[med-svn] [SCM] emboss branch, master, updated. debian/6.4.0-2-21-g95aa795

[Andreas Tille]

The following commit has been merged in the master branch:
commit 95aa795aab6b07418ecf0491d879903f81bdf579
Author: Andreas Tille 
Date:   Tue Feb 19 08:51:28 2013 +0100

Clarified license (and Homepage) of Evidence Ontology which is GPL v3.

diff --git a/debian/copyright b/debian/copyright
index 8c4b784..ff2adf2 100644
--- a/debian/copyright
+++ b/debian/copyright
@@ -293,6 +293,12 @@ Comment: Date: Thu, 24 Jan 2013 15:43:52 +
  .
  Asked in mail for more clear specification of CC license version.
 
+Files: emboss/data/OBO/eco.obo
+Homepage: https://code.google.com/p/evidenceontology/
+Copyright: 2009-2013 Marcus Chibucos ,
+ Michelle Giglio 
+License: GPL-3+
+
 Files: debian/*
 Copyright: the developers
 License: unclear
@@ -605,3 +611,19 @@ License: CC-BY-3.0
  .
 Creative Commons may be contacted at http://creativecommons.org/.
 
+License: GPL-3+
+ This program is free software: you can redistribute it and/or modify
+ it under the terms of the GNU General Public License as published by
+ the Free Software Foundation, either version 3 of the License, or
+ (at your option) any later version.
+ .
+ This program is distributed in the hope that it will be useful,
+ but WITHOUT ANY WARRANTY; without even the implied warranty of
+ MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+ GNU General Public License for more details.
+ .
+ You should have received a copy of the GNU General Public License
+ along with this program.  If not, see .
+ .
+ On Debian systems, the complete text of the GNU General Public License
+ version 3 can be found at /usr/share/common-licenses/GPL-3.

-- 
The European Molecular Biology Open Software Suite.

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[med-svn] [SCM] fis-gtm branch, master, updated. 8ca316ecbc5744e32d2fceb6e53660469000fb7f

[Amul Shah]

The following commit has been merged in the master branch:
commit 8ca316ecbc5744e32d2fceb6e53660469000fb7f
Author: Amul Shah 
Date:   Mon Feb 18 17:11:43 2013 -0500

Remove the *.ex and docs files

diff --git a/debian/docs b/debian/docs
deleted file mode 100644
index e69de29..000
diff --git a/debian/emacsen-install.ex b/debian/emacsen-install.ex
deleted file mode 100644
index 8423c40..000
--- a/debian/emacsen-install.ex
+++ /dev/null
@@ -1,47 +0,0 @@
-#! /bin/sh -e
-# /usr/lib/emacsen-common/packages/install/fis-gtm
-
-# Written by Jim Van Zandt , borrowing heavily
-# from the install scripts for gettext by Santiago Vila
-#  and octave by Dirk Eddelbuettel .
-
-FLAVOR=$1
-PACKAGE=fis-gtm
-
-if [ ${FLAVOR} = emacs ]; then exit 0; fi
-
-echo install/${PACKAGE}: Handling install for emacsen flavor ${FLAVOR}
-
-#FLAVORTEST=`echo $FLAVOR | cut -c-6`
-#if [ ${FLAVORTEST} = xemacs ] ; then
-#SITEFLAG="-no-site-file"
-#else
-#SITEFLAG="--no-site-file"
-#fi
-FLAGS="${SITEFLAG} -q -batch -l path.el -f batch-byte-compile"
-
-ELDIR=/usr/share/emacs/site-lisp/${PACKAGE}
-ELCDIR=/usr/share/${FLAVOR}/site-lisp/${PACKAGE}
-ELRELDIR=../../../emacs/site-lisp/${PACKAGE}
-
-# Install-info-altdir does not actually exist.
-# Maybe somebody will write it.
-if test -x /usr/sbin/install-info-altdir; then
-echo install/${PACKAGE}: install Info links for ${FLAVOR}
-install-info-altdir --quiet --section "" "" --dirname=${FLAVOR} 
/usr/share/info/${PACKAGE}.info.gz
-fi
-
-install -m 755 -d ${ELCDIR}
-cd ${ELDIR}
-FILES=`echo *.el`
-cd ${ELCDIR}
-ln -sf ${ELRELDIR}/*.el .
-
-cat << EOF > path.el
-(debian-pkg-add-load-path-item ".")
-(setq byte-compile-warnings nil)
-EOF
-${FLAVOR} ${FLAGS} ${FILES}
-rm -f path.el
-
-exit 0
diff --git a/debian/emacsen-remove.ex b/debian/emacsen-remove.ex
deleted file mode 100644
index fafe386..000
--- a/debian/emacsen-remove.ex
+++ /dev/null
@@ -1,15 +0,0 @@
-#!/bin/sh -e
-# /usr/lib/emacsen-common/packages/remove/fis-gtm
-
-FLAVOR=$1
-PACKAGE=fis-gtm
-
-if [ ${FLAVOR} != emacs ]; then
-if test -x /usr/sbin/install-info-altdir; then
-echo remove/${PACKAGE}: removing Info links for ${FLAVOR}
-install-info-altdir --quiet --remove --dirname=${FLAVOR} 
/usr/share/info/fis-gtm.info.gz
-fi
-
-echo remove/${PACKAGE}: purging byte-compiled files for ${FLAVOR}
-rm -rf /usr/share/${FLAVOR}/site-lisp/${PACKAGE}
-fi
diff --git a/debian/emacsen-startup.ex b/debian/emacsen-startup.ex
deleted file mode 100644
index c3330d3..000
--- a/debian/emacsen-startup.ex
+++ /dev/null
@@ -1,27 +0,0 @@
-;; -*-emacs-lisp-*-
-;;
-;; Emacs startup file, e.g.  /etc/emacs/site-start.d/50fis-gtm.el
-;; for the Debian fis-gtm package
-;;
-;; Originally contributed by Nils Naumann 
-;; Modified by Dirk Eddelbuettel 
-;; Adapted for dh-make by Jim Van Zandt 
-
-;; The fis-gtm package follows the Debian/GNU Linux 'emacsen' policy and
-;; byte-compiles its elisp files for each 'emacs flavor' (emacs19,
-;; xemacs19, emacs20, xemacs20...).  The compiled code is then
-;; installed in a subdirectory of the respective site-lisp directory.
-;; We have to add this to the load-path:
-(let ((package-dir (concat "/usr/share/"
-   (symbol-name debian-emacs-flavor)
-   "/site-lisp/fis-gtm")))
-;; If package-dir does not exist, the fis-gtm package must have
-;; removed but not purged, and we should skip the setup.
-  (when (file-directory-p package-dir)
-(if (fboundp 'debian-pkg-add-load-path-item)
-(debian-pkg-add-load-path-item package-dir)
-  (setq load-path (cons package-dir load-path)))
-(autoload 'fis-gtm-mode "fis-gtm-mode"
-  "Major mode for editing fis-gtm files." t)
-(add-to-list 'auto-mode-alist '("\\.fis-gtm$" . fis-gtm-mode
-
diff --git a/debian/fis-gtm-doc.docs b/debian/fis-gtm-doc.docs
deleted file mode 100644
index d4f4542..000
--- a/debian/fis-gtm-doc.docs
+++ /dev/null
@@ -1 +0,0 @@
-#DOCS#
diff --git a/debian/fis-gtm-doc.install b/debian/fis-gtm-doc.install
deleted file mode 100644
index d4f4542..000
--- a/debian/fis-gtm-doc.install
+++ /dev/null
@@ -1 +0,0 @@
-#DOCS#
diff --git a/debian/fis-gtm.cron.d.ex b/debian/fis-gtm.cron.d.ex
deleted file mode 100644
index da0539b..000
--- a/debian/fis-gtm.cron.d.ex
+++ /dev/null
@@ -1,4 +0,0 @@
-#
-# Regular cron jobs for the fis-gtm package
-#
-0 4* * *   root[ -x /usr/bin/fis-gtm_maintenance ] && 
/usr/bin/fis-gtm_maintenance
diff --git a/debian/fis-gtm.default.ex b/debian/fis-gtm.default.ex
deleted file mode 100644
index a6cd456..000
--- a/debian/fis-gtm.default.ex
+++ /dev/null
@@ -1,10 +0,0 @@
-# Defaults for fis-gtm initscript
-# sourced by /etc/init.d/fis-gtm
-# installed at /etc/default/fis-gtm by the maintainer scripts
-
-#
-# This is a POSIX shell fragment
-#
-
-# Additional options that are passed to the Daemon.
-DAEMON_OPTS=""
diff --git a/debian/fis-gtm.doc-base.EX b/debian/fis-gtm.doc-base.EX
deleted file mode 10

[med-svn] r13047 - trunk/packages/fis-gtm/trunk

[Andreas Tille]

Author: tille
Date: 2013-02-18 20:44:28 + (Mon, 18 Feb 2013)
New Revision: 13047

Added:
   trunk/packages/fis-gtm/trunk/README.status
Log:
Document the move to Git


Added: trunk/packages/fis-gtm/trunk/README.status
===
--- trunk/packages/fis-gtm/trunk/README.status  (rev 0)
+++ trunk/packages/fis-gtm/trunk/README.status  2013-02-18 20:44:28 UTC (rev 
13047)
@@ -0,0 +1,7 @@
+---
+Format: 1
+Status: git
+SVNDeleteRevision: 13046
+URL: git://git.debian.org/debian-med/fis-gtm.git
+Comment: >
+  This package is now managed in a Git repository.


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[med-svn] r13046 - trunk/packages/fis-gtm/trunk

[Andreas Tille]

Author: tille
Date: 2013-02-18 20:42:43 + (Mon, 18 Feb 2013)
New Revision: 13046

Removed:
   trunk/packages/fis-gtm/trunk/debian/
Log:
fis-gtm packaging taken over to Git



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[med-svn] [SCM] fis-gtm branch, master, updated. 243c8fcc04c9aee91efb5a2c1259da52078b48b0

[Andreas Tille]

The following commit has been merged in the master branch:
commit 243c8fcc04c9aee91efb5a2c1259da52078b48b0
Author: Andreas Tille 
Date:   Mon Feb 18 21:37:50 2013 +0100

Take over get-orig-source script from SVN

diff --git a/debian/get-orig-source b/debian/get-orig-source
new file mode 100755
index 000..085f36a
--- /dev/null
+++ b/debian/get-orig-source
@@ -0,0 +1,19 @@
+#!/bin/sh
+# get source for fis-gtm from SourceForge.net
+
+#set -x
+set -e
+
+wget -q -N 
http://sourceforge.net/projects/fis-gtm/files/GT.M-x86-Linux-src/V6.0-001/gtm_V60001_linux_i686_src.tar.gz
+NAME="fis-gtm"
+PKGVERSION="6.0-001"
+
+OUTPUTDIR=${NAME}-${PKGVERSION}
+mkdir ${OUTPUTDIR}
+cd ${OUTPUTDIR}
+tar -xzf ../gtm_V60001_linux_i686_src.tar.gz
+cd ..
+GZIP="--best --no-name" tar --owner=root --group=root --mode=a+rX -czf 
../${NAME}_${PKGVERSION}.orig.tar.gz ${OUTPUTDIR}
+rm -rf ${OUTPUTDIR}
+rm gtm_V60001_linux_i686_src.tar.gz
+

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[med-svn] [SCM] fis-gtm branch, master, updated. be4734156ad897bc3f2b26dd390a2c627c27c2e2

[Andreas Tille]

The following commit has been merged in the master branch:
commit be4734156ad897bc3f2b26dd390a2c627c27c2e2
Author: Andreas Tille 
Date:   Mon Feb 18 21:36:53 2013 +0100

We just had a *real* watch file in SVN - please remove all other *.ex 
examples if they are not used.

diff --git a/debian/watch b/debian/watch
new file mode 100644
index 000..c3e8460
--- /dev/null
+++ b/debian/watch
@@ -0,0 +1,5 @@
+version=3
+opts="uversionmangle=s/^([0-9]*)([0-9])([0-9][0-9][0-9][A-Z]*)/$1.$2-$3/g" \
+http://sf.net/fis-gtm/gtm_V(.*)_linux_i686_src\.tar\.gz \
+debian debian/get-orig-source
+
diff --git a/debian/watch.ex b/debian/watch.ex
deleted file mode 100644
index 0248965..000
--- a/debian/watch.ex
+++ /dev/null
@@ -1,23 +0,0 @@
-# Example watch control file for uscan
-# Rename this file to "watch" and then you can run the "uscan" command
-# to check for upstream updates and more.
-# See uscan(1) for format
-
-# Compulsory line, this is a version 3 file
-version=3
-
-# Uncomment to examine a Webpage
-#  
-#http://www.example.com/downloads.php fis-gtm-(.*)\.tar\.gz
-
-# Uncomment to examine a Webserver directory
-#http://www.example.com/pub/fis-gtm-(.*)\.tar\.gz
-
-# Uncommment to examine a FTP server
-#ftp://ftp.example.com/pub/fis-gtm-(.*)\.tar\.gz debian uupdate
-
-# Uncomment to find new files on sourceforge, for devscripts >= 2.9
-# http://sf.net/fis-gtm/fis-gtm-(.*)\.tar\.gz
-
-# Uncomment to find new files on GooglePages
-# http://example.googlepages.com/foo.html fis-gtm-(.*)\.tar\.gz

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[med-svn] [SCM] fis-gtm branch, master, updated. 58821b9be35b08182a4172ed26e9d3a3f6f9d78e

[Andreas Tille]

The following commit has been merged in the master branch:
commit 58821b9be35b08182a4172ed26e9d3a3f6f9d78e
Author: Andreas Tille 
Date:   Mon Feb 18 21:34:58 2013 +0100

Standards-Version: 3.9.4 (=latest); remove DM-Upload-allowed because it is 
ignored / outdated

diff --git a/debian/control b/debian/control
index b386c31..3754eb4 100644
--- a/debian/control
+++ b/debian/control
@@ -7,9 +7,8 @@ Build-Depends: debhelper (>= 9),
  gnupg, zlib1g-dev, libgcrypt11-dev, libgpgme11-dev,
  linux-libc-dev, libelf-dev,
  gcc-multilib, cmake (>= 2.8.5)
-Standards-Version: 3.9.3
+Standards-Version: 3.9.4
 Maintainer: Debian Med Packaging Team 

-DM-Upload-Allowed: yes
 Uploaders: Andreas Tille ,
Thorsten Alteholz ,
Luis Ibanez ,

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[med-svn] [Debian Wiki] Update of "DebianMed/Meeting/Kiel2013" by UweBeckert

[Debian Wiki]

Dear Wiki user,

You have subscribed to a wiki page or wiki category on "Debian Wiki" for change 
notification.

The "DebianMed/Meeting/Kiel2013" page has been changed by UweBeckert:
http://wiki.debian.org/DebianMed/Meeting/Kiel2013?action=diff&rev1=74&rev2=75

  ||10|| Christoph Gille   || pre.sur_charite.de ||   || yes
  || Charité|| Berlin (D)  ||  ||   ||
  ||11|| Tim Booth || tsur_ceh.ac.uk || yes   || yes
  || NERC, Bio-Linux|| Oxford (UK) || 22/02 || 24/02  ||
  ||12|| Matus Kalas   || pre.sur_bccs.uib.no|| almost(!) || yes
  || U Bergen   || Bergen (N)  || 22/02 || ||
- ||13|| Uwe Beckert   |||| yes   || yes
  || Rechenkraft.net|| Berlin (D)  || 22/02 || 24/02 ||
+ ||13|| Uwe Beckert   |||| yes   || yes
  || Rechenkraft.net|| Berlin (D)  || 22/02 || 25/02 ||
  ||<^|2>14||Christian Beer||<^|2> djangofett_gmx.net||<^|2> yes  ||<^|2> yes   
  ||<^|2>Rechenkraft.net||<^|2>||<^|2> 22/02||<^|2> 25/02 ||
  || 2 Personen ||
  

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[med-svn] r13045 - in trunk/packages/autodocksuite/trunk/debian: . patches

[Thorsten Alteholz]

Author: alteholz
Date: 2013-02-18 18:13:27 + (Mon, 18 Feb 2013)
New Revision: 13045

Modified:
   trunk/packages/autodocksuite/trunk/debian/changelog
   trunk/packages/autodocksuite/trunk/debian/control
   trunk/packages/autodocksuite/trunk/debian/copyright
   trunk/packages/autodocksuite/trunk/debian/patches/make.patch
   trunk/packages/autodocksuite/trunk/debian/rules
Log:
ready for upload

Modified: trunk/packages/autodocksuite/trunk/debian/changelog
===
--- trunk/packages/autodocksuite/trunk/debian/changelog 2013-02-18 15:07:24 UTC 
(rev 13044)
+++ trunk/packages/autodocksuite/trunk/debian/changelog 2013-02-18 18:13:27 UTC 
(rev 13045)
@@ -1,8 +1,14 @@
-autodocksuite (4.2.5.1-1) UNRELEASED; urgency=low
+autodocksuite (4.2.5.1-1) experimental; urgency=low
 
   * new upstream version
+  * add make.patch
+  * debian/copyright: point to GPL-2 instead of just GPL
+  * debian/control: add more description to autodock-test and autogrid-test
+  * debian/rules: add autodock/RELEASENOTES as upstream ChangeLog
+  * debian/rules: introduce hardening flags
+  * debian/rules: activate "link time optimisation"
 
- -- Thorsten Alteholz   Sat, 16 Feb 2013 20:42:51 +0100
+ -- Thorsten Alteholz   Mon, 18 Feb 2013 19:00:00 +0100
 
 autodocksuite (4.2.3-3) UNRELEASED; urgency=low
 

Modified: trunk/packages/autodocksuite/trunk/debian/control
===
--- trunk/packages/autodocksuite/trunk/debian/control   2013-02-18 15:07:24 UTC 
(rev 13044)
+++ trunk/packages/autodocksuite/trunk/debian/control   2013-02-18 18:13:27 UTC 
(rev 13045)
@@ -48,6 +48,13 @@
 Suggests: autodock
 Depends: ${misc:Depends}
 Description: test files for AutoDock
+ AutoDock is a prime representative of the programs addressing the
+ simulation of the docking of fairly small chemical ligands to rather big
+ protein receptors. Earlier versions had all flexibility in the ligands
+ while the protein was kept rather ridgid. This latest version 4 also
+ allows for a flexibility of selected sidechains of surface residues,
+ i.e., takes the rotamers into account.
+ .
  This package contain the test files for the AutoDock program.
 
 Package: autogrid-test
@@ -55,6 +62,10 @@
 Suggests: autogrid
 Depends: ${misc:Depends}
 Description: test files for AutoGrid
+ The AutoDockSuite addresses the molecular analysis of the docking of
+ a smaller chemical compounds to their receptors of known three-dimensional
+ structure.
+ .
  This package contain the test files for the AutoGrid program.
 
 Package: autodock-getdata

Modified: trunk/packages/autodocksuite/trunk/debian/copyright
===
--- trunk/packages/autodocksuite/trunk/debian/copyright 2013-02-18 15:07:24 UTC 
(rev 13044)
+++ trunk/packages/autodocksuite/trunk/debian/copyright 2013-02-18 18:13:27 UTC 
(rev 13045)
@@ -56,7 +56,7 @@
 Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, MA  02110-1301 USA
 
 On Debian systems, the complete text of the GNU General
-Public License can be found in `/usr/share/common-licenses/GPL'.
+Public License can be found in `/usr/share/common-licenses/GPL-2'.
 
 The Debian packaging is © 2007, Steffen Moeller  and
 is licensed under the GPL, see above.

Modified: trunk/packages/autodocksuite/trunk/debian/patches/make.patch
===
--- trunk/packages/autodocksuite/trunk/debian/patches/make.patch
2013-02-18 15:07:24 UTC (rev 13044)
+++ trunk/packages/autodocksuite/trunk/debian/patches/make.patch
2013-02-18 18:13:27 UTC (rev 13045)
@@ -1,3 +1,6 @@
+Description: adapt make process to Debian build environment
+Author: Thorsten Alteholz 
+Last-Update: 2013-02-16
 Index: src/autogrid/Makefile.am
 ===
 --- src.orig/autogrid/Makefile.am  2013-02-17 18:47:22.0 +0100

Modified: trunk/packages/autodocksuite/trunk/debian/rules
===
--- trunk/packages/autodocksuite/trunk/debian/rules 2013-02-18 15:07:24 UTC 
(rev 13044)
+++ trunk/packages/autodocksuite/trunk/debian/rules 2013-02-18 18:13:27 UTC 
(rev 13045)
@@ -6,19 +6,25 @@
 
 SHELL := /bin/bash
 
+CPPFLAGS:=$(shell dpkg-buildflags --get CPPFLAGS)
+CFLAGS:=$(shell dpkg-buildflags --get CFLAGS)
+CXXFLAGS:=$(shell dpkg-buildflags --get CXXFLAGS)
+LDFLAGS:=$(shell dpkg-buildflags --get LDFLAGS)
+
+
 CXX=g++
 CC=gcc
 #CXX=/usr/lib/gcc-snapshot/bin/g++
 #CC=/usr/lib/gcc-snapshot/bin/gcc
 
 # see http://www.gentoo.org/proj/en/qa/asneeded.xml
-LDFLAGS="-Wl,--as-needed"
+LDFLAGS+="-Wl,--as-needed"
 
-CFLAGS = -Wall -g
+CFLAGS += -Wall -g
 
 # link time optimisation - as soon as gcc-4.5 hits the archive
-#CFLAGS += -flto
-#LDFLAGS += -flto
+CFLAGS += -flto
+LDFLAGS += -flto
 
 ifneq (,$(findstring noopt,$(DEB_BUILD_OPTIONS)))
CFLAGS += 

[med-svn] [SCM] fis-gtm branch, pristine-tar, created. 1f38c9f04b45ceb30ca7fa17a09717acd8ce266b

[Amul Shah]

The branch, pristine-tar has been created
at  1f38c9f04b45ceb30ca7fa17a09717acd8ce266b (commit)

- Shortlog 
commit 1f38c9f04b45ceb30ca7fa17a09717acd8ce266b
Author: Amul Shah 
Date:   Fri Feb 15 15:46:09 2013 -0500

pristine-tar data for fis-gtm_6.0-001.orig.tar.gz

---

-- 
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[med-svn] [SCM] fis-gtm branch, upstream, created. 3433598cd22bf6cb0b486bc852729d9faa6c7c39

[Amul Shah]

The branch, upstream has been created
at  3433598cd22bf6cb0b486bc852729d9faa6c7c39 (commit)

- Shortlog 
---

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[med-svn] [SCM] fis-gtm branch, master, created. fb10b130a2b0dab3f2f1b15b3121541be6147b6d

[Amul Shah]

The branch, master has been created
at  fb10b130a2b0dab3f2f1b15b3121541be6147b6d (commit)

- Shortlog 
commit fb10b130a2b0dab3f2f1b15b3121541be6147b6d
Author: Amul Shah 
Date:   Fri Feb 15 16:18:01 2013 -0500

GT.M V6.0-001 Debian packaging initial commit

This is the initial commit of the Debian packaging for fis-gtm.

The previous SVN repository, which may go away was located at
svn+ssh://svn.debian.org/svn/debian-med/trunk/packages/fis-gtm

Special thanks to for their effort.
Amul Shah
Andreas Tille
Brad King
K.S. Bhaskar
Luis Ibanez
Yaroslav Halchenko

commit 3433598cd22bf6cb0b486bc852729d9faa6c7c39
Author: Amul Shah 
Date:   Fri Feb 15 15:46:06 2013 -0500

Imported Upstream version 6.0-001

---

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[med-svn] r13044 - trunk/packages/mobyle/mobyle-tutorials/tags

[Olivier Sallou]

Author: osallou
Date: 2013-02-18 15:07:24 + (Mon, 18 Feb 2013)
New Revision: 13044

Added:
   trunk/packages/mobyle/mobyle-tutorials/tags/1.5.0-1/
Log:
[svn-buildpackage] Tagging mobyle-tutorials 1.5.0-1


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[med-svn] r13043 - trunk/packages/mobyle/mobyle/trunk/debian

[Olivier Sallou]

Author: osallou
Date: 2013-02-18 15:05:29 + (Mon, 18 Feb 2013)
New Revision: 13043

Modified:
   trunk/packages/mobyle/mobyle/trunk/debian/README.source
   trunk/packages/mobyle/mobyle/trunk/debian/control
   trunk/packages/mobyle/mobyle/trunk/debian/mobyle.dirs
   trunk/packages/mobyle/mobyle/trunk/debian/mobyle.links
   trunk/packages/mobyle/mobyle/trunk/debian/rules
Log:
add mobyle-tutorial package related stuff

Modified: trunk/packages/mobyle/mobyle/trunk/debian/README.source
===
--- trunk/packages/mobyle/mobyle/trunk/debian/README.source 2013-02-18 
15:02:48 UTC (rev 13042)
+++ trunk/packages/mobyle/mobyle/trunk/debian/README.source 2013-02-18 
15:05:29 UTC (rev 13043)
@@ -9,6 +9,7 @@
 I: mobyle: package-contains-empty-directory 
usr/share/mobyle/core/Local/Services/Programs/
 I: mobyle: package-contains-empty-directory 
usr/share/mobyle/core/Local/Services/Viewers/
 I: mobyle: package-contains-empty-directory 
usr/share/mobyle/core/Local/Services/Workflows/
+I: mobyle: package-contains-empty-directory 
usr/share/mobyle/core/Local/Services/Tutorials/
 
 mobyle-setid is a small C program used by mobyle internally which explains it 
is not have a
  nice description nor man page.

Modified: trunk/packages/mobyle/mobyle/trunk/debian/control
===
--- trunk/packages/mobyle/mobyle/trunk/debian/control   2013-02-18 15:02:48 UTC 
(rev 13042)
+++ trunk/packages/mobyle/mobyle/trunk/debian/control   2013-02-18 15:05:29 UTC 
(rev 13043)
@@ -18,7 +18,7 @@
  python-simplejson (>= 1.7.1), python-imaging (>= 1.1.5),
  python-lxml (>= 2.2.4), squizz (>=0.99b+dfsg), libjs-scriptaculous, 
libjs-jquery, libjs-prototype, mobyle-utils, jing, ttf-bitstream-vera
 Suggests: python-openid (>= 2.2.4), python-dnspython (>= 1.5.0)
-Recommends: mobyle-programs (>= 5.1)
+Recommends: mobyle-programs (>= 5.1), mobyle-tutorials
 Description: Web portal that provides web forms for command-line software
  Mobyle is a framework and web portal specifically aimed at the integration of 
  bioinformatics software and databanks. It generates a web interface from an 
xml

Modified: trunk/packages/mobyle/mobyle/trunk/debian/mobyle.dirs
===
--- trunk/packages/mobyle/mobyle/trunk/debian/mobyle.dirs   2013-02-18 
15:02:48 UTC (rev 13042)
+++ trunk/packages/mobyle/mobyle/trunk/debian/mobyle.dirs   2013-02-18 
15:05:29 UTC (rev 13043)
@@ -2,6 +2,7 @@
 var/lib/mobyle/programs
 var/lib/mobyle/viewers
 var/lib/mobyle/workflows
+var/lib/mobyle/tutorials
 var/log/mobyle
 usr/share/doc/mobyle
 etc/mobyle

Modified: trunk/packages/mobyle/mobyle/trunk/debian/mobyle.links
===
--- trunk/packages/mobyle/mobyle/trunk/debian/mobyle.links  2013-02-18 
15:02:48 UTC (rev 13042)
+++ trunk/packages/mobyle/mobyle/trunk/debian/mobyle.links  2013-02-18 
15:05:29 UTC (rev 13043)
@@ -16,3 +16,4 @@
 var/lib/mobyle/programs usr/share/mobyle/core/Services/Programs
 var/lib/mobyle/viewers usr/share/mobyle/core/Services/Viewers
 var/lib/mobyle/workflows usr/share/mobyle/core/Services/Workflows
+var/lib/mobyle/tutorials usr/share/mobyle/core/Services/Tutorials

Modified: trunk/packages/mobyle/mobyle/trunk/debian/rules
===
--- trunk/packages/mobyle/mobyle/trunk/debian/rules 2013-02-18 15:02:48 UTC 
(rev 13042)
+++ trunk/packages/mobyle/mobyle/trunk/debian/rules 2013-02-18 15:05:29 UTC 
(rev 13043)
@@ -39,6 +39,7 @@
rm -rf debian/mobyle/usr/share/mobyle/core/Services/Programs
rm -rf debian/mobyle/usr/share/mobyle/core/Services/Viewers
rm -rf debian/mobyle/usr/share/mobyle/core/Services/Workflows
+   rm -rf debian/mobyle/usr/share/mobyle/core/Services/Tutorials
cp 
debian/mobyle/usr/share/mobyle/core/Example/Local/Config/Config.template.py  
debian/mobyle/etc/mobyle/Config.py
cp 
debian/mobyle/usr/share/mobyle/core/Example/Local/CustomClasses/__init__.py 
debian/mobyle/etc/mobyle/CustomClasses/__init__.py
cp debian/mobyle.apache2 debian/mobyle/etc/apache2/conf.d/mobyle


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[med-svn] r13042 - in trunk/packages/mobyle/mobyle-tutorials/trunk: . debian debian/source

[Olivier Sallou]

Author: osallou
Date: 2013-02-18 15:02:48 + (Mon, 18 Feb 2013)
New Revision: 13042

Added:
   trunk/packages/mobyle/mobyle-tutorials/trunk/debian/
   trunk/packages/mobyle/mobyle-tutorials/trunk/debian/README.Debian
   trunk/packages/mobyle/mobyle-tutorials/trunk/debian/changelog
   trunk/packages/mobyle/mobyle-tutorials/trunk/debian/compat
   trunk/packages/mobyle/mobyle-tutorials/trunk/debian/control
   trunk/packages/mobyle/mobyle-tutorials/trunk/debian/copyright
   trunk/packages/mobyle/mobyle-tutorials/trunk/debian/get-orig-source
   trunk/packages/mobyle/mobyle-tutorials/trunk/debian/links
   trunk/packages/mobyle/mobyle-tutorials/trunk/debian/mobyle-tutorials.install
   trunk/packages/mobyle/mobyle-tutorials/trunk/debian/rules
   trunk/packages/mobyle/mobyle-tutorials/trunk/debian/source/
   trunk/packages/mobyle/mobyle-tutorials/trunk/debian/source/format
   trunk/packages/mobyle/mobyle-tutorials/trunk/debian/watch
Log:
[svn-inject] Applying Debian modifications (1.5.0-1) to trunk


Property changes on: trunk/packages/mobyle/mobyle-tutorials/trunk/debian
___
Added: mergeWithUpstream
   + 1

Added: trunk/packages/mobyle/mobyle-tutorials/trunk/debian/README.Debian
===
--- trunk/packages/mobyle/mobyle-tutorials/trunk/debian/README.Debian   
(rev 0)
+++ trunk/packages/mobyle/mobyle-tutorials/trunk/debian/README.Debian   
2013-02-18 15:02:48 UTC (rev 13042)
@@ -0,0 +1,2 @@
+By default, tutorials are not deployed.
+User should deploy one or all tutorials to make it visible on the portal.

Added: trunk/packages/mobyle/mobyle-tutorials/trunk/debian/changelog
===
--- trunk/packages/mobyle/mobyle-tutorials/trunk/debian/changelog   
(rev 0)
+++ trunk/packages/mobyle/mobyle-tutorials/trunk/debian/changelog   
2013-02-18 15:02:48 UTC (rev 13042)
@@ -0,0 +1,6 @@
+mobyle-tutorials (1.5.0-1) unstable; urgency=low
+
+  * First release (Closes: #700859)
+
+ -- Olivier Sallou   Mon, 18 Feb 2013 12:28:22 +0100
+

Added: trunk/packages/mobyle/mobyle-tutorials/trunk/debian/compat
===
--- trunk/packages/mobyle/mobyle-tutorials/trunk/debian/compat  
(rev 0)
+++ trunk/packages/mobyle/mobyle-tutorials/trunk/debian/compat  2013-02-18 
15:02:48 UTC (rev 13042)
@@ -0,0 +1 @@
+8

Added: trunk/packages/mobyle/mobyle-tutorials/trunk/debian/control
===
--- trunk/packages/mobyle/mobyle-tutorials/trunk/debian/control 
(rev 0)
+++ trunk/packages/mobyle/mobyle-tutorials/trunk/debian/control 2013-02-18 
15:02:48 UTC (rev 13042)
@@ -0,0 +1,19 @@
+Source: mobyle-tutorials
+Section: science
+Priority: optional
+Uploaders: Olivier Sallou 
+Maintainer: Debian Med Packaging Team 

+DM-Upload-Allowed: yes
+Build-Depends: debhelper (>= 8)
+Standards-Version: 3.9.4
+Homepage: https://projets.pasteur.fr/projects/show/mobyle
+Vcs-Browser: 
http://svn.debian.org/wsvn/debian-med/trunk/packages/mobyle/mobyle-tutorials/trunk/
+Vcs-Svn: 
svn://svn.debian.org/debian-med/trunk/packages/mobyle/mobyle-tutorials/trunk/
+
+
+Package: mobyle-tutorials
+Architecture: all
+Depends: ${misc:Depends}, mobyle (>= 1.5+dfsg)
+Description: program tutorials for the mobyle portal
+ Set of tutorials for the mobyle framework. 
+ Those tutorials can be deployed to be used on the portal. 

Added: trunk/packages/mobyle/mobyle-tutorials/trunk/debian/copyright
===
--- trunk/packages/mobyle/mobyle-tutorials/trunk/debian/copyright   
(rev 0)
+++ trunk/packages/mobyle/mobyle-tutorials/trunk/debian/copyright   
2013-02-18 15:02:48 UTC (rev 13042)
@@ -0,0 +1,36 @@
+Format: http://anonscm.debian.org/viewvc/dep/web/deps/dep5.mdwn?revision=174
+Upstream-Name: mobyle
+Source: ftp://ftp.pasteur.fr/pub/gensoft/projects/mobyle/Tutorials-*.tgz
+
+Files: *
+Copyright: 2011 Herve Menager 
+   2011 Bertrand Néron  
+   2011 Nicolas Joly
+   2011 Corinne Maufrais
+   2011 Sandrine Larroudé   
+   2011 Pierre Tufféry  
+   2011 Catherine Letondal  
+License: LGPL-2+
+
+Files: debian/*
+Copyright: 2011 Olivier Sallou 
+License: LGPL-2+
+
+License: LGPL-2+
+ This library is free software; you can redistribute it and/or
+ modify it under the terms of the GNU Library General Public
+ License as published by the Free Software Foundation; either
+ version 2 of the License, or (at your option) any later version.
+ .
+ This library is distributed in the hope that it will be useful,
+ but WITHOUT ANY WARRANTY; without even the implied warranty of
+ MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPO

[med-svn] r13040 - in trunk/packages/mobyle: . mobyle-tutorials

[Olivier Sallou]

Author: osallou
Date: 2013-02-18 15:02:34 + (Mon, 18 Feb 2013)
New Revision: 13040

Added:
   trunk/packages/mobyle/mobyle-tutorials/
   trunk/packages/mobyle/mobyle-tutorials/tags/
Log:
[svn-inject] Creating mobyle-tutorials/tags/ directory.


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[med-svn] r13041 - trunk/packages/mobyle/mobyle-tutorials

[Olivier Sallou]

Author: osallou
Date: 2013-02-18 15:02:36 + (Mon, 18 Feb 2013)
New Revision: 13041

Added:
   trunk/packages/mobyle/mobyle-tutorials/trunk/
Log:
Creating trunk directory


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[med-svn] r13036 - trunk/packages/mobyle/mobyle-programs/trunk/debian

[Olivier Sallou]

Author: osallou
Date: 2013-02-18 11:30:59 + (Mon, 18 Feb 2013)
New Revision: 13036

Modified:
   trunk/packages/mobyle/mobyle-programs/trunk/debian/changelog
Log:
new upstream release

Modified: trunk/packages/mobyle/mobyle-programs/trunk/debian/changelog
===
--- trunk/packages/mobyle/mobyle-programs/trunk/debian/changelog
2013-02-18 11:13:14 UTC (rev 13035)
+++ trunk/packages/mobyle/mobyle-programs/trunk/debian/changelog
2013-02-18 11:30:59 UTC (rev 13036)
@@ -1,3 +1,9 @@
+mobyle-programs (5.1-1) UNRELEASED; urgency=low
+
+  * New upstream releasewq
+
+ -- Olivier Sallou   Mon, 18 Feb 2013 12:28:22 +0100
+
 mobyle-programs (4.0-2) unstable; urgency=low
 
   * Remove deploy at install (Closes: #668753).


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[med-svn] r13037 - trunk/packages/mobyle/mobyle-programs/trunk/debian

[Olivier Sallou]

Author: osallou
Date: 2013-02-18 11:33:40 + (Mon, 18 Feb 2013)
New Revision: 13037

Modified:
   trunk/packages/mobyle/mobyle-programs/trunk/debian/changelog
   trunk/packages/mobyle/mobyle-programs/trunk/debian/control
Log:
set for upload

Modified: trunk/packages/mobyle/mobyle-programs/trunk/debian/changelog
===
--- trunk/packages/mobyle/mobyle-programs/trunk/debian/changelog
2013-02-18 11:30:59 UTC (rev 13036)
+++ trunk/packages/mobyle/mobyle-programs/trunk/debian/changelog
2013-02-18 11:33:40 UTC (rev 13037)
@@ -1,6 +1,6 @@
-mobyle-programs (5.1-1) UNRELEASED; urgency=low
+mobyle-programs (5.1-1) unstable; urgency=low
 
-  * New upstream releasewq
+  * New upstream release
 
  -- Olivier Sallou   Mon, 18 Feb 2013 12:28:22 +0100
 

Modified: trunk/packages/mobyle/mobyle-programs/trunk/debian/control
===
--- trunk/packages/mobyle/mobyle-programs/trunk/debian/control  2013-02-18 
11:30:59 UTC (rev 13036)
+++ trunk/packages/mobyle/mobyle-programs/trunk/debian/control  2013-02-18 
11:33:40 UTC (rev 13037)
@@ -1,11 +1,11 @@
 Source: mobyle-programs
 Section: science
 Priority: optional
-Uploaders: Olivier Sallou 
+Uploaders: Olivier Sallou 
 Maintainer: Debian Med Packaging Team 

 DM-Upload-Allowed: yes
 Build-Depends: debhelper (>= 8)
-Standards-Version: 3.9.2
+Standards-Version: 3.9.4
 Homepage: https://projets.pasteur.fr/projects/show/mobyle
 Vcs-Browser: 
http://svn.debian.org/wsvn/debian-med/trunk/packages/mobyle/mobyle-programs/trunk/
 Vcs-Svn: 
svn://svn.debian.org/debian-med/trunk/packages/mobyle/mobyle-programs/trunk/
@@ -13,7 +13,7 @@
 
 Package: mobyle-programs
 Architecture: all
-Depends: ${misc:Depends}, mobyle (>= 1.0.6~dfsg)
+Depends: ${misc:Depends}, mobyle (>= 1.5+dfsg)
 Breaks: mobyle-programs (<< 4.0-1)
 Recommends: emboss
 Description: Program descriptions for the mobyle portal


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[med-svn] r13038 - trunk/packages/mobyle/mobyle/trunk/debian

[Olivier Sallou]

Author: osallou
Date: 2013-02-18 11:39:05 + (Mon, 18 Feb 2013)
New Revision: 13038

Modified:
   trunk/packages/mobyle/mobyle/trunk/debian/changelog
Log:
fix upstream release

Modified: trunk/packages/mobyle/mobyle/trunk/debian/changelog
===
--- trunk/packages/mobyle/mobyle/trunk/debian/changelog 2013-02-18 11:33:40 UTC 
(rev 13037)
+++ trunk/packages/mobyle/mobyle/trunk/debian/changelog 2013-02-18 11:39:05 UTC 
(rev 13038)
@@ -1,4 +1,4 @@
-mobyle (1.5+dfsg-2) UNRELEASED; urgency=low
+mobyle (1.5.0+dfsg-1) UNRELEASED; urgency=low
 
   * New upstream release
 


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[med-svn] r13039 - trunk/packages/mobyle/mobyle/trunk/debian

[Olivier Sallou]

Author: osallou
Date: 2013-02-18 11:41:53 + (Mon, 18 Feb 2013)
New Revision: 13039

Modified:
   trunk/packages/mobyle/mobyle/trunk/debian/changelog
   trunk/packages/mobyle/mobyle/trunk/debian/compat
Log:
set for uplaod, increase compat

Modified: trunk/packages/mobyle/mobyle/trunk/debian/changelog
===
--- trunk/packages/mobyle/mobyle/trunk/debian/changelog 2013-02-18 11:39:05 UTC 
(rev 13038)
+++ trunk/packages/mobyle/mobyle/trunk/debian/changelog 2013-02-18 11:41:53 UTC 
(rev 13039)
@@ -1,4 +1,4 @@
-mobyle (1.5.0+dfsg-1) UNRELEASED; urgency=low
+mobyle (1.5.0+dfsg-1) unstable; urgency=low
 
   * New upstream release
 

Modified: trunk/packages/mobyle/mobyle/trunk/debian/compat
===
--- trunk/packages/mobyle/mobyle/trunk/debian/compat2013-02-18 11:39:05 UTC 
(rev 13038)
+++ trunk/packages/mobyle/mobyle/trunk/debian/compat2013-02-18 11:41:53 UTC 
(rev 13039)
@@ -1 +1 @@
-8
+9


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[med-svn] r13035 - trunk/packages/mobyle/mobyle/trunk/debian

[Olivier Sallou]

Author: osallou
Date: 2013-02-18 11:13:14 + (Mon, 18 Feb 2013)
New Revision: 13035

Modified:
   trunk/packages/mobyle/mobyle/trunk/debian/changelog
Log:
prepare next release

Modified: trunk/packages/mobyle/mobyle/trunk/debian/changelog
===
--- trunk/packages/mobyle/mobyle/trunk/debian/changelog 2013-02-18 11:12:22 UTC 
(rev 13034)
+++ trunk/packages/mobyle/mobyle/trunk/debian/changelog 2013-02-18 11:13:14 UTC 
(rev 13035)
@@ -1,8 +1,8 @@
-mobyle (1.5+dfsg-1) UNRELEASED; urgency=low
+mobyle (1.5+dfsg-2) UNRELEASED; urgency=low
 
   * New upstream release
 
- -- Olivier Sallou   Tue, 04 Sep 2012 13:38:32 +0200
+ -- Olivier Sallou   Mon, 18 Feb 2013 12:11:44 +0100
 
 mobyle (1.0.7+dfsg-1) unstable; urgency=low
 


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[med-svn] r13034 - trunk/packages/mobyle/mobyle/tags

[Olivier Sallou]

Author: osallou
Date: 2013-02-18 11:12:22 + (Mon, 18 Feb 2013)
New Revision: 13034

Removed:
   trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/
Log:
Remove wrong commit



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[med-svn] r13033 - in trunk/packages/mobyle/mobyle/tags: . 1.5+dfsg-1/debian 1.5+dfsg-1/debian/patches

[Olivier Sallou]

Author: osallou
Date: 2013-02-18 11:11:42 + (Mon, 18 Feb 2013)
New Revision: 13033

Added:
   trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/
   trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/changelog
   trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/control
   trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/patches/change_mobylehome
   trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/patches/defaultconfig
Removed:
   trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/changelog
   trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/control
   trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/patches/change_mobylehome
   trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/patches/defaultconfig
Log:
[svn-buildpackage] Tagging mobyle 1.5+dfsg-1

Deleted: trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/changelog
===
--- trunk/packages/mobyle/mobyle/trunk/debian/changelog 2013-02-18 10:48:51 UTC 
(rev 13031)
+++ trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/changelog   
2013-02-18 11:11:42 UTC (rev 13033)
@@ -1,77 +0,0 @@
-mobyle (1.0.7+dfsg-1) unstable; urgency=low
-
-  [ Olivier Sallou ]
-  * New upstream release 
-  * debian/get-orig-source: Normalised versioning (~dfsg -> +dfsg)
-
-  [ Andreas Tille ]
-  * debian/copyright:
- - DEP5
- - Add Files-Excluded to document what was removed from original source
-  * debian/watch: Normalised versioning (~dfsg -> +dfsg)
-
- -- Olivier Sallou   Tue, 04 Sep 2012 13:27:00 +0200
-
-mobyle (1.0.6~dfsg-1) unstable; urgency=low
-
-  * New upstream release 
-
- -- Olivier Sallou   Mon, 25 Jun 2012 15:55:39 +0200
-
-mobyle (1.0.5~dfsg-2) unstable; urgency=low
-
-  * Add postrm for clean purge.
-
- -- Olivier Sallou   Sun, 03 Jun 2012 13:36:48 +0200
-
-mobyle (1.0.5~dfsg-1) unstable; urgency=low
-
-   * New upstream release
-   * debian/patches/defaultconfig: add phylip binary path
-   * debian/control: remove some recommends
-   [ Andreas Tille ]
-   * debian/upstream: Added citations
-
- -- Olivier Sallou   Tue, 22 May 2012 17:53:24 +0200
-
-mobyle (1.0.4~dfsg-3) unstable; urgency=low
-
-  * Use invoke-rc.d instead of service command to restart
-apache as per Debian policy (Closes: #656078)
-  * Remove zx compression
-  * Add doc-base
-
- -- Olivier Sallou   Mon, 16 Jan 2012 11:43:31 +0100
-
-mobyle (1.0.4~dfsg-2) unstable; urgency=low
-
-  * Add missing dep on python-pygraphviz for workflows
-
- -- Olivier Sallou   Tue, 13 Dec 2011 13:48:42 +0100
-
-mobyle (1.0.4~dfsg-1) unstable; urgency=low
-
-  * New upstream version.
-  - Possible break in previous xml program description,
-see README.Debian file for more info 
-
- -- Olivier Sallou   Wed, 07 Dec 2011 17:20:09 +0100
-
-mobyle (1.0.3~dfsg-1) unstable; urgency=low
-
-  * New upstream release (bug fixes)
-
- -- Olivier Sallou   Wed, 02 Nov 2011 12:08:19 +0100
-
-mobyle (1.0.2~dfsg-2) unstable; urgency=low
-
-  * debian/rules :  Thanks to A. Ucko 
-  - fix issue when building arch depandant only package (Closes: #644277)
-
- -- Olivier Sallou   Wed, 05 Oct 2011 13:35:00 +0900
-
-mobyle (1.0.2~dfsg-1) unstable; urgency=low
-
-  * Initial release (Closes: #637230)  
-
- -- Olivier Sallou   Mon, 03 Oct 2011 12:56:44 +0900

Copied: trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/changelog (from rev 
13032, trunk/packages/mobyle/mobyle/trunk/debian/changelog)
===
--- trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/changelog   
(rev 0)
+++ trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/changelog   
2013-02-18 11:11:42 UTC (rev 13033)
@@ -0,0 +1,83 @@
+mobyle (1.5+dfsg-1) UNRELEASED; urgency=low
+
+  * New upstream release
+
+ -- Olivier Sallou   Tue, 04 Sep 2012 13:38:32 +0200
+
+mobyle (1.0.7+dfsg-1) unstable; urgency=low
+
+  [ Olivier Sallou ]
+  * New upstream release 
+  * debian/get-orig-source: Normalised versioning (~dfsg -> +dfsg)
+
+  [ Andreas Tille ]
+  * debian/copyright:
+ - DEP5
+ - Add Files-Excluded to document what was removed from original source
+  * debian/watch: Normalised versioning (~dfsg -> +dfsg)
+
+ -- Olivier Sallou   Tue, 04 Sep 2012 13:27:00 +0200
+
+mobyle (1.0.6~dfsg-1) unstable; urgency=low
+
+  * New upstream release 
+
+ -- Olivier Sallou   Mon, 25 Jun 2012 15:55:39 +0200
+
+mobyle (1.0.5~dfsg-2) unstable; urgency=low
+
+  * Add postrm for clean purge.
+
+ -- Olivier Sallou   Sun, 03 Jun 2012 13:36:48 +0200
+
+mobyle (1.0.5~dfsg-1) unstable; urgency=low
+
+   * New upstream release
+   * debian/patches/defaultconfig: add phylip binary path
+   * debian/control: remove some recommends
+   [ Andreas Tille ]
+   * debian/upstream: Added citations
+
+ -- Olivier Sallou   Tue, 22 May 2012 17:53:24 +0200
+
+mobyle (1.0.4~dfsg-3) unstable; urgency=low
+
+  * Use invoke-rc.d instead of service command to restart
+apache as per Debian policy (Closes: #656078)
+  * Remov

[med-svn] r13032 - in trunk/packages/mobyle/mobyle/trunk/debian: . patches

[Olivier Sallou]

Author: osallou
Date: 2013-02-18 11:10:10 + (Mon, 18 Feb 2013)
New Revision: 13032

Modified:
   trunk/packages/mobyle/mobyle/trunk/debian/changelog
   trunk/packages/mobyle/mobyle/trunk/debian/control
   trunk/packages/mobyle/mobyle/trunk/debian/patches/change_mobylehome
   trunk/packages/mobyle/mobyle/trunk/debian/patches/defaultconfig
Log:
update for new upstream release

Modified: trunk/packages/mobyle/mobyle/trunk/debian/changelog
===
--- trunk/packages/mobyle/mobyle/trunk/debian/changelog 2013-02-18 10:48:51 UTC 
(rev 13031)
+++ trunk/packages/mobyle/mobyle/trunk/debian/changelog 2013-02-18 11:10:10 UTC 
(rev 13032)
@@ -1,3 +1,9 @@
+mobyle (1.5+dfsg-1) UNRELEASED; urgency=low
+
+  * New upstream release
+
+ -- Olivier Sallou   Tue, 04 Sep 2012 13:38:32 +0200
+
 mobyle (1.0.7+dfsg-1) unstable; urgency=low
 
   [ Olivier Sallou ]

Modified: trunk/packages/mobyle/mobyle/trunk/debian/control
===
--- trunk/packages/mobyle/mobyle/trunk/debian/control   2013-02-18 10:48:51 UTC 
(rev 13031)
+++ trunk/packages/mobyle/mobyle/trunk/debian/control   2013-02-18 11:10:10 UTC 
(rev 13032)
@@ -5,7 +5,7 @@
 DM-Upload-Allowed: yes
 Uploaders: Olivier Sallou 
 Build-Depends: debhelper (>= 8.9.7), python (>= 2.5), python-simpletal 
(>=4.1), python-simplejson (>= 1.7.1), python-imaging (>= 1.1.5), python-lxml 
(>= 2.2.4)
-Standards-Version: 3.9.3
+Standards-Version: 3.9.4
 Homepage: https://projets.pasteur.fr/projects/show/mobyle
 Vcs-Browser: 
http://svn.debian.org/wsvn/debian-med/trunk/packages/mobyle/mobyle/trunk/
 Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/mobyle/mobyle/trunk/
@@ -16,10 +16,9 @@
 # see INSTALL
  python-simpletal (<< 5.0~), python-support (>= 0.90), python-pygraphviz,
  python-simplejson (>= 1.7.1), python-imaging (>= 1.1.5),
- python-lxml (>= 2.2.4), squizz, libjs-scriptaculous, libjs-jquery, 
libjs-prototype, mobyle-utils, jing, ttf-bitstream-vera
+ python-lxml (>= 2.2.4), squizz (>=0.99b+dfsg), libjs-scriptaculous, 
libjs-jquery, libjs-prototype, mobyle-utils, jing, ttf-bitstream-vera
 Suggests: python-openid (>= 2.2.4), python-dnspython (>= 1.5.0)
-Recommends: mobyle-programs (>= 4.0)
-Breaks: mobyle-programs (<< 4.0-1)
+Recommends: mobyle-programs (>= 5.1)
 Description: Web portal that provides web forms for command-line software
  Mobyle is a framework and web portal specifically aimed at the integration of 
  bioinformatics software and databanks. It generates a web interface from an 
xml

Modified: trunk/packages/mobyle/mobyle/trunk/debian/patches/change_mobylehome
===
--- trunk/packages/mobyle/mobyle/trunk/debian/patches/change_mobylehome 
2013-02-18 10:48:51 UTC (rev 13031)
+++ trunk/packages/mobyle/mobyle/trunk/debian/patches/change_mobylehome 
2013-02-18 11:10:10 UTC (rev 13032)
@@ -3,15 +3,15 @@
 Last-Update: 2011-08-09
 --- a/setup.py
 +++ b/setup.py
-@@ -123,9 +123,9 @@
- l = f.readline()
- if not l: break
- if mob and l == 'MOBYLEHOME = None\n':
--  l = l.replace('None', "'"+mob+"'", 1)
-+  l = l.replace('None', "'debian/mobyle/usr/share/mobyle/core'", 1)
- if htm and l == 'MOBYLEHTDOCS = None\n':
--  l = l.replace('None', "'"+htm+"'", 1)
-+  l = l.replace('None', "'debian/mobyle/usr/share/mobyle/htdocs'", 1)
- g.write(l)
-   g.close()
-   f.close()
+@@ -147,9 +147,9 @@
+ if not l: 
+ break
+ if mob and l == 'MOBYLEHOME = None\n':
+-l = l.replace('None', "'"+mob+"'", 1)
++l = l.replace('None', "'debian/mobyle/usr/share/mobyle/core'", 1)
+ if htm and l == 'MOBYLEHTDOCS = None\n':
+-l = l.replace('None', "'"+htm+"'", 1)
++l = l.replace('None', "'debian/mobyle/usr/share/mobyle/htdocs'", 
1)
+ g.write(l)
+ g.close()
+ f.close()

Modified: trunk/packages/mobyle/mobyle/trunk/debian/patches/defaultconfig
===
--- trunk/packages/mobyle/mobyle/trunk/debian/patches/defaultconfig 
2013-02-18 10:48:51 UTC (rev 13031)
+++ trunk/packages/mobyle/mobyle/trunk/debian/patches/defaultconfig 
2013-02-18 11:10:10 UTC (rev 13032)
@@ -3,10 +3,10 @@
 Last-Update: 2011-08-09
 --- a/Example/Local/Config/Config.template.py
 +++ b/Example/Local/Config/Config.template.py
-@@ -10,13 +10,13 @@
- 
- 
+@@ -12,13 +12,13 @@
  # the root url of mobyle 
+ # warning: do NOT include the port number if it is 80, it is useless
+ # and creates problems on the server
 -ROOT_URL = "http://mydomain.fr:port";
 +ROOT_URL = "http://localhost";
  
@@ -20,7 +20,7 @@
  
  #
  #   #
-@@ -94,8 +94,8 @@
+@@ -96,8 +96,8 @@
  from Mobyle.Converter import *
  
  DATA_CONVERTER={
@@ -31,7 +31,7 @@
  }
  
  
-@@ -150,7 +150,7 @@
+@@ -152,7 +152,7 @@
  ## each element must be a valid path
  ## the element ord

[med-svn] r13030 - trunk/packages/squizz/trunk/debian

[Olivier Sallou]

Author: osallou
Date: 2013-02-18 10:47:54 + (Mon, 18 Feb 2013)
New Revision: 13030

Modified:
   trunk/packages/squizz/trunk/debian/changelog
Log:
upload new release

Modified: trunk/packages/squizz/trunk/debian/changelog
===
--- trunk/packages/squizz/trunk/debian/changelog2013-02-18 10:42:47 UTC 
(rev 13029)
+++ trunk/packages/squizz/trunk/debian/changelog2013-02-18 10:47:54 UTC 
(rev 13030)
@@ -1,4 +1,4 @@
-squizz (0.99b+dfsg-1) UNRELEASED; urgency=low
+squizz (0.99b+dfsg-1) unstable; urgency=low
 
   * New upstream release
   [ Anreas Tille ]


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[med-svn] r13029 - trunk/packages/squizz/trunk/debian

[Olivier Sallou]

Author: osallou
Date: 2013-02-18 10:42:47 + (Mon, 18 Feb 2013)
New Revision: 13029

Modified:
   trunk/packages/squizz/trunk/debian/compat
   trunk/packages/squizz/trunk/debian/control
   trunk/packages/squizz/trunk/debian/libsquizz-dev.install
   trunk/packages/squizz/trunk/debian/libsquizz.install
   trunk/packages/squizz/trunk/debian/libsquizz.symbols
   trunk/packages/squizz/trunk/debian/rules
Log:
update standards and compat, update symbol files

Modified: trunk/packages/squizz/trunk/debian/compat
===
--- trunk/packages/squizz/trunk/debian/compat   2013-02-18 09:47:23 UTC (rev 
13028)
+++ trunk/packages/squizz/trunk/debian/compat   2013-02-18 10:42:47 UTC (rev 
13029)
@@ -1 +1 @@
-8
+9

Modified: trunk/packages/squizz/trunk/debian/control
===
--- trunk/packages/squizz/trunk/debian/control  2013-02-18 09:47:23 UTC (rev 
13028)
+++ trunk/packages/squizz/trunk/debian/control  2013-02-18 10:42:47 UTC (rev 
13029)
@@ -2,14 +2,14 @@
 Section: science
 Priority: optional
 Maintainer: Debian Med Packaging Team 

-Uploaders: Olivier Sallou ,
+Uploaders: Olivier Sallou ,
  Andreas Tille 
 DM-Upload-Allowed: yes
 Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/squizz/trunk/
 Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/squizz/trunk/
 Homepage: ftp://ftp.pasteur.fr/pub/gensoft/projects/squizz/
 Build-Depends: debhelper (>= 8)
-Standards-Version: 3.9.2
+Standards-Version: 3.9.4
 
 Package: squizz
 Architecture: any
@@ -27,7 +27,7 @@
 
 Package: libsquizz
 Architecture: any
-Section:libs
+Section: libs
 Depends: ${shlibs:Depends}, ${misc:Depends}
 Breaks: squizz (<=0.99a)
 Description: Conversion libs used by squizz genetic sequence converter

Modified: trunk/packages/squizz/trunk/debian/libsquizz-dev.install
===
--- trunk/packages/squizz/trunk/debian/libsquizz-dev.install2013-02-18 
09:47:23 UTC (rev 13028)
+++ trunk/packages/squizz/trunk/debian/libsquizz-dev.install2013-02-18 
10:42:47 UTC (rev 13029)
@@ -1,3 +1,3 @@
-debian/tmp/usr/lib/*.a usr/lib
+debian/tmp/usr/lib/*/*.a usr/lib/
 debian/tmp/usr/include/* usr/include
-debian/tmp/usr/lib/*.so  usr/lib/
+debian/tmp/usr/lib/*/*.so  usr/lib/

Modified: trunk/packages/squizz/trunk/debian/libsquizz.install
===
--- trunk/packages/squizz/trunk/debian/libsquizz.install2013-02-18 
09:47:23 UTC (rev 13028)
+++ trunk/packages/squizz/trunk/debian/libsquizz.install2013-02-18 
10:42:47 UTC (rev 13029)
@@ -1 +1 @@
-debian/tmp/usr/lib/lib*.so.*  usr/lib/
+debian/tmp/usr/lib/*/lib*.so.*  usr/lib/

Modified: trunk/packages/squizz/trunk/debian/libsquizz.symbols
===
--- trunk/packages/squizz/trunk/debian/libsquizz.symbols2013-02-18 
09:47:23 UTC (rev 13028)
+++ trunk/packages/squizz/trunk/debian/libsquizz.symbols2013-02-18 
10:42:47 UTC (rev 13029)
@@ -277,44 +277,44 @@
  stocky_check@Base 0.99a
  stocky_parse@Base 0.99a
 libbioseq.so.0 libsquizz #MINVER#
- codata_check@Base 0.99b+dfsg-1
- codata_checksum@Base 0.99b+dfsg-1
- codata_create_buffer@Base 0.99b+dfsg-1
- codata_delete_buffer@Base 0.99b+dfsg-1
- codata_flex_debug@Base 0.99b+dfsg-1
- codata_flush_buffer@Base 0.99b+dfsg-1
- codata_parse@Base 0.99b+dfsg-1
- codata_print@Base 0.99b+dfsg-1
- codata_scan_buffer@Base 0.99b+dfsg-1
- codata_scan_bytes@Base 0.99b+dfsg-1
- codata_scan_string@Base 0.99b+dfsg-1
- codata_switch_to_buffer@Base 0.99b+dfsg-1
- codataalloc@Base 0.99b+dfsg-1
- codatafree@Base 0.99b+dfsg-1
- codataget_debug@Base 0.99b+dfsg-1
- codataget_in@Base 0.99b+dfsg-1
- codataget_leng@Base 0.99b+dfsg-1
- codataget_lineno@Base 0.99b+dfsg-1
- codataget_out@Base 0.99b+dfsg-1
- codataget_text@Base 0.99b+dfsg-1
- codatain@Base 0.99b+dfsg-1
- codataleng@Base 0.99b+dfsg-1
- codatalex@Base 0.99b+dfsg-1
- codatalex_destroy@Base 0.99b+dfsg-1
- codatalineno@Base 0.99b+dfsg-1
- codataout@Base 0.99b+dfsg-1
- codataparse@Base 0.99b+dfsg-1
- codatapop_buffer_state@Base 0.99b+dfsg-1
- codatapush_buffer_state@Base 0.99b+dfsg-1
- codatarealloc@Base 0.99b+dfsg-1
- codatarestart@Base 0.99b+dfsg-1
- codataset_debug@Base 0.99b+dfsg-1
- codataset_in@Base 0.99b+dfsg-1
- codataset_lineno@Base 0.99b+dfsg-1
- codataset_out@Base 0.99b+dfsg-1
- codatatext@Base 0.99b+dfsg-1
- codatay_check@Base 0.99b+dfsg-1
- codatay_parse@Base 0.99b+dfsg-1
+ codata_check@Base 0.99b+dfsg
+ codata_checksum@Base 0.99b+dfsg
+ codata_create_buffer@Base 0.99b+dfsg
+ codata_delete_buffer@Base 0.99b+dfsg
+ codata_flex_debug@Base 0.99b+dfsg
+ codata_flush_buffer@Base 0.99b+dfsg
+ codata_parse@Base 0.99b+dfsg
+ codata_print@Base 0.99b+dfsg
+ codata_scan_buffer@Base 0.99b+dfsg
+ codata_scan_bytes@Base 0.99b+dfsg
+ codata_scan_string@Base 0.99b+dfsg
+ codata_switch_to_buffer@Base 0.99b+dfs

[med-svn] [Debian Wiki] Update of "DebianMed/Meeting/Kiel2013" by AndreasTille

[Debian Wiki]

Dear Wiki user,

You have subscribed to a wiki page or wiki category on "Debian Wiki" for change 
notification.

The "DebianMed/Meeting/Kiel2013" page has been changed by AndreasTille:
https://wiki.debian.org/DebianMed/Meeting/Kiel2013?action=diff&rev1=71&rev2=72

Comment:
I was asked of a photo of the Debian Med team - whatever this means, but we can 
at least try ...

 * Suggestion: freecontact - a free, 
[[http://rostlab.org/~lkajan/freecontact.pdf|fast]] protein contact predictor 
that implements (the contact predictor of) [[http://evfold.org/|EVfold]] and 
[[http://www.ncbi.nlm.nih.gov/pubmed/22101153|PSICOV]]: L. Kajan
 * [[http://search.cpan.org/dist/Genome-Model-Tools-Music/|Genome Music]]: 
O. Sallou
 * [[http://genometools.org|gt Ruby bindings]], rmblast, maybe 
RepeatMasker: S. Steinbiss
+ * Group photo
  
  == Reports ==
  

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[med-svn] r13028 - trunk/packages/squizz/trunk/debian

[Olivier Sallou]

Author: osallou
Date: 2013-02-18 09:47:23 + (Mon, 18 Feb 2013)
New Revision: 13028

Modified:
   trunk/packages/squizz/trunk/debian/changelog
Log:
fix uploader

Modified: trunk/packages/squizz/trunk/debian/changelog
===
--- trunk/packages/squizz/trunk/debian/changelog2013-02-18 09:43:54 UTC 
(rev 13027)
+++ trunk/packages/squizz/trunk/debian/changelog2013-02-18 09:47:23 UTC 
(rev 13028)
@@ -1,12 +1,13 @@
 squizz (0.99b+dfsg-1) UNRELEASED; urgency=low
 
   * New upstream release
+  [ Anreas Tille ]
   * debian/copyright:
  - DEP5
  - Add Files-Excluded to document what was removed from original source
   * debian/watch: handle +dfsg suffix
 
- -- Andreas Tille   Tue, 04 Sep 2012 11:55:27 +0200
+ -- Olivier Sallou   Mon, 18 Feb 2013 11:55:27 +0200
 
 squizz (0.99a-2) unstable; urgency=low
 


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[med-svn] r13027 - trunk/packages/squizz/trunk/debian

[Olivier Sallou]

Author: osallou
Date: 2013-02-18 09:43:54 + (Mon, 18 Feb 2013)
New Revision: 13027

Modified:
   trunk/packages/squizz/trunk/debian/get-orig-source
Log:
use dfsg naming

Modified: trunk/packages/squizz/trunk/debian/get-orig-source
===
--- trunk/packages/squizz/trunk/debian/get-orig-source  2013-02-18 09:41:04 UTC 
(rev 13026)
+++ trunk/packages/squizz/trunk/debian/get-orig-source  2013-02-18 09:43:54 UTC 
(rev 13027)
@@ -16,13 +16,13 @@
 mv ../${UTAR} .
 tar -xzf ${UTAR}
 
-mv $PKG-${VERSION} $PKG-${VERSION}.orig # Requested by Developers Reference 
3.4.4 §6.7.8.2
+mv $PKG-${VERSION} $PKG-${VERSION}+dfsg.orig # Requested by Developers 
Reference 3.4.4 §6.7.8.2
 
-cd $PKG-${VERSION}.orig
+cd $PKG-${VERSION}+dfsg.orig
 rm -f test/sequence/sprot.seq
 cd ..
 
 rm $UTAR
 
-GZIP="--best --no-name" tar -czf "$PKG"_"$VERSION".orig.tar.gz 
"${PKG}-${VERSION}.orig"
-rm -rf "${PKG}-${VERSION}.orig"
+GZIP="--best --no-name" tar -czf "$PKG"_"$VERSION"+dfsg.orig.tar.gz 
"${PKG}-${VERSION}+dfsg.orig"
+rm -rf "${PKG}-${VERSION}+dfsg.orig"


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[med-svn] r13026 - in trunk/packages/squizz/trunk/debian: . patches

[Olivier Sallou]

Author: osallou
Date: 2013-02-18 09:41:04 + (Mon, 18 Feb 2013)
New Revision: 13026

Modified:
   trunk/packages/squizz/trunk/debian/changelog
   trunk/packages/squizz/trunk/debian/control
   trunk/packages/squizz/trunk/debian/get-orig-source
   trunk/packages/squizz/trunk/debian/libsquizz.symbols
   trunk/packages/squizz/trunk/debian/patches/correct-manpages-section.patch
   trunk/packages/squizz/trunk/debian/patches/disable-swissprot-test.patch
Log:
new upstream release 0.99b

Modified: trunk/packages/squizz/trunk/debian/changelog
===
--- trunk/packages/squizz/trunk/debian/changelog2013-02-17 17:53:13 UTC 
(rev 13025)
+++ trunk/packages/squizz/trunk/debian/changelog2013-02-18 09:41:04 UTC 
(rev 13026)
@@ -1,5 +1,6 @@
-squizz (0.99a+dfsg-1) UNRELEASED; urgency=low
+squizz (0.99b+dfsg-1) UNRELEASED; urgency=low
 
+  * New upstream release
   * debian/copyright:
  - DEP5
  - Add Files-Excluded to document what was removed from original source

Modified: trunk/packages/squizz/trunk/debian/control
===
--- trunk/packages/squizz/trunk/debian/control  2013-02-17 17:53:13 UTC (rev 
13025)
+++ trunk/packages/squizz/trunk/debian/control  2013-02-18 09:41:04 UTC (rev 
13026)
@@ -15,6 +15,7 @@
 Architecture: any
 Section: science
 Depends: ${shlibs:Depends}, ${misc:Depends}
+Breaks: squizz (<=0.99a)
 Description: Converter for genetic sequences and alignments
  Squizz is a sequence/alignment format checker, but it has some
  conversion capabilities too.
@@ -28,6 +29,7 @@
 Architecture: any
 Section:libs
 Depends: ${shlibs:Depends}, ${misc:Depends}
+Breaks: squizz (<=0.99a)
 Description: Conversion libs used by squizz genetic sequence converter
  Squizz is a sequence/alignment format checker, but it has some
  conversion capabilities too.
@@ -43,6 +45,7 @@
 Section: libdevel
 Architecture: any
 Depends: ${shlibs:Depends}, ${misc:Depends}
+Breaks: squizz (<=0.99a)
 Description: development tools for squizz genetic sequence converter
  Squizz is a sequence/alignment format checker, but it has some
  conversion capabilities too.

Modified: trunk/packages/squizz/trunk/debian/get-orig-source
===
--- trunk/packages/squizz/trunk/debian/get-orig-source  2013-02-17 17:53:13 UTC 
(rev 13025)
+++ trunk/packages/squizz/trunk/debian/get-orig-source  2013-02-18 09:41:04 UTC 
(rev 13026)
@@ -11,7 +11,8 @@
 mkdir -p ../tarballs
 cd ../tarballs
 
-UTAR="${PKG}_${VERSION}.orig.tar.gz"
+#UTAR="${PKG}_${VERSION}.orig.tar.gz"
+UTAR="${PKG}-${VERSION}.tar.gz"
 mv ../${UTAR} .
 tar -xzf ${UTAR}
 

Modified: trunk/packages/squizz/trunk/debian/libsquizz.symbols
===
--- trunk/packages/squizz/trunk/debian/libsquizz.symbols2013-02-17 
17:53:13 UTC (rev 13025)
+++ trunk/packages/squizz/trunk/debian/libsquizz.symbols2013-02-18 
09:41:04 UTC (rev 13026)
@@ -277,6 +277,44 @@
  stocky_check@Base 0.99a
  stocky_parse@Base 0.99a
 libbioseq.so.0 libsquizz #MINVER#
+ codata_check@Base 0.99b+dfsg-1
+ codata_checksum@Base 0.99b+dfsg-1
+ codata_create_buffer@Base 0.99b+dfsg-1
+ codata_delete_buffer@Base 0.99b+dfsg-1
+ codata_flex_debug@Base 0.99b+dfsg-1
+ codata_flush_buffer@Base 0.99b+dfsg-1
+ codata_parse@Base 0.99b+dfsg-1
+ codata_print@Base 0.99b+dfsg-1
+ codata_scan_buffer@Base 0.99b+dfsg-1
+ codata_scan_bytes@Base 0.99b+dfsg-1
+ codata_scan_string@Base 0.99b+dfsg-1
+ codata_switch_to_buffer@Base 0.99b+dfsg-1
+ codataalloc@Base 0.99b+dfsg-1
+ codatafree@Base 0.99b+dfsg-1
+ codataget_debug@Base 0.99b+dfsg-1
+ codataget_in@Base 0.99b+dfsg-1
+ codataget_leng@Base 0.99b+dfsg-1
+ codataget_lineno@Base 0.99b+dfsg-1
+ codataget_out@Base 0.99b+dfsg-1
+ codataget_text@Base 0.99b+dfsg-1
+ codatain@Base 0.99b+dfsg-1
+ codataleng@Base 0.99b+dfsg-1
+ codatalex@Base 0.99b+dfsg-1
+ codatalex_destroy@Base 0.99b+dfsg-1
+ codatalineno@Base 0.99b+dfsg-1
+ codataout@Base 0.99b+dfsg-1
+ codataparse@Base 0.99b+dfsg-1
+ codatapop_buffer_state@Base 0.99b+dfsg-1
+ codatapush_buffer_state@Base 0.99b+dfsg-1
+ codatarealloc@Base 0.99b+dfsg-1
+ codatarestart@Base 0.99b+dfsg-1
+ codataset_debug@Base 0.99b+dfsg-1
+ codataset_in@Base 0.99b+dfsg-1
+ codataset_lineno@Base 0.99b+dfsg-1
+ codataset_out@Base 0.99b+dfsg-1
+ codatatext@Base 0.99b+dfsg-1
+ codatay_check@Base 0.99b+dfsg-1
+ codatay_parse@Base 0.99b+dfsg-1
  embl_check@Base 0.99a
  embl_create_buffer@Base 0.99a
  embl_delete_buffer@Base 0.99a
@@ -314,8 +352,8 @@
  embltext@Base 0.99a
  embly_check@Base 0.99a
  embly_parse@Base 0.99a
- error_fatal@Base 0.99a
- error_warn@Base 0.99a
+#MISSING: 0.99b+dfsg-1# error_fatal@Base 0.99a
+#MISSING: 0.99b+dfsg-1# error_warn@Base 0.99a
  fasta_check@Base 0.99a
  fasta_create_buffer@Base 0.99a
  fasta_delete_buffer@Base 0.99a
@@ -550,44 +588,44 @@
  parse_nuladd@Base 0.99a
  parse_stradd@Base 0.9