacking gettext (from .../gettext_0.18.1.1-3_amd64.deb) ...
-Selecting previously deselected package intltool-debian.
+Selecting previously unselected package gettext.
+Unpacking gettext (from .../gettext_0.18.1.1-7_amd64.deb) ...
+Selecting previously unselected package intltool-debian.
Unpacking intltool-debian (from .../intltool-debian_0.35.0+20060710.1_all.deb) ...
-Selecting previously deselected package po-debconf.
-Unpacking po-debconf (from .../po-debconf_1.0.16+nmu1_all.deb) ...
-Selecting previously deselected package debhelper.
-Unpacking debhelper (from .../debhelper_8.9.0_all.deb) ...
-Selecting previously deselected package cdbs.
-Unpacking cdbs (from .../archives/cdbs_0.4.94_all.deb) ...
-Selecting previously deselected package libgtextutils0.
+Selecting previously unselected package po-debconf.
+Unpacking po-debconf (from .../po-debconf_1.0.16+nmu2_all.deb) ...
+Selecting previously unselected package debhelper.
+Unpacking debhelper (from .../debhelper_9.20120513_all.deb) ...
+Selecting previously unselected package help2man.
+Unpacking help2man (from .../help2man_1.40.9_amd64.deb) ...
+Selecting previously unselected package libgtextutils0.
Unpacking libgtextutils0 (from .../libgtextutils0_0.6.2-1_amd64.deb) ...
-Selecting previously deselected package libgtextutils-dev.
+Selecting previously unselected package libgtextutils-dev.
Unpacking libgtextutils-dev (from .../libgtextutils-dev_0.6.2-1_amd64.deb) ...
-Selecting previously deselected package pkg-config.
+Selecting previously unselected package libperlio-gzip-perl.
+Unpacking libperlio-gzip-perl (from .../libperlio-gzip-perl_0.18-1+b2_amd64.deb) ...
+Selecting previously unselected package pkg-config.
Unpacking pkg-config (from .../pkg-config_0.26-1_amd64.deb) ...
-Selecting previously deselected package sbuild-build-depends-fastx-toolkit-dummy.
+Selecting previously unselected package libgd-gd2-perl.
+Unpacking libgd-gd2-perl (from .../libgd-gd2-perl_1%3a2.46-3+b1_amd64.deb) ...
+Selecting previously unselected package libgd-text-perl.
+Unpacking libgd-text-perl (from .../libgd-text-perl_0.86-8_all.deb) ...
+Selecting previously unselected package libgd-graph-perl.
+Unpacking libgd-graph-perl (from .../libgd-graph-perl_1.44-6_all.deb) ...
+Selecting previously unselected package sbuild-build-depends-fastx-toolkit-dummy.
Unpacking sbuild-build-depends-fastx-toolkit-dummy (from .../sbuild-build-depends-fastx-toolkit-dummy.deb) ...
-Setting up libpipeline1 (1.2.0-3) ...
-Setting up groff-base (1.21-6) ...
-Setting up libpopt0 (1.16-1) ...
-Setting up man-db (2.6.0.2-1) ...
+Setting up libpipeline1:amd64 (1.2.1-1) ...
+Setting up libpopt0:amd64 (1.16-5) ...
+Setting up liblocale-gettext-perl (1.05-7+b1) ...
+Setting up libasprintf0c2:amd64 (0.18.1.1-7) ...
+Setting up libmagic1:amd64 (5.11-1) ...
+Setting up libpcre3:amd64 (1:8.30-5) ...
+Setting up libxml2:amd64 (2.7.8.dfsg-9) ...
+Setting up libffi5:amd64 (3.0.10-3) ...
+Setting up libglib2.0-0:amd64 (2.32.2-1) ...
+No schema files found: doing nothing.
+Setting up libcroco3:amd64 (0.6.5-1) ...
+Setting up libexpat1:amd64 (2.1.0-1) ...
+Setting up libfreetype6:amd64 (2.4.9-1) ...
+Setting up ttf-dejavu-core (2.33-2) ...
+Setting up fontconfig-config (2.9.0-5) ...
+Setting up libfontconfig1:amd64 (2.9.0-5) ...
+Setting up libjpeg8:amd64 (8d-1) ...
+Setting up libxau6:amd64 (1:1.0.7-1) ...
+Setting up libxdmcp6:amd64 (1:1.1.1-1) ...
+Setting up libxcb1:amd64 (1.8.1-1) ...
+Setting up libx11-data (2:1.4.99.901-2) ...
+Setting up libx11-6:amd64 (2:1.4.99.901-2) ...
+Setting up libxpm4:amd64 (1:3.5.10-1) ...
+Setting up libgd2-xpm:amd64 (2.0.36~rc1~dfsg-6.1) ...
+Setting up libunistring0:amd64 (0.9.3-5) ...
+Setting up libgettextpo0:amd64 (0.18.1.1-7) ...
+Setting up groff-base (1.21-7) ...
+Setting up man-db (2.6.1-2) ...
Building database of manual pages ...
-Setting up libmagic1 (5.04-5+b1) ...
-Setting up file (5.04-5+b1) ...
-Setting up libpcre3 (8.12-3) ...
-Setting up libxml2 (2.7.8.dfsg-3) ...
-Setting up autotools-dev (20110511.1) ...
+Setting up file (5.11-1) ...
+Setting up gettext-base (0.18.1.1-7) ...
+Setting up autotools-dev (20120210.1) ...
Setting up html2text (1.3.2a-15) ...
-Setting up libglib2.0-0 (2.28.6-1) ...
-No schema files found: doing nothing.
-Setting up libcroco3 (0.6.2-1) ...
-Setting up libunistring0 (0.9.3-4) ...
-Setting up gettext (0.18.1.1-3) ...
+Setting up gettext (0.18.1.1-7) ...
Setting up intltool-debian (0.35.0+20060710.1) ...
-Setting up po-debconf (1.0.16+nmu1) ...
-Setting up debhelper (8.9.0) ...
-Setting up cdbs (0.4.94) ...
+Setting up po-debconf (1.0.16+nmu2) ...
+Setting up debhelper (9.20120513) ...
+Setting up help2man (1.40.9) ...
Setting up libgtextutils0 (0.6.2-1) ...
Setting up libgtextutils-dev (0.6.2-1) ...
+Setting up libperlio-gzip-perl (0.18-1+b2) ...
Setting up pkg-config (0.26-1) ...
+Setting up libgd-gd2-perl (1:2.46-3+b1) ...
+Setting up libgd-text-perl (0.86-8) ...
+Setting up libgd-graph-perl (1.44-6) ...
Setting up sbuild-build-depends-fastx-toolkit-dummy (0.invalid.0) ...
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build environment │
└──────────────────────────────────────────────────────────────────────────────┘
-Kernel: Linux 2.6.32-5-amd64 amd64 (x86_64)
-Toolchain package versions: binutils_2.21.52.20110707-1 dpkg-dev_1.16.0.3 g++-4.6_4.6.1-2 gcc-4.6_4.6.1-2 libc6-dev_2.13-10 libstdc++6_4.6.1-2 libstdc++6-4.6-dev_4.6.1-2 linux-libc-dev_2.6.39-3
-Package versions: apt_0.8.15.1 autotools-dev_20110511.1 base-files_6.4 base-passwd_3.5.22 bash_4.1-3 binutils_2.21.52.20110707-1 bsdmainutils_8.2.3 bsdutils_1:2.19.1-2 build-essential_11.5 bzip2_1.0.5-6 cdbs_0.4.94 coreutils_8.5-1 cpp_4:4.6.0-6 cpp-4.6_4.6.1-2 dash_0.5.5.1-7.4 debconf_1.5.40 debconf-i18n_1.5.40 debfoster_2.7-1.1 debhelper_8.9.0 debian-archive-keyring_2010.08.28 debianutils_4.0.2 dialog_1.1-20110630-1 diffutils_1:3.0-1 dpkg_1.16.0.3 dpkg-dev_1.16.0.3 e2fslibs_1.42~WIP-2011-07-02-1 e2fsprogs_1.42~WIP-2011-07-02-1 fakeroot_1.16-1 file_5.04-5+b1 findutils_4.4.2-1+b1 g++_4:4.6.0-6 g++-4.6_4.6.1-2 gcc_4:4.6.0-6 gcc-4.6_4.6.1-2 gcc-4.6-base_4.6.1-2 gettext_0.18.1.1-3 gettext-base_0.18.1.1-3 gnupg_1.4.11-3 gpgv_1.4.11-3 grep_2.8-2 groff-base_1.21-6 gzip_1.3.12-9 hostname_3.06 html2text_1.3.2a-15 initscripts_2.88dsf-13.10 insserv_1.14.0-2.1 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-2 libattr1_1:2.4.46-2 libblkid1_2.19.1-2 libbz2-1.0_1.0.5-6 libc-bin_2.13-10 libc-dev-bin_2.13-10 libc6_2.13-10 libc6-dev_2.13-10 libclass-isa-perl_0.36-1 libcloog-ppl0_0.15.9-3 libcomerr2_1.42~WIP-2011-07-02-1 libcroco3_0.6.2-1 libdb5.1_5.1.25-11 libdpkg-perl_1.16.0.3 libgc1c2_1:7.1-8 libgcc1_1:4.6.1-2 libgdbm3_1.8.3-10 libglib2.0-0_2.28.6-1 libgmp10_2:5.0.1+dfsg-7 libgmpxx4ldbl_2:5.0.1+dfsg-7 libgomp1_4.6.1-2 libgpm2_1.20.4-3.4 libgtextutils-dev_0.6.2-1 libgtextutils0_0.6.2-1 liblocale-gettext-perl_1.05-6+b1 liblzma2_5.0.0-2 libmagic1_5.04-5+b1 libmount1_2.19.1-2 libmpc2_0.9-3 libmpfr4_3.0.1-4 libncurses5_5.9-1 libncursesw5_5.9-1 libpam-modules_1.1.3-2 libpam-modules-bin_1.1.3-2 libpam-runtime_1.1.3-2 libpam0g_1.1.3-2 libpcre3_8.12-3 libpipeline1_1.2.0-3 libpng12-0_1.2.44-3 libpod-plainer-perl_1.03-1 libpopt0_1.16-1 libppl-c4_0.11.2-3 libppl9_0.11.2-3 libpwl5_0.11.2-3 libquadmath0_4.6.1-2 libreadline6_6.2-2 libselinux1_2.0.98-1.1 libsepol1_2.0.42-1 libslang2_2.2.4-2 libss2_1.42~WIP-2011-07-02-1 libstdc++6_4.6.1-2 libstdc++6-4.6-dev_4.6.1-2 libswitch-perl_2.16-1 libtext-charwidth-perl_0.04-6+b1 libtext-iconv-perl_1.7-2+b1 libtext-wrapi18n-perl_0.06-7 libtimedate-perl_1.2000-1 libunistring0_0.9.3-4 libusb-0.1-4_2:0.1.12-17 libuuid1_2.19.1-2 libxml2_2.7.8.dfsg-3 linux-libc-dev_2.6.39-3 login_1:4.1.4.2+svn3283-3 lsb-base_3.2-27 make_3.81-8.1 man-db_2.6.0.2-1 mawk_1.3.3-15 mount_2.19.1-2 multiarch-support_2.13-10 ncurses-base_5.9-1 ncurses-bin_5.9-1 passwd_1:4.1.4.2+svn3283-3 patch_2.6.1-2 perl_5.12.4-1 perl-base_5.12.4-1 perl-modules_5.12.4-1 pkg-config_0.26-1 po-debconf_1.0.16+nmu1 readline-common_6.2-2 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-fastx-toolkit-dummy_0.invalid.0 sed_4.2.1-9 sensible-utils_0.0.6 sysv-rc_2.88dsf-13.10 sysvinit_2.88dsf-13.10 sysvinit-utils_2.88dsf-13.10 tar_1.25-3 tzdata_2011h-3 util-linux_2.19.1-2 xz-utils_5.0.0-2 zlib1g_1:1.2.3.4.dfsg-3
+Kernel: Linux 3.2.0-2-amd64 amd64 (x86_64)
+Toolchain package versions: binutils_2.22-6 dpkg-dev_1.16.3 g++-4.6_4.6.3-5 g++-4.7_4.7.0-8 gcc-4.6_4.6.3-5 gcc-4.7_4.7.0-8 libc6-dev_2.13-32 libstdc++6_4.7.0-8 libstdc++6-4.6-dev_4.6.3-5 libstdc++6-4.7-dev_4.7.0-8 linux-libc-dev_3.2.17-1
+Package versions: apt_0.9.3 autotools-dev_20120210.1 base-files_6.7 base-passwd_3.5.24 bash_4.2-2 binutils_2.22-6 bsdmainutils_9.0.1 bsdutils_1:2.20.1-4 build-essential_11.5 bzip2_1.0.6-1 coreutils_8.13-3.2 cpp_4:4.7.0-6 cpp-4.6_4.6.3-5 cpp-4.7_4.7.0-8 dash_0.5.7-3 debconf_1.5.43 debfoster_2.7-1.1 debhelper_9.20120513 debian-archive-keyring_2012.2 debianutils_4.3 diffutils_1:3.2-6 dpkg_1.16.3 dpkg-dev_1.16.3 e2fslibs_1.42.2-2 e2fsprogs_1.42.2-2 fakeroot_1.18.3-1 file_5.11-1 findutils_4.4.2-4 fontconfig-config_2.9.0-5 g++_4:4.7.0-6 g++-4.6_4.6.3-5 g++-4.7_4.7.0-8 gcc_4:4.7.0-6 gcc-4.6_4.6.3-5 gcc-4.6-base_4.6.3-5 gcc-4.7_4.7.0-8 gcc-4.7-base_4.7.0-8 gettext_0.18.1.1-7 gettext-base_0.18.1.1-7 gnupg_1.4.12-4 gpgv_1.4.12-4 grep_2.12-2 groff-base_1.21-7 gzip_1.4-5 help2man_1.40.9 hostname_3.11 html2text_1.3.2a-15 initscripts_2.88dsf-22.1 insserv_1.14.0-3 intltool-debian_0.35.0+20060710.1 libacl1_2.2.51-7 libapt-pkg4.12_0.9.3 libasprintf0c2_0.18.1.1-7 libattr1_1:2.4.46-7 libblkid1_2.20.1-4 libbz2-1.0_1.0.6-1 libc-bin_2.13-32 libc-dev-bin_2.13-32 libc6_2.13-32 libc6-dev_2.13-32 libclass-isa-perl_0.36-3 libcomerr2_1.42.2-2 libcroco3_0.6.5-1 libdb5.1_5.1.29-3 libdpkg-perl_1.16.3 libexpat1_2.1.0-1 libffi5_3.0.10-3 libfile-fcntllock-perl_0.14-1+b1 libfontconfig1_2.9.0-5 libfreetype6_2.4.9-1 libgc1c2_1:7.1-8 libgcc1_1:4.7.0-8 libgd-gd2-perl_1:2.46-3+b1 libgd-graph-perl_1.44-6 libgd-text-perl_0.86-8 libgd2-xpm_2.0.36~rc1~dfsg-6.1 libgdbm3_1.8.3-10 libgettextpo0_0.18.1.1-7 libglib2.0-0_2.32.2-1 libgmp10_2:5.0.5+dfsg-1.1 libgomp1_4.7.0-8 libgpm2_1.20.4-4 libgtextutils-dev_0.6.2-1 libgtextutils0_0.6.2-1 libitm1_4.7.0-8 libjpeg8_8d-1 liblocale-gettext-perl_1.05-7+b1 liblzma2_5.1.1alpha+20110809-2 liblzma5_5.1.1alpha+20110809-3 libmagic1_5.11-1 libmount1_2.20.1-4 libmpc2_0.9-4 libmpfr4_3.1.0-5 libncurses5_5.9-7 libpam-modules_1.1.3-7.1 libpam-modules-bin_1.1.3-7.1 libpam-runtime_1.1.3-7.1 libpam0g_1.1.3-7.1 libpcre3_1:8.30-5 libperlio-gzip-perl_0.18-1+b2 libpipeline1_1.2.1-1 libpng12-0_1.2.49-1 libpod-plainer-perl_1.03-1 libpopt0_1.16-5 libquadmath0_4.7.0-8 libreadline6_6.2-8 libselinux1_2.1.9-4 libsemanage-common_2.1.6-5 libsemanage1_2.1.6-5 libsepol1_2.1.4-3 libslang2_2.2.4-10 libss2_1.42.2-2 libstdc++6_4.7.0-8 libstdc++6-4.6-dev_4.6.3-5 libstdc++6-4.7-dev_4.7.0-8 libswitch-perl_2.16-2 libtimedate-perl_1.2000-1 libtinfo5_5.9-7 libunistring0_0.9.3-5 libusb-0.1-4_2:0.1.12-21 libustr-1.0-1_1.0.4-2 libuuid1_2.20.1-4 libx11-6_2:1.4.99.901-2 libx11-data_2:1.4.99.901-2 libxau6_1:1.0.7-1 libxcb1_1.8.1-1 libxdmcp6_1:1.1.1-1 libxml2_2.7.8.dfsg-9 libxpm4_1:3.5.10-1 linux-libc-dev_3.2.17-1 login_1:4.1.5-1 lsb-base_4.1+Debian3 make_3.81-8.2 man-db_2.6.1-2 mawk_1.3.3-17 mount_2.20.1-4 multiarch-support_2.13-32 ncurses-base_5.9-7 ncurses-bin_5.9-7 passwd_1:4.1.5-1 patch_2.6.1-3 perl_5.14.2-10 perl-base_5.14.2-10 perl-modules_5.14.2-10 pkg-config_0.26-1 po-debconf_1.0.16+nmu2 readline-common_6.2-8 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-fastx-toolkit-dummy_0.invalid.0 sed_4.2.1-9 sensible-utils_0.0.7 sysv-rc_2.88dsf-22.1 sysvinit_2.88dsf-22.1 sysvinit-utils_2.88dsf-22.1 tar_1.26-4 ttf-dejavu-core_2.33-2 tzdata_2012c-1 ucf_3.0025+nmu3 util-linux_2.20.1-4 xz-utils_5.1.1alpha+20110809-3 zlib1g_1:1.2.7.dfsg-1
┌──────────────────────────────────────────────────────────────────────────────┐
│ Build │
@@ -181,10 +290,10 @@ Package versions: apt_0.8.15.1 autotools-dev_20110511.1 base-files_6.4 base-pass
Unpack source
─────────────
-dpkg-source: warning: extracting unsigned source package (fastx-toolkit_0.0.13.1-1.dsc)
-dpkg-source: info: extracting fastx-toolkit in fastx-toolkit-0.0.13.1
-dpkg-source: info: unpacking fastx-toolkit_0.0.13.1.orig.tar.bz2
-dpkg-source: info: unpacking fastx-toolkit_0.0.13.1-1.debian.tar.gz
+dpkg-source: warning: extracting unsigned source package (fastx-toolkit_0.0.13.2-1.dsc)
+dpkg-source: info: extracting fastx-toolkit in fastx-toolkit-0.0.13.2
+dpkg-source: info: unpacking fastx-toolkit_0.0.13.2.orig.tar.bz2
+dpkg-source: info: unpacking fastx-toolkit_0.0.13.2-1.debian.tar.gz
Check disc space
────────────────
@@ -201,7 +310,7 @@ SCHROOT_CHROOT_NAME=sid-amd64-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=1000
SCHROOT_GROUP=charles
-SCHROOT_SESSION_ID=sid-amd64-sbuild-ac4d8d47-34e4-42d2-a485-5f039dabc23b
+SCHROOT_SESSION_ID=sid-amd64-sbuild-37b3991d-0a43-46f1-b573-c1b678c18077
SCHROOT_UID=31051
SCHROOT_USER=charles
SHELL=/bin/sh
@@ -212,65 +321,40 @@ USERNAME=charles
dpkg-buildpackage
─────────────────
-dpkg-buildpackage: export CFLAGS from dpkg-buildflags (origin: vendor): -g -O2
-dpkg-buildpackage: export CPPFLAGS from dpkg-buildflags (origin: vendor):
-dpkg-buildpackage: export CXXFLAGS from dpkg-buildflags (origin: vendor): -g -O2
-dpkg-buildpackage: export FFLAGS from dpkg-buildflags (origin: vendor): -g -O2
-dpkg-buildpackage: export LDFLAGS from dpkg-buildflags (origin: vendor):
dpkg-buildpackage: source package fastx-toolkit
-dpkg-buildpackage: source version 0.0.13.1-1
+dpkg-buildpackage: source version 0.0.13.2-1
dpkg-buildpackage: source changed by Charles Plessy <plessy at debian.org>
- dpkg-source --before-build fastx-toolkit-0.0.13.1
+ dpkg-source --before-build fastx-toolkit-0.0.13.2
dpkg-buildpackage: host architecture amd64
fakeroot debian/rules clean
-test -x debian/rules
-dh_testroot
-rm -f debian/stamp-makefile-build debian/stamp-makefile-install
-/usr/bin/make -C . -k distclean
-make[1]: *** No rule to make target `distclean'.
-make[1]: Entering directory `/«PKGBUILDDIR»'
-make[1]: Leaving directory `/«PKGBUILDDIR»'
-make: [makefile-clean] Error 2 (ignored)
-rm -f debian/stamp-autotools
-rmdir --ignore-fail-on-non-empty .
-rmdir: failed to remove `.': Invalid argument
-make: [makefile-clean] Error 1 (ignored)
-for i in ./config/config.guess ./config/config.sub ; do \
- if test -e $i.cdbs-orig ; then \
- mv $i.cdbs-orig $i ; \
- fi ; \
- done
-dh_clean
-rm -f debian/stamp-autotools-files
- dpkg-source -b fastx-toolkit-0.0.13.1
+dh clean
+ dh_testdir
+ dh_auto_clean
+ dh_clean
+ rm -f debian/fastx-toolkit.substvars
+ rm -f debian/fastx-toolkit.*.debhelper
+ rm -rf debian/fastx-toolkit/
+ rm -f debian/*.debhelper.log
+ rm -f debian/files
+ find . \( \( -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' \
+ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \
+ \) -exec rm -f {} \; \) -o \
+ \( -type d -a -name autom4te.cache -prune -exec rm -rf {} \; \) \)
+ rm -f *-stamp
+ dpkg-source -b fastx-toolkit-0.0.13.2
dpkg-source: info: using source format `3.0 (quilt)'
-dpkg-source: info: building fastx-toolkit using existing ./fastx-toolkit_0.0.13.1.orig.tar.bz2
-dpkg-source: info: building fastx-toolkit in fastx-toolkit_0.0.13.1-1.debian.tar.gz
-dpkg-source: info: building fastx-toolkit in fastx-toolkit_0.0.13.1-1.dsc
+dpkg-source: info: building fastx-toolkit using existing ./fastx-toolkit_0.0.13.2.orig.tar.bz2
+dpkg-source: info: building fastx-toolkit in fastx-toolkit_0.0.13.2-1.debian.tar.gz
+dpkg-source: info: building fastx-toolkit in fastx-toolkit_0.0.13.2-1.dsc
debian/rules build
-test -x debian/rules
-mkdir -p "."
-if test -e /usr/share/misc/config.guess ; then \
- for i in ./config/config.guess ; do \
- if ! test -e $i.cdbs-orig ; then \
- mv $i $i.cdbs-orig ; \
- cp --remove-destination /usr/share/misc/config.guess $i ; \
- fi ; \
- done ; \
- fi
-if test -e /usr/share/misc/config.sub ; then \
- for i in ./config/config.sub ; do \
- if ! test -e $i.cdbs-orig ; then \
- mv $i $i.cdbs-orig ; \
- cp --remove-destination /usr/share/misc/config.sub $i ; \
- fi ; \
- done ; \
- fi
-touch debian/stamp-autotools-files
-chmod a+x /«PKGBUILDDIR»/./configure
-mkdir -p .
-cd . && CFLAGS="-g -O2 -g -O2 -Wall" CXXFLAGS="-g -O2 -g -O2 -Wall" CPPFLAGS="" LDFLAGS="" /«PKGBUILDDIR»/./configure --build=x86_64-linux-gnu --prefix=/usr --includedir="\${prefix}/include" --mandir="\${prefix}/share/man" --infodir="\${prefix}/share/info" --sysconfdir=/etc --localstatedir=/var --libexecdir="\${prefix}/lib/fastx-toolkit" --srcdir=. --disable-maintainer-mode --disable-dependency-tracking --disable-silent-rules
-configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
+dh build
+ dh_testdir
+ dh_auto_configure
+ ./configure --build=x86_64-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --libdir=\${prefix}/lib/x86_64-linux-gnu --libexecdir=\${prefix}/lib/x86_64-linux-gnu --disable-maintainer-mode --disable-dependency-tracking
+configure: WARNING: unrecognized options: --disable-maintainer-mode
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... /bin/mkdir -p
@@ -395,11 +479,11 @@ config.status: creating build_scripts/Makefile
config.status: creating config.h
config.status: executing depfiles commands
config.status: executing libtool commands
-configure: WARNING: unrecognized options: --disable-maintainer-mode, --disable-silent-rules
-touch debian/stamp-autotools
-/usr/bin/make -C .
+configure: WARNING: unrecognized options: --disable-maintainer-mode
+ dh_auto_build
+ make -j1
make[1]: Entering directory `/«PKGBUILDDIR»'
-/usr/bin/make all-recursive
+make all-recursive
make[2]: Entering directory `/«PKGBUILDDIR»'
Making all in m4
make[3]: Entering directory `/«PKGBUILDDIR»/m4'
@@ -409,109 +493,109 @@ Making all in src
make[3]: Entering directory `/«PKGBUILDDIR»/src'
Making all in libfastx
make[4]: Entering directory `/«PKGBUILDDIR»/src/libfastx'
-gcc -DHAVE_CONFIG_H -I. -I../.. -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c chomp.c
-gcc -DHAVE_CONFIG_H -I. -I../.. -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c fastx.c
-gcc -DHAVE_CONFIG_H -I. -I../.. -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c fastx_args.c
-g++ -DHAVE_CONFIG_H -I. -I../.. -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -c -o sequence_alignment.o sequence_alignment.cpp
+gcc -DHAVE_CONFIG_H -I. -I../.. -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c chomp.c
+gcc -DHAVE_CONFIG_H -I. -I../.. -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c fastx.c
+gcc -DHAVE_CONFIG_H -I. -I../.. -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c fastx_args.c
+g++ -DHAVE_CONFIG_H -I. -I../.. -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -c -o sequence_alignment.o sequence_alignment.cpp
rm -f libfastx.a
ar cru libfastx.a chomp.o fastx.o fastx_args.o sequence_alignment.o
ranlib libfastx.a
make[4]: Leaving directory `/«PKGBUILDDIR»/src/libfastx'
Making all in fastx_clipper
make[4]: Entering directory `/«PKGBUILDDIR»/src/fastx_clipper'
-g++ -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -c -o fastx_clipper.o fastx_clipper.cpp
-/bin/bash ../../libtool --tag=CXX --mode=link g++ -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -o fastx_clipper fastx_clipper.o ../libfastx/libfastx.a
-libtool: link: g++ -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -o fastx_clipper fastx_clipper.o ../libfastx/libfastx.a
+g++ -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -c -o fastx_clipper.o fastx_clipper.cpp
+/bin/bash ../../libtool --tag=CXX --mode=link g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -Wl,-z,relro -o fastx_clipper fastx_clipper.o ../libfastx/libfastx.a
+libtool: link: g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -Wl,-z -Wl,relro -o fastx_clipper fastx_clipper.o ../libfastx/libfastx.a
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fastx_clipper'
Making all in fastx_trimmer
make[4]: Entering directory `/«PKGBUILDDIR»/src/fastx_trimmer'
-gcc -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c fastx_trimmer.c
-/bin/bash ../../libtool --tag=CC --mode=link gcc -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fastx_trimmer fastx_trimmer.o ../libfastx/libfastx.a
-libtool: link: gcc -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fastx_trimmer fastx_trimmer.o ../libfastx/libfastx.a
+gcc -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c fastx_trimmer.c
+/bin/bash ../../libtool --tag=CC --mode=link gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z,relro -o fastx_trimmer fastx_trimmer.o ../libfastx/libfastx.a
+libtool: link: gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z -Wl,relro -o fastx_trimmer fastx_trimmer.o ../libfastx/libfastx.a
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fastx_trimmer'
Making all in fastx_quality_stats
make[4]: Entering directory `/«PKGBUILDDIR»/src/fastx_quality_stats'
-gcc -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c fastx_quality_stats.c
-/bin/bash ../../libtool --tag=CC --mode=link gcc -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fastx_quality_stats fastx_quality_stats.o ../libfastx/libfastx.a
-libtool: link: gcc -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fastx_quality_stats fastx_quality_stats.o ../libfastx/libfastx.a
+gcc -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c fastx_quality_stats.c
+/bin/bash ../../libtool --tag=CC --mode=link gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z,relro -o fastx_quality_stats fastx_quality_stats.o ../libfastx/libfastx.a
+libtool: link: gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z -Wl,relro -o fastx_quality_stats fastx_quality_stats.o ../libfastx/libfastx.a
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fastx_quality_stats'
Making all in fastq_quality_converter
make[4]: Entering directory `/«PKGBUILDDIR»/src/fastq_quality_converter'
-gcc -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c fastq_quality_converter.c
-/bin/bash ../../libtool --tag=CC --mode=link gcc -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fastq_quality_converter fastq_quality_converter.o ../libfastx/libfastx.a
-libtool: link: gcc -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fastq_quality_converter fastq_quality_converter.o ../libfastx/libfastx.a
+gcc -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c fastq_quality_converter.c
+/bin/bash ../../libtool --tag=CC --mode=link gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z,relro -o fastq_quality_converter fastq_quality_converter.o ../libfastx/libfastx.a
+libtool: link: gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z -Wl,relro -o fastq_quality_converter fastq_quality_converter.o ../libfastx/libfastx.a
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fastq_quality_converter'
Making all in fastq_to_fasta
make[4]: Entering directory `/«PKGBUILDDIR»/src/fastq_to_fasta'
-gcc -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c fastq_to_fasta.c
-/bin/bash ../../libtool --tag=CC --mode=link gcc -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fastq_to_fasta fastq_to_fasta.o ../libfastx/libfastx.a
-libtool: link: gcc -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fastq_to_fasta fastq_to_fasta.o ../libfastx/libfastx.a
+gcc -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c fastq_to_fasta.c
+/bin/bash ../../libtool --tag=CC --mode=link gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z,relro -o fastq_to_fasta fastq_to_fasta.o ../libfastx/libfastx.a
+libtool: link: gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z -Wl,relro -o fastq_to_fasta fastq_to_fasta.o ../libfastx/libfastx.a
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fastq_to_fasta'
Making all in fastq_quality_filter
make[4]: Entering directory `/«PKGBUILDDIR»/src/fastq_quality_filter'
-gcc -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c fastq_quality_filter.c
-/bin/bash ../../libtool --tag=CC --mode=link gcc -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fastq_quality_filter fastq_quality_filter.o ../libfastx/libfastx.a
-libtool: link: gcc -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fastq_quality_filter fastq_quality_filter.o ../libfastx/libfastx.a
+gcc -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c fastq_quality_filter.c
+/bin/bash ../../libtool --tag=CC --mode=link gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z,relro -o fastq_quality_filter fastq_quality_filter.o ../libfastx/libfastx.a
+libtool: link: gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z -Wl,relro -o fastq_quality_filter fastq_quality_filter.o ../libfastx/libfastx.a
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fastq_quality_filter'
Making all in fastq_quality_trimmer
make[4]: Entering directory `/«PKGBUILDDIR»/src/fastq_quality_trimmer'
-gcc -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c fastq_quality_trimmer.c
-/bin/bash ../../libtool --tag=CC --mode=link gcc -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fastq_quality_trimmer fastq_quality_trimmer.o ../libfastx/libfastx.a
-libtool: link: gcc -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fastq_quality_trimmer fastq_quality_trimmer.o ../libfastx/libfastx.a
+gcc -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c fastq_quality_trimmer.c
+/bin/bash ../../libtool --tag=CC --mode=link gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z,relro -o fastq_quality_trimmer fastq_quality_trimmer.o ../libfastx/libfastx.a
+libtool: link: gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z -Wl,relro -o fastq_quality_trimmer fastq_quality_trimmer.o ../libfastx/libfastx.a
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fastq_quality_trimmer'
Making all in fastx_artifacts_filter
make[4]: Entering directory `/«PKGBUILDDIR»/src/fastx_artifacts_filter'
-gcc -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c fastx_artifacts_filter.c
-/bin/bash ../../libtool --tag=CC --mode=link gcc -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fastx_artifacts_filter fastx_artifacts_filter.o ../libfastx/libfastx.a
-libtool: link: gcc -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fastx_artifacts_filter fastx_artifacts_filter.o ../libfastx/libfastx.a
+gcc -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c fastx_artifacts_filter.c
+/bin/bash ../../libtool --tag=CC --mode=link gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z,relro -o fastx_artifacts_filter fastx_artifacts_filter.o ../libfastx/libfastx.a
+libtool: link: gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z -Wl,relro -o fastx_artifacts_filter fastx_artifacts_filter.o ../libfastx/libfastx.a
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fastx_artifacts_filter'
Making all in fastx_reverse_complement
make[4]: Entering directory `/«PKGBUILDDIR»/src/fastx_reverse_complement'
-gcc -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c fastx_reverse_complement.c
-/bin/bash ../../libtool --tag=CC --mode=link gcc -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fastx_reverse_complement fastx_reverse_complement.o ../libfastx/libfastx.a
-libtool: link: gcc -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fastx_reverse_complement fastx_reverse_complement.o ../libfastx/libfastx.a
+gcc -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c fastx_reverse_complement.c
+/bin/bash ../../libtool --tag=CC --mode=link gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z,relro -o fastx_reverse_complement fastx_reverse_complement.o ../libfastx/libfastx.a
+libtool: link: gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z -Wl,relro -o fastx_reverse_complement fastx_reverse_complement.o ../libfastx/libfastx.a
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fastx_reverse_complement'
Making all in fastx_collapser
make[4]: Entering directory `/«PKGBUILDDIR»/src/fastx_collapser'
-g++ -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -c -o fastx_collapser.o fastx_collapser.cpp
-/bin/bash ../../libtool --tag=CXX --mode=link g++ -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -o fastx_collapser fastx_collapser.o ../libfastx/libfastx.a
-libtool: link: g++ -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -o fastx_collapser fastx_collapser.o ../libfastx/libfastx.a
+g++ -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -c -o fastx_collapser.o fastx_collapser.cpp
+/bin/bash ../../libtool --tag=CXX --mode=link g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -Wl,-z,relro -o fastx_collapser fastx_collapser.o ../libfastx/libfastx.a
+libtool: link: g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -Wl,-z -Wl,relro -o fastx_collapser fastx_collapser.o ../libfastx/libfastx.a
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fastx_collapser'
Making all in fastx_uncollapser
make[4]: Entering directory `/«PKGBUILDDIR»/src/fastx_uncollapser'
-g++ -DHAVE_CONFIG_H -I. -I../.. -I/usr/include/gtextutils -I../libfastx -I../libfastx -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -c -o fastx_uncollapser.o fastx_uncollapser.cpp
-/bin/bash ../../libtool --tag=CXX --mode=link g++ -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -o fastx_uncollapser fastx_uncollapser.o -lgtextutils ../libfastx/libfastx.a
-libtool: link: g++ -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -o fastx_uncollapser fastx_uncollapser.o -lgtextutils ../libfastx/libfastx.a
+g++ -DHAVE_CONFIG_H -I. -I../.. -I/usr/include/gtextutils -I../libfastx -I../libfastx -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -c -o fastx_uncollapser.o fastx_uncollapser.cpp
+/bin/bash ../../libtool --tag=CXX --mode=link g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -Wl,-z,relro -o fastx_uncollapser fastx_uncollapser.o -lgtextutils ../libfastx/libfastx.a
+libtool: link: g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -Wl,-z -Wl,relro -o fastx_uncollapser fastx_uncollapser.o -lgtextutils ../libfastx/libfastx.a
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fastx_uncollapser'
Making all in seqalign_test
make[4]: Entering directory `/«PKGBUILDDIR»/src/seqalign_test'
-g++ -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -c -o seqalign_test.o seqalign_test.cpp
-/bin/bash ../../libtool --tag=CXX --mode=link g++ -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -o seqalign_test seqalign_test.o ../libfastx/libfastx.a
-libtool: link: g++ -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -o seqalign_test seqalign_test.o ../libfastx/libfastx.a
+g++ -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -c -o seqalign_test.o seqalign_test.cpp
+/bin/bash ../../libtool --tag=CXX --mode=link g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -Wl,-z,relro -o seqalign_test seqalign_test.o ../libfastx/libfastx.a
+libtool: link: g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -Wl,-z -Wl,relro -o seqalign_test seqalign_test.o ../libfastx/libfastx.a
make[4]: Leaving directory `/«PKGBUILDDIR»/src/seqalign_test'
Making all in fasta_formatter
make[4]: Entering directory `/«PKGBUILDDIR»/src/fasta_formatter'
-g++ -DHAVE_CONFIG_H -I. -I../.. -I/usr/include/gtextutils -I../libfastx -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -c -o fasta_formatter.o fasta_formatter.cpp
-/bin/bash ../../libtool --tag=CXX --mode=link g++ -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -o fasta_formatter fasta_formatter.o -lgtextutils ../libfastx/libfastx.a
-libtool: link: g++ -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -o fasta_formatter fasta_formatter.o -lgtextutils ../libfastx/libfastx.a
+g++ -DHAVE_CONFIG_H -I. -I../.. -I/usr/include/gtextutils -I../libfastx -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -c -o fasta_formatter.o fasta_formatter.cpp
+/bin/bash ../../libtool --tag=CXX --mode=link g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -Wl,-z,relro -o fasta_formatter fasta_formatter.o -lgtextutils ../libfastx/libfastx.a
+libtool: link: g++ -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -DDEBUG -g -O1 -Wl,-z -Wl,relro -o fasta_formatter fasta_formatter.o -lgtextutils ../libfastx/libfastx.a
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fasta_formatter'
Making all in fasta_nucleotide_changer
make[4]: Entering directory `/«PKGBUILDDIR»/src/fasta_nucleotide_changer'
-gcc -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c fasta_nucleotide_changer.c
-/bin/bash ../../libtool --tag=CC --mode=link gcc -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fasta_nucleotide_changer fasta_nucleotide_changer.o ../libfastx/libfastx.a
-libtool: link: gcc -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fasta_nucleotide_changer fasta_nucleotide_changer.o ../libfastx/libfastx.a
+gcc -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c fasta_nucleotide_changer.c
+/bin/bash ../../libtool --tag=CC --mode=link gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z,relro -o fasta_nucleotide_changer fasta_nucleotide_changer.o ../libfastx/libfastx.a
+libtool: link: gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z -Wl,relro -o fasta_nucleotide_changer fasta_nucleotide_changer.o ../libfastx/libfastx.a
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fasta_nucleotide_changer'
Making all in fastx_renamer
make[4]: Entering directory `/«PKGBUILDDIR»/src/fastx_renamer'
-gcc -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c fastx_renamer.c
-/bin/bash ../../libtool --tag=CC --mode=link gcc -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fastx_renamer fastx_renamer.o ../libfastx/libfastx.a
-libtool: link: gcc -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fastx_renamer fastx_renamer.o ../libfastx/libfastx.a
+gcc -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c fastx_renamer.c
+/bin/bash ../../libtool --tag=CC --mode=link gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z,relro -o fastx_renamer fastx_renamer.o ../libfastx/libfastx.a
+libtool: link: gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z -Wl,relro -o fastx_renamer fastx_renamer.o ../libfastx/libfastx.a
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fastx_renamer'
Making all in fastq_masker
make[4]: Entering directory `/«PKGBUILDDIR»/src/fastq_masker'
-gcc -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c fastq_masker.c
-/bin/bash ../../libtool --tag=CC --mode=link gcc -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fastq_masker fastq_masker.o ../libfastx/libfastx.a
-libtool: link: gcc -g -O2 -g -O2 -Wall -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -o fastq_masker fastq_masker.o ../libfastx/libfastx.a
+gcc -DHAVE_CONFIG_H -I. -I../.. -I../libfastx -D_FORTIFY_SOURCE=2 -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -c fastq_masker.c
+/bin/bash ../../libtool --tag=CC --mode=link gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z,relro -o fastq_masker fastq_masker.o ../libfastx/libfastx.a
+libtool: link: gcc -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -Wall -Wextra -Wformat-nonliteral -Wformat-security -Wswitch-default -Wswitch-enum -Wunused-parameter -Wfloat-equal -Werror -DDEBUG -g -O1 -Wl,-z -Wl,relro -o fastq_masker fastq_masker.o ../libfastx/libfastx.a
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fastq_masker'
make[4]: Entering directory `/«PKGBUILDDIR»/src'
make[4]: Nothing to be done for `all-am'.
@@ -568,43 +652,163 @@ make[3]: Entering directory `/«PKGBUILDDIR»/build_scripts'
make[3]: Nothing to be done for `all'.
make[3]: Leaving directory `/«PKGBUILDDIR»/build_scripts'
make[3]: Entering directory `/«PKGBUILDDIR»'
+make[3]: Nothing to be done for `all-am'.
make[3]: Leaving directory `/«PKGBUILDDIR»'
make[2]: Leaving directory `/«PKGBUILDDIR»'
make[1]: Leaving directory `/«PKGBUILDDIR»'
-touch debian/stamp-makefile-build
-DEB_MAKE_CHECK_TARGET unset, not running checks
+ dh_auto_test
+ make -j1 check
+make[1]: Entering directory `/«PKGBUILDDIR»'
+Making check in m4
+make[2]: Entering directory `/«PKGBUILDDIR»/m4'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/m4'
+Making check in src
+make[2]: Entering directory `/«PKGBUILDDIR»/src'
+Making check in libfastx
+make[3]: Entering directory `/«PKGBUILDDIR»/src/libfastx'
+make[3]: Nothing to be done for `check'.
+make[3]: Leaving directory `/«PKGBUILDDIR»/src/libfastx'
+Making check in fastx_clipper
+make[3]: Entering directory `/«PKGBUILDDIR»/src/fastx_clipper'
+make[3]: Nothing to be done for `check'.
+make[3]: Leaving directory `/«PKGBUILDDIR»/src/fastx_clipper'
+Making check in fastx_trimmer
+make[3]: Entering directory `/«PKGBUILDDIR»/src/fastx_trimmer'
+make[3]: Nothing to be done for `check'.
+make[3]: Leaving directory `/«PKGBUILDDIR»/src/fastx_trimmer'
+Making check in fastx_quality_stats
+make[3]: Entering directory `/«PKGBUILDDIR»/src/fastx_quality_stats'
+make[3]: Nothing to be done for `check'.
+make[3]: Leaving directory `/«PKGBUILDDIR»/src/fastx_quality_stats'
+Making check in fastq_quality_converter
+make[3]: Entering directory `/«PKGBUILDDIR»/src/fastq_quality_converter'
+make[3]: Nothing to be done for `check'.
+make[3]: Leaving directory `/«PKGBUILDDIR»/src/fastq_quality_converter'
+Making check in fastq_to_fasta
+make[3]: Entering directory `/«PKGBUILDDIR»/src/fastq_to_fasta'
+make[3]: Nothing to be done for `check'.
+make[3]: Leaving directory `/«PKGBUILDDIR»/src/fastq_to_fasta'
+Making check in fastq_quality_filter
+make[3]: Entering directory `/«PKGBUILDDIR»/src/fastq_quality_filter'
+make[3]: Nothing to be done for `check'.
+make[3]: Leaving directory `/«PKGBUILDDIR»/src/fastq_quality_filter'
+Making check in fastq_quality_trimmer
+make[3]: Entering directory `/«PKGBUILDDIR»/src/fastq_quality_trimmer'
+make[3]: Nothing to be done for `check'.
+make[3]: Leaving directory `/«PKGBUILDDIR»/src/fastq_quality_trimmer'
+Making check in fastx_artifacts_filter
+make[3]: Entering directory `/«PKGBUILDDIR»/src/fastx_artifacts_filter'
+make[3]: Nothing to be done for `check'.
+make[3]: Leaving directory `/«PKGBUILDDIR»/src/fastx_artifacts_filter'
+Making check in fastx_reverse_complement
+make[3]: Entering directory `/«PKGBUILDDIR»/src/fastx_reverse_complement'
+make[3]: Nothing to be done for `check'.
+make[3]: Leaving directory `/«PKGBUILDDIR»/src/fastx_reverse_complement'
+Making check in fastx_collapser
+make[3]: Entering directory `/«PKGBUILDDIR»/src/fastx_collapser'
+make[3]: Nothing to be done for `check'.
+make[3]: Leaving directory `/«PKGBUILDDIR»/src/fastx_collapser'
+Making check in fastx_uncollapser
+make[3]: Entering directory `/«PKGBUILDDIR»/src/fastx_uncollapser'
+make[3]: Nothing to be done for `check'.
+make[3]: Leaving directory `/«PKGBUILDDIR»/src/fastx_uncollapser'
+Making check in seqalign_test
+make[3]: Entering directory `/«PKGBUILDDIR»/src/seqalign_test'
+make[3]: Nothing to be done for `check'.
+make[3]: Leaving directory `/«PKGBUILDDIR»/src/seqalign_test'
+Making check in fasta_formatter
+make[3]: Entering directory `/«PKGBUILDDIR»/src/fasta_formatter'
+make[3]: Nothing to be done for `check'.
+make[3]: Leaving directory `/«PKGBUILDDIR»/src/fasta_formatter'
+Making check in fasta_nucleotide_changer
+make[3]: Entering directory `/«PKGBUILDDIR»/src/fasta_nucleotide_changer'
+make[3]: Nothing to be done for `check'.
+make[3]: Leaving directory `/«PKGBUILDDIR»/src/fasta_nucleotide_changer'
+Making check in fastx_renamer
+make[3]: Entering directory `/«PKGBUILDDIR»/src/fastx_renamer'
+make[3]: Nothing to be done for `check'.
+make[3]: Leaving directory `/«PKGBUILDDIR»/src/fastx_renamer'
+Making check in fastq_masker
+make[3]: Entering directory `/«PKGBUILDDIR»/src/fastq_masker'
+make[3]: Nothing to be done for `check'.
+make[3]: Leaving directory `/«PKGBUILDDIR»/src/fastq_masker'
+make[3]: Entering directory `/«PKGBUILDDIR»/src'
+make[3]: Nothing to be done for `check-am'.
+make[3]: Leaving directory `/«PKGBUILDDIR»/src'
+make[2]: Leaving directory `/«PKGBUILDDIR»/src'
+Making check in doc
+make[2]: Entering directory `/«PKGBUILDDIR»/doc'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/doc'
+Making check in galaxy
+make[2]: Entering directory `/«PKGBUILDDIR»/galaxy'
+Making check in tools
+make[3]: Entering directory `/«PKGBUILDDIR»/galaxy/tools'
+Making check in fastx_toolkit
+make[4]: Entering directory `/«PKGBUILDDIR»/galaxy/tools/fastx_toolkit'
+make[4]: Nothing to be done for `check'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/galaxy/tools/fastx_toolkit'
+Making check in cshl_custom_fastx_toolkit
+make[4]: Entering directory `/«PKGBUILDDIR»/galaxy/tools/cshl_custom_fastx_toolkit'
+make[4]: Nothing to be done for `check'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/galaxy/tools/cshl_custom_fastx_toolkit'
+make[4]: Entering directory `/«PKGBUILDDIR»/galaxy/tools'
+make[4]: Nothing to be done for `check-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/galaxy/tools'
+make[3]: Leaving directory `/«PKGBUILDDIR»/galaxy/tools'
+Making check in test-data
+make[3]: Entering directory `/«PKGBUILDDIR»/galaxy/test-data'
+make[3]: Nothing to be done for `check'.
+make[3]: Leaving directory `/«PKGBUILDDIR»/galaxy/test-data'
+Making check in static
+make[3]: Entering directory `/«PKGBUILDDIR»/galaxy/static'
+Making check in fastx_icons
+make[4]: Entering directory `/«PKGBUILDDIR»/galaxy/static/fastx_icons'
+make[4]: Nothing to be done for `check'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/galaxy/static/fastx_icons'
+make[4]: Entering directory `/«PKGBUILDDIR»/galaxy/static'
+make[4]: Nothing to be done for `check-am'.
+make[4]: Leaving directory `/«PKGBUILDDIR»/galaxy/static'
+make[3]: Leaving directory `/«PKGBUILDDIR»/galaxy/static'
+Making check in tool-data
+make[3]: Entering directory `/«PKGBUILDDIR»/galaxy/tool-data'
+make[3]: Nothing to be done for `check'.
+make[3]: Leaving directory `/«PKGBUILDDIR»/galaxy/tool-data'
+make[3]: Entering directory `/«PKGBUILDDIR»/galaxy'
+make[3]: Nothing to be done for `check-am'.
+make[3]: Leaving directory `/«PKGBUILDDIR»/galaxy'
+make[2]: Leaving directory `/«PKGBUILDDIR»/galaxy'
+Making check in scripts
+make[2]: Entering directory `/«PKGBUILDDIR»/scripts'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/scripts'
+Making check in build_scripts
+make[2]: Entering directory `/«PKGBUILDDIR»/build_scripts'
+make[2]: Nothing to be done for `check'.
+make[2]: Leaving directory `/«PKGBUILDDIR»/build_scripts'
+make[2]: Entering directory `/«PKGBUILDDIR»'
+make[2]: Nothing to be done for `check-am'.
+make[2]: Leaving directory `/«PKGBUILDDIR»'
+make[1]: Leaving directory `/«PKGBUILDDIR»'
fakeroot debian/rules binary
-test -x debian/rules
-dh_testroot
-dh_prep
-dh_installdirs -A
-mkdir -p "."
-if test -e /usr/share/misc/config.guess ; then \
- for i in ./config/config.guess ; do \
- if ! test -e $i.cdbs-orig ; then \
- mv $i $i.cdbs-orig ; \
- cp --remove-destination /usr/share/misc/config.guess $i ; \
- fi ; \
- done ; \
- fi
-if test -e /usr/share/misc/config.sub ; then \
- for i in ./config/config.sub ; do \
- if ! test -e $i.cdbs-orig ; then \
- mv $i $i.cdbs-orig ; \
- cp --remove-destination /usr/share/misc/config.sub $i ; \
- fi ; \
- done ; \
- fi
-DEB_MAKE_CHECK_TARGET unset, not running checks
-/usr/bin/make -C . install DESTDIR=/«PKGBUILDDIR»/debian/fastx-toolkit/
+dh binary
+ dh_testroot
+ dh_prep
+ rm -f debian/fastx-toolkit.substvars
+ rm -f debian/fastx-toolkit.*.debhelper
+ rm -rf debian/fastx-toolkit/
+ dh_installdirs
+ install -d debian/fastx-toolkit
+ dh_auto_install
+ make -j1 install DESTDIR=/«PKGBUILDDIR»/debian/fastx-toolkit AM_UPDATE_INFO_DIR=no
make[1]: Entering directory `/«PKGBUILDDIR»'
Making install in m4
make[2]: Entering directory `/«PKGBUILDDIR»/m4'
make[3]: Entering directory `/«PKGBUILDDIR»/m4'
make[3]: Nothing to be done for `install-exec-am'.
-test -z "/usr/share/aclocal" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit//usr/share/aclocal"
- /usr/bin/install -c -m 644 'ax_c_long_long.m4' '/«PKGBUILDDIR»/debian/fastx-toolkit//usr/share/aclocal/ax_c_long_long.m4'
- /usr/bin/install -c -m 644 'ax_cxx_header_stdcxx_tr1.m4' '/«PKGBUILDDIR»/debian/fastx-toolkit//usr/share/aclocal/ax_cxx_header_stdcxx_tr1.m4'
+test -z "/usr/share/aclocal" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit/usr/share/aclocal"
+ /usr/bin/install -c -m 644 ax_c_long_long.m4 ax_cxx_header_stdcxx_tr1.m4 '/«PKGBUILDDIR»/debian/fastx-toolkit/usr/share/aclocal'
make[3]: Leaving directory `/«PKGBUILDDIR»/m4'
make[2]: Leaving directory `/«PKGBUILDDIR»/m4'
Making install in src
@@ -619,99 +823,99 @@ make[3]: Leaving directory `/«PKGBUILDDIR»/src/libfastx'
Making install in fastx_clipper
make[3]: Entering directory `/«PKGBUILDDIR»/src/fastx_clipper'
make[4]: Entering directory `/«PKGBUILDDIR»/src/fastx_clipper'
-test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin"
- /bin/bash ../../libtool --mode=install /usr/bin/install -c 'fastx_clipper' '/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastx_clipper'
-libtool: install: /usr/bin/install -c fastx_clipper /«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastx_clipper
+test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin"
+ /bin/bash ../../libtool --mode=install /usr/bin/install -c fastx_clipper '/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin'
+libtool: install: /usr/bin/install -c fastx_clipper /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastx_clipper
make[4]: Nothing to be done for `install-data-am'.
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fastx_clipper'
make[3]: Leaving directory `/«PKGBUILDDIR»/src/fastx_clipper'
Making install in fastx_trimmer
make[3]: Entering directory `/«PKGBUILDDIR»/src/fastx_trimmer'
make[4]: Entering directory `/«PKGBUILDDIR»/src/fastx_trimmer'
-test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin"
- /bin/bash ../../libtool --mode=install /usr/bin/install -c 'fastx_trimmer' '/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastx_trimmer'
-libtool: install: /usr/bin/install -c fastx_trimmer /«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastx_trimmer
+test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin"
+ /bin/bash ../../libtool --mode=install /usr/bin/install -c fastx_trimmer '/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin'
+libtool: install: /usr/bin/install -c fastx_trimmer /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastx_trimmer
make[4]: Nothing to be done for `install-data-am'.
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fastx_trimmer'
make[3]: Leaving directory `/«PKGBUILDDIR»/src/fastx_trimmer'
Making install in fastx_quality_stats
make[3]: Entering directory `/«PKGBUILDDIR»/src/fastx_quality_stats'
make[4]: Entering directory `/«PKGBUILDDIR»/src/fastx_quality_stats'
-test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin"
- /bin/bash ../../libtool --mode=install /usr/bin/install -c 'fastx_quality_stats' '/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastx_quality_stats'
-libtool: install: /usr/bin/install -c fastx_quality_stats /«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastx_quality_stats
+test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin"
+ /bin/bash ../../libtool --mode=install /usr/bin/install -c fastx_quality_stats '/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin'
+libtool: install: /usr/bin/install -c fastx_quality_stats /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastx_quality_stats
make[4]: Nothing to be done for `install-data-am'.
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fastx_quality_stats'
make[3]: Leaving directory `/«PKGBUILDDIR»/src/fastx_quality_stats'
Making install in fastq_quality_converter
make[3]: Entering directory `/«PKGBUILDDIR»/src/fastq_quality_converter'
make[4]: Entering directory `/«PKGBUILDDIR»/src/fastq_quality_converter'
-test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin"
- /bin/bash ../../libtool --mode=install /usr/bin/install -c 'fastq_quality_converter' '/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastq_quality_converter'
-libtool: install: /usr/bin/install -c fastq_quality_converter /«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastq_quality_converter
+test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin"
+ /bin/bash ../../libtool --mode=install /usr/bin/install -c fastq_quality_converter '/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin'
+libtool: install: /usr/bin/install -c fastq_quality_converter /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastq_quality_converter
make[4]: Nothing to be done for `install-data-am'.
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fastq_quality_converter'
make[3]: Leaving directory `/«PKGBUILDDIR»/src/fastq_quality_converter'
Making install in fastq_to_fasta
make[3]: Entering directory `/«PKGBUILDDIR»/src/fastq_to_fasta'
make[4]: Entering directory `/«PKGBUILDDIR»/src/fastq_to_fasta'
-test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin"
- /bin/bash ../../libtool --mode=install /usr/bin/install -c 'fastq_to_fasta' '/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastq_to_fasta'
-libtool: install: /usr/bin/install -c fastq_to_fasta /«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastq_to_fasta
+test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin"
+ /bin/bash ../../libtool --mode=install /usr/bin/install -c fastq_to_fasta '/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin'
+libtool: install: /usr/bin/install -c fastq_to_fasta /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastq_to_fasta
make[4]: Nothing to be done for `install-data-am'.
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fastq_to_fasta'
make[3]: Leaving directory `/«PKGBUILDDIR»/src/fastq_to_fasta'
Making install in fastq_quality_filter
make[3]: Entering directory `/«PKGBUILDDIR»/src/fastq_quality_filter'
make[4]: Entering directory `/«PKGBUILDDIR»/src/fastq_quality_filter'
-test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin"
- /bin/bash ../../libtool --mode=install /usr/bin/install -c 'fastq_quality_filter' '/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastq_quality_filter'
-libtool: install: /usr/bin/install -c fastq_quality_filter /«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastq_quality_filter
+test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin"
+ /bin/bash ../../libtool --mode=install /usr/bin/install -c fastq_quality_filter '/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin'
+libtool: install: /usr/bin/install -c fastq_quality_filter /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastq_quality_filter
make[4]: Nothing to be done for `install-data-am'.
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fastq_quality_filter'
make[3]: Leaving directory `/«PKGBUILDDIR»/src/fastq_quality_filter'
Making install in fastq_quality_trimmer
make[3]: Entering directory `/«PKGBUILDDIR»/src/fastq_quality_trimmer'
make[4]: Entering directory `/«PKGBUILDDIR»/src/fastq_quality_trimmer'
-test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin"
- /bin/bash ../../libtool --mode=install /usr/bin/install -c 'fastq_quality_trimmer' '/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastq_quality_trimmer'
-libtool: install: /usr/bin/install -c fastq_quality_trimmer /«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastq_quality_trimmer
+test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin"
+ /bin/bash ../../libtool --mode=install /usr/bin/install -c fastq_quality_trimmer '/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin'
+libtool: install: /usr/bin/install -c fastq_quality_trimmer /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastq_quality_trimmer
make[4]: Nothing to be done for `install-data-am'.
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fastq_quality_trimmer'
make[3]: Leaving directory `/«PKGBUILDDIR»/src/fastq_quality_trimmer'
Making install in fastx_artifacts_filter
make[3]: Entering directory `/«PKGBUILDDIR»/src/fastx_artifacts_filter'
make[4]: Entering directory `/«PKGBUILDDIR»/src/fastx_artifacts_filter'
-test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin"
- /bin/bash ../../libtool --mode=install /usr/bin/install -c 'fastx_artifacts_filter' '/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastx_artifacts_filter'
-libtool: install: /usr/bin/install -c fastx_artifacts_filter /«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastx_artifacts_filter
+test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin"
+ /bin/bash ../../libtool --mode=install /usr/bin/install -c fastx_artifacts_filter '/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin'
+libtool: install: /usr/bin/install -c fastx_artifacts_filter /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastx_artifacts_filter
make[4]: Nothing to be done for `install-data-am'.
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fastx_artifacts_filter'
make[3]: Leaving directory `/«PKGBUILDDIR»/src/fastx_artifacts_filter'
Making install in fastx_reverse_complement
make[3]: Entering directory `/«PKGBUILDDIR»/src/fastx_reverse_complement'
make[4]: Entering directory `/«PKGBUILDDIR»/src/fastx_reverse_complement'
-test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin"
- /bin/bash ../../libtool --mode=install /usr/bin/install -c 'fastx_reverse_complement' '/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastx_reverse_complement'
-libtool: install: /usr/bin/install -c fastx_reverse_complement /«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastx_reverse_complement
+test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin"
+ /bin/bash ../../libtool --mode=install /usr/bin/install -c fastx_reverse_complement '/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin'
+libtool: install: /usr/bin/install -c fastx_reverse_complement /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastx_reverse_complement
make[4]: Nothing to be done for `install-data-am'.
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fastx_reverse_complement'
make[3]: Leaving directory `/«PKGBUILDDIR»/src/fastx_reverse_complement'
Making install in fastx_collapser
make[3]: Entering directory `/«PKGBUILDDIR»/src/fastx_collapser'
make[4]: Entering directory `/«PKGBUILDDIR»/src/fastx_collapser'
-test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin"
- /bin/bash ../../libtool --mode=install /usr/bin/install -c 'fastx_collapser' '/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastx_collapser'
-libtool: install: /usr/bin/install -c fastx_collapser /«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastx_collapser
+test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin"
+ /bin/bash ../../libtool --mode=install /usr/bin/install -c fastx_collapser '/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin'
+libtool: install: /usr/bin/install -c fastx_collapser /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastx_collapser
make[4]: Nothing to be done for `install-data-am'.
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fastx_collapser'
make[3]: Leaving directory `/«PKGBUILDDIR»/src/fastx_collapser'
Making install in fastx_uncollapser
make[3]: Entering directory `/«PKGBUILDDIR»/src/fastx_uncollapser'
make[4]: Entering directory `/«PKGBUILDDIR»/src/fastx_uncollapser'
-test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin"
- /bin/bash ../../libtool --mode=install /usr/bin/install -c 'fastx_uncollapser' '/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastx_uncollapser'
-libtool: install: /usr/bin/install -c fastx_uncollapser /«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastx_uncollapser
+test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin"
+ /bin/bash ../../libtool --mode=install /usr/bin/install -c fastx_uncollapser '/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin'
+libtool: install: /usr/bin/install -c fastx_uncollapser /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastx_uncollapser
make[4]: Nothing to be done for `install-data-am'.
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fastx_uncollapser'
make[3]: Leaving directory `/«PKGBUILDDIR»/src/fastx_uncollapser'
@@ -725,36 +929,36 @@ make[3]: Leaving directory `/«PKGBUILDDIR»/src/seqalign_test'
Making install in fasta_formatter
make[3]: Entering directory `/«PKGBUILDDIR»/src/fasta_formatter'
make[4]: Entering directory `/«PKGBUILDDIR»/src/fasta_formatter'
-test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin"
- /bin/bash ../../libtool --mode=install /usr/bin/install -c 'fasta_formatter' '/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fasta_formatter'
-libtool: install: /usr/bin/install -c fasta_formatter /«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fasta_formatter
+test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin"
+ /bin/bash ../../libtool --mode=install /usr/bin/install -c fasta_formatter '/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin'
+libtool: install: /usr/bin/install -c fasta_formatter /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fasta_formatter
make[4]: Nothing to be done for `install-data-am'.
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fasta_formatter'
make[3]: Leaving directory `/«PKGBUILDDIR»/src/fasta_formatter'
Making install in fasta_nucleotide_changer
make[3]: Entering directory `/«PKGBUILDDIR»/src/fasta_nucleotide_changer'
make[4]: Entering directory `/«PKGBUILDDIR»/src/fasta_nucleotide_changer'
-test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin"
- /bin/bash ../../libtool --mode=install /usr/bin/install -c 'fasta_nucleotide_changer' '/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fasta_nucleotide_changer'
-libtool: install: /usr/bin/install -c fasta_nucleotide_changer /«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fasta_nucleotide_changer
+test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin"
+ /bin/bash ../../libtool --mode=install /usr/bin/install -c fasta_nucleotide_changer '/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin'
+libtool: install: /usr/bin/install -c fasta_nucleotide_changer /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fasta_nucleotide_changer
make[4]: Nothing to be done for `install-data-am'.
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fasta_nucleotide_changer'
make[3]: Leaving directory `/«PKGBUILDDIR»/src/fasta_nucleotide_changer'
Making install in fastx_renamer
make[3]: Entering directory `/«PKGBUILDDIR»/src/fastx_renamer'
make[4]: Entering directory `/«PKGBUILDDIR»/src/fastx_renamer'
-test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin"
- /bin/bash ../../libtool --mode=install /usr/bin/install -c 'fastx_renamer' '/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastx_renamer'
-libtool: install: /usr/bin/install -c fastx_renamer /«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastx_renamer
+test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin"
+ /bin/bash ../../libtool --mode=install /usr/bin/install -c fastx_renamer '/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin'
+libtool: install: /usr/bin/install -c fastx_renamer /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastx_renamer
make[4]: Nothing to be done for `install-data-am'.
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fastx_renamer'
make[3]: Leaving directory `/«PKGBUILDDIR»/src/fastx_renamer'
Making install in fastq_masker
make[3]: Entering directory `/«PKGBUILDDIR»/src/fastq_masker'
make[4]: Entering directory `/«PKGBUILDDIR»/src/fastq_masker'
-test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin"
- /bin/bash ../../libtool --mode=install /usr/bin/install -c 'fastq_masker' '/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastq_masker'
-libtool: install: /usr/bin/install -c fastq_masker /«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastq_masker
+test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin"
+ /bin/bash ../../libtool --mode=install /usr/bin/install -c fastq_masker '/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin'
+libtool: install: /usr/bin/install -c fastq_masker /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastq_masker
make[4]: Nothing to be done for `install-data-am'.
make[4]: Leaving directory `/«PKGBUILDDIR»/src/fastq_masker'
make[3]: Leaving directory `/«PKGBUILDDIR»/src/fastq_masker'
@@ -837,12 +1041,8 @@ make[2]: Leaving directory `/«PKGBUILDDIR»/galaxy'
Making install in scripts
make[2]: Entering directory `/«PKGBUILDDIR»/scripts'
make[3]: Entering directory `/«PKGBUILDDIR»/scripts'
-test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin"
- /usr/bin/install -c 'fastx_barcode_splitter.pl' '/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastx_barcode_splitter.pl'
- /usr/bin/install -c 'fastx_nucleotide_distribution_graph.sh' '/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastx_nucleotide_distribution_graph.sh'
- /usr/bin/install -c 'fastx_nucleotide_distribution_line_graph.sh' '/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastx_nucleotide_distribution_line_graph.sh'
- /usr/bin/install -c 'fastq_quality_boxplot_graph.sh' '/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fastq_quality_boxplot_graph.sh'
- /usr/bin/install -c 'fasta_clipping_histogram.pl' '/«PKGBUILDDIR»/debian/fastx-toolkit//usr/bin/fasta_clipping_histogram.pl'
+test -z "/usr/bin" || /bin/mkdir -p "/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin"
+ /usr/bin/install -c fastx_barcode_splitter.pl fastx_nucleotide_distribution_graph.sh fastx_nucleotide_distribution_line_graph.sh fastq_quality_boxplot_graph.sh fasta_clipping_histogram.pl '/«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin'
make[3]: Nothing to be done for `install-data-am'.
make[3]: Leaving directory `/«PKGBUILDDIR»/scripts'
make[2]: Leaving directory `/«PKGBUILDDIR»/scripts'
@@ -860,49 +1060,215 @@ make[3]: Nothing to be done for `install-data-am'.
make[3]: Leaving directory `/«PKGBUILDDIR»'
make[2]: Leaving directory `/«PKGBUILDDIR»'
make[1]: Leaving directory `/«PKGBUILDDIR»'
-touch debian/stamp-makefile-install
-Adding cdbs dependencies to debian/fastx-toolkit.substvars
-dh_installdirs -pfastx-toolkit
+ debian/rules override_dh_install
+make[1]: Entering directory `/«PKGBUILDDIR»'
+dh_install
rm --recursive /«PKGBUILDDIR»/debian/fastx-toolkit/usr/share/aclocal
-dh_installdocs -pfastx-toolkit ./README ./NEWS ./AUTHORS ./THANKS
-dh_installexamples -pfastx-toolkit
-dh_installman -pfastx-toolkit
-dh_installinfo -pfastx-toolkit
-dh_installmenu -pfastx-toolkit
-dh_installcron -pfastx-toolkit
-dh_installinit -pfastx-toolkit
-dh_installdebconf -pfastx-toolkit
-dh_installemacsen -pfastx-toolkit
-dh_installcatalogs -pfastx-toolkit
-dh_installpam -pfastx-toolkit
-dh_installlogrotate -pfastx-toolkit
-dh_installlogcheck -pfastx-toolkit
-dh_installchangelogs -pfastx-toolkit NEWS
-dh_installudev -pfastx-toolkit
-dh_lintian -pfastx-toolkit
-dh_bugfiles -pfastx-toolkit
-dh_install -pfastx-toolkit
-dh_link -pfastx-toolkit
-dh_installmime -pfastx-toolkit
-dh_installgsettings -pfastx-toolkit
-dh_strip -pfastx-toolkit
-dh_compress -pfastx-toolkit
-dh_fixperms -pfastx-toolkit
-dh_makeshlibs -pfastx-toolkit
-dh_installdeb -pfastx-toolkit
-dh_perl -pfastx-toolkit
-dh_shlibdeps -pfastx-toolkit
-dh_gencontrol -pfastx-toolkit
+make[1]: Leaving directory `/«PKGBUILDDIR»'
+ dh_installdocs
+ install -g 0 -o 0 -d debian/fastx-toolkit/usr/share/doc/fastx-toolkit
+ cp -a NEWS debian/fastx-toolkit/usr/share/doc/fastx-toolkit
+ cp -a README debian/fastx-toolkit/usr/share/doc/fastx-toolkit
+ cp -a THANKS debian/fastx-toolkit/usr/share/doc/fastx-toolkit
+ chown -R 0:0 debian/fastx-toolkit/usr/share/doc
+ chmod -R go=rX debian/fastx-toolkit/usr/share/doc
+ chmod -R u\+rw debian/fastx-toolkit/usr/share/doc
+ install -g 0 -o 0 -m 644 -p debian/README.Debian debian/fastx-toolkit/usr/share/doc/fastx-toolkit/README.Debian
+ install -g 0 -o 0 -m 644 -p debian/copyright debian/fastx-toolkit/usr/share/doc/fastx-toolkit/copyright
+ debian/rules override_dh_installchangelogs
+make[1]: Entering directory `/«PKGBUILDDIR»'
+dh_installchangelogs -k NEWS
+ install -o 0 -g 0 -p -m644 debian/changelog debian/fastx-toolkit/usr/share/doc/fastx-toolkit/changelog.Debian
+ install -o 0 -g 0 -p -m644 NEWS debian/fastx-toolkit/usr/share/doc/fastx-toolkit/changelog
+ ln -sf changelog debian/fastx-toolkit/usr/share/doc/fastx-toolkit/NEWS
+make[1]: Leaving directory `/«PKGBUILDDIR»'
+ dh_installexamples
+ debian/rules override_dh_installman
+make[1]: Entering directory `/«PKGBUILDDIR»'
+mkdir -p /«PKGBUILDDIR»/debian/fastx-toolkit/usr/share/man/man1
+# The name strings are obtained from
+# http://hannonlab.cshl.edu/fastx_toolkit/ (Section "Available Tools")
+# and
+# http://hannonlab.cshl.edu/fastx_toolkit/commandline.html
+help2man --no-info --no-discard-stderr --version-string='0.0.13.2' --help-option='-h' \
+ --name='changes the width of sequences line in a FASTA file' \
+ /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fasta_formatter > /«PKGBUILDDIR»/debian/fastx-toolkit/usr/share/man/man1/fasta_formatter.1
+help2man --no-info --no-discard-stderr --version-string='0.0.13.2' --help-option='-h' \
+ --name='Convets FASTA sequences from/to RNA/DNA' \
+ /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fasta_nucleotide_changer > /«PKGBUILDDIR»/debian/fastx-toolkit/usr/share/man/man1/fasta_nucleotide_changer.1
+help2man --no-info --no-discard-stderr --version-string='0.0.13.2' --help-option='-h' \
+ --name="Masks nucleotides with 'N' (or other character) based on quality" \
+ /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastq_masker > /«PKGBUILDDIR»/debian/fastx-toolkit/usr/share/man/man1/fastq_masker.1
+# FIXME: The tool `fasta_quality_converter` was NOT described at the URLs above
+help2man --no-info --no-discard-stderr --version-string='0.0.13.2' --help-option='-h' \
+ --name='Converts sequences based on quality' \
+ /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastq_quality_converter > /«PKGBUILDDIR»/debian/fastx-toolkit/usr/share/man/man1/fastq_quality_converter.1
+help2man --no-info --no-discard-stderr --version-string='0.0.13.2' --help-option='-h' \
+ --name='Filters sequences based on quality' \
+ /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastq_quality_filter > /«PKGBUILDDIR»/debian/fastx-toolkit/usr/share/man/man1/fastq_quality_filter.1
+dh_installman debian/fastq_quality_trimmer.1
+ install -p -m644 debian/fastq_quality_trimmer.1 debian/fastx-toolkit/usr/share/man/man1/fastq_quality_trimmer.1
+ man --recode UTF-8 ./fastq_quality_trimmer\.1 > fastq_quality_trimmer\.1\.new
+ chmod 644 fastq_quality_trimmer.1.new
+ mv -f fastq_quality_trimmer.1.new fastq_quality_trimmer.1
+ man --recode UTF-8 ./fasta_formatter\.1 > fasta_formatter\.1\.new
+ chmod 644 fasta_formatter.1.new
+ mv -f fasta_formatter.1.new fasta_formatter.1
+ man --recode UTF-8 ./fasta_nucleotide_changer\.1 > fasta_nucleotide_changer\.1\.new
+ chmod 644 fasta_nucleotide_changer.1.new
+ mv -f fasta_nucleotide_changer.1.new fasta_nucleotide_changer.1
+ man --recode UTF-8 ./fastq_quality_filter\.1 > fastq_quality_filter\.1\.new
+ chmod 644 fastq_quality_filter.1.new
+ mv -f fastq_quality_filter.1.new fastq_quality_filter.1
+ man --recode UTF-8 ./fastq_masker\.1 > fastq_masker\.1\.new
+ chmod 644 fastq_masker.1.new
+ mv -f fastq_masker.1.new fastq_masker.1
+ man --recode UTF-8 ./fastq_quality_converter\.1 > fastq_quality_converter\.1\.new
+ chmod 644 fastq_quality_converter.1.new
+ mv -f fastq_quality_converter.1.new fastq_quality_converter.1
+help2man --no-info --no-discard-stderr --version-string='0.0.13.2' --help-option='-h' \
+ --name='Convert FASTQ files to FASTA files' \
+ /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastq_to_fasta > /«PKGBUILDDIR»/debian/fastx-toolkit/usr/share/man/man1/fastq_to_fasta.1
+help2man --no-info --no-discard-stderr --version-string='0.0.13.2' --help-option='-h' \
+ --name='FASTQ/A Artifacts Filter' \
+ /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastx_artifacts_filter > /«PKGBUILDDIR»/debian/fastx-toolkit/usr/share/man/man1/fastx_artifacts_filter.1
+help2man --no-info --no-discard-stderr --version-string='0.0.13.2' --help-option='-h' \
+ --name='FASTA/Q Clipper' \
+ /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastx_clipper > /«PKGBUILDDIR»/debian/fastx-toolkit/usr/share/man/man1/fastx_clipper.1
+help2man --no-info --no-discard-stderr --version-string='0.0.13.2' --help-option='-h' \
+ --name='FASTA/Q Collapser' \
+ /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastx_collapser > /«PKGBUILDDIR»/debian/fastx-toolkit/usr/share/man/man1/fastx_collapser.1
+help2man --no-info --no-discard-stderr --version-string='0.0.13.2' --help-option='-h' \
+ --name='FASTX Statistics' \
+ /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastx_quality_stats > /«PKGBUILDDIR»/debian/fastx-toolkit/usr/share/man/man1/fastx_quality_stats.1
+help2man --no-info --no-discard-stderr --version-string='0.0.13.2' --help-option='-h' \
+ --name='FASTA/Q Renamer' \
+ /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastx_renamer > /«PKGBUILDDIR»/debian/fastx-toolkit/usr/share/man/man1/fastx_renamer.1
+help2man --no-info --no-discard-stderr --version-string='0.0.13.2' --help-option='-h' \
+ --name='FASTQ/A Reverse Complement' \
+ /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastx_reverse_complement > /«PKGBUILDDIR»/debian/fastx-toolkit/usr/share/man/man1/fastx_reverse_complement.1
+help2man --no-info --no-discard-stderr --version-string='0.0.13.2' --help-option='-h' \
+ --name='FASTA/Q Trimmer' \
+ /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastx_trimmer > /«PKGBUILDDIR»/debian/fastx-toolkit/usr/share/man/man1/fastx_trimmer.1
+help2man --no-info --no-discard-stderr --version-string='0.0.13.2' --help-option='-h' \
+ --name='FASTA/Q Uncollapser' \
+ /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastx_uncollapser > /«PKGBUILDDIR»/debian/fastx-toolkit/usr/share/man/man1/fastx_uncollapser.1
+# Perl scripts add the full path to usage advise which needs to be removed
+# The script fasta_clipping_histogram.pl does not feature a '-h' option
+help2man --no-info --no-discard-stderr --version-string='0.0.13.2' -h '' \
+ --name='Create a Linker Clipping Information Histogram' \
+ /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fasta_clipping_histogram.pl | \
+ sed -e 's?^usage: .*\([^/]\+\.pl\)?usage: \1?' \
+ > /«PKGBUILDDIR»/debian/fastx-toolkit/usr/share/man/man1/fasta_clipping_histogram.pl.1
+help2man --no-info --no-discard-stderr --version-string='0.0.13.2' --help-option='-h' \
+ --name='FASTX Barcode Splitter' \
+ /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastx_barcode_splitter.pl | \
+ sed -e 's?^usage: .*\([^/]\+\.pl\)?usage: \1?' \
+ > /«PKGBUILDDIR»/debian/fastx-toolkit/usr/share/man/man1/fastx_barcode_splitter.pl.1
+help2man --no-info --no-discard-stderr --version-string='0.0.13.2' --help-option='-h' \
+ --name='Solexa-Quality BoxPlot plotter' \
+ /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastq_quality_boxplot_graph.sh > /«PKGBUILDDIR»/debian/fastx-toolkit/usr/share/man/man1/fastq_quality_boxplot_graph.sh.1
+help2man --no-info --no-discard-stderr --version-string='0.0.13.2' --help-option='-h' \
+ --name='FASTA/Q Nucleotide Distribution Plotter' \
+ /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastx_nucleotide_distribution_graph.sh > /«PKGBUILDDIR»/debian/fastx-toolkit/usr/share/man/man1/fastx_nucleotide_distribution_graph.sh.1
+help2man --no-info --no-discard-stderr --version-string='0.0.13.2' --help-option='-h' \
+ --name='FASTA/Q Nucleotide Distribution Plotter' \
+ /«PKGBUILDDIR»/debian/fastx-toolkit/usr/bin/fastx_nucleotide_distribution_line_graph.sh > /«PKGBUILDDIR»/debian/fastx-toolkit/usr/share/man/man1/fastx_nucleotide_distribution_line_graph.sh.1
+for man in `find /«PKGBUILDDIR»/debian/fastx-toolkit/usr/share/man/man1 "*.1"` ; do cat debian/manpages_see_also >> $man ; done
+find: `*.1': No such file or directory
+/bin/sh: 1: cannot create /«PKGBUILDDIR»/debian/fastx-toolkit/usr/share/man/man1: Is a directory
+make[1]: Leaving directory `/«PKGBUILDDIR»'
+ dh_installcatalogs
+ dh_installcron
+ dh_installdebconf
+ install -o 0 -g 0 -d debian/fastx-toolkit/DEBIAN
+ dh_installemacsen
+ dh_installifupdown
+ dh_installinfo
+ dh_installinit
+ dh_installmenu
+ dh_installmime
+ dh_installmodules
+ dh_installlogcheck
+ dh_installlogrotate
+ dh_installpam
+ dh_installppp
+ dh_installudev
+ dh_installwm
+ dh_installxfonts
+ dh_installgsettings
+ dh_bugfiles
+ dh_ucf
+ dh_lintian
+ dh_gconf
+ dh_icons
+ dh_perl
+ (grep -s -v perl:Depends debian/fastx-toolkit.substvars; echo perl:Depends=perl) > debian/fastx-toolkit.substvars.new
+ mv debian/fastx-toolkit.substvars.new debian/fastx-toolkit.substvars
+ dh_usrlocal
+ dh_link
+ rm -f debian/fastx-toolkit/usr/share/doc/fastx-toolkit/NEWS
+ ln -sf changelog debian/fastx-toolkit/usr/share/doc/fastx-toolkit/NEWS
+ dh_compress
+ cd debian/fastx-toolkit
+ chmod a-x usr/share/man/man1/fastx_quality_stats.1 usr/share/man/man1/fastx_uncollapser.1 usr/share/man/man1/fastx_clipper.1 usr/share/man/man1/fastq_quality_trimmer.1 usr/share/man/man1/fastx_artifacts_filter.1 usr/share/man/man1/fasta_formatter.1 usr/share/man/man1/fasta_nucleotide_changer.1 usr/share/man/man1/fastq_quality_filter.1 usr/share/man/man1/fastx_reverse_complement.1 usr/share/man/man1/fastx_barcode_splitter.pl.1 usr/share/man/man1/fastx_nucleotide_distribution_line_graph.sh.1 usr/share/man/man1/fastx_trimmer.1 usr/share/man/man1/fasta_clipping_histogram.pl.1 usr/share/man/man1/fastq_to_fasta.1 usr/share/man/man1/fastx_collapser.1 usr/share/man/man1/fastx_nucleotide_distribution_graph.sh.1 usr/share/man/man1/fastq_masker.1 usr/share/man/man1/fastx_renamer.1 usr/share/man/man1/fastq_quality_converter.1 usr/share/man/man1/fastq_quality_boxplot_graph.sh.1 usr/share/doc/fastx-toolkit/changelog.Debian usr/share/doc/fastx-toolkit/changelog usr/share/doc/fastx-toolkit/README
+ gzip -9nf usr/share/man/man1/fastx_quality_stats.1 usr/share/man/man1/fastx_uncollapser.1 usr/share/man/man1/fastx_clipper.1 usr/share/man/man1/fastq_quality_trimmer.1 usr/share/man/man1/fastx_artifacts_filter.1 usr/share/man/man1/fasta_formatter.1 usr/share/man/man1/fasta_nucleotide_changer.1 usr/share/man/man1/fastq_quality_filter.1 usr/share/man/man1/fastx_reverse_complement.1 usr/share/man/man1/fastx_barcode_splitter.pl.1 usr/share/man/man1/fastx_nucleotide_distribution_line_graph.sh.1 usr/share/man/man1/fastx_trimmer.1 usr/share/man/man1/fasta_clipping_histogram.pl.1 usr/share/man/man1/fastq_to_fasta.1 usr/share/man/man1/fastx_collapser.1 usr/share/man/man1/fastx_nucleotide_distribution_graph.sh.1 usr/share/man/man1/fastq_masker.1 usr/share/man/man1/fastx_renamer.1 usr/share/man/man1/fastq_quality_converter.1 usr/share/man/man1/fastq_quality_boxplot_graph.sh.1 usr/share/doc/fastx-toolkit/changelog.Debian usr/share/doc/fastx-toolkit/changelog usr/share/doc/fastx-toolkit/README
+ cd '/«PKGBUILDDIR»'
+ rm -f debian/fastx-toolkit/usr/share/doc/fastx-toolkit/NEWS
+ ln -sf changelog.gz debian/fastx-toolkit/usr/share/doc/fastx-toolkit/NEWS.gz
+ dh_fixperms
+ find debian/fastx-toolkit -print0 2>/dev/null | xargs -0r chown --no-dereference 0:0
+ find debian/fastx-toolkit ! -type l -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s
+ find debian/fastx-toolkit/usr/share/doc -type f ! -regex 'debian/fastx-toolkit/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 644
+ find debian/fastx-toolkit/usr/share/doc -type d -print0 2>/dev/null | xargs -0r chmod 755
+ find debian/fastx-toolkit/usr/share/man debian/fastx-toolkit/usr/man/ debian/fastx-toolkit/usr/X11*/man/ -type f -print0 2>/dev/null | xargs -0r chmod 644
+ find debian/fastx-toolkit -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/fastx-toolkit/usr/include -type f -print0 2>/dev/null | xargs -0r chmod 644
+ find debian/fastx-toolkit/usr/share/applications -type f -print0 2>/dev/null | xargs -0r chmod 644
+ find debian/fastx-toolkit -perm -5 -type f \( -name '*.cmxs' \) -print0 2>/dev/null | xargs -0r chmod 644
+ find debian/fastx-toolkit/usr/lib/perl5 debian/fastx-toolkit/usr/share/perl5 -type f -perm -5 -name '*.pm' -print0 2>/dev/null | xargs -0r chmod a-X
+ find debian/fastx-toolkit/usr/bin -type f -print0 2>/dev/null | xargs -0r chmod a+x
+ find debian/fastx-toolkit/usr/lib -type f -name '*.ali' -print0 2>/dev/null | xargs -0r chmod uga-w
+ dh_strip
+ strip --remove-section=.comment --remove-section=.note debian/fastx-toolkit/usr/bin/fastq_quality_trimmer
+ strip --remove-section=.comment --remove-section=.note debian/fastx-toolkit/usr/bin/fastq_masker
+ strip --remove-section=.comment --remove-section=.note debian/fastx-toolkit/usr/bin/fastx_uncollapser
+ strip --remove-section=.comment --remove-section=.note debian/fastx-toolkit/usr/bin/fastx_reverse_complement
+ strip --remove-section=.comment --remove-section=.note debian/fastx-toolkit/usr/bin/fastq_to_fasta
+ strip --remove-section=.comment --remove-section=.note debian/fastx-toolkit/usr/bin/fastq_quality_filter
+ strip --remove-section=.comment --remove-section=.note debian/fastx-toolkit/usr/bin/fastq_quality_converter
+ strip --remove-section=.comment --remove-section=.note debian/fastx-toolkit/usr/bin/fastx_trimmer
+ strip --remove-section=.comment --remove-section=.note debian/fastx-toolkit/usr/bin/fastx_artifacts_filter
+ strip --remove-section=.comment --remove-section=.note debian/fastx-toolkit/usr/bin/fastx_clipper
+ strip --remove-section=.comment --remove-section=.note debian/fastx-toolkit/usr/bin/fastx_collapser
+ strip --remove-section=.comment --remove-section=.note debian/fastx-toolkit/usr/bin/fasta_formatter
+ strip --remove-section=.comment --remove-section=.note debian/fastx-toolkit/usr/bin/fasta_nucleotide_changer
+ strip --remove-section=.comment --remove-section=.note debian/fastx-toolkit/usr/bin/fastx_renamer
+ strip --remove-section=.comment --remove-section=.note debian/fastx-toolkit/usr/bin/fastx_quality_stats
+ dh_makeshlibs
+ rm -f debian/fastx-toolkit/DEBIAN/shlibs
+ dh_shlibdeps
+ dpkg-shlibdeps -Tdebian/fastx-toolkit.substvars debian/fastx-toolkit/usr/bin/fastq_quality_trimmer debian/fastx-toolkit/usr/bin/fastq_masker debian/fastx-toolkit/usr/bin/fastx_uncollapser debian/fastx-toolkit/usr/bin/fastx_reverse_complement debian/fastx-toolkit/usr/bin/fastq_to_fasta debian/fastx-toolkit/usr/bin/fastq_quality_filter debian/fastx-toolkit/usr/bin/fastq_quality_converter debian/fastx-toolkit/usr/bin/fastx_trimmer debian/fastx-toolkit/usr/bin/fastx_artifacts_filter debian/fastx-toolkit/usr/bin/fastx_clipper debian/fastx-toolkit/usr/bin/fastx_collapser debian/fastx-toolkit/usr/bin/fasta_formatter debian/fastx-toolkit/usr/bin/fasta_nucleotide_changer debian/fastx-toolkit/usr/bin/fastx_renamer debian/fastx-toolkit/usr/bin/fastx_quality_stats
+ dh_installdeb
+ dh_gencontrol
+ echo misc:Depends= >> debian/fastx-toolkit.substvars
+ dpkg-gencontrol -ldebian/changelog -Tdebian/fastx-toolkit.substvars -Pdebian/fastx-toolkit
dpkg-gencontrol: warning: package fastx-toolkit: unused substitution variable ${perl:Depends}
-dh_md5sums -pfastx-toolkit
-dh_builddeb -pfastx-toolkit
-dpkg-deb: building package `fastx-toolkit' in `../fastx-toolkit_0.0.13.1-1_amd64.deb'.
- dpkg-genchanges >../fastx-toolkit_0.0.13.1-1_amd64.changes
+ chmod 644 debian/fastx-toolkit/DEBIAN/control
+ chown 0:0 debian/fastx-toolkit/DEBIAN/control
+ dh_md5sums
+ (cd debian/fastx-toolkit >/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/fastx-toolkit/DEBIAN/md5sums
+ chown 0:0 debian/fastx-toolkit/DEBIAN/md5sums
+ dh_builddeb
+ dpkg-deb --build debian/fastx-toolkit ..
+dpkg-deb: building package `fastx-toolkit' in `../fastx-toolkit_0.0.13.2-1_amd64.deb'.
+ dpkg-genchanges >../fastx-toolkit_0.0.13.2-1_amd64.changes
dpkg-genchanges: including full source code in upload
- dpkg-source --after-build fastx-toolkit-0.0.13.1
+ dpkg-source --after-build fastx-toolkit-0.0.13.2
dpkg-buildpackage: full upload (original source is included)
────────────────────────────────────────────────────────────────────────────────
-Build finished at 20110708-1340
+Build finished at 20120515-2107
Finished
────────
@@ -914,63 +1280,63 @@ I: Built successfully
└──────────────────────────────────────────────────────────────────────────────┘
-fastx-toolkit_0.0.13.1-1_amd64.changes:
+fastx-toolkit_0.0.13.2-1_amd64.changes:
───────────────────────────────────────
Format: 1.8
-Date: Fri, 08 Jul 2011 13:11:37 +0900
+Date: Tue, 15 May 2012 21:02:22 +0900
Source: fastx-toolkit
Binary: fastx-toolkit
Architecture: source amd64
-Version: 0.0.13.1-1
+Version: 0.0.13.2-1
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
Changed-By: Charles Plessy <plessy at debian.org>
Description:
fastx-toolkit - FASTQ/A short nucleotide reads pre-processing tools
-Closes: 626761
Changes:
- fastx-toolkit (0.0.13.1-1) unstable; urgency=low
+ fastx-toolkit (0.0.13.2-1) unstable; urgency=low
.
- * New upstream release (Closes: #626761).
- * Incremented Standards-Version to reflect conformance with Policy 3.9.2
- (debian/control, no changes needed).
- * Corrected Vcs-Git URL (debian/control).
+ 1313f16 Imported Upstream version 0.0.13.2
+ dbfb3ae Removed debian/patches/gcc-4.7.patch, applied upstream.
+ 182cd30 Include 7 digits of the commit ID in the changelog entry.
+ 2ae7b63 Spellchecked common “See also” section of the manpages.
+ 363856c Verbose Debhelper.
Checksums-Sha1:
- 36dbaed6cb491547000e53c449cb7110663a2dff 1137 fastx-toolkit_0.0.13.1-1.dsc
- 5e6a4c0c019424e1513487736a3cd0a59f9e3fad 1153417 fastx-toolkit_0.0.13.1.orig.tar.bz2
- ebdc3a20fb5c5f23726c610616e50790a96c5574 14317 fastx-toolkit_0.0.13.1-1.debian.tar.gz
- 8a90adb68f78bd8533f81cf791c053feb464a7e1 107906 fastx-toolkit_0.0.13.1-1_amd64.deb
+ 15df3de6324e6e9a1c90d61d2e48f328034419fa 1262 fastx-toolkit_0.0.13.2-1.dsc
+ 51fd9ddc1fc1ffea29d7cabc02e46dd8a1b860ec 545387 fastx-toolkit_0.0.13.2.orig.tar.bz2
+ 28269c0138ca47fcbfcc307524f96a957b5a075d 16854 fastx-toolkit_0.0.13.2-1.debian.tar.gz
+ 7f418590063b9274b502f0e98c9bdc6641a0e902 130548 fastx-toolkit_0.0.13.2-1_amd64.deb
Checksums-Sha256:
- 9f66e31abc3875d123c1795b49a9890a09e1e4fa09d0dde09e3c6f2d4e8db238 1137 fastx-toolkit_0.0.13.1-1.dsc
- 7e1dddd6d56bf148e82d0ef7d5efae7ce62d3419ecb5077f9199a527a5366c90 1153417 fastx-toolkit_0.0.13.1.orig.tar.bz2
- 2ea1acbfce059c312060b89443d200790489c3b332eaf6f21bf80d94023ac407 14317 fastx-toolkit_0.0.13.1-1.debian.tar.gz
- b4df6c8c2713a295925317a92545c7df4e16f89a9d60de6a3497ff3548343641 107906 fastx-toolkit_0.0.13.1-1_amd64.deb
+ 83bed5c4dbf3b33393a4270ec49aa0e3b62c594b6dd365c5ae94d69d430556ca 1262 fastx-toolkit_0.0.13.2-1.dsc
+ df154f785c35d1f8b6f3568ea80c52f742ec03f75564adfe8e1bb0f8de8b1aed 545387 fastx-toolkit_0.0.13.2.orig.tar.bz2
+ 56819e0573909407b67720c31af53f4bb4242728b40a895d4a7bf69900441735 16854 fastx-toolkit_0.0.13.2-1.debian.tar.gz
+ 93eba6fbf09c463485718f2662c666deaaa6fe54f9b32f7c3357ab573d6806b8 130548 fastx-toolkit_0.0.13.2-1_amd64.deb
Files:
- 0755d68fa6b08246845cda9cb6ff8da7 1137 science optional fastx-toolkit_0.0.13.1-1.dsc
- 3b0acec3aef0241d46f4c709d5714f09 1153417 science optional fastx-toolkit_0.0.13.1.orig.tar.bz2
- 80c91bf5df6a27f66e7dd32d892daae3 14317 science optional fastx-toolkit_0.0.13.1-1.debian.tar.gz
- 9369f98ae50fad5c455593636a08dcf3 107906 science optional fastx-toolkit_0.0.13.1-1_amd64.deb
+ 79f2a799112e816b42eae8cea9bc1cb7 1262 science optional fastx-toolkit_0.0.13.2-1.dsc
+ 1d1238cb3029cb1c5d1a3eea7d7d2ca8 545387 science optional fastx-toolkit_0.0.13.2.orig.tar.bz2
+ 4b374b3244db3ca6f4886bfd6fd680f8 16854 science optional fastx-toolkit_0.0.13.2-1.debian.tar.gz
+ 7fc226e466b1d7360746cb9d179a53ac 130548 science optional fastx-toolkit_0.0.13.2-1_amd64.deb
┌──────────────────────────────────────────────────────────────────────────────┐
│ Package contents │
└──────────────────────────────────────────────────────────────────────────────┘
-fastx-toolkit_0.0.13.1-1_amd64.deb
+fastx-toolkit_0.0.13.2-1_amd64.deb
──────────────────────────────────
new debian package, version 2.0.
- size 107906 bytes: control archive= 1602 bytes.
- 1041 bytes, 19 lines control
- 1798 bytes, 27 lines md5sums
+ size 130548 bytes: control archive=2140 bytes.
+ 1078 bytes, 19 lines control
+ 3342 bytes, 46 lines md5sums
Package: fastx-toolkit
- Version: 0.0.13.1-1
+ Version: 0.0.13.2-1
Architecture: amd64
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
- Installed-Size: 440
- Depends: libc6 (>= 2.2.5), libgcc1 (>= 1:4.1.1), libgtextutils0 (>= 0.6.2), libstdc++6 (>= 4.6)
+ Installed-Size: 449
+ Depends: libc6 (>= 2.4), libgcc1 (>= 1:4.1.1), libgtextutils0 (>= 0.6.2), libstdc++6 (>= 4.6), libgd-graph-perl, libperlio-gzip-perl
Section: science
Priority: optional
Homepage: http://hannonlab.cshl.edu/fastx_toolkit/
@@ -985,39 +1351,61 @@ fastx-toolkit_0.0.13.1-1_amd64.deb
produce better mapping results. The FASTX-Toolkit tools perform some of these
preprocessing tasks.
-drwxr-xr-x root/root 0 2011-07-08 13:40 ./
-drwxr-xr-x root/root 0 2011-07-08 13:40 ./usr/
-drwxr-xr-x root/root 0 2011-07-08 13:40 ./usr/bin/
--rwxr-xr-x root/root 15392 2011-07-08 13:40 ./usr/bin/fastq_quality_trimmer
--rwxr-xr-x root/root 15120 2011-07-08 13:40 ./usr/bin/fastq_masker
--rwxr-xr-x root/root 2764 2011-07-08 13:40 ./usr/bin/fasta_clipping_histogram.pl
--rwxr-xr-x root/root 27960 2011-07-08 13:40 ./usr/bin/fastx_uncollapser
--rwxr-xr-x root/root 15048 2011-07-08 13:40 ./usr/bin/fastx_reverse_complement
--rwxr-xr-x root/root 15056 2011-07-08 13:40 ./usr/bin/fastq_to_fasta
--rwxr-xr-x root/root 5380 2011-07-08 13:40 ./usr/bin/fastq_quality_boxplot_graph.sh
--rwxr-xr-x root/root 5896 2011-07-08 13:40 ./usr/bin/fastx_nucleotide_distribution_graph.sh
--rwxr-xr-x root/root 15344 2011-07-08 13:40 ./usr/bin/fastq_quality_filter
--rwxr-xr-x root/root 14032 2011-07-08 13:40 ./usr/bin/fastq_quality_converter
--rwxr-xr-x root/root 15664 2011-07-08 13:40 ./usr/bin/fastx_trimmer
--rwxr-xr-x root/root 6069 2011-07-08 13:40 ./usr/bin/fastx_nucleotide_distribution_line_graph.sh
--rwxr-xr-x root/root 15040 2011-07-08 13:40 ./usr/bin/fastx_artifacts_filter
--rwxr-xr-x root/root 52592 2011-07-08 13:40 ./usr/bin/fastx_clipper
--rwxr-xr-x root/root 27816 2011-07-08 13:40 ./usr/bin/fastx_collapser
--rwxr-xr-x root/root 15888 2011-07-08 13:40 ./usr/bin/fasta_formatter
--rwxr-xr-x root/root 15040 2011-07-08 13:40 ./usr/bin/fasta_nucleotide_changer
--rwxr-xr-x root/root 15056 2011-07-08 13:40 ./usr/bin/fastx_renamer
--rwxr-xr-x root/root 19224 2011-07-08 13:40 ./usr/bin/fastx_quality_stats
--rwxr-xr-x root/root 13925 2011-07-08 13:40 ./usr/bin/fastx_barcode_splitter.pl
-drwxr-xr-x root/root 0 2011-07-08 13:40 ./usr/share/
-drwxr-xr-x root/root 0 2011-07-08 13:40 ./usr/share/doc/
-drwxr-xr-x root/root 0 2011-07-08 13:40 ./usr/share/doc/fastx-toolkit/
--rw-r--r-- root/root 425 2010-01-30 07:32 ./usr/share/doc/fastx-toolkit/changelog.gz
--rw-r--r-- root/root 425 2010-01-30 07:32 ./usr/share/doc/fastx-toolkit/NEWS.gz
--rw-r--r-- root/root 3728 2009-01-20 16:06 ./usr/share/doc/fastx-toolkit/README.gz
--rw-r--r-- root/root 121 2008-12-27 03:51 ./usr/share/doc/fastx-toolkit/AUTHORS
--rw-r--r-- root/root 372 2010-01-30 07:32 ./usr/share/doc/fastx-toolkit/THANKS
--rw-r--r-- root/root 37672 2011-07-08 12:55 ./usr/share/doc/fastx-toolkit/copyright
--rw-r--r-- root/root 306 2011-07-08 13:11 ./usr/share/doc/fastx-toolkit/changelog.Debian.gz
+drwxr-xr-x root/root 0 2012-05-15 21:07 ./
+drwxr-xr-x root/root 0 2012-05-15 21:07 ./usr/
+drwxr-xr-x root/root 0 2012-05-15 21:07 ./usr/bin/
+-rwxr-xr-x root/root 18680 2012-05-15 21:07 ./usr/bin/fastq_quality_trimmer
+-rwxr-xr-x root/root 18672 2012-05-15 21:07 ./usr/bin/fastq_masker
+-rwxr-xr-x root/root 2764 2012-05-15 21:07 ./usr/bin/fasta_clipping_histogram.pl
+-rwxr-xr-x root/root 27312 2012-05-15 21:07 ./usr/bin/fastx_uncollapser
+-rwxr-xr-x root/root 18672 2012-05-15 21:07 ./usr/bin/fastx_reverse_complement
+-rwxr-xr-x root/root 18680 2012-05-15 21:07 ./usr/bin/fastq_to_fasta
+-rwxr-xr-x root/root 5380 2012-05-15 21:07 ./usr/bin/fastq_quality_boxplot_graph.sh
+-rwxr-xr-x root/root 5896 2012-05-15 21:07 ./usr/bin/fastx_nucleotide_distribution_graph.sh
+-rwxr-xr-x root/root 18672 2012-05-15 21:07 ./usr/bin/fastq_quality_filter
+-rwxr-xr-x root/root 14576 2012-05-15 21:07 ./usr/bin/fastq_quality_converter
+-rwxr-xr-x root/root 18680 2012-05-15 21:07 ./usr/bin/fastx_trimmer
+-rwxr-xr-x root/root 6069 2012-05-15 21:07 ./usr/bin/fastx_nucleotide_distribution_line_graph.sh
+-rwxr-xr-x root/root 18664 2012-05-15 21:07 ./usr/bin/fastx_artifacts_filter
+-rwxr-xr-x root/root 51952 2012-05-15 21:07 ./usr/bin/fastx_clipper
+-rwxr-xr-x root/root 27192 2012-05-15 21:07 ./usr/bin/fastx_collapser
+-rwxr-xr-x root/root 18832 2012-05-15 21:07 ./usr/bin/fasta_formatter
+-rwxr-xr-x root/root 18664 2012-05-15 21:07 ./usr/bin/fasta_nucleotide_changer
+-rwxr-xr-x root/root 18680 2012-05-15 21:07 ./usr/bin/fastx_renamer
+-rwxr-xr-x root/root 22848 2012-05-15 21:07 ./usr/bin/fastx_quality_stats
+-rwxr-xr-x root/root 13925 2012-05-15 21:07 ./usr/bin/fastx_barcode_splitter.pl
+drwxr-xr-x root/root 0 2012-05-15 21:07 ./usr/share/
+drwxr-xr-x root/root 0 2012-05-15 21:07 ./usr/share/man/
+drwxr-xr-x root/root 0 2012-05-15 21:07 ./usr/share/man/man1/
+-rw-r--r-- root/root 904 2012-05-15 21:07 ./usr/share/man/man1/fastx_clipper.1.gz
+-rw-r--r-- root/root 557 2012-05-15 21:07 ./usr/share/man/man1/fastx_renamer.1.gz
+-rw-r--r-- root/root 661 2012-05-15 21:07 ./usr/share/man/man1/fastq_to_fasta.1.gz
+-rw-r--r-- root/root 638 2012-05-15 21:07 ./usr/share/man/man1/fastx_trimmer.1.gz
+-rw-r--r-- root/root 589 2012-05-15 21:07 ./usr/share/man/man1/fastx_uncollapser.1.gz
+-rw-r--r-- root/root 645 2012-05-15 21:07 ./usr/share/man/man1/fasta_nucleotide_changer.1.gz
+-rw-r--r-- root/root 468 2012-05-15 21:07 ./usr/share/man/man1/fasta_clipping_histogram.pl.1.gz
+-rw-r--r-- root/root 599 2012-05-15 21:07 ./usr/share/man/man1/fastx_artifacts_filter.1.gz
+-rw-r--r-- root/root 688 2012-05-15 21:07 ./usr/share/man/man1/fastq_masker.1.gz
+-rw-r--r-- root/root 590 2012-05-15 21:07 ./usr/share/man/man1/fastx_nucleotide_distribution_line_graph.sh.1.gz
+-rw-r--r-- root/root 929 2012-05-15 21:07 ./usr/share/man/man1/fastx_quality_stats.1.gz
+-rw-r--r-- root/root 583 2012-05-15 21:07 ./usr/share/man/man1/fastx_nucleotide_distribution_graph.sh.1.gz
+-rw-r--r-- root/root 2196 2012-05-15 21:07 ./usr/share/man/man1/fastx_barcode_splitter.pl.1.gz
+-rw-r--r-- root/root 558 2012-05-15 21:07 ./usr/share/man/man1/fastq_quality_converter.1.gz
+-rw-r--r-- root/root 922 2012-05-15 21:07 ./usr/share/man/man1/fasta_formatter.1.gz
+-rw-r--r-- root/root 613 2012-05-15 21:07 ./usr/share/man/man1/fastq_quality_boxplot_graph.sh.1.gz
+-rw-r--r-- root/root 728 2012-05-15 21:07 ./usr/share/man/man1/fastq_quality_trimmer.1.gz
+-rw-r--r-- root/root 518 2012-05-15 21:07 ./usr/share/man/man1/fastx_reverse_complement.1.gz
+-rw-r--r-- root/root 505 2012-05-15 21:07 ./usr/share/man/man1/fastx_collapser.1.gz
+-rw-r--r-- root/root 659 2012-05-15 21:07 ./usr/share/man/man1/fastq_quality_filter.1.gz
+drwxr-xr-x root/root 0 2012-05-15 21:07 ./usr/share/doc/
+drwxr-xr-x root/root 0 2012-05-15 21:07 ./usr/share/doc/fastx-toolkit/
+-rw-r--r-- root/root 425 2012-04-13 05:02 ./usr/share/doc/fastx-toolkit/changelog.gz
+-rw-r--r-- root/root 3728 2012-04-13 05:02 ./usr/share/doc/fastx-toolkit/README.gz
+-rw-r--r-- root/root 372 2012-04-13 05:02 ./usr/share/doc/fastx-toolkit/THANKS
+-rw-r--r-- root/root 37701 2012-05-15 12:43 ./usr/share/doc/fastx-toolkit/copyright
+-rw-r--r-- root/root 802 2012-05-15 21:02 ./usr/share/doc/fastx-toolkit/changelog.Debian.gz
+-rw-r--r-- root/root 482 2012-05-15 12:39 ./usr/share/doc/fastx-toolkit/README.Debian
+lrwxrwxrwx root/root 0 2012-05-15 21:07 ./usr/share/doc/fastx-toolkit/NEWS.gz -> changelog.gz
┌──────────────────────────────────────────────────────────────────────────────┐
@@ -1028,122 +1416,41 @@ drwxr-xr-x root/root 0 2011-07-08 13:40 ./usr/share/doc/fastx-toolkit/
lintian
───────
-
-bunzip2: I/O or other error, bailing out. Possible reason follows.
-bunzip2: Broken pipe
- Input file = (stdin), output file = (stdout)
-dpkg-source: error: bunzip2 gave error exit status 1
-internal error: dpkg-source -x failed with status
-internal error: 29
-warning: collect info unpacked about package fastx-toolkit failed
-warning: skipping check of source package fastx-toolkit
I: fastx-toolkit: spelling-error-in-binary usr/bin/fastq_masker paramter parameter
W: fastx-toolkit: script-with-language-extension usr/bin/fasta_clipping_histogram.pl
W: fastx-toolkit: script-with-language-extension usr/bin/fastq_quality_boxplot_graph.sh
W: fastx-toolkit: script-with-language-extension usr/bin/fastx_barcode_splitter.pl
W: fastx-toolkit: script-with-language-extension usr/bin/fastx_nucleotide_distribution_graph.sh
W: fastx-toolkit: script-with-language-extension usr/bin/fastx_nucleotide_distribution_line_graph.sh
-W: fastx-toolkit: binary-without-manpage usr/bin/fasta_clipping_histogram.pl
-W: fastx-toolkit: binary-without-manpage usr/bin/fasta_formatter
-W: fastx-toolkit: binary-without-manpage usr/bin/fasta_nucleotide_changer
-W: fastx-toolkit: binary-without-manpage usr/bin/fastq_masker
-W: fastx-toolkit: binary-without-manpage usr/bin/fastq_quality_boxplot_graph.sh
-W: fastx-toolkit: binary-without-manpage usr/bin/fastq_quality_converter
-W: fastx-toolkit: binary-without-manpage usr/bin/fastq_quality_filter
-W: fastx-toolkit: binary-without-manpage usr/bin/fastq_quality_trimmer
-W: fastx-toolkit: binary-without-manpage usr/bin/fastq_to_fasta
-W: fastx-toolkit: binary-without-manpage usr/bin/fastx_artifacts_filter
-W: fastx-toolkit: binary-without-manpage usr/bin/fastx_barcode_splitter.pl
-W: fastx-toolkit: binary-without-manpage usr/bin/fastx_clipper
-W: fastx-toolkit: binary-without-manpage usr/bin/fastx_collapser
-W: fastx-toolkit: binary-without-manpage usr/bin/fastx_nucleotide_distribution_graph.sh
-W: fastx-toolkit: binary-without-manpage usr/bin/fastx_nucleotide_distribution_line_graph.sh
-W: fastx-toolkit: binary-without-manpage usr/bin/fastx_quality_stats
-W: fastx-toolkit: binary-without-manpage usr/bin/fastx_renamer
-W: fastx-toolkit: binary-without-manpage usr/bin/fastx_reverse_complement
-W: fastx-toolkit: binary-without-manpage usr/bin/fastx_trimmer
-W: fastx-toolkit: binary-without-manpage usr/bin/fastx_uncollapser
+W: fastx-toolkit: manpage-has-errors-from-man usr/share/man/man1/fastx_barcode_splitter.pl.1.gz 59: warning [p 1, 11.0i]: cannot adjust line
+I: fastx-toolkit: hyphen-used-as-minus-sign usr/share/man/man1/fastx_barcode_splitter.pl.1.gz:59
-E: Lintian run failed (runtime error)
+I: Lintian run was successful.
┌──────────────────────────────────────────────────────────────────────────────┐
│ Cleanup │
└──────────────────────────────────────────────────────────────────────────────┘
Purging /«BUILDDIR»
-Reading package lists...
-Building dependency tree...
-Reading state information...
-The following packages were automatically installed and are no longer required:
- libncursesw5 dialog
-Use 'apt-get autoremove' to remove them.
-0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
-Reading package lists...
-Building dependency tree...
-Reading state information...
-The following packages were automatically installed and are no longer required:
- gettext-base libncursesw5 dialog
-Use 'apt-get autoremove' to remove them.
-The following packages will be REMOVED:
- autotools-dev* cdbs* debhelper* file* gettext* groff-base* html2text*
- intltool-debian* libcroco3* libglib2.0-0* libgtextutils-dev* libgtextutils0*
- libmagic1* libpcre3* libpipeline1* libpopt0* libunistring0* libxml2* man-db*
- pkg-config* po-debconf* sbuild-build-depends-fastx-toolkit-dummy*
-0 upgraded, 0 newly installed, 22 to remove and 0 not upgraded.
-After this operation, 26.7 MB disk space will be freed.
-(Reading database ... 12554 files and directories currently installed.)
-Removing sbuild-build-depends-fastx-toolkit-dummy ...
-Removing autotools-dev ...
-Removing cdbs ...
-Removing debhelper ...
-Removing file ...
-Removing po-debconf ...
-Removing intltool-debian ...
-Removing gettext ...
-Removing man-db ...
-Purging configuration files for man-db ...
-Removing groff-base ...
-Purging configuration files for groff-base ...
-Removing html2text ...
-Purging configuration files for html2text ...
-Removing libcroco3 ...
-Purging configuration files for libcroco3 ...
-Removing pkg-config ...
-Removing libglib2.0-0 ...
-Purging configuration files for libglib2.0-0 ...
-Removing libgtextutils-dev ...
-Removing libgtextutils0 ...
-Purging configuration files for libgtextutils0 ...
-Removing libmagic1 ...
-Purging configuration files for libmagic1 ...
-Removing libpcre3 ...
-Purging configuration files for libpcre3 ...
-Removing libpipeline1 ...
-Purging configuration files for libpipeline1 ...
-Removing libpopt0 ...
-Purging configuration files for libpopt0 ...
-Removing libunistring0 ...
-Purging configuration files for libunistring0 ...
-Removing libxml2 ...
-Purging configuration files for libxml2 ...
+Not cleaning session: cloned chroot in use
┌──────────────────────────────────────────────────────────────────────────────┐
│ Summary │
└──────────────────────────────────────────────────────────────────────────────┘
Architecture: amd64
-Build-Space: 11392
-Build-Time: 16
+Build-Space: 11400
+Build-Time: 17
Distribution: unstable
-Install-Time: 33
-Job: fastx-toolkit_0.0.13.1-1.dsc
-Lintian: error
+Install-Time: 9
+Job: fastx-toolkit_0.0.13.2-1.dsc
+Lintian: pass
Package: fastx-toolkit
-Package-Time: 52
-Source-Version: 0.0.13.1-1
-Space: 11392
+Package-Time: 29
+Source-Version: 0.0.13.2-1
+Space: 11400
Status: successful
-Version: 0.0.13.1-1
+Version: 0.0.13.2-1
────────────────────────────────────────────────────────────────────────────────
-Finished at 20110708-1340
-Build needed 00:00:52, 11392k disc space
+Finished at 20120515-2107
+Build needed 00:00:29, 11400k disc space
diff --git a/dsc b/dsc
index 317b93d..2f058bc 100644
--- a/dsc
+++ b/dsc
@@ -1,11 +1,11 @@
-----BEGIN PGP SIGNED MESSAGE-----
-Hash: SHA1
+Hash: SHA256
Format: 3.0 (quilt)
Source: fastx-toolkit
Binary: fastx-toolkit
Architecture: any
-Version: 0.0.13.1-2
+Version: 0.0.13.2-1
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
Uploaders: Charles Plessy <plessy at debian.org>, Andreas Tille <tille at debian.org>
Dm-Upload-Allowed: yes
@@ -17,19 +17,29 @@ Build-Depends: debhelper (>= 9), autotools-dev, pkg-config, libgtextutils-dev, h
Package-List:
fastx-toolkit deb science optional
Checksums-Sha1:
- 5e6a4c0c019424e1513487736a3cd0a59f9e3fad 1153417 fastx-toolkit_0.0.13.1.orig.tar.bz2
- ec5c63be31a58fe992a9debccf0ed74053ed70c7 16762 fastx-toolkit_0.0.13.1-2.debian.tar.gz
+ 51fd9ddc1fc1ffea29d7cabc02e46dd8a1b860ec 545387 fastx-toolkit_0.0.13.2.orig.tar.bz2
+ 28269c0138ca47fcbfcc307524f96a957b5a075d 16854 fastx-toolkit_0.0.13.2-1.debian.tar.gz
Checksums-Sha256:
- 7e1dddd6d56bf148e82d0ef7d5efae7ce62d3419ecb5077f9199a527a5366c90 1153417 fastx-toolkit_0.0.13.1.orig.tar.bz2
- 7b8183e28afdcb591285268368c397720d8697132613a440b07e9a9c3999ea2c 16762 fastx-toolkit_0.0.13.1-2.debian.tar.gz
+ df154f785c35d1f8b6f3568ea80c52f742ec03f75564adfe8e1bb0f8de8b1aed 545387 fastx-toolkit_0.0.13.2.orig.tar.bz2
+ 56819e0573909407b67720c31af53f4bb4242728b40a895d4a7bf69900441735 16854 fastx-toolkit_0.0.13.2-1.debian.tar.gz
Files:
- 3b0acec3aef0241d46f4c709d5714f09 1153417 fastx-toolkit_0.0.13.1.orig.tar.bz2
- 89d94bd7be8bd6bfdcada098ac0f6c10 16762 fastx-toolkit_0.0.13.1-2.debian.tar.gz
+ 1d1238cb3029cb1c5d1a3eea7d7d2ca8 545387 fastx-toolkit_0.0.13.2.orig.tar.bz2
+ 4b374b3244db3ca6f4886bfd6fd680f8 16854 fastx-toolkit_0.0.13.2-1.debian.tar.gz
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diff --git a/upload b/upload
new file mode 100644
index 0000000..5c5e943
--- /dev/null
+++ b/upload
@@ -0,0 +1,6 @@
+u fastx-toolkit_0.0.13.2-1_amd64.deb ftp.upload.debian.org Tue May 15 21:11:59 2012
+u fastx-toolkit_0.0.13.2-1.debian.tar.gz ftp.upload.debian.org Tue May 15 21:12:00 2012
+u fastx-toolkit_0.0.13.2.orig.tar.bz2 ftp.upload.debian.org Tue May 15 21:12:03 2012
+u fastx-toolkit_0.0.13.2-1.dsc ftp.upload.debian.org Tue May 15 21:12:04 2012
+u fastx-toolkit_0.0.13.2-1_amd64.changes ftp.upload.debian.org Tue May 15 21:12:05 2012
+s fastx-toolkit_0.0.13.2-1_amd64.changes ftp.upload.debian.org Tue May 15 21:12:05 2012
--
FASTQ/A short-reads pre-processing tools
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