[med-svn] r22819 - in trunk/packages/arb/tags: . 6.0.3-2/debian 6.0.3-2/debian/patches

Sascha Steinbiss satta at moszumanska.debian.org
Sat Sep 17 14:44:38 UTC 2016


Author: satta
Date: 2016-09-17 14:44:37 +0000 (Sat, 17 Sep 2016)
New Revision: 22819

Added:
   trunk/packages/arb/tags/6.0.3-2/
   trunk/packages/arb/tags/6.0.3-2/debian/changelog
   trunk/packages/arb/tags/6.0.3-2/debian/control
   trunk/packages/arb/tags/6.0.3-2/debian/patches/90_gcc6.patch
   trunk/packages/arb/tags/6.0.3-2/debian/patches/series
   trunk/packages/arb/tags/6.0.3-2/debian/rules
Removed:
   trunk/packages/arb/tags/6.0.3-2/debian/changelog
   trunk/packages/arb/tags/6.0.3-2/debian/control
   trunk/packages/arb/tags/6.0.3-2/debian/patches/series
   trunk/packages/arb/tags/6.0.3-2/debian/rules
Log:
[svn-buildpackage] Tagging arb 6.0.3-2

Deleted: trunk/packages/arb/tags/6.0.3-2/debian/changelog
===================================================================
--- trunk/packages/arb/trunk/debian/changelog	2016-09-16 20:20:41 UTC (rev 22809)
+++ trunk/packages/arb/tags/6.0.3-2/debian/changelog	2016-09-17 14:44:37 UTC (rev 22819)
@@ -1,667 +0,0 @@
-arb (6.0.3-1) unstable; urgency=medium
-
-  * New upstream version
-  * Applied all l10n patches - thanks a lot for the great l10n team
-    for pushing this
-  * Debconf templates and debian/control reviewed by the debian-l10n-
-    english team as part of the Smith review project. Closes: #761942
-  * [Debconf translation updates]
-  * Danish (Joe Hansen).  Closes: #764869
-  * Dutch; (Frans Spiesschaert).  Closes: #765088
-  * Russian (Yuri Kozlov).  Closes: #765096
-  * Portuguese (Américo Monteiro).  Closes: #761503
-  * Danish (Joe Hansen).  Closes: #765865
-  * Czech (Michal Simunek).  Closes: #766600
-  * Italian (Daniele Forsi).  Closes: #766684
-  * German (Chris Leick).  Closes: #766689
-  * French (Steve Petruzzello).  Closes: #766728
-  * Catalan; (Innocent De Marchi).  Closes: #766855
-  * Japanese (Hideki Yamane (Debian-JP)).  Closes: #767247
-  * extra linker flag proposed by Tim Booth
-  * Lintian override to avoid false positives
-  * cme fix dpkg-control
-  * spelling+lintian fixes in d/copyright
-
- -- Andreas Tille <tille at debian.org>  Thu, 10 Dec 2015 12:26:14 +0100
-
-arb (6.0.2-2) unstable; urgency=medium
-
-  [ Elmar Pruesse ]
-   * Add Portugese debconf translation (thanks to Américo Monteiro 
-     <a_monteiro at gmx.com> for the patch)
-     Closes: #761503
-   * Add Russian debconf translation (thanks to Yuri Kozlov 
-     <yuray at komyakino.ru> for the patch)
-     Closes: #761616
-   * debian/arb_CHANGELOG.txt -> debian/changelog (fix lintian complaint)
-
-  [ Andreas Tille ]
-  * Skip compiler version check at all
-    Closes: #793187
-
- -- Andreas Tille <tille at debian.org>  Wed, 22 Jul 2015 22:49:16 +0200
-
-arb (6.0.2-1) unstable; urgency=medium
-
-  [ Andreas Tille ]
-  * New upstream version
-    Closes: #741890
-  * debian/upstream -> debian/upstream/metadata
-  * debian/control:
-     - Build-Depends: added libglib2.0-dev
-     - Depends: added mafft, mrbayes
-  * debian/rules
-     - Add explicite --remove-section=.comment option to manual strip call
-  * cme fix dpkg-control
-  * arb-common.dirs: Do not create unneeded lintian dir
-  * Add turkish debconf translation (thanks for the patch to Mert Dirik
-    <mertdirik at gmail.com>)
-    Closes: #757497
-
-  [ Elmar Pruesse ]
-  * patches removed:
-     - 10_config.makefiles.patch,
-       80_no_GL.patch
-         removed in favor of creating file from config.makefile.template via 
-         sed in debian/control
-     - 20_Makefile_main.patch
-         merged upstream
-     - 21_Makefiles.patch
-         no longer needed
-     - 30_tmpfile_CVE-2008-5378.patch: 
-         merged upstream
-     - 50_fix_gcc-4.8.patch:
-         merged upstream
-     - 40_add_libGLU.patch:
-         libGLU not needed for arb_ntree)
-     - 60_use_debian_packaged_raxml.patch:
-         merged upstream
-     - 70_hardening.patch
-         merged upstream
-     - 72_add_math_lib_to_linker.patch
-         does not appear to be needed
-  * patches added:
-     - 10_upstream_r12793__show_db_load_progress:
-         backported patch showing progress while ARB is loading a database
-         (needed as indicator/splash screen while ARB is launching)
-     - 20_upstream_r12794__socket_permissions:
-         backported security fix
-     - 30_upstream_r12814__desktop_keywords:
-         backported add keywords to desktop (fixes lintian warning)
-     - 40_upstream_r12815__lintian_spelling:
-         backported fix for lintian reported spelling errors
-     - 50_private_nameservers
-         change configuration to put nameservers into users home dirs
-         (avoids need for shared writeable directory)
-     - 60_use_debian_phyml
-         use phyml from debian package for both interfaces in ARB
-  * debian/rules:
-     - create config.makefile from override_dh_configure target
-     - use "make tarfile" in override_dh_install
-     - remove extra cleaning not needed for ARB 6
-     - use "dh_install --list-missing" to avoid missing files
-     - added override_dh_fixperms target
-  * debian/control:
-     - added libarb-dev package
-     - Depends: added phyml, xdg-utils
-     - Suggests: removed phyml
-     - fix lintian duplicate-short-description (new descriptions)
-  * debian/*.install:
-     - "unrolled" confusing globbing to select files
-     - pick files from debian/tmp
-     - moved all config files to /etc/arb
-  * debian/arb-common.templates: updated
-  * scripts:
-     - removed arb-add-pt-server
-     - launch-wrapper: 
-       - only add demo.arb to newly created $ARBUSERDATA
-       - pass commandline arguments through bin/arb wrapper
-     - preinst: removing old PT server index files on upgrade from 5.5*
-     - postinst: set setgid on shared PT dir
-  * rewrote arb.1 manfile
-  * added file icon for ARB databases
-  * using upstream arb_tcp.dat
-
- -- Elmar Pruesse <elmar at pruesse.net>  Tue, 02 Sep 2014 15:15:06 +0200
-
-arb (5.5-5) unstable; urgency=low
-
-  * build-depend on libtiff-dev instead of libtiff4-dev (thanks for the
-    patch to Logan Rosen <logan at ubuntu.com>)
-    Closes: #729769
-  * cme fix dpkg-control
-  * cme fix dpkg-copyright
-  * canonical Vcs fields
-  * debian/patches/hardening.patch: Propagate hardening options
-
- -- Andreas Tille <tille at debian.org>  Wed, 04 Dec 2013 09:24:14 +0100
-
-arb (5.5-4) unstable; urgency=low
-
-  * Build-Depends: libglew-dev instead of libglew1.5-dev
-    Closes: #714327
-
- -- Andreas Tille <tille at debian.org>  Fri, 28 Jun 2013 09:42:35 +0200
-
-arb (5.5-3) unstable; urgency=low
-
-  * debian/control:
-     - Restrict arb to architectures
-         amd64 i386 kfreebsd-i386 kfreebsd-amd64
-       because only there raxml is fullfilled.  This makes sense because
-       arb will most probably used only on these architectures anyway.
-       Closes: #714268
-     - Remove Dependency from openjdk which is not needed any more
-       according to upstream
-  * debian/arb-common.README.debian: Explain restriction to certain
-    architectures
-  * debian/arb.README.debian: Updated about architecture restriction
-    and other things
-
- -- Andreas Tille <tille at debian.org>  Thu, 27 Jun 2013 14:52:57 +0200
-
-arb (5.5-2) unstable; urgency=low
-
-  [ Tim Booth ]
-  * debian/rules: Make sure arb_edit4 will be really built and abort package
-    building process if not
-
-  [ Andreas Tille ]
-  * Rebuild against libmotiv-dev in main
-    Closes: #713061
-  * Add 4.6.3, 4.7.3 and 4.8.[0-3] to ALLOWED_GCC_VERSIONS
-    Closes: #713219
-  * debian/control:
-     - remove DM-Upload-Allowed
-     - Build-Depends: libglu1-mesa-dev
-     - add raxml to Depends and do not build third party copy any more
-       (debian/patches/60_use_debian_packaged_raxml.patch)
-  * debian/patches/*: DEP3 comments
-  * debian/patches/50_build_naligner.patch: Fix build issue that was
-    caused by some brocken $(CFLAGS)
-  * debian/rules: use xz compression
-
- -- Andreas Tille <tille at debian.org>  Mon, 24 Jun 2013 09:42:03 +0200
-
-arb (5.5-1) unstable; urgency=low
-
-  * New upstream version (+adapted patches)
-  * Standards-Version: 3.9.4 (no changes needed)
-  * debian/po: Add Slovak po-debconf translation (Thanks to
-    Slavko <slavko at slavino.sk> for the translation)
-    Closes: #686275
-  * debian/rules: Add '-lm' as suggested in patch by Konstantinos Margaritis
-    <konstantinos.margaritis at freevec.org> to fix the build problem on armhf.
-    This together with new upstream closes: #692499
-
- -- Andreas Tille <tille at debian.org>  Tue, 11 Dec 2012 09:59:08 +0100
-
-arb (5.3-4) unstable; urgency=low
-
-  * debian/upstream: Add citations
-  * debian/control:
-     - Build-Depends: libpng-dev instead of libpng12-dev
-       Closes: #662270
-     - Standards-Version: 3.9.3 (no changes needed)
-  * debian/po/nl.po: Add Dutch translation of debconf templates
-    Thanks for the translation to Jeroen Schot <schot at A-Eskwadraat.nl>
-    Closes: #654763
-  * debian/patches/30_Makefile_main:
-     - Enable gcc-4.7 as well
-       Closes: #682404
-     - Enable using hardening flags
-  * debian/patches/gcc-4.7.patch: Fix gcc-4.7 build issue
-  * debhelper 9 (control+compat)
-  * debian/rules:
-     - Fixed clean target
-     - propagate hardening flags
-
- -- Andreas Tille <tille at debian.org>  Thu, 26 Jul 2012 12:15:21 +0200
-
-arb (5.3-3) unstable; urgency=low
-
-  * debian/control:
-     - Build-Depends: time 
-       Strangely enough this is not needed in local pbnuilder/sbuild
-       environments but on autobuilders this seems to be a problem
-       according to comparing the build logs
-     - Build-Depends: libbio-perl-perl
-       Otherwise some not-critical checks will fail
-  * debian/arb.prerm: Care for removal of conffile link created in postinst
-    Closes: #656035
-  * debian/rules:
-     - clean up some manual handling of files and dirs which is not
-       needed any more with recent versions
-     - insert check which verifies that binary-indep target is really
-       builded and changed files and dirs are previousely created
-       Closes: #658691
-
- -- Andreas Tille <tille at debian.org>  Thu, 09 Feb 2012 13:44:22 +0100
-
-arb (5.3-2) unstable; urgency=low
-
-  * debian/arb.README.Debian: Dropped molphy related notice
-  * debian/control:
-    - Remove Build-Depends: x11proto-print-dev
-    - Remove at least explicite Build-Depends: libxp-dev
-      Closes: #623638
-  * debian/{control,rules}: Remove quilt which is unneeded when
-    using source format 3.0 (quilt)
-  * debian/po/ca.po: Catalan translation (thanks to Innocent De Marchi
-    <tangram.peces at gmail.com>)
-    Closes: #632206
-
- -- Andreas Tille <tille at debian.org>  Thu, 15 Dec 2011 17:00:46 +0100
-
-arb (5.3-1) unstable; urgency=low
-
-  [ Nelson A. de Oliveira ]
-  * Fix FTBFS: replaced sablotron by xsltproc in debian/control
-    (Closes: #634999)
-  * Replaced arb dependency on the ssh metapackage by openssh-client only
-
-  [ Andreas Tille ]
-  * New upstream version (including updateing debian/patches/*)
-    This version doese not depend from molphy any more
-  * debian/control
-    - Do not depend from molphy which is removed from Debian any more
-    - Standards-Version: 3.9.2 (no changes needed)
-    - Fixed Vcs fields
-  * Debhelper 8 (control+compat)
-  * debian/copyright: several DEP5 fixes
-
- -- Andreas Tille <tille at debian.org>  Fri, 11 Nov 2011 11:46:22 +0100
-
-arb (5.2-1) unstable; urgency=low
-
-  * New upstream version
-  * Standards-Version: 3.9.1 (no changes needed)
-  * New debconf translations
-    - Vietnamese (thanks to Clytie Siddall <clytie at riverland.net.au>)
-      Closes: #576020
-    - Danish (thanks to Joe Dalton <joedalton2 at yahoo.dk>)
-      Closes: #584283
-    - Brazilian Portuguese (thanks to Gustavo Jordan
-      <gustavojcbrasil at gmail.com>)
-      Closes: #596647
-  * Drop xview-clients Suggests in debian/control and replace any occurence
-    of textedit (which is part of xview-clients) by editor via
-    debian/patches/no_xview_dependency.patch
-    Closes: 612534
-  * debian/patches/20_Makefiles: clean up some errors in clean target
-  * debian/patches/20_config.makefiles: Really get the DEB_BUILD_ARCH_BITS
-    applied
-  * Build-Depends: time
-
- -- Andreas Tille <tille at debian.org>  Wed, 09 Feb 2011 16:56:15 +0100
-
-arb (5.1-1) unstable; urgency=low
-
-  [ Andreas Tille ]
-  * New upstream version
-    Closes: #522021
-  * debian/control:
-    - Package arb-doc in non-free/doc
-    - Standards-Version: 3.8.4 (Added README.source)
-    - Build-Depends: dpkg-dev (>= 1.15.4) to make use of
-      `dpkg-architecture -qDEB_BUILD_ARCH_BITS` in Makefile
-    - Build-Depends: xutils-dev
-    - arb Recommends: bioperl
-    - arb Suggests: phyml
-    - Build-Depends: openjdk-6-jdk instead of kaffe which might be subject
-      of removal from Debian in the near future
-  * Removed / changed patches which were applied upstream
-    - debian/patches/ARB_release200712_gcc4.3.1.patch removed
-    - debian/patches/20_replace_rxp_by_xmllint.patch removed
-    - debian/patches/tmpfile_CVE-2008-5378.patch removed applied part
-  * debian/{rules,*.install}: Cleanup regarding changes in new upstream version
-  * debian/arb.README.debian:
-    - Removed useless warning about prereleases
-    - Added hint about different phyml versions
-  * debian/patches/10_gcc_4.4.3.patch: compile with gcc-4.4.3
-  * debian/rules: Add ARBHOME variable explicitly to clean target
-  * Added Finish debconf translation (Thanks to Esko Arajärvi <edu at iki.fi>)
-    Closes: #536516
-  * Added Galician debconf translation (Thanks to marce
-    <mvillarino at gmail.com>)
-    Closes: #537534
-  * Added Japanese debconf translation (Thankse to Hideki Yamane
-    <henrich at debian.or.jp>)
-    Closes: #554882
-  * Added: Spanish debconf translation (Thanks to Francisco Javier Cuadrado
-    <fcocuadrado at gmail.com>)
-    Closes: #573005
-  * Switch to source format 3.0
-
-  [ David Paleino ]
-  * Removed myself from Uploaders
-  * New watch file
-
- -- Andreas Tille <tille at debian.org>  Tue, 23 Mar 2010 14:37:30 +0100
-
-arb (0.0.20071207.1-7) unstable; urgency=low
-
-  * Bumped debhelper to version 7
-     -> dh_clean -k -> dh_clean; dh_prep
-  * Standards-Version: 3.8.1 (no changes needed)
-  * Enhanced package description of arb-common and arb-doc
-    Closes: #517710
-  * Added Portuguese translation for debconf messages (thanks to
-    Traduz <traduz at debianpt.org>)
-    Closes: #516958
-  * Added Depends: ${misc:Depends} to all packages
-
- -- Andreas Tille <tille at debian.org>  Fri, 20 Mar 2009 08:14:21 +0100
-
-arb (0.0.20071207.1-6) unstable; urgency=low
-
-  * Save use of /tmp in arb-kill and addressing the other
-    potential tempfile symlink attacks reported in
-    CVE-2008-5378: possible symlink attacks
-    Closes: #508942
-  * Use xmllint instead of rxp to verify helpfile XML because
-    rxp is outdate, unmaintained and should be removed.
-  * Do not use command-with-path-in-maintainer-script in
-    postinst and config
-  * Added Russian debconf translation (Thanks to Yuri Kozlov)
-    Closes: #511376
-
- -- Andreas Tille <tille at debian.org>  Tue, 10 Feb 2009 23:32:41 +0100
-
-arb (0.0.20071207.1-5) unstable; urgency=low
-
-  * Fix tempfile issues in upstream scripts
-    Closes: #496396
-  * Fix arb name server location in config file (Thanks to
-    Felipe Figueiredo <philsf79 at gmail.com>)
-    Closes: #495650
-  * arb-common.config: Make sure that config file will not fail
-    when NIS is used
-
- -- Andreas Tille <tille at debian.org>  Tue, 23 Sep 2008 13:32:05 +0200
-
-arb (0.0.20071207.1-4) unstable; urgency=low
-
-  * debian/arb-common.postrm: Remove stuff arb leaves behind in
-    /var/lib in case the package is purged
-    Closes: #463010
-  * More precise copyright / license statements in debian/copyright
-  * debian/arb-doc.lintian-overrides: Explain why arb-doc should
-    not be in section doc
-  * Moved debian/*.lintian.overrides to *.lintian-overrides and
-    make use of dh_lintian (includes increasing versioned depends
-    of debhelper to >= 6.0.7)
-  * Strip rpath from ARB.so using chrpath
-  * Better short description which was to generic after [Biology]
-    marker was removed.
-
- -- Andreas Tille <tille at debian.org>  Wed, 23 Jul 2008 08:10:46 +0200
-
-arb (0.0.20071207.1-3) unstable; urgency=low
-
-  [ Charles Plessy ]
-  * Changed the doc-base section according to the new policy.
-
-  [ Andreas Tille ]
-  * Updated dependency from libglew (Build-Depends: libglew-dev ->
-    libglew1.5-dev)
-    Closes: #489330
-  * Standards-Version: 3.8.0 (no changes needed)
-  * debian/patches/30_Makefile_main: Enable gcc-4.3
-  * Applied upstream patches to compile with gcc-4.3 (thanks to
-    Ralf Westram <ralf at arb-home.de>)
-
- -- Andreas Tille <tille at debian.org>  Mon, 07 Jul 2008 09:11:40 +0200
-
-arb (0.0.20071207.1-2) unstable; urgency=low
-
-  * Added XS-Autobuild: yes to enable autobuilding
-  * Slightly enhanced description
-
- -- Andreas Tille <tille at debian.org>  Thu, 06 Mar 2008 23:23:07 +0100
-
-arb (0.0.20071207.1-1) unstable; urgency=low
-
-  [ David Paleino ]
-  * debian/control:
-    - Standards-Version 3.7.3
-    - long lines wrapped
-    - architecture set to "any" for architecture-dependent packages
-    - fixed some typos in long descriptions
-    - removed [Biology] pseudo-tag from short descriptions -- why not
-      using DebTags?
-    - updated Vcs-* fields
-    - added myself to Uploaders
-    - removing XS- from DM-Upload-Allowed
-  * debian/watch added
-  * debian/po/it.po added
-  * debian/rules updated
-
-  [ Andreas Tille ]
-  * New upstream source
-    debian/get-orig-source: Obtain official release.
-    Remark: The originally downloaded source from 2007_12_07 was
-    different from the currently available one.  This is expressed
-    in the additional ".1" in the version number.
-  * Removed warning from long description because this is now an
-    official release
-  * debian/rules:
-    - removed get-orig-source.old target
-    - added missing '-' in clean target
-  * Switched to quilt (dpatch was not able to apply patches
-    from previous version)
-
- -- Andreas Tille <tille at debian.org>  Mon, 25 Feb 2008 09:34:30 +0100
-
-arb (0.0.20071207-1) unstable; urgency=low
-
-  * New upstream version
-    Closes: #446666
-  * Added Build-Depends libglew-dev which is needed for 3D version
-  * Added Build-Depends libxpm4-dev according to the advise of
-    Charles Plessy <charles-debian-nospam at plessy.org> in bug #364908
-  * Added x11proto-print-dev, libxpm-dev, libxp-dev,
-    libgl1-mesa-swx11-dev (> 6.5.1-0.4)
-    to build dependencies
-  * Added to Build-Depends: libtiff4-dev, libxaw7-dev
-  * Standards-Version: 3.7.2 (no changes necessary)
-  * debhelper 5
-  * use dpatch
-  * Added license of new component RAxML to debian/copyright
-  * Substituded ${Source-Version} by ${source:Version} resp.
-    ${binary:Version}
-  * debian/arb.menu: Applications/Science/Biology
-  * move files from lib/* directly to /usr/lib/arb/lib instead of
-    /usr/share/arb/lib  and a bunch of symlinks
-  * Set maintainer to Maintainer: Debian-Med Packaging Team
-    <debian-med-packaging at lists.alioth.debian.org>
-  * Added Portugese debconf translations (thanks to Miguel Figueiredo
-    <elmig at debianpt.org>
-    Closes: #341558
-  * Updated Czech debconf translations (thanks to Jakub Kasparec
-    <mr.k at centrum.cz>)
-    Closes: #356713, #392683
-  * Do not build molphy and symlink to molphy executables instead
-  * New configuration file format for arb_tcp.dat
-  * Added Vcs-Browser, Vcs-Svn
-  * Moved Homepage from long description to tags field
-
- -- Andreas Tille <tille at debian.org>  Mon, 05 Nov 2007 18:17:32 +0100
-
-arb (0.0.20050526-7) unstable; urgency=low
-
-  * arb-common recommends arb
-  * Added Build-Depends: g++
-  * Because there is no sign that this version shows the behaviour
-    reported in #325640 against the former version and the bug reporter
-    did not respond to any request I decide to close this bug. Feel
-    free to reopen if it seems necessary.
-    Clsoes: #325640
-
- -- Andreas Tille <tille at debian.org>  Mon, 21 Nov 2005 14:09:01 +0100
-
-arb (0.0.20050526-6) unstable; urgency=low
-
-  * Added transfig to depends
-  * Removed "Depends: arb" from arb-common to avoid circular dependencies
-    Closes: #339861
-  * Added gcc 4.0.3 to supported compilers in Makefile
-
- -- Andreas Tille <tille at debian.org>  Wed,  9 Nov 2005 13:17:52 +0100
-
-arb (0.0.20050526-5) unstable; urgency=low
-
-  * Enable writing of large amounts of sequence files.  (Thanks for
-    the patch to Elmar Pruesse <elmar at pruesse.net>)
-    Closes: #333391
-  * Updated Swedish debconf template (Thanks to Daniel Nylander
-    <yeager at lidkoping.net>)
-    Closes: #332788
-  * Updated French debconf template (Thanks to Jean-Luc Coulon
-    <jean-luc.coulon at wanadoo.fr>)
-    Closes: #333108
-
- -- Andreas Tille <tille at debian.org>  Wed, 12 Oct 2005 09:25:15 +0200
-
-arb (0.0.20050526-4) unstable; urgency=low
-
-  * Included names.dat.template in arb-common:/var/lib/nas
-    actually not only the file is missing but the directory of the file
-    is also not found because a link to /var/lib/arb/nas is needed
-    To enable a clean installation of the link the old empty directory
-    has to be removed in a preinst script
-  * Fixed location of arb nameserver in debian/conf/{arb_tcp,arb_ntree}.dat
-    Closes: #332436
-  * Make sure that nameserver directory is accessible by members of group
-    arb in postinst file
-  * Changed debconf template to ask for arb users
-  * Added warning to arb wrapper script if the user who starts arb is not
-    yet member of group arb and thus not allowed to write to /var/lib/arb
-
- -- Andreas Tille <tille at debian.org>  Thu,  6 Oct 2005 21:38:12 +0200
-
-arb (0.0.20050526-3) unstable; urgency=low
-
-  * Added Swedish debconf templates translation (thanks to
-    Daniel Nylander <yeager at lidkoping.net>
-    Closes: #330428
-  * Added ssh to dependencies because it is used in some scripts
-  * Dropped last version number in Standards-Version (now: 3.6.2)
-
- -- Andreas Tille <tille at debian.org>  Wed, 28 Sep 2005 11:18:17 +0200
-
-arb (0.0.20050526-2) unstable; urgency=low
-
-  * Added explicite permission to distribute with Debian to
-    debian/copyright
-  * Fixed debian/rules + WINDOW/Makefile to ensure that libARB can be found
-    in the build process (Many thanks to Petr Salinger <Petr.Salinger at t-systems.cz>)
-  * Reduced number of architectures to the set that features xviewg-dev
-
- -- Andreas Tille <tille at debian.org>  Thu,  8 Sep 2005 14:08:07 +0200
-
-arb (0.0.20050526-1) unstable; urgency=low
-
-  * New upstream version.
-  * Added disclaimer from FTP-download directory to debian/arb.README.Debian
-    and debian/copyright
-  * Added parts of the disclaimer from FTP-download directory to
-    debian/control
-  * Patch for NAMES/names.cxx (Thanks to Petr Salinger <Petr.Salinger at t-systems.cz>)
-
- -- Andreas Tille <tille at debian.org>  Tue, 30 Aug 2005 09:49:01 +0200
-
-arb (0.0.20050506-3) unstable; urgency=low
-
-  * Recommend: xfig
-  * solved debconf | debconf-2.0 issue by ${misc:Depends}
-  * debian/control: Homepage: http://www.arb-home.de/
-  * Renamed debian/po/cz.po to cs.po (Thanks to Denis Barbier <barbier at debian.org>)
-    Closes: #325062
-  * Depends: freeglut3-dev | libglu-dev
-  * Build-Depends: libpng12-dev (Thanks to Petr Salinger <Petr.Salinger at t-systems.cz>)
-  * Some patches that where necessary for building with gcc 4.0.x
-    (Thanks to Petr Salinger <Petr.Salinger at t-systems.cz>)
-  * arb-common: Depends: adduser
-  * arb-common.config: Removed bashism
-
- -- Andreas Tille <tille at debian.org>  Fri, 26 Aug 2005 12:58:01 +0200
-
-arb (0.0.20050506-2) unstable; urgency=low
-
-  * Enable killing all arb processes in arb-kill
-  * Standards-Version: 3.6.2.1
-     * menu items moved (no changes in packaging, just use new debhelper)
-  * Czech debconf translation, thanks to Igor Jasa <Igor.Jasa at seznam.cz>
-    Closes: #318442
-
- -- Andreas Tille <tille at debian.org>  Wed,  1 Jun 2005 13:15:04 +0200
-
-arb (0.0.20050506-1) unstable; urgency=low
-
-  * New upstream version
-  * Adapted get-orig-source target to new directory layout
-  * Added French debconf template
-    Closes: #309222
-
- -- Andreas Tille <tille at debian.org>  Mon, 30 May 2005 15:17:44 +0200
-
-arb (0.0.20050318-1) unstable; urgency=low
-
-  * New upstream snapshot
-  * Added freeglut3-dev and libglew-dev Build-dependency
-  * First official package uploaded to Debian
-    Closes: #282037
-
- -- Andreas Tille <tille at debian.org>  Thu, 10 Mar 2005 11:23:28 +0100
-
-arb (0.0.20041206-1) unstable; urgency=low
-
-  * New upstream snapshot
-  * Reintegrate also arb-nas package because it is the main
-    Arb application according to the author.  It makes no sense
-    to separate it in an extra package.
-
- -- Andreas Tille <tille at debian.org>  Mon, 06 Dec 2004 10:48:01 +0100
-
-arb (0.0.20041112-4) unstable; urgency=low
-
-  * Group arb which has rw-permissions to arb databases
-  * Split configuration file into several pieces and megre them in
-    postinst.  This enables splitting into several independent packages
-    because upstream uses a single config file
-  * Script arb-add-pt-server enables users of group arb to add
-    PT_SERVER entries to configuration files
-  * Manage users of group arb via debconf
-
- -- Andreas Tille <tille at debian.org>  Tue, 23 Nov 2004 12:50:22 +0100
-
-arb (0.0.20041112-3) unstable; urgency=low
-
-  * Dropped package arb-extra and abr-server after discussing with the
-    authors because it does not really make sense to split this from
-    main package.
-  * Enhanced package arb-nas
-  * New package libarb with dynamic libraries
-
- -- Andreas Tille <tille at debian.org>  Fri, 19 Nov 2004 15:56:53 +0100
-
-arb (0.0.20041112-2) unstable; urgency=low
-
-  * Compile with libmotif-dev because liblesstif has trouble with
-    some controls in the search inteface.
-  * Moved some files to the server package.
-  * Exclude arb/lib/BUGS from package because its irrelevant
-  * Move arb/lib/help_html to doc package
-  * Wrote placeholder manpage
-  * Added lintian.overrides
-  * Moved arb_tcp.dat to /etc/arb and set symlink
-
- -- Andreas Tille <tille at debian.org>  Tue, 16 Nov 2004 18:23:59 +0100
-
-arb (0.0.20041112-1) unstable; urgency=low
-
-  * Inoffcial test release.
-
- -- Andreas Tille <tille at debian.org>  Fri, 12 Nov 2004 13:15:16 +0100
-

Copied: trunk/packages/arb/tags/6.0.3-2/debian/changelog (from rev 22815, trunk/packages/arb/trunk/debian/changelog)
===================================================================
--- trunk/packages/arb/tags/6.0.3-2/debian/changelog	                        (rev 0)
+++ trunk/packages/arb/tags/6.0.3-2/debian/changelog	2016-09-17 14:44:37 UTC (rev 22819)
@@ -0,0 +1,680 @@
+arb (6.0.3-2) unstable; urgency=medium
+
+  * Team upload.
+  * Fix building with GCC 6.
+    - Use correct return type in method definition.
+    - Allow for newer __cplusplus versions.
+    Closes: #834170
+  * Use secure Vcs-Browser. 
+  * Do not depend on perl-modules.
+  * Bump Standards-Version.
+
+ -- Sascha Steinbiss <satta at debian.org>  Sat, 17 Sep 2016 10:34:18 +0000
+
+arb (6.0.3-1) unstable; urgency=medium
+
+  * New upstream version
+  * Applied all l10n patches - thanks a lot for the great l10n team
+    for pushing this
+  * Debconf templates and debian/control reviewed by the debian-l10n-
+    english team as part of the Smith review project. Closes: #761942
+  * [Debconf translation updates]
+  * Danish (Joe Hansen).  Closes: #764869
+  * Dutch; (Frans Spiesschaert).  Closes: #765088
+  * Russian (Yuri Kozlov).  Closes: #765096
+  * Portuguese (Américo Monteiro).  Closes: #761503
+  * Danish (Joe Hansen).  Closes: #765865
+  * Czech (Michal Simunek).  Closes: #766600
+  * Italian (Daniele Forsi).  Closes: #766684
+  * German (Chris Leick).  Closes: #766689
+  * French (Steve Petruzzello).  Closes: #766728
+  * Catalan; (Innocent De Marchi).  Closes: #766855
+  * Japanese (Hideki Yamane (Debian-JP)).  Closes: #767247
+  * extra linker flag proposed by Tim Booth
+  * Lintian override to avoid false positives
+  * cme fix dpkg-control
+  * spelling+lintian fixes in d/copyright
+
+ -- Andreas Tille <tille at debian.org>  Thu, 10 Dec 2015 12:26:14 +0100
+
+arb (6.0.2-2) unstable; urgency=medium
+
+  [ Elmar Pruesse ]
+   * Add Portugese debconf translation (thanks to Américo Monteiro 
+     <a_monteiro at gmx.com> for the patch)
+     Closes: #761503
+   * Add Russian debconf translation (thanks to Yuri Kozlov 
+     <yuray at komyakino.ru> for the patch)
+     Closes: #761616
+   * debian/arb_CHANGELOG.txt -> debian/changelog (fix lintian complaint)
+
+  [ Andreas Tille ]
+  * Skip compiler version check at all
+    Closes: #793187
+
+ -- Andreas Tille <tille at debian.org>  Wed, 22 Jul 2015 22:49:16 +0200
+
+arb (6.0.2-1) unstable; urgency=medium
+
+  [ Andreas Tille ]
+  * New upstream version
+    Closes: #741890
+  * debian/upstream -> debian/upstream/metadata
+  * debian/control:
+     - Build-Depends: added libglib2.0-dev
+     - Depends: added mafft, mrbayes
+  * debian/rules
+     - Add explicite --remove-section=.comment option to manual strip call
+  * cme fix dpkg-control
+  * arb-common.dirs: Do not create unneeded lintian dir
+  * Add turkish debconf translation (thanks for the patch to Mert Dirik
+    <mertdirik at gmail.com>)
+    Closes: #757497
+
+  [ Elmar Pruesse ]
+  * patches removed:
+     - 10_config.makefiles.patch,
+       80_no_GL.patch
+         removed in favor of creating file from config.makefile.template via 
+         sed in debian/control
+     - 20_Makefile_main.patch
+         merged upstream
+     - 21_Makefiles.patch
+         no longer needed
+     - 30_tmpfile_CVE-2008-5378.patch: 
+         merged upstream
+     - 50_fix_gcc-4.8.patch:
+         merged upstream
+     - 40_add_libGLU.patch:
+         libGLU not needed for arb_ntree)
+     - 60_use_debian_packaged_raxml.patch:
+         merged upstream
+     - 70_hardening.patch
+         merged upstream
+     - 72_add_math_lib_to_linker.patch
+         does not appear to be needed
+  * patches added:
+     - 10_upstream_r12793__show_db_load_progress:
+         backported patch showing progress while ARB is loading a database
+         (needed as indicator/splash screen while ARB is launching)
+     - 20_upstream_r12794__socket_permissions:
+         backported security fix
+     - 30_upstream_r12814__desktop_keywords:
+         backported add keywords to desktop (fixes lintian warning)
+     - 40_upstream_r12815__lintian_spelling:
+         backported fix for lintian reported spelling errors
+     - 50_private_nameservers
+         change configuration to put nameservers into users home dirs
+         (avoids need for shared writeable directory)
+     - 60_use_debian_phyml
+         use phyml from debian package for both interfaces in ARB
+  * debian/rules:
+     - create config.makefile from override_dh_configure target
+     - use "make tarfile" in override_dh_install
+     - remove extra cleaning not needed for ARB 6
+     - use "dh_install --list-missing" to avoid missing files
+     - added override_dh_fixperms target
+  * debian/control:
+     - added libarb-dev package
+     - Depends: added phyml, xdg-utils
+     - Suggests: removed phyml
+     - fix lintian duplicate-short-description (new descriptions)
+  * debian/*.install:
+     - "unrolled" confusing globbing to select files
+     - pick files from debian/tmp
+     - moved all config files to /etc/arb
+  * debian/arb-common.templates: updated
+  * scripts:
+     - removed arb-add-pt-server
+     - launch-wrapper: 
+       - only add demo.arb to newly created $ARBUSERDATA
+       - pass commandline arguments through bin/arb wrapper
+     - preinst: removing old PT server index files on upgrade from 5.5*
+     - postinst: set setgid on shared PT dir
+  * rewrote arb.1 manfile
+  * added file icon for ARB databases
+  * using upstream arb_tcp.dat
+
+ -- Elmar Pruesse <elmar at pruesse.net>  Tue, 02 Sep 2014 15:15:06 +0200
+
+arb (5.5-5) unstable; urgency=low
+
+  * build-depend on libtiff-dev instead of libtiff4-dev (thanks for the
+    patch to Logan Rosen <logan at ubuntu.com>)
+    Closes: #729769
+  * cme fix dpkg-control
+  * cme fix dpkg-copyright
+  * canonical Vcs fields
+  * debian/patches/hardening.patch: Propagate hardening options
+
+ -- Andreas Tille <tille at debian.org>  Wed, 04 Dec 2013 09:24:14 +0100
+
+arb (5.5-4) unstable; urgency=low
+
+  * Build-Depends: libglew-dev instead of libglew1.5-dev
+    Closes: #714327
+
+ -- Andreas Tille <tille at debian.org>  Fri, 28 Jun 2013 09:42:35 +0200
+
+arb (5.5-3) unstable; urgency=low
+
+  * debian/control:
+     - Restrict arb to architectures
+         amd64 i386 kfreebsd-i386 kfreebsd-amd64
+       because only there raxml is fullfilled.  This makes sense because
+       arb will most probably used only on these architectures anyway.
+       Closes: #714268
+     - Remove Dependency from openjdk which is not needed any more
+       according to upstream
+  * debian/arb-common.README.debian: Explain restriction to certain
+    architectures
+  * debian/arb.README.debian: Updated about architecture restriction
+    and other things
+
+ -- Andreas Tille <tille at debian.org>  Thu, 27 Jun 2013 14:52:57 +0200
+
+arb (5.5-2) unstable; urgency=low
+
+  [ Tim Booth ]
+  * debian/rules: Make sure arb_edit4 will be really built and abort package
+    building process if not
+
+  [ Andreas Tille ]
+  * Rebuild against libmotiv-dev in main
+    Closes: #713061
+  * Add 4.6.3, 4.7.3 and 4.8.[0-3] to ALLOWED_GCC_VERSIONS
+    Closes: #713219
+  * debian/control:
+     - remove DM-Upload-Allowed
+     - Build-Depends: libglu1-mesa-dev
+     - add raxml to Depends and do not build third party copy any more
+       (debian/patches/60_use_debian_packaged_raxml.patch)
+  * debian/patches/*: DEP3 comments
+  * debian/patches/50_build_naligner.patch: Fix build issue that was
+    caused by some brocken $(CFLAGS)
+  * debian/rules: use xz compression
+
+ -- Andreas Tille <tille at debian.org>  Mon, 24 Jun 2013 09:42:03 +0200
+
+arb (5.5-1) unstable; urgency=low
+
+  * New upstream version (+adapted patches)
+  * Standards-Version: 3.9.4 (no changes needed)
+  * debian/po: Add Slovak po-debconf translation (Thanks to
+    Slavko <slavko at slavino.sk> for the translation)
+    Closes: #686275
+  * debian/rules: Add '-lm' as suggested in patch by Konstantinos Margaritis
+    <konstantinos.margaritis at freevec.org> to fix the build problem on armhf.
+    This together with new upstream closes: #692499
+
+ -- Andreas Tille <tille at debian.org>  Tue, 11 Dec 2012 09:59:08 +0100
+
+arb (5.3-4) unstable; urgency=low
+
+  * debian/upstream: Add citations
+  * debian/control:
+     - Build-Depends: libpng-dev instead of libpng12-dev
+       Closes: #662270
+     - Standards-Version: 3.9.3 (no changes needed)
+  * debian/po/nl.po: Add Dutch translation of debconf templates
+    Thanks for the translation to Jeroen Schot <schot at A-Eskwadraat.nl>
+    Closes: #654763
+  * debian/patches/30_Makefile_main:
+     - Enable gcc-4.7 as well
+       Closes: #682404
+     - Enable using hardening flags
+  * debian/patches/gcc-4.7.patch: Fix gcc-4.7 build issue
+  * debhelper 9 (control+compat)
+  * debian/rules:
+     - Fixed clean target
+     - propagate hardening flags
+
+ -- Andreas Tille <tille at debian.org>  Thu, 26 Jul 2012 12:15:21 +0200
+
+arb (5.3-3) unstable; urgency=low
+
+  * debian/control:
+     - Build-Depends: time 
+       Strangely enough this is not needed in local pbnuilder/sbuild
+       environments but on autobuilders this seems to be a problem
+       according to comparing the build logs
+     - Build-Depends: libbio-perl-perl
+       Otherwise some not-critical checks will fail
+  * debian/arb.prerm: Care for removal of conffile link created in postinst
+    Closes: #656035
+  * debian/rules:
+     - clean up some manual handling of files and dirs which is not
+       needed any more with recent versions
+     - insert check which verifies that binary-indep target is really
+       builded and changed files and dirs are previousely created
+       Closes: #658691
+
+ -- Andreas Tille <tille at debian.org>  Thu, 09 Feb 2012 13:44:22 +0100
+
+arb (5.3-2) unstable; urgency=low
+
+  * debian/arb.README.Debian: Dropped molphy related notice
+  * debian/control:
+    - Remove Build-Depends: x11proto-print-dev
+    - Remove at least explicite Build-Depends: libxp-dev
+      Closes: #623638
+  * debian/{control,rules}: Remove quilt which is unneeded when
+    using source format 3.0 (quilt)
+  * debian/po/ca.po: Catalan translation (thanks to Innocent De Marchi
+    <tangram.peces at gmail.com>)
+    Closes: #632206
+
+ -- Andreas Tille <tille at debian.org>  Thu, 15 Dec 2011 17:00:46 +0100
+
+arb (5.3-1) unstable; urgency=low
+
+  [ Nelson A. de Oliveira ]
+  * Fix FTBFS: replaced sablotron by xsltproc in debian/control
+    (Closes: #634999)
+  * Replaced arb dependency on the ssh metapackage by openssh-client only
+
+  [ Andreas Tille ]
+  * New upstream version (including updateing debian/patches/*)
+    This version doese not depend from molphy any more
+  * debian/control
+    - Do not depend from molphy which is removed from Debian any more
+    - Standards-Version: 3.9.2 (no changes needed)
+    - Fixed Vcs fields
+  * Debhelper 8 (control+compat)
+  * debian/copyright: several DEP5 fixes
+
+ -- Andreas Tille <tille at debian.org>  Fri, 11 Nov 2011 11:46:22 +0100
+
+arb (5.2-1) unstable; urgency=low
+
+  * New upstream version
+  * Standards-Version: 3.9.1 (no changes needed)
+  * New debconf translations
+    - Vietnamese (thanks to Clytie Siddall <clytie at riverland.net.au>)
+      Closes: #576020
+    - Danish (thanks to Joe Dalton <joedalton2 at yahoo.dk>)
+      Closes: #584283
+    - Brazilian Portuguese (thanks to Gustavo Jordan
+      <gustavojcbrasil at gmail.com>)
+      Closes: #596647
+  * Drop xview-clients Suggests in debian/control and replace any occurence
+    of textedit (which is part of xview-clients) by editor via
+    debian/patches/no_xview_dependency.patch
+    Closes: 612534
+  * debian/patches/20_Makefiles: clean up some errors in clean target
+  * debian/patches/20_config.makefiles: Really get the DEB_BUILD_ARCH_BITS
+    applied
+  * Build-Depends: time
+
+ -- Andreas Tille <tille at debian.org>  Wed, 09 Feb 2011 16:56:15 +0100
+
+arb (5.1-1) unstable; urgency=low
+
+  [ Andreas Tille ]
+  * New upstream version
+    Closes: #522021
+  * debian/control:
+    - Package arb-doc in non-free/doc
+    - Standards-Version: 3.8.4 (Added README.source)
+    - Build-Depends: dpkg-dev (>= 1.15.4) to make use of
+      `dpkg-architecture -qDEB_BUILD_ARCH_BITS` in Makefile
+    - Build-Depends: xutils-dev
+    - arb Recommends: bioperl
+    - arb Suggests: phyml
+    - Build-Depends: openjdk-6-jdk instead of kaffe which might be subject
+      of removal from Debian in the near future
+  * Removed / changed patches which were applied upstream
+    - debian/patches/ARB_release200712_gcc4.3.1.patch removed
+    - debian/patches/20_replace_rxp_by_xmllint.patch removed
+    - debian/patches/tmpfile_CVE-2008-5378.patch removed applied part
+  * debian/{rules,*.install}: Cleanup regarding changes in new upstream version
+  * debian/arb.README.debian:
+    - Removed useless warning about prereleases
+    - Added hint about different phyml versions
+  * debian/patches/10_gcc_4.4.3.patch: compile with gcc-4.4.3
+  * debian/rules: Add ARBHOME variable explicitly to clean target
+  * Added Finish debconf translation (Thanks to Esko Arajärvi <edu at iki.fi>)
+    Closes: #536516
+  * Added Galician debconf translation (Thanks to marce
+    <mvillarino at gmail.com>)
+    Closes: #537534
+  * Added Japanese debconf translation (Thankse to Hideki Yamane
+    <henrich at debian.or.jp>)
+    Closes: #554882
+  * Added: Spanish debconf translation (Thanks to Francisco Javier Cuadrado
+    <fcocuadrado at gmail.com>)
+    Closes: #573005
+  * Switch to source format 3.0
+
+  [ David Paleino ]
+  * Removed myself from Uploaders
+  * New watch file
+
+ -- Andreas Tille <tille at debian.org>  Tue, 23 Mar 2010 14:37:30 +0100
+
+arb (0.0.20071207.1-7) unstable; urgency=low
+
+  * Bumped debhelper to version 7
+     -> dh_clean -k -> dh_clean; dh_prep
+  * Standards-Version: 3.8.1 (no changes needed)
+  * Enhanced package description of arb-common and arb-doc
+    Closes: #517710
+  * Added Portuguese translation for debconf messages (thanks to
+    Traduz <traduz at debianpt.org>)
+    Closes: #516958
+  * Added Depends: ${misc:Depends} to all packages
+
+ -- Andreas Tille <tille at debian.org>  Fri, 20 Mar 2009 08:14:21 +0100
+
+arb (0.0.20071207.1-6) unstable; urgency=low
+
+  * Save use of /tmp in arb-kill and addressing the other
+    potential tempfile symlink attacks reported in
+    CVE-2008-5378: possible symlink attacks
+    Closes: #508942
+  * Use xmllint instead of rxp to verify helpfile XML because
+    rxp is outdate, unmaintained and should be removed.
+  * Do not use command-with-path-in-maintainer-script in
+    postinst and config
+  * Added Russian debconf translation (Thanks to Yuri Kozlov)
+    Closes: #511376
+
+ -- Andreas Tille <tille at debian.org>  Tue, 10 Feb 2009 23:32:41 +0100
+
+arb (0.0.20071207.1-5) unstable; urgency=low
+
+  * Fix tempfile issues in upstream scripts
+    Closes: #496396
+  * Fix arb name server location in config file (Thanks to
+    Felipe Figueiredo <philsf79 at gmail.com>)
+    Closes: #495650
+  * arb-common.config: Make sure that config file will not fail
+    when NIS is used
+
+ -- Andreas Tille <tille at debian.org>  Tue, 23 Sep 2008 13:32:05 +0200
+
+arb (0.0.20071207.1-4) unstable; urgency=low
+
+  * debian/arb-common.postrm: Remove stuff arb leaves behind in
+    /var/lib in case the package is purged
+    Closes: #463010
+  * More precise copyright / license statements in debian/copyright
+  * debian/arb-doc.lintian-overrides: Explain why arb-doc should
+    not be in section doc
+  * Moved debian/*.lintian.overrides to *.lintian-overrides and
+    make use of dh_lintian (includes increasing versioned depends
+    of debhelper to >= 6.0.7)
+  * Strip rpath from ARB.so using chrpath
+  * Better short description which was to generic after [Biology]
+    marker was removed.
+
+ -- Andreas Tille <tille at debian.org>  Wed, 23 Jul 2008 08:10:46 +0200
+
+arb (0.0.20071207.1-3) unstable; urgency=low
+
+  [ Charles Plessy ]
+  * Changed the doc-base section according to the new policy.
+
+  [ Andreas Tille ]
+  * Updated dependency from libglew (Build-Depends: libglew-dev ->
+    libglew1.5-dev)
+    Closes: #489330
+  * Standards-Version: 3.8.0 (no changes needed)
+  * debian/patches/30_Makefile_main: Enable gcc-4.3
+  * Applied upstream patches to compile with gcc-4.3 (thanks to
+    Ralf Westram <ralf at arb-home.de>)
+
+ -- Andreas Tille <tille at debian.org>  Mon, 07 Jul 2008 09:11:40 +0200
+
+arb (0.0.20071207.1-2) unstable; urgency=low
+
+  * Added XS-Autobuild: yes to enable autobuilding
+  * Slightly enhanced description
+
+ -- Andreas Tille <tille at debian.org>  Thu, 06 Mar 2008 23:23:07 +0100
+
+arb (0.0.20071207.1-1) unstable; urgency=low
+
+  [ David Paleino ]
+  * debian/control:
+    - Standards-Version 3.7.3
+    - long lines wrapped
+    - architecture set to "any" for architecture-dependent packages
+    - fixed some typos in long descriptions
+    - removed [Biology] pseudo-tag from short descriptions -- why not
+      using DebTags?
+    - updated Vcs-* fields
+    - added myself to Uploaders
+    - removing XS- from DM-Upload-Allowed
+  * debian/watch added
+  * debian/po/it.po added
+  * debian/rules updated
+
+  [ Andreas Tille ]
+  * New upstream source
+    debian/get-orig-source: Obtain official release.
+    Remark: The originally downloaded source from 2007_12_07 was
+    different from the currently available one.  This is expressed
+    in the additional ".1" in the version number.
+  * Removed warning from long description because this is now an
+    official release
+  * debian/rules:
+    - removed get-orig-source.old target
+    - added missing '-' in clean target
+  * Switched to quilt (dpatch was not able to apply patches
+    from previous version)
+
+ -- Andreas Tille <tille at debian.org>  Mon, 25 Feb 2008 09:34:30 +0100
+
+arb (0.0.20071207-1) unstable; urgency=low
+
+  * New upstream version
+    Closes: #446666
+  * Added Build-Depends libglew-dev which is needed for 3D version
+  * Added Build-Depends libxpm4-dev according to the advise of
+    Charles Plessy <charles-debian-nospam at plessy.org> in bug #364908
+  * Added x11proto-print-dev, libxpm-dev, libxp-dev,
+    libgl1-mesa-swx11-dev (> 6.5.1-0.4)
+    to build dependencies
+  * Added to Build-Depends: libtiff4-dev, libxaw7-dev
+  * Standards-Version: 3.7.2 (no changes necessary)
+  * debhelper 5
+  * use dpatch
+  * Added license of new component RAxML to debian/copyright
+  * Substituded ${Source-Version} by ${source:Version} resp.
+    ${binary:Version}
+  * debian/arb.menu: Applications/Science/Biology
+  * move files from lib/* directly to /usr/lib/arb/lib instead of
+    /usr/share/arb/lib  and a bunch of symlinks
+  * Set maintainer to Maintainer: Debian-Med Packaging Team
+    <debian-med-packaging at lists.alioth.debian.org>
+  * Added Portugese debconf translations (thanks to Miguel Figueiredo
+    <elmig at debianpt.org>
+    Closes: #341558
+  * Updated Czech debconf translations (thanks to Jakub Kasparec
+    <mr.k at centrum.cz>)
+    Closes: #356713, #392683
+  * Do not build molphy and symlink to molphy executables instead
+  * New configuration file format for arb_tcp.dat
+  * Added Vcs-Browser, Vcs-Svn
+  * Moved Homepage from long description to tags field
+
+ -- Andreas Tille <tille at debian.org>  Mon, 05 Nov 2007 18:17:32 +0100
+
+arb (0.0.20050526-7) unstable; urgency=low
+
+  * arb-common recommends arb
+  * Added Build-Depends: g++
+  * Because there is no sign that this version shows the behaviour
+    reported in #325640 against the former version and the bug reporter
+    did not respond to any request I decide to close this bug. Feel
+    free to reopen if it seems necessary.
+    Clsoes: #325640
+
+ -- Andreas Tille <tille at debian.org>  Mon, 21 Nov 2005 14:09:01 +0100
+
+arb (0.0.20050526-6) unstable; urgency=low
+
+  * Added transfig to depends
+  * Removed "Depends: arb" from arb-common to avoid circular dependencies
+    Closes: #339861
+  * Added gcc 4.0.3 to supported compilers in Makefile
+
+ -- Andreas Tille <tille at debian.org>  Wed,  9 Nov 2005 13:17:52 +0100
+
+arb (0.0.20050526-5) unstable; urgency=low
+
+  * Enable writing of large amounts of sequence files.  (Thanks for
+    the patch to Elmar Pruesse <elmar at pruesse.net>)
+    Closes: #333391
+  * Updated Swedish debconf template (Thanks to Daniel Nylander
+    <yeager at lidkoping.net>)
+    Closes: #332788
+  * Updated French debconf template (Thanks to Jean-Luc Coulon
+    <jean-luc.coulon at wanadoo.fr>)
+    Closes: #333108
+
+ -- Andreas Tille <tille at debian.org>  Wed, 12 Oct 2005 09:25:15 +0200
+
+arb (0.0.20050526-4) unstable; urgency=low
+
+  * Included names.dat.template in arb-common:/var/lib/nas
+    actually not only the file is missing but the directory of the file
+    is also not found because a link to /var/lib/arb/nas is needed
+    To enable a clean installation of the link the old empty directory
+    has to be removed in a preinst script
+  * Fixed location of arb nameserver in debian/conf/{arb_tcp,arb_ntree}.dat
+    Closes: #332436
+  * Make sure that nameserver directory is accessible by members of group
+    arb in postinst file
+  * Changed debconf template to ask for arb users
+  * Added warning to arb wrapper script if the user who starts arb is not
+    yet member of group arb and thus not allowed to write to /var/lib/arb
+
+ -- Andreas Tille <tille at debian.org>  Thu,  6 Oct 2005 21:38:12 +0200
+
+arb (0.0.20050526-3) unstable; urgency=low
+
+  * Added Swedish debconf templates translation (thanks to
+    Daniel Nylander <yeager at lidkoping.net>
+    Closes: #330428
+  * Added ssh to dependencies because it is used in some scripts
+  * Dropped last version number in Standards-Version (now: 3.6.2)
+
+ -- Andreas Tille <tille at debian.org>  Wed, 28 Sep 2005 11:18:17 +0200
+
+arb (0.0.20050526-2) unstable; urgency=low
+
+  * Added explicite permission to distribute with Debian to
+    debian/copyright
+  * Fixed debian/rules + WINDOW/Makefile to ensure that libARB can be found
+    in the build process (Many thanks to Petr Salinger <Petr.Salinger at t-systems.cz>)
+  * Reduced number of architectures to the set that features xviewg-dev
+
+ -- Andreas Tille <tille at debian.org>  Thu,  8 Sep 2005 14:08:07 +0200
+
+arb (0.0.20050526-1) unstable; urgency=low
+
+  * New upstream version.
+  * Added disclaimer from FTP-download directory to debian/arb.README.Debian
+    and debian/copyright
+  * Added parts of the disclaimer from FTP-download directory to
+    debian/control
+  * Patch for NAMES/names.cxx (Thanks to Petr Salinger <Petr.Salinger at t-systems.cz>)
+
+ -- Andreas Tille <tille at debian.org>  Tue, 30 Aug 2005 09:49:01 +0200
+
+arb (0.0.20050506-3) unstable; urgency=low
+
+  * Recommend: xfig
+  * solved debconf | debconf-2.0 issue by ${misc:Depends}
+  * debian/control: Homepage: http://www.arb-home.de/
+  * Renamed debian/po/cz.po to cs.po (Thanks to Denis Barbier <barbier at debian.org>)
+    Closes: #325062
+  * Depends: freeglut3-dev | libglu-dev
+  * Build-Depends: libpng12-dev (Thanks to Petr Salinger <Petr.Salinger at t-systems.cz>)
+  * Some patches that where necessary for building with gcc 4.0.x
+    (Thanks to Petr Salinger <Petr.Salinger at t-systems.cz>)
+  * arb-common: Depends: adduser
+  * arb-common.config: Removed bashism
+
+ -- Andreas Tille <tille at debian.org>  Fri, 26 Aug 2005 12:58:01 +0200
+
+arb (0.0.20050506-2) unstable; urgency=low
+
+  * Enable killing all arb processes in arb-kill
+  * Standards-Version: 3.6.2.1
+     * menu items moved (no changes in packaging, just use new debhelper)
+  * Czech debconf translation, thanks to Igor Jasa <Igor.Jasa at seznam.cz>
+    Closes: #318442
+
+ -- Andreas Tille <tille at debian.org>  Wed,  1 Jun 2005 13:15:04 +0200
+
+arb (0.0.20050506-1) unstable; urgency=low
+
+  * New upstream version
+  * Adapted get-orig-source target to new directory layout
+  * Added French debconf template
+    Closes: #309222
+
+ -- Andreas Tille <tille at debian.org>  Mon, 30 May 2005 15:17:44 +0200
+
+arb (0.0.20050318-1) unstable; urgency=low
+
+  * New upstream snapshot
+  * Added freeglut3-dev and libglew-dev Build-dependency
+  * First official package uploaded to Debian
+    Closes: #282037
+
+ -- Andreas Tille <tille at debian.org>  Thu, 10 Mar 2005 11:23:28 +0100
+
+arb (0.0.20041206-1) unstable; urgency=low
+
+  * New upstream snapshot
+  * Reintegrate also arb-nas package because it is the main
+    Arb application according to the author.  It makes no sense
+    to separate it in an extra package.
+
+ -- Andreas Tille <tille at debian.org>  Mon, 06 Dec 2004 10:48:01 +0100
+
+arb (0.0.20041112-4) unstable; urgency=low
+
+  * Group arb which has rw-permissions to arb databases
+  * Split configuration file into several pieces and megre them in
+    postinst.  This enables splitting into several independent packages
+    because upstream uses a single config file
+  * Script arb-add-pt-server enables users of group arb to add
+    PT_SERVER entries to configuration files
+  * Manage users of group arb via debconf
+
+ -- Andreas Tille <tille at debian.org>  Tue, 23 Nov 2004 12:50:22 +0100
+
+arb (0.0.20041112-3) unstable; urgency=low
+
+  * Dropped package arb-extra and abr-server after discussing with the
+    authors because it does not really make sense to split this from
+    main package.
+  * Enhanced package arb-nas
+  * New package libarb with dynamic libraries
+
+ -- Andreas Tille <tille at debian.org>  Fri, 19 Nov 2004 15:56:53 +0100
+
+arb (0.0.20041112-2) unstable; urgency=low
+
+  * Compile with libmotif-dev because liblesstif has trouble with
+    some controls in the search inteface.
+  * Moved some files to the server package.
+  * Exclude arb/lib/BUGS from package because its irrelevant
+  * Move arb/lib/help_html to doc package
+  * Wrote placeholder manpage
+  * Added lintian.overrides
+  * Moved arb_tcp.dat to /etc/arb and set symlink
+
+ -- Andreas Tille <tille at debian.org>  Tue, 16 Nov 2004 18:23:59 +0100
+
+arb (0.0.20041112-1) unstable; urgency=low
+
+  * Inoffcial test release.
+
+ -- Andreas Tille <tille at debian.org>  Fri, 12 Nov 2004 13:15:16 +0100
+

Deleted: trunk/packages/arb/tags/6.0.3-2/debian/control
===================================================================
--- trunk/packages/arb/trunk/debian/control	2016-09-16 20:20:41 UTC (rev 22809)
+++ trunk/packages/arb/tags/6.0.3-2/debian/control	2016-09-17 14:44:37 UTC (rev 22819)
@@ -1,148 +0,0 @@
-Source: arb
-Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
-Uploaders: Andreas Tille <tille at debian.org>,
-           Elmar Pruesse <elmar at pruesse.net>
-Section: non-free/science
-XS-Autobuild: yes
-Priority: optional
-Build-Depends: chrpath,
-               debhelper (>= 9),
-               freeglut3-dev | libglu-dev,
-               libbio-perl-perl,
-               libglew-dev,
-               libglib2.0-dev,
-               libglw1-mesa-dev,
-               libglu1-mesa-dev,
-               libmotif-dev,
-               libpng-dev,
-               libtiff-dev,
-               libxaw7-dev,
-               libxml2-utils,
-               libxpm-dev,
-               lynx,
-               time,
-               perl-doc,
-               xsltproc,
-               xutils-dev
-Standards-Version: 3.9.6
-Vcs-Browser: http://anonscm.debian.org/viewvc/debian-med/trunk/packages/arb/trunk/
-Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/arb/trunk/
-Homepage: http://www.arb-home.de/
-
-Package: arb
-Architecture: amd64 i386 kfreebsd-i386 kfreebsd-amd64
-Depends: arb-common (= ${source:Version}),
-         fastdnaml,
-         libarb (= ${binary:Version}),
-         openssh-client,
-         mafft,
-         mrbayes,
-         phylip,
-         phyml,
-         raxml,
-         readseq,
-         transfig,
-         tree-puzzle,
-         xdg-utils,
-         ${misc:Depends},
-         ${shlibs:Depends}
-Recommends: bioperl,
-            xfig
-Suggests: arb-database,
-          gnuplot,
-          gv
-Description: phylogenetic sequence analysis suite - main program
- ARB is a graphical suite of tools for sequence database handling and data
- analysis. A central database of processed (aligned) sequences and any
- type of additional data linked to the sequence entries is structured
- according to phylogeny or other user-defined criteria.
- .
- The ARB project (from the Latin "arbor", a tree) is a joint initiative of
- the Lehrstuhl fuer Mikrobiologie http://www.mikro.biologie.tu-muenchen.de/
- and the Lehrstuhl fuer Rechnertechnik und Rechnerorganisation
- http://wwwbode.informatik.tu-muenchen.de/ of the Technical University
- of Munich.
-
-Package: libarb
-Architecture: amd64 i386 kfreebsd-i386 kfreebsd-amd64
-Depends: ${misc:Depends},
-         ${shlibs:Depends}
-Recommends: arb
-Description: phylogenetic sequence analysis suite - libraries
- ARB is a graphical suite of tools for sequence database handling and data
- analysis. A central database of processed (aligned) sequences and any
- type of additional data linked to the sequence entries is structured
- according to phylogeny or other user-defined criteria.
- .
- The ARB project (from the Latin "arbor", a tree) is a joint initiative of
- the Lehrstuhl fuer Mikrobiologie http://www.mikro.biologie.tu-muenchen.de/
- and the Lehrstuhl fuer Rechnertechnik und Rechnerorganisation
- http://wwwbode.informatik.tu-muenchen.de/ of the Technical University
- of Munich.
- .
- This package provides the dynamic libraries which are used by ARB.
-
-Package: libarb-dev
-Architecture: amd64 i386 kfreebsd-i386 kfreebsd-amd64
-Section: non-free/libdevel
-Depends: libarb (= ${binary:Version}),
-         ${misc:Depends}
-Description: phylogenetic sequence analysis suite - development files
- ARB is a graphical suite of tools for sequence database handling and data
- analysis. A central database of processed (aligned) sequences and any
- type of additional data linked to the sequence entries is structured
- according to phylogeny or other user-defined criteria.
- .
- The ARB project (from the Latin "arbor", a tree) is a joint initiative of
- the Lehrstuhl fuer Mikrobiologie http://www.mikro.biologie.tu-muenchen.de/
- and the Lehrstuhl fuer Rechnertechnik und Rechnerorganisation
- http://wwwbode.informatik.tu-muenchen.de/ of the Technical University
- of Munich.
- .
- This package provides headers and static libs needed to link against
- libARBDB.
-
-Package: arb-common
-Architecture: all
-Depends: adduser,
-         arb-doc (= ${source:Version}),
-         ghostscript | postscript-preview,
-         gv | postscript-viewer,
-         perl-modules,
-         ${misc:Depends},
-         ${perl:Depends}
-Recommends: arb
-Description: phylogenetic sequence analysis suite - common files
- ARB is a graphical suite of tools for sequence database handling and data
- analysis. A central database of processed (aligned) sequences and any
- type of additional data linked to the sequence entries is structured
- according to phylogeny or other user-defined criteria.
- .
- The ARB project (from the Latin "arbor", a tree) is a joint initiative of
- the Lehrstuhl fuer Mikrobiologie http://www.mikro.biologie.tu-muenchen.de/
- and the Lehrstuhl fuer Rechnertechnik und Rechnerorganisation
- http://wwwbode.informatik.tu-muenchen.de/ of the Technical University
- of Munich.
- .
- This package provides the architecture independent scripts of ARB.
-
-Package: arb-doc
-Architecture: all
-Section: non-free/doc
-Depends: ghostscript | postscript-preview,
-         gv | postscript-viewer,
-         ${misc:Depends}
-Suggests: arb
-Description: phylogenetic sequence analysis suite - documentation
- ARB is a graphical suite of tools for sequence database handling and data
- analysis. A central database of processed (aligned) sequences and any
- type of additional data linked to the sequence entries is structured
- according to phylogeny or other user-defined criteria.
- .
- The ARB project (from the Latin "arbor", a tree) is a joint initiative of
- the Lehrstuhl fuer Mikrobiologie http://www.mikro.biologie.tu-muenchen.de/
- and the Lehrstuhl fuer Rechnertechnik und Rechnerorganisation
- http://wwwbode.informatik.tu-muenchen.de/ of the Technical University
- of Munich.
- .
- This package provides the documentation for ARB.

Copied: trunk/packages/arb/tags/6.0.3-2/debian/control (from rev 22814, trunk/packages/arb/trunk/debian/control)
===================================================================
--- trunk/packages/arb/tags/6.0.3-2/debian/control	                        (rev 0)
+++ trunk/packages/arb/tags/6.0.3-2/debian/control	2016-09-17 14:44:37 UTC (rev 22819)
@@ -0,0 +1,148 @@
+Source: arb
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Uploaders: Andreas Tille <tille at debian.org>,
+           Elmar Pruesse <elmar at pruesse.net>
+Section: non-free/science
+XS-Autobuild: yes
+Priority: optional
+Build-Depends: chrpath,
+               debhelper (>= 9),
+               freeglut3-dev | libglu-dev,
+               libbio-perl-perl,
+               libglew-dev,
+               libglib2.0-dev,
+               libglw1-mesa-dev,
+               libglu1-mesa-dev,
+               libmotif-dev,
+               libpng-dev,
+               libtiff-dev,
+               libxaw7-dev,
+               libxml2-utils,
+               libxpm-dev,
+               lynx,
+               time,
+               perl-doc,
+               xsltproc,
+               xutils-dev
+Standards-Version: 3.9.8
+Vcs-Browser: https://anonscm.debian.org/viewvc/debian-med/trunk/packages/arb/trunk/
+Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/arb/trunk/
+Homepage: http://www.arb-home.de/
+
+Package: arb
+Architecture: amd64 i386 kfreebsd-i386 kfreebsd-amd64
+Depends: arb-common (= ${source:Version}),
+         fastdnaml,
+         libarb (= ${binary:Version}),
+         openssh-client,
+         mafft,
+         mrbayes,
+         phylip,
+         phyml,
+         raxml,
+         readseq,
+         transfig,
+         tree-puzzle,
+         xdg-utils,
+         ${misc:Depends},
+         ${shlibs:Depends}
+Recommends: bioperl,
+            xfig
+Suggests: arb-database,
+          gnuplot,
+          gv
+Description: phylogenetic sequence analysis suite - main program
+ ARB is a graphical suite of tools for sequence database handling and data
+ analysis. A central database of processed (aligned) sequences and any
+ type of additional data linked to the sequence entries is structured
+ according to phylogeny or other user-defined criteria.
+ .
+ The ARB project (from the Latin "arbor", a tree) is a joint initiative of
+ the Lehrstuhl fuer Mikrobiologie http://www.mikro.biologie.tu-muenchen.de/
+ and the Lehrstuhl fuer Rechnertechnik und Rechnerorganisation
+ http://wwwbode.informatik.tu-muenchen.de/ of the Technical University
+ of Munich.
+
+Package: libarb
+Architecture: amd64 i386 kfreebsd-i386 kfreebsd-amd64
+Depends: ${misc:Depends},
+         ${shlibs:Depends}
+Recommends: arb
+Description: phylogenetic sequence analysis suite - libraries
+ ARB is a graphical suite of tools for sequence database handling and data
+ analysis. A central database of processed (aligned) sequences and any
+ type of additional data linked to the sequence entries is structured
+ according to phylogeny or other user-defined criteria.
+ .
+ The ARB project (from the Latin "arbor", a tree) is a joint initiative of
+ the Lehrstuhl fuer Mikrobiologie http://www.mikro.biologie.tu-muenchen.de/
+ and the Lehrstuhl fuer Rechnertechnik und Rechnerorganisation
+ http://wwwbode.informatik.tu-muenchen.de/ of the Technical University
+ of Munich.
+ .
+ This package provides the dynamic libraries which are used by ARB.
+
+Package: libarb-dev
+Architecture: amd64 i386 kfreebsd-i386 kfreebsd-amd64
+Section: non-free/libdevel
+Depends: libarb (= ${binary:Version}),
+         ${misc:Depends}
+Description: phylogenetic sequence analysis suite - development files
+ ARB is a graphical suite of tools for sequence database handling and data
+ analysis. A central database of processed (aligned) sequences and any
+ type of additional data linked to the sequence entries is structured
+ according to phylogeny or other user-defined criteria.
+ .
+ The ARB project (from the Latin "arbor", a tree) is a joint initiative of
+ the Lehrstuhl fuer Mikrobiologie http://www.mikro.biologie.tu-muenchen.de/
+ and the Lehrstuhl fuer Rechnertechnik und Rechnerorganisation
+ http://wwwbode.informatik.tu-muenchen.de/ of the Technical University
+ of Munich.
+ .
+ This package provides headers and static libs needed to link against
+ libARBDB.
+
+Package: arb-common
+Architecture: all
+Depends: adduser,
+         arb-doc (= ${source:Version}),
+         ghostscript | postscript-preview,
+         gv | postscript-viewer,
+         perl,
+         ${misc:Depends},
+         ${perl:Depends}
+Recommends: arb
+Description: phylogenetic sequence analysis suite - common files
+ ARB is a graphical suite of tools for sequence database handling and data
+ analysis. A central database of processed (aligned) sequences and any
+ type of additional data linked to the sequence entries is structured
+ according to phylogeny or other user-defined criteria.
+ .
+ The ARB project (from the Latin "arbor", a tree) is a joint initiative of
+ the Lehrstuhl fuer Mikrobiologie http://www.mikro.biologie.tu-muenchen.de/
+ and the Lehrstuhl fuer Rechnertechnik und Rechnerorganisation
+ http://wwwbode.informatik.tu-muenchen.de/ of the Technical University
+ of Munich.
+ .
+ This package provides the architecture independent scripts of ARB.
+
+Package: arb-doc
+Architecture: all
+Section: non-free/doc
+Depends: ghostscript | postscript-preview,
+         gv | postscript-viewer,
+         ${misc:Depends}
+Suggests: arb
+Description: phylogenetic sequence analysis suite - documentation
+ ARB is a graphical suite of tools for sequence database handling and data
+ analysis. A central database of processed (aligned) sequences and any
+ type of additional data linked to the sequence entries is structured
+ according to phylogeny or other user-defined criteria.
+ .
+ The ARB project (from the Latin "arbor", a tree) is a joint initiative of
+ the Lehrstuhl fuer Mikrobiologie http://www.mikro.biologie.tu-muenchen.de/
+ and the Lehrstuhl fuer Rechnertechnik und Rechnerorganisation
+ http://wwwbode.informatik.tu-muenchen.de/ of the Technical University
+ of Munich.
+ .
+ This package provides the documentation for ARB.

Copied: trunk/packages/arb/tags/6.0.3-2/debian/patches/90_gcc6.patch (from rev 22813, trunk/packages/arb/trunk/debian/patches/90_gcc6.patch)
===================================================================
--- trunk/packages/arb/tags/6.0.3-2/debian/patches/90_gcc6.patch	                        (rev 0)
+++ trunk/packages/arb/tags/6.0.3-2/debian/patches/90_gcc6.patch	2016-09-17 14:44:37 UTC (rev 22819)
@@ -0,0 +1,46 @@
+Author: Sascha Steinbiss <satta at debian.org>
+Description: fix building with GCC 6.
+
+--- a/HEADERLIBS/Makefile
++++ b/HEADERLIBS/Makefile
+@@ -7,5 +7,6 @@
+ eigen: eigen.tgz
+ 	tar -zxvf $<
+ 	touch eigen/
++	patch -p0 < return_value.patch
+ 
+ 
+--- /dev/null
++++ b/HEADERLIBS/return_value.patch
+@@ -0,0 +1,20 @@
++--- eigen/Eigen/src/Sparse/AmbiVector.h.1	2016-09-17 11:46:17.000000000 +0000
+++++ eigen/Eigen/src/Sparse/AmbiVector.h	2016-09-17 11:47:13.000000000 +0000
++@@ -44,7 +44,7 @@
++     void init(RealScalar estimatedDensity);
++     void init(int mode);
++ 
++-    void nonZeros() const;
+++    int nonZeros() const;
++ 
++     /** Specifies a sub-vector to work on */
++     void setBounds(int start, int end) { m_start = start; m_end = end; }
++@@ -133,7 +133,7 @@
++ 
++ /** \returns the number of non zeros in the current sub vector */
++ template<typename Scalar>
++-void AmbiVector<Scalar>::nonZeros() const
+++int AmbiVector<Scalar>::nonZeros() const
++ {
++   if (m_mode==IsSparse)
++     return m_llSize;
+--- a/TEMPLATES/cxxforward.h
++++ b/TEMPLATES/cxxforward.h
+@@ -21,7 +21,7 @@
+ # if (GCC_VERSION_CODE >= 407)
+ #  if (__cplusplus == 199711L)
+ #  else
+-#   if (__cplusplus == 201103L)
++#   if (__cplusplus >= 201103L)
+ #    define ARB_ENABLE_Cxx11_FEATURES
+ #   else
+ #    error Unknown C++ standard defined in __cplusplus

Deleted: trunk/packages/arb/tags/6.0.3-2/debian/patches/series
===================================================================
--- trunk/packages/arb/trunk/debian/patches/series	2016-09-16 20:20:41 UTC (rev 22809)
+++ trunk/packages/arb/tags/6.0.3-2/debian/patches/series	2016-09-17 14:44:37 UTC (rev 22819)
@@ -1,8 +0,0 @@
-10_upstream_r12793__show_db_load_progress
-20_upstream_r12794__socket_permissions
-30_upstream_r12814__desktop_keywords
-40_upstream_r12815__lintian_spelling
-50_private_nameservers
-60_use_packaged_phyml
-70_skip_compler_version_check.patch
-80_enable_new_dtags.patch

Copied: trunk/packages/arb/tags/6.0.3-2/debian/patches/series (from rev 22810, trunk/packages/arb/trunk/debian/patches/series)
===================================================================
--- trunk/packages/arb/tags/6.0.3-2/debian/patches/series	                        (rev 0)
+++ trunk/packages/arb/tags/6.0.3-2/debian/patches/series	2016-09-17 14:44:37 UTC (rev 22819)
@@ -0,0 +1,9 @@
+10_upstream_r12793__show_db_load_progress
+20_upstream_r12794__socket_permissions
+30_upstream_r12814__desktop_keywords
+40_upstream_r12815__lintian_spelling
+50_private_nameservers
+60_use_packaged_phyml
+70_skip_compler_version_check.patch
+80_enable_new_dtags.patch
+90_gcc6.patch

Deleted: trunk/packages/arb/tags/6.0.3-2/debian/rules
===================================================================
--- trunk/packages/arb/trunk/debian/rules	2016-09-16 20:20:41 UTC (rev 22809)
+++ trunk/packages/arb/tags/6.0.3-2/debian/rules	2016-09-17 14:44:37 UTC (rev 22819)
@@ -1,111 +0,0 @@
-#!/usr/bin/make -f
-# debian/rules for arb using quilt
-
-# Uncomment this to turn on verbose mode. 
-#export DH_VERBOSE=1
-
-pkg := $(shell dpkg-parsechangelog | sed -n 's/^Source: //p')
-pkgcom=$(pkg)-common
-pkgdoc=$(pkg)-doc
-common=debian/$(pkgcom)
-
-ARBHOME=$(CURDIR)
-
-BITARCH := $(shell dpkg-architecture -qDEB_BUILD_ARCH_BITS)
-ifeq ($(BITARCH),64)
-    ARB_64:=1
-else
-    ARB_64:=0
-endif
-
-LD_LIBRARY_PATH := $(ARBHOME)/lib:$(LD_LIBRARY_PATH)
-PATH := $(ARBHOME)/bin:$(PATH)
-LC_ALL := C
-
-export ARBHOME LD_LIBRARY_PATH PATH LC_ALL
-
-%:
-	dh $@ --parallel
-
-config.makefile: config.makefile.template
-	# ARB's build system is configured with config.makefile. This file is
-	# created on the first run of make from config.makefile.template. We
-	# just use sed here to set the desired parameters:
-	sed -e 's/DEVELOPER := ANY/DEVELOPER := RELEASE/;'\
-            -e 's/ARB_64 := 1/ARB_64 := $(ARB_64)/;'\
-            -e 's/# DEBIAN := 1/DEBIAN := 1/;' \
-             config.makefile.template > config.makefile
-
-override_dh_auto_build:
-	$(MAKE) all
-
-override_dh_auto_configure: config.makefile
-
-override_dh_auto_clean: config.makefile
-	# config.makefile is required to run make clean, hence the dependency
-	# on ..._auto_configure.
-	$(MAKE) clean
-	rm config.makefile
-	# ARB does not have "distclean" or "realclean". Remove some leftovers:
-	rm -f UNIT_TESTER/Makefile.setup.local
-	find -name \*.log -a ! -name phyml-manual.log -print0 | xargs -0 rm -f
-	rm -f TEMPLATES/arb_build.h
-
-override_dh_install:
-	# ARB has no "install" target. It has "tarfile_quick", though, which
-	# creates a tarball for distribution. We build this and unpack it
-	# into debian/tmp so that dh_install can pick up the files.
-	make tarfile_quick
-	rm -rf debian/tmp
-	mkdir debian/tmp
-	tar -C debian/tmp -xzf arb.tgz
-	rm -rf debian/tmp-dev
-	mkdir debian/tmp-dev
-	tar -C debian/tmp-dev -xzf arb-dev.tgz
-	rm arb.tgz arb-dev.tgz
-
-	# remove some files we don't need in the package:
-	rm -rf debian/tmp/lib/addlibs # external libs are packages
-	rm  -f debian/tmp/lib/arb_tcp_org.dat # managed in etc
-	rm  -f debian/tmp/lib/GPL.txt # included in copyright
-	rm  -f debian/tmp/lib/Makefile # spurious in upstream
-	rm  -f debian/tmp/arb_install.sh # no installer needed
-	rm  -f debian/tmp/arb_INSTALL.txt
-	rm  -f debian/tmp/arb_OS_X_MacPorts.txt
-	rm  -f debian/tmp/arb_OS_X.txt
-	rm  -f debian/tmp/arb_UBUNTU.txt
-
-	dh_install --list-missing
-
-	# the check is needed to make sure it will not fail when doing binary-arch only builds
-	if [ -e debian/$(pkgcom)/usr/lib/arb/SH/arb_create_debian_conffile ] ; then \
-	    # Move SH/README :to docs \
-	    cp -a SH/README debian/$(pkgcom)/usr/share/doc/arb/README_SH ; \
-	    # Fix permission of scripts \
-	    chmod a+x debian/$(pkgcom)/usr/lib/arb/SH/arb_create_debian_conffile ; \
-	    chmod a+x debian/$(pkgcom)/usr/lib/arb/lib/macro.head ; \
-	fi
-
-override_dh_strip:
-	# Fix rpath issue (once libarb is installed)
-	if [ -e debian/libarb/usr/lib/arb/lib/ARB.so ] ; then \
-	    chrpath --delete debian/libarb/usr/lib/arb/lib/ARB.so ; \
-	fi
-	dh_strip 
-	find debian/libarb-dev -name \*.a -print0 | xargs -0 -n 1 strip --remove-section=.comment
-
-override_dh_shlibdeps:
-	dh_shlibdeps -a -l debian/libarb/usr/lib
-
-override_dh_builddeb:
-	dh_builddeb -- -Z xz
-
-override_dh_fixperms:
-	dh_fixperms
-	-chmod 0644 debian/arb-common/etc/arb/submit/*
-	-chmod 0644 debian/libarb-dev/usr/include/arb/xml.hxx
-	-chmod 0755 debian/arb-common/usr/lib/arb/lib/macro.head
-
-# To update po files as recommended in po-debconf(7) 
-debian/po/templates.pot: debian/arb-common.templates
-	@debconf-updatepo

Copied: trunk/packages/arb/tags/6.0.3-2/debian/rules (from rev 22810, trunk/packages/arb/trunk/debian/rules)
===================================================================
--- trunk/packages/arb/tags/6.0.3-2/debian/rules	                        (rev 0)
+++ trunk/packages/arb/tags/6.0.3-2/debian/rules	2016-09-17 14:44:37 UTC (rev 22819)
@@ -0,0 +1,112 @@
+#!/usr/bin/make -f
+# debian/rules for arb using quilt
+
+# Uncomment this to turn on verbose mode. 
+#export DH_VERBOSE=1
+
+pkg := $(shell dpkg-parsechangelog | sed -n 's/^Source: //p')
+pkgcom=$(pkg)-common
+pkgdoc=$(pkg)-doc
+common=debian/$(pkgcom)
+
+ARBHOME=$(CURDIR)
+
+BITARCH := $(shell dpkg-architecture -qDEB_BUILD_ARCH_BITS)
+ifeq ($(BITARCH),64)
+    ARB_64:=1
+else
+    ARB_64:=0
+endif
+
+LD_LIBRARY_PATH := $(ARBHOME)/lib:$(LD_LIBRARY_PATH)
+PATH := $(ARBHOME)/bin:$(PATH)
+LC_ALL := C
+
+export ARBHOME LD_LIBRARY_PATH PATH LC_ALL
+export DEB_CXXFLAGS_MAINT_APPEND=-std=c++98
+
+%:
+	dh $@ --parallel
+
+config.makefile: config.makefile.template
+	# ARB's build system is configured with config.makefile. This file is
+	# created on the first run of make from config.makefile.template. We
+	# just use sed here to set the desired parameters:
+	sed -e 's/DEVELOPER := ANY/DEVELOPER := RELEASE/;'\
+            -e 's/ARB_64 := 1/ARB_64 := $(ARB_64)/;'\
+            -e 's/# DEBIAN := 1/DEBIAN := 1/;' \
+             config.makefile.template > config.makefile
+
+override_dh_auto_build:
+	$(MAKE) all
+
+override_dh_auto_configure: config.makefile
+
+override_dh_auto_clean: config.makefile
+	# config.makefile is required to run make clean, hence the dependency
+	# on ..._auto_configure.
+	$(MAKE) clean
+	rm config.makefile
+	# ARB does not have "distclean" or "realclean". Remove some leftovers:
+	rm -f UNIT_TESTER/Makefile.setup.local
+	find -name \*.log -a ! -name phyml-manual.log -print0 | xargs -0 rm -f
+	rm -f TEMPLATES/arb_build.h
+
+override_dh_install:
+	# ARB has no "install" target. It has "tarfile_quick", though, which
+	# creates a tarball for distribution. We build this and unpack it
+	# into debian/tmp so that dh_install can pick up the files.
+	make tarfile_quick
+	rm -rf debian/tmp
+	mkdir debian/tmp
+	tar -C debian/tmp -xzf arb.tgz
+	rm -rf debian/tmp-dev
+	mkdir debian/tmp-dev
+	tar -C debian/tmp-dev -xzf arb-dev.tgz
+	rm arb.tgz arb-dev.tgz
+
+	# remove some files we don't need in the package:
+	rm -rf debian/tmp/lib/addlibs # external libs are packages
+	rm  -f debian/tmp/lib/arb_tcp_org.dat # managed in etc
+	rm  -f debian/tmp/lib/GPL.txt # included in copyright
+	rm  -f debian/tmp/lib/Makefile # spurious in upstream
+	rm  -f debian/tmp/arb_install.sh # no installer needed
+	rm  -f debian/tmp/arb_INSTALL.txt
+	rm  -f debian/tmp/arb_OS_X_MacPorts.txt
+	rm  -f debian/tmp/arb_OS_X.txt
+	rm  -f debian/tmp/arb_UBUNTU.txt
+
+	dh_install --list-missing
+
+	# the check is needed to make sure it will not fail when doing binary-arch only builds
+	if [ -e debian/$(pkgcom)/usr/lib/arb/SH/arb_create_debian_conffile ] ; then \
+	    # Move SH/README :to docs \
+	    cp -a SH/README debian/$(pkgcom)/usr/share/doc/arb/README_SH ; \
+	    # Fix permission of scripts \
+	    chmod a+x debian/$(pkgcom)/usr/lib/arb/SH/arb_create_debian_conffile ; \
+	    chmod a+x debian/$(pkgcom)/usr/lib/arb/lib/macro.head ; \
+	fi
+
+override_dh_strip:
+	# Fix rpath issue (once libarb is installed)
+	if [ -e debian/libarb/usr/lib/arb/lib/ARB.so ] ; then \
+	    chrpath --delete debian/libarb/usr/lib/arb/lib/ARB.so ; \
+	fi
+	dh_strip 
+	find debian/libarb-dev -name \*.a -print0 | xargs -0 -n 1 strip --remove-section=.comment
+
+override_dh_shlibdeps:
+	dh_shlibdeps -a -l debian/libarb/usr/lib
+
+override_dh_builddeb:
+	dh_builddeb -- -Z xz
+
+override_dh_fixperms:
+	dh_fixperms
+	-chmod 0644 debian/arb-common/etc/arb/submit/*
+	-chmod 0644 debian/libarb-dev/usr/include/arb/xml.hxx
+	-chmod 0755 debian/arb-common/usr/lib/arb/lib/macro.head
+
+# To update po files as recommended in po-debconf(7) 
+debian/po/templates.pot: debian/arb-common.templates
+	@debconf-updatepo




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