[med-svn] r13646 - trunk/packages/biomaj/trunk/debian

2013-05-19 Thread olivier sallou 
Author: osallou-guest
Date: 2013-05-19 11:33:50 + (Sun, 19 May 2013)
New Revision: 13646

Modified:
   trunk/packages/biomaj/trunk/debian/changelog
Log:
fix typo in changelog

Modified: trunk/packages/biomaj/trunk/debian/changelog
===
--- trunk/packages/biomaj/trunk/debian/changelog2013-05-19 11:32:24 UTC 
(rev 13645)
+++ trunk/packages/biomaj/trunk/debian/changelog2013-05-19 11:33:50 UTC 
(rev 13646)
@@ -1,7 +1,7 @@
 biomaj (1.2.1-2) UNRELEASED; urgency=low
 
   * Add patch to match libjgoodies-form-java  1.3,
-FormFactory replaced by FormSpecs (Closes: 708454)
+FormFactory replaced by FormSpecs (Closes: #708454)
 d/control: Depends on libjgoodies-form-java  1.3
 
  -- Olivier Sallou osal...@debian.org  Sun, 19 May 2013 13:21:55 +0200


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[med-svn] r13647 - trunk/packages/biomaj/trunk/debian

2013-05-19 Thread olivier sallou 
Author: osallou-guest
Date: 2013-05-19 11:42:03 + (Sun, 19 May 2013)
New Revision: 13647

Modified:
   trunk/packages/biomaj/trunk/debian/changelog
Log:
upload 1.2.1-2


Modified: trunk/packages/biomaj/trunk/debian/changelog
===
--- trunk/packages/biomaj/trunk/debian/changelog2013-05-19 11:33:50 UTC 
(rev 13646)
+++ trunk/packages/biomaj/trunk/debian/changelog2013-05-19 11:42:03 UTC 
(rev 13647)
@@ -1,4 +1,4 @@
-biomaj (1.2.1-2) UNRELEASED; urgency=low
+biomaj (1.2.1-2) unstable; urgency=low
 
   * Add patch to match libjgoodies-form-java  1.3,
 FormFactory replaced by FormSpecs (Closes: #708454)


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[med-svn] r13648 - in trunk/packages/biomaj/tags: . 1.2.1-2/debian 1.2.1-2/debian/patches

2013-05-19 Thread olivier sallou 
Author: osallou-guest
Date: 2013-05-19 12:48:57 + (Sun, 19 May 2013)
New Revision: 13648

Added:
   trunk/packages/biomaj/tags/1.2.1-2/
   trunk/packages/biomaj/tags/1.2.1-2/debian/changelog
   trunk/packages/biomaj/tags/1.2.1-2/debian/control
   trunk/packages/biomaj/tags/1.2.1-2/debian/patches/series
   trunk/packages/biomaj/tags/1.2.1-2/debian/patches/useFormSpecs_from_jgoodies
Removed:
   trunk/packages/biomaj/tags/1.2.1-2/debian/changelog
   trunk/packages/biomaj/tags/1.2.1-2/debian/control
   trunk/packages/biomaj/tags/1.2.1-2/debian/patches/series
Log:
[svn-buildpackage] Tagging biomaj 1.2.1-2

Deleted: trunk/packages/biomaj/tags/1.2.1-2/debian/changelog
===
--- trunk/packages/biomaj/trunk/debian/changelog2013-05-18 14:48:35 UTC 
(rev 13644)
+++ trunk/packages/biomaj/tags/1.2.1-2/debian/changelog 2013-05-19 12:48:57 UTC 
(rev 13648)
@@ -1,150 +0,0 @@
-biomaj (1.2.1-1) unstable; urgency=low
-
-  * New usptream release
-  * Add Japanase debconf translation (Closes: #690698)
-Thanks to victory victory@gmail.com
-
- -- Olivier Sallou osal...@debian.org  Fri, 19 Oct 2012 17:04:19 +0200
-
-biomaj (1.2.0-10) unstable; urgency=low
-
-  * debian/rules, debian/postinst: fix permissions on
-properties file.
-
- -- Olivier Sallou osal...@debian.org  Thu, 04 Oct 2012 18:34:01 +0200
-
-biomaj (1.2.0-9) unstable; urgency=low
-
-  * debian/patches/set_env_file_for_debian:
-Prevent env.sh file update by program at install
-(Closes: #688433)
-
- -- Olivier Sallou osal...@debian.org  Wed, 03 Oct 2012 13:54:44 +0200
-
-biomaj (1.2.0-8) unstable; urgency=low
-
-  [ Olivier Sallou ]
-  * debian/copyright: Fix copyright URL
-  * debian/control: Switch to Standards 3.9.4
-  * debian/rules, debian/postinst, debian/postrm: fix conffile update
-conflicting with Debian Policy (Closes: #688433).
-
- -- Olivier Sallou osal...@debian.org  Wed, 01 Aug 2012 15:59:55 +0200
-
-biomaj (1.2.0-7) unstable; urgency=low
-
-   [ Olivier Sallou ]
-   Patch from James Page james.p...@ubuntu.com (Closes: #683517)
-   * Transition package to use default java implementation:
-- d/rules: Specify source/target = 1.5 to ensure bytecode is backwards
-  compatible.
-- d/control: BD on default-jdk only. Switch runtime dependency to
-  default-jre | java6-runtime. 
-
- -- Olivier Sallou osal...@debian.org  Wed, 01 Aug 2012 14:58:41 +0200
-
-biomaj (1.2.0-6) unstable; urgency=low
-
-  [ Olivier Sallou ]
-  * Clean files for purge (Closes: #678490).
-
-  [ Andreas Tille ]
-  * debian/upstream: Enhance upstream information (authors format, missing
-fields)
-
-  [Debconf translation updates]
-  * French (Olivier Sallou, proofread by the French l10n team).
-
- -- Olivier Sallou osal...@debian.org  Tue, 08 May 2012 22:46:34 +0200
-
-biomaj (1.2.0-5) unstable; urgency=low
-
-  * Add missing file to package to get the console help (Closes: #658833)
-- biomaj.install
-
- -- Olivier Sallou olivier.sal...@irisa.fr  Wed, 01 Feb 2012 10:00:03 +0100
-
-biomaj (1.2.0-4) unstable; urgency=low
-
-  * [Olivier Sallou]
-  * config: remove biomaj/jdk_home, not needed anymore
-
-  * Debconf templates and debian/control reviewed by the debian-l10n-
-english team as part of the Smith review project. Closes: #653408
-  * [Debconf translation updates]
-  * Russian (Yuri Kozlov).  Closes: #656111
-  * Italian (Francesca Ciceri).  Closes: #656254
-  * French (Olivier Sallou).  Closes: #656066
-  * Czech (Michal Simunek).  Closes: #656670
-  * Dutch; (Jeroen Schot).  Closes: #657009
-  * German (Chris Leick).  Closes: #657024
-  * Danish (Joe Hansen).  Closes: #657341
-  * Indonesian (Mahyuddin Susanto).  Closes: #657463
-  * Spanish; (Camaleón).  Closes: #657491
-  * Polish (Michał Kułach).  Closes: #657512
-  * Swedish (Martin Bagge / brother).  Closes: #657548
-  * Portuguese (Miguel Figueiredo).  Closes: #657664
-   
-
- -- Olivier Sallou olivier.sal...@irisa.fr  Fri, 16 Dec 2011 15:53:10 +0100
-
-biomaj (1.2.0-3) unstable; urgency=low
-
-  * Add Portuguese translation for debconf (Closes: #651680)
-  - Thanks to Pedro Ribeiro p.m42.ribe...@gmail.com 
-
- -- Olivier Sallou olivier.sal...@irisa.fr  Fri, 16 Dec 2011 09:25:22 +0100
-
-biomaj (1.2.0-2) unstable; urgency=low
-
-  * Fix Mysql dependency name.
-
- -- Olivier Sallou olivier.sal...@irisa.fr  Fri, 11 Nov 2011 10:25:39 +0100
-
-biomaj (1.2.0-1) unstable; urgency=low
-
-  * New upstream release with new features and bug fixes.
-  * Change in database model, migration script ran at install
-  * New post processes added in default install (emboss)
-
- -- Olivier Sallou olivier.sal...@irisa.fr  Thu, 18 Aug 2011 09:55:23 +0200
-
-biomaj (1.1.0-3) unstable; urgency=low
-
-  * Change priority in debconf message for jdk home
-  * Add spanish translation of debconf:
-Thanks to Camaleón noela...@gmail.com
-Closes: #632952
-  * Add sweden translation of debconf:
-Thanks to Martin Bagge

[med-svn] r13649 - in trunk/packages/vxl/trunk/debian: . patches

2013-05-19 Thread Mathieu Malaterre 
Author: malat
Date: 2013-05-19 14:13:47 + (Sun, 19 May 2013)
New Revision: 13649

Added:
   trunk/packages/vxl/trunk/debian/patches/ffmpeg_C99.patch
Modified:
   trunk/packages/vxl/trunk/debian/changelog
   trunk/packages/vxl/trunk/debian/patches/fix_alphacomp.patch
   trunk/packages/vxl/trunk/debian/patches/renamelibs.patch
   trunk/packages/vxl/trunk/debian/patches/series
   trunk/packages/vxl/trunk/debian/patches/sse2.patch
Log:
New upload

Modified: trunk/packages/vxl/trunk/debian/changelog
===
--- trunk/packages/vxl/trunk/debian/changelog   2013-05-19 12:48:57 UTC (rev 
13648)
+++ trunk/packages/vxl/trunk/debian/changelog   2013-05-19 14:13:47 UTC (rev 
13649)
@@ -1,3 +1,11 @@
+vxl (1.17.0-3) unstable; urgency=low
+
+  * Import old patch and avoid name clash. Closes: #708666, #708668
+  * Re-import old sse2.patch, fix compilation.
+  * Re-import old ffmpeg/C99 patch. Closes: #708740
+
+ -- Mathieu Malaterre ma...@debian.org  Sun, 19 May 2013 16:11:07 +0200
+
 vxl (1.17.0-2) unstable; urgency=low
 
   * Upload to sid.

Added: trunk/packages/vxl/trunk/debian/patches/ffmpeg_C99.patch
===
--- trunk/packages/vxl/trunk/debian/patches/ffmpeg_C99.patch
(rev 0)
+++ trunk/packages/vxl/trunk/debian/patches/ffmpeg_C99.patch2013-05-19 
14:13:47 UTC (rev 13649)
@@ -0,0 +1,15 @@
+Description: Added a missing STD_CONSTANT_MACROS check in vidl_ffmpeg_convert
+Forwarded: not-needed
+Origin: upstream, http://vxl.svn.sf.net/viewvc/vxl?view=revisionrevision=31498
+Author: Chuck Atkins chuck.atk...@kitware.com
+Last-Update: 2012-12-20
+
+Index: vxl-1.17.0/core/vidl/tests/test_include.cxx
+===
+--- vxl-1.17.0.orig/core/vidl/tests/test_include.cxx   2013-05-19 
13:37:24.126525372 +
 vxl-1.17.0/core/vidl/tests/test_include.cxx2013-05-19 
13:37:24.122525372 +
+@@ -1,3 +1,4 @@
++#define __STDC_CONSTANT_MACROS
+ #include vidl/vidl_config.h // needed for VIDL_HAS_FFMPEG etc.
+ #include vidl/vidl_v4l2_pixel_format.h
+ #include vidl/vidl_color.h

Modified: trunk/packages/vxl/trunk/debian/patches/fix_alphacomp.patch
===
--- trunk/packages/vxl/trunk/debian/patches/fix_alphacomp.patch 2013-05-19 
12:48:57 UTC (rev 13648)
+++ trunk/packages/vxl/trunk/debian/patches/fix_alphacomp.patch 2013-05-19 
14:13:47 UTC (rev 13649)
@@ -4,10 +4,10 @@
 Forwarded: http://sourceforge.net/mailarchive/message.php?msg_id=28569493
 Bug: https://sourceforge.net/apps/trac/vxl/ticket/66
 
-Index: vxl-1.14.0/v3p/Qv/QvDict.cxx
+Index: vxl-1.17.0/v3p/Qv/QvDict.cxx
 ===
 vxl-1.14.0.orig/v3p/Qv/QvDict.cxx  2003-10-15 20:23:46.0 +0200
-+++ vxl-1.14.0/v3p/Qv/QvDict.cxx   2011-10-25 18:04:46.0 +0200
+--- vxl-1.17.0.orig/v3p/Qv/QvDict.cxx  2013-05-19 13:36:32.070525549 +
 vxl-1.17.0/v3p/Qv/QvDict.cxx   2013-05-19 13:36:32.062525549 +
 @@ -9,7 +9,7 @@
  # endif
  #else
@@ -17,10 +17,10 @@
  # elif defined(__CYGWIN__)
  #  include sys/types.h /* for intptr_t on Cygwin */
  # elif defined(__BORLANDC__)
-Index: vxl-1.14.0/core/vil/vil_stream_url.cxx
+Index: vxl-1.17.0/core/vil/vil_stream_url.cxx
 ===
 vxl-1.14.0.orig/core/vil/vil_stream_url.cxx2011-11-05 
22:18:48.0 +0100
-+++ vxl-1.14.0/core/vil/vil_stream_url.cxx 2011-11-05 22:18:58.0 
+0100
+--- vxl-1.17.0.orig/core/vil/vil_stream_url.cxx2013-05-19 
13:36:32.070525549 +
 vxl-1.17.0/core/vil/vil_stream_url.cxx 2013-05-19 13:36:32.066525549 
+
 @@ -25,7 +25,7 @@
  # include sys/socket.h
  # include netinet/in.h   // htons()
@@ -30,10 +30,10 @@
  # endif
  # define SOCKET int
  #elif defined (VCL_WIN32)  !defined(__CYGWIN__)
-Index: vxl-1.14.0/core/vil1/vil1_stream_url.cxx
+Index: vxl-1.17.0/core/vil1/vil1_stream_url.cxx
 ===
 vxl-1.14.0.orig/core/vil1/vil1_stream_url.cxx  2011-11-05 
22:19:40.0 +0100
-+++ vxl-1.14.0/core/vil1/vil1_stream_url.cxx   2011-11-05 22:19:51.0 
+0100
+--- vxl-1.17.0.orig/core/vil1/vil1_stream_url.cxx  2013-05-19 
13:36:32.070525549 +
 vxl-1.17.0/core/vil1/vil1_stream_url.cxx   2013-05-19 13:36:32.066525549 
+
 @@ -24,7 +24,7 @@
  # include sys/socket.h
  # include netinet/in.h   // htons()
@@ -43,10 +43,10 @@
  # endif
  # define SOCKET int
  #elif defined (VCL_WIN32)  !defined(__CYGWIN__)
-Index: vxl-1.14.0/core/vul/vul_url.cxx
+Index: vxl-1.17.0/core/vul/vul_url.cxx
 ===
 vxl-1.14.0.orig/core/vul/vul_url.cxx   2011-11-05 22:19:20.0 
+0100
-+++ vxl-1.14.0/core/vul/vul_url.cxx

[med-svn] r13650 - in trunk/packages/R/r-cran-rocr/trunk/debian: . patches

2013-05-19 Thread Dirk Eddelbuettel 
Author: edd
Date: 2013-05-19 14:32:32 + (Sun, 19 May 2013)
New Revision: 13650

Modified:
   trunk/packages/R/r-cran-rocr/trunk/debian/changelog
   trunk/packages/R/r-cran-rocr/trunk/debian/control
   trunk/packages/R/r-cran-rocr/trunk/debian/patches/series
Log:
New upstream release 1.0-5 packaged

Modified: trunk/packages/R/r-cran-rocr/trunk/debian/changelog
===
--- trunk/packages/R/r-cran-rocr/trunk/debian/changelog 2013-05-19 14:13:47 UTC 
(rev 13649)
+++ trunk/packages/R/r-cran-rocr/trunk/debian/changelog 2013-05-19 14:32:32 UTC 
(rev 13650)
@@ -1,3 +1,13 @@
+r-cran-rocr (1.0-5-1) unstable; urgency=low
+
+  * New upstream release
+
+  [Dirk Eddelbuettel]
+  * Adding myself to uploaders
+  * debian/patches/series: Remove NAMESPACE patch now taken care of upstream
+  
+ -- Dirk Eddelbuettel e...@debian.org  Sun, 19 May 2013 09:25:22 -0500
+
 r-cran-rocr (1.0-4-4) unstable; urgency=low
 
   [Dirk Eddelbuettel]

Modified: trunk/packages/R/r-cran-rocr/trunk/debian/control
===
--- trunk/packages/R/r-cran-rocr/trunk/debian/control   2013-05-19 14:13:47 UTC 
(rev 13649)
+++ trunk/packages/R/r-cran-rocr/trunk/debian/control   2013-05-19 14:32:32 UTC 
(rev 13650)
@@ -4,7 +4,8 @@
 Maintainer: Debian Med Packaging Team 
debian-med-packag...@lists.alioth.debian.org
 Uploaders: Steffen Moeller moel...@debian.org,
  Charles Plessy ple...@debian.org,
- Andreas Tille ti...@debian.org
+ Andreas Tille ti...@debian.org,
+ Dirk Eddelbuettel e...@debian.org
 Build-Depends: debhelper (= 8), cdbs, r-base-dev (= 3.0.0), r-cran-gplots, 
r-cran-gtools, r-cran-gdata
 Standards-Version: 3.9.4
 Vcs-Browser: 
http://svn.debian.org/wsvn/debian-med/trunk/packages/R/r-cran-rocr/trunk/

Modified: trunk/packages/R/r-cran-rocr/trunk/debian/patches/series
===
--- trunk/packages/R/r-cran-rocr/trunk/debian/patches/series2013-05-19 
14:13:47 UTC (rev 13649)
+++ trunk/packages/R/r-cran-rocr/trunk/debian/patches/series2013-05-19 
14:32:32 UTC (rev 13650)
@@ -1 +0,0 @@
-namespace.patch


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[med-svn] r13651 - trunk/packages/mgltools/mgltools-external-get-orig-source

2013-05-19 Thread Thorsten Alteholz 
Author: alteholz
Date: 2013-05-19 16:59:41 + (Sun, 19 May 2013)
New Revision: 13651

Modified:
   trunk/packages/mgltools/mgltools-external-get-orig-source/current-branch
   trunk/packages/mgltools/mgltools-external-get-orig-source/rc-version
Log:
should be 1.5.7.RC1 now

Modified: 
trunk/packages/mgltools/mgltools-external-get-orig-source/current-branch
===
--- trunk/packages/mgltools/mgltools-external-get-orig-source/current-branch
2013-05-19 14:32:32 UTC (rev 13650)
+++ trunk/packages/mgltools/mgltools-external-get-orig-source/current-branch
2013-05-19 16:59:41 UTC (rev 13651)
@@ -1 +1 @@
-rc-1-5-6
+rc-1-5-7

Modified: trunk/packages/mgltools/mgltools-external-get-orig-source/rc-version
===
--- trunk/packages/mgltools/mgltools-external-get-orig-source/rc-version
2013-05-19 14:32:32 UTC (rev 13650)
+++ trunk/packages/mgltools/mgltools-external-get-orig-source/rc-version
2013-05-19 16:59:41 UTC (rev 13651)
@@ -0,0 +1 @@
+~rc1


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[med-svn] r13652 - trunk/packages/rostlab/profphd/trunk/debian

2013-05-19 Thread Laszlo Kajan 
Author: lkajan
Date: 2013-05-19 17:07:00 + (Sun, 19 May 2013)
New Revision: 13652

Modified:
   trunk/packages/rostlab/profphd/trunk/debian/changelog
   trunk/packages/rostlab/profphd/trunk/debian/rules
Log:
added get-orig-source target to d/rules

Modified: trunk/packages/rostlab/profphd/trunk/debian/changelog
===
--- trunk/packages/rostlab/profphd/trunk/debian/changelog   2013-05-19 
16:59:41 UTC (rev 13651)
+++ trunk/packages/rostlab/profphd/trunk/debian/changelog   2013-05-19 
17:07:00 UTC (rev 13652)
@@ -1,3 +1,9 @@
+profphd (1.0.40-1) UNRELEASED; urgency=low
+
+  * New upstream release.
+
+ -- Laszlo Kajan lka...@rostlab.org  Sun, 19 May 2013 19:04:39 +0200
+
 profphd (1.0.39-1) unstable; urgency=low
 
   [ Andreas Tille ]

Modified: trunk/packages/rostlab/profphd/trunk/debian/rules
===
--- trunk/packages/rostlab/profphd/trunk/debian/rules   2013-05-19 16:59:41 UTC 
(rev 13651)
+++ trunk/packages/rostlab/profphd/trunk/debian/rules   2013-05-19 17:07:00 UTC 
(rev 13652)
@@ -6,3 +6,7 @@
 # Add here any variable or target overrides you need.
 DEB_MAKE_BUILD_TARGET   = prefix=/usr all
 DEB_MAKE_INSTALL_TARGET = prefix=/usr DESTDIR=$(CURDIR)/debian/tmp/ install
+
+get-orig-source:
+   mkdir -p ../tarballs
+   uscan --verbose --force-download --destdir=../tarballs


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[med-svn] r13653 - trunk/packages/rostlab/profphd/trunk/debian

2013-05-19 Thread Laszlo Kajan 
Author: lkajan
Date: 2013-05-19 17:24:07 + (Sun, 19 May 2013)
New Revision: 13653

Modified:
   trunk/packages/rostlab/profphd/trunk/debian/changelog
   trunk/packages/rostlab/profphd/trunk/debian/copyright
Log:
converted d/copyright to 
http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/

Modified: trunk/packages/rostlab/profphd/trunk/debian/changelog
===
--- trunk/packages/rostlab/profphd/trunk/debian/changelog   2013-05-19 
17:07:00 UTC (rev 13652)
+++ trunk/packages/rostlab/profphd/trunk/debian/changelog   2013-05-19 
17:24:07 UTC (rev 13653)
@@ -1,4 +1,4 @@
-profphd (1.0.40-1) UNRELEASED; urgency=low
+profphd (1.0.40-1~bpo70+1) unstable; urgency=low
 
   * New upstream release.
 

Modified: trunk/packages/rostlab/profphd/trunk/debian/copyright
===
--- trunk/packages/rostlab/profphd/trunk/debian/copyright   2013-05-19 
17:07:00 UTC (rev 13652)
+++ trunk/packages/rostlab/profphd/trunk/debian/copyright   2013-05-19 
17:24:07 UTC (rev 13653)
@@ -1,50 +1,58 @@
-This package was debianized by Laszlo Kajan lka...@rostlab.org on
+Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Upstream-Name: profphd
+Upstream-Contact: Laszlo Kajan lka...@rostlab.org
+Source: ftp://rostlab.org/profphd/
 
-Tue, 17 Nov 2009 10:50:19 +0100.
+Files: src/prof/embl/scr/ctime.pl src/prof/embl/scr/lib/ctime.pl
+Copyright: 1988 Waldemar Kebsch kebsch@nixpbe.uucp
+   March 1990, Feb 1991 Marion Hakanson hakan...@cse.ogi.edu, Oregon 
Graduate Institute of Science and Technology
+License: GPL-1+ or Artistic
 
-It was downloaded from:
-
-ftp://rostlab.org/profphd-utils/
+Files: debian/*
+Copyright: 2009 Laszlo Kajan lka...@rostlab.org
+License: GPL-2+
 
-Upstream Authors:
-
-B. Rost r...@rostlab.org
+Files: *
+Copyright:
+1998 B. Rost r...@rostlab.org EMBL, CUBIC (Columbia University, NY, USA) 
and LION Biosciences (Heidelberg, DE)
 C. Sander
 P. Fariselli
 R. Casadio
 J. Liu
-G. Yachdav gyach...@rostlab.org
-L. Kajan lka...@rostlab.org
+2009-2013 G. Yachdav gyach...@rostlab.org CUBIC (Columbia University, 
NY, USA) and Technical University Munich (Munich, DE)
+2009-2013 L. Kajan lka...@rostlab.org Laszlo Kajan lka...@rostlab.org 
Technical University Munich (Munich, DE)
+License: GPL-2+
 
-Copyright:
+License: GPL-2+
+ 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 2 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, write to the Free Software Foundation, Inc.,
+ 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA.
+ .
+ On Debian systems, the complete text of the GNU General
+ Public License version 2 can be found in `/usr/share/common-licenses/GPL-2'.
 
-Copyright 1998 by Burkhard Rost r...@rostlab.org EMBL, CUBIC (Columbia 
University, NY, USA) and LION Biosciences (Heidelberg, DE)
+License: GPL-1+
+ 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 1, or (at your option)
+ any later version.
+ .
+ On Debian systems, the complete text of version 1 of the GNU General
+ Public License can be found in `/usr/share/common-licenses/GPL-1'.
 
-Copyright 2009-2011 by Laszlo Kajan lka...@rostlab.org Technical 
University Munich (Munich, DE)
-
-Copyright 2009-2011 by Guy Yachdav gyach...@rostlab.org CUBIC (Columbia 
University, NY, USA) and Technical University Munich (Munich, DE)
-
-License:
-
-This package 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 2 of the License, or
-(at your option) any later version.
-
-This package 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 package; if not, write to the Free Software
-Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, MA  02110-1301 USA
-
-On Debian systems, the complete text of the GNU General
-Public License version 2 can be found in `/usr/share/common-licenses/GPL-2'.
-
-The

[med-svn] r13654 - trunk/packages/rostlab/profphd/trunk/debian

2013-05-19 Thread Laszlo Kajan 
Author: lkajan
Date: 2013-05-19 17:24:56 + (Sun, 19 May 2013)
New Revision: 13654

Modified:
   trunk/packages/rostlab/profphd/trunk/debian/changelog
Log:
1.0.40 is UNRELEASED

Modified: trunk/packages/rostlab/profphd/trunk/debian/changelog
===
--- trunk/packages/rostlab/profphd/trunk/debian/changelog   2013-05-19 
17:24:07 UTC (rev 13653)
+++ trunk/packages/rostlab/profphd/trunk/debian/changelog   2013-05-19 
17:24:56 UTC (rev 13654)
@@ -1,4 +1,4 @@
-profphd (1.0.40-1~bpo70+1) unstable; urgency=low
+profphd (1.0.40-1) UNRELEASED; urgency=low
 
   * New upstream release.
 


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[med-svn] r13655 - trunk/packages/mgltools/packging_helpers

2013-05-19 Thread Thorsten Alteholz 
Author: alteholz
Date: 2013-05-19 17:43:08 + (Sun, 19 May 2013)
New Revision: 13655

Modified:
   trunk/packages/mgltools/packging_helpers/svn_buildpackage_all
Log:
no .svn directory anymore

Modified: trunk/packages/mgltools/packging_helpers/svn_buildpackage_all
===
--- trunk/packages/mgltools/packging_helpers/svn_buildpackage_all   
2013-05-19 17:24:56 UTC (rev 13654)
+++ trunk/packages/mgltools/packging_helpers/svn_buildpackage_all   
2013-05-19 17:43:08 UTC (rev 13655)
@@ -17,17 +17,6 @@
echo `dirname $i`: debian directory not found
exit
fi
-   if [ ! -d $i/.svn ]; then
-   echo `dirname $i`: could not find .svn directory
-   exit
-   fi
-   if [ ! -r $i/.svn/deb-layout ]; then
-   echo `dirname $i`: Creating deb-layout file.
-   catEOCAT  $i/.svn/deb-layout
-origDir=../../tarballs
-buildArea=../../build-area
-EOCAT
-   fi
-   (cd $i  svn-buildpackage --svn-ignore --svn-reuse 
--svn-move-to=$moveto)
+   (cd $i  svn-buildpackage --svn-ignore --svn-reuse 
--svn-move-to=$moveto 
--svn-override=origDir=../../tarballs,buildArea=../../build-area )
 done
 


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[med-svn] r13656 - trunk/packages/gnuhealth/trunk/debian

2013-05-19 Thread Emilien Klein 
Author: e2jk-guest
Date: 2013-05-19 18:32:48 + (Sun, 19 May 2013)
New Revision: 13656

Added:
   trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.profiles.cfg
   trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.tryton.conf
Log:
Default Tryton client config and profiles files that are customized for 
Debian's GNU Health server (separate Tryton server instance)


Added: trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.profiles.cfg
===
--- trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.profiles.cfg 
(rev 0)
+++ trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.profiles.cfg 
2013-05-19 18:32:48 UTC (rev 13656)
@@ -0,0 +1,10 @@
+[DEFAULT]
+host = localhost
+port = 8482
+
+[GNU Health]
+host = localhost
+port = 8482
+database = gnuhealth
+username = admin
+

Added: trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.tryton.conf
===
--- trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.tryton.conf  
(rev 0)
+++ trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.tryton.conf  
2013-05-19 18:32:48 UTC (rev 13656)
@@ -0,0 +1,12 @@
+[login]
+login = admin
+profile = GNU Health
+db = gnuhealth
+expanded = False
+port = 8482
+server = localhost
+
+[client]
+form_tab = top
+maximize = True
+


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[med-svn] r13657 - trunk/packages/gnuhealth/trunk/debian

2013-05-19 Thread Emilien Klein 
Author: e2jk-guest
Date: 2013-05-19 18:35:08 + (Sun, 19 May 2013)
New Revision: 13657

Added:
   trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.install
   trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.links
   trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.py
Modified:
   trunk/packages/gnuhealth/trunk/debian/rules
Log:
New Python script that provides the `gnuhealth` command. It is a wrapper around 
tryton-client that takes care of seeding the user's installation with config 
files adapted for Debian's GNU Health server (which itself is a Tryton server 
automatically set up for use with GNU Health)


Added: trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.install
===
--- trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.install  
(rev 0)
+++ trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.install  
2013-05-19 18:35:08 UTC (rev 13657)
@@ -0,0 +1,4 @@
+debian/gnuhealth-client.py usr/share/gnuhealth-client
+debian/gnuhealth-client.tryton.conf etc/gnuhealth
+debian/gnuhealth-client.profiles.cfg etc/gnuhealth
+

Added: trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.links
===
--- trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.links
(rev 0)
+++ trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.links
2013-05-19 18:35:08 UTC (rev 13657)
@@ -0,0 +1,2 @@
+/usr/share/gnuhealth-client/gnuhealth-client.py /usr/bin/gnuhealth
+

Added: trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.py
===
--- trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.py   
(rev 0)
+++ trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.py   2013-05-19 
18:35:08 UTC (rev 13657)
@@ -0,0 +1,60 @@
+#!/usr/bin/python
+# -*- coding: utf-8 -*-
+### BEGIN LICENSE
+# Copyright (C) 2013 Emilien Klein emilien _PLUS_ debian _AT_ klein _DOT_ st
+# 
+# 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 warranties of 
+# MERCHANTABILITY, SATISFACTORY QUALITY, 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 http://www.gnu.org/licenses/.
+### END LICENSE
+
+# This script is a wrapper around tryton-client.
+# If a config and/or a profiles file wasn't found, it will create a new default
+# config and/or profiles file that is configured for a server running on the
+# same machine.
+# In case the server is not on the same machine, the user will have to change
+# the server name at the first login, but port number, database name and user
+# will already be defaulted in.
+# After the default files are created, or if those files already exist,
+# tryton-client will be run.
+
+import os
+import subprocess
+import shutil
+
+if __name__ == __main__:
+#TODO: detect installed version of Tryton automatically
+tryton_version = 2.6
+base_config_path = os.path.expanduser(~/.config/tryton/%s/ % 
tryton_version)
+config_file = os.path.join(base_config_path, tryton.conf)
+default_config_file = /etc/gnuhealth/gnuhealth-client.tryton.conf
+profiles_file = os.path.join(base_config_path, profiles.cfg)
+default_profiles_file = /etc/gnuhealth/gnuhealth-client.profiles.cfg
+
+# Check if there already is a config file
+if not os.path.isfile(config_file):
+# Copy the default config file
+shutil.copyfile(default_config_file, config_file)
+# Make sure permissions are set appropriately
+os.chmod(config_file, 0644)
+# Check if there already is a profiles file
+if not os.path.isfile(profiles_file):
+# Copy the default profiles file
+shutil.copyfile(default_profiles_file, profiles_file)
+# Make sure permissions are set appropriately
+os.chmod(profiles_file, 0644)
+
+# Call the Tryton client
+#TODO: pass the arguments given to gnuhealth-server to tryton-server
+args = [tryton-client]
+subprocess.Popen(args)
+


Property changes on: trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.py
___
Added: svn:executable
   + *

Modified: trunk/packages/gnuhealth/trunk/debian/rules
===
--- trunk/packages/gnuhealth/trunk/debian/rules 2013-05-19 18:32:48 UTC (rev 
13656)
+++ trunk/packages/gnuhealth/trunk/debian/rules

[med-svn] r13658 - trunk/packages/gnuhealth/trunk/debian

2013-05-19 Thread Emilien Klein 
Author: e2jk-guest
Date: 2013-05-19 18:36:25 + (Sun, 19 May 2013)
New Revision: 13658

Modified:
   trunk/packages/gnuhealth/trunk/debian/TODO.Debian
Log:
Update TODO


Modified: trunk/packages/gnuhealth/trunk/debian/TODO.Debian
===
--- trunk/packages/gnuhealth/trunk/debian/TODO.Debian   2013-05-19 18:35:08 UTC 
(rev 13657)
+++ trunk/packages/gnuhealth/trunk/debian/TODO.Debian   2013-05-19 18:36:25 UTC 
(rev 13658)
@@ -9,9 +9,7 @@
 
 
 
-Create a gnuhealth-client package that will depend on tryton-client, and will
-provide the connection fields pre-populated (namely for GNU Health's dedicated
-port number)
+Create a manpage for the `gnuhealth` command.
 
 
 


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[med-svn] r13659 - trunk/packages/gnuhealth/trunk/debian

2013-05-19 Thread Emilien Klein 
Author: e2jk-guest
Date: 2013-05-19 18:41:10 + (Sun, 19 May 2013)
New Revision: 13659

Modified:
   trunk/packages/gnuhealth/trunk/debian/TODO.Debian
Log:
Update TODO


Modified: trunk/packages/gnuhealth/trunk/debian/TODO.Debian
===
--- trunk/packages/gnuhealth/trunk/debian/TODO.Debian   2013-05-19 18:36:25 UTC 
(rev 13658)
+++ trunk/packages/gnuhealth/trunk/debian/TODO.Debian   2013-05-19 18:41:10 UTC 
(rev 13659)
@@ -1,11 +1,15 @@
 The current version of GNU Health (1.8) requires Tryton 2.6 (exactly) while at
-the moment (2013-04-20) Tryton 2.2 is in testing and sid and 2.6 in 
experimental.
+the moment (2013-05-19) Tryton 2.2 is in testing and sid and 2.8 in 
experimental.
 
+The next version (2.0) will work with Tryton 2.8. It was announced for May 
12th,
+2013 [2]. As soon as it's released we'll update the package.
+
 v1.8 also now depends on Tryton's Stock Lot module, which isn't yet available 
in
 Experimental [0]. I have received a .deb from Tryton's main maintainer, which
 you'll need for now to install gnuhealth. Until it's uploaded to Experimental,
 send me an email at emilien+deb...@klein.st and I'll send you a copy.
 [0] 
http://lists.virtual-things.org/pipermail/tryton-debian/2013-April/000179.html
+[2] http://lists.gnu.org/archive/html/health-dev/2013-04/msg00030.html
 
 
 


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[med-svn] r13660 - in trunk/packages/R/r-cran-diagnosismed/trunk/debian: . patches

2013-05-19 Thread Andreas Tille 
Author: tille
Date: 2013-05-19 20:23:27 + (Sun, 19 May 2013)
New Revision: 13660

Added:
   trunk/packages/R/r-cran-diagnosismed/trunk/debian/patches/
   trunk/packages/R/r-cran-diagnosismed/trunk/debian/patches/namespace.patch
   trunk/packages/R/r-cran-diagnosismed/trunk/debian/patches/series
Modified:
   trunk/packages/R/r-cran-diagnosismed/trunk/debian/changelog
Log:
Add NAMESPACE file


Modified: trunk/packages/R/r-cran-diagnosismed/trunk/debian/changelog
===
--- trunk/packages/R/r-cran-diagnosismed/trunk/debian/changelog 2013-05-19 
18:41:10 UTC (rev 13659)
+++ trunk/packages/R/r-cran-diagnosismed/trunk/debian/changelog 2013-05-19 
20:23:27 UTC (rev 13660)
@@ -1,7 +1,5 @@
 r-cran-diagnosismed (0.2.3-3) UNRELEASED; urgency=low
 
-  FIXME: FTBFS: ERROR: a 'NAMESPACE' file is required
-
   * debian/watch: DiagnosisMed was removed from CRAN and is only
 available in the archive
   * debian/control:
@@ -11,6 +9,9 @@
  - normalised formating
   * debian/copyright: DEP5
   * debian/rules: Remove unneeded code to obtain R:Depends variable
+  * debian/patches/namespace.patch: Take over the patch written by
+Dirk Eddelbuettel for r-cran-rocr because DiagnosisMed comes
+without this file that is required since R 3.0.0
 
  -- Andreas Tille ti...@debian.org  Fri, 17 May 2013 15:46:08 +0200
 

Added: trunk/packages/R/r-cran-diagnosismed/trunk/debian/patches/namespace.patch
===
--- trunk/packages/R/r-cran-diagnosismed/trunk/debian/patches/namespace.patch   
(rev 0)
+++ trunk/packages/R/r-cran-diagnosismed/trunk/debian/patches/namespace.patch   
2013-05-19 20:23:27 UTC (rev 13660)
@@ -0,0 +1,10 @@
+Description: Add NAMESPACE
+ R 3.0.0 requires a NAMESPACE file in the top-level, this upstream package
+ currently does not have one.
+ The simple default export is fine.
+Reviewed-By: Dirk Eddelbuettel e...@debian.org
+Last-Update: 2013-04-14
+--- /dev/null
 r-cran-rocr/NAMESPACE
+@@ -0,0 +1 @@
++exportPattern(^[[:alpha:]]+)

Added: trunk/packages/R/r-cran-diagnosismed/trunk/debian/patches/series
===
--- trunk/packages/R/r-cran-diagnosismed/trunk/debian/patches/series
(rev 0)
+++ trunk/packages/R/r-cran-diagnosismed/trunk/debian/patches/series
2013-05-19 20:23:27 UTC (rev 13660)
@@ -0,0 +1 @@
+namespace.patch


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[med-svn] r13661 - trunk/packages/R/r-cran-diagnosismed/trunk/debian

2013-05-19 Thread Andreas Tille 
Author: tille
Date: 2013-05-19 20:38:47 + (Sun, 19 May 2013)
New Revision: 13661

Modified:
   trunk/packages/R/r-cran-diagnosismed/trunk/debian/changelog
Log:
Upload to unstable


Modified: trunk/packages/R/r-cran-diagnosismed/trunk/debian/changelog
===
--- trunk/packages/R/r-cran-diagnosismed/trunk/debian/changelog 2013-05-19 
20:23:27 UTC (rev 13660)
+++ trunk/packages/R/r-cran-diagnosismed/trunk/debian/changelog 2013-05-19 
20:38:47 UTC (rev 13661)
@@ -1,4 +1,4 @@
-r-cran-diagnosismed (0.2.3-3) UNRELEASED; urgency=low
+r-cran-diagnosismed (0.2.3-3) unstable; urgency=low
 
   * debian/watch: DiagnosisMed was removed from CRAN and is only
 available in the archive


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[med-svn] r13662 - trunk/packages/R/r-cran-diagnosismed/tags

2013-05-19 Thread Andreas Tille 
Author: tille
Date: 2013-05-19 20:39:32 + (Sun, 19 May 2013)
New Revision: 13662

Added:
   trunk/packages/R/r-cran-diagnosismed/tags/0.2.3-3/
Log:
Tagged 0.2.3-3



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[med-svn] r13663 - trunk/packages/R/r-cran-rocr/tags

2013-05-19 Thread Andreas Tille 
Author: tille
Date: 2013-05-19 20:41:09 + (Sun, 19 May 2013)
New Revision: 13663

Added:
   trunk/packages/R/r-cran-rocr/tags/1.0-5-1/
Log:
Tagged 1.0-5-1



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[med-svn] r13664 - in trunk/packages/gnuhealth/trunk/debian: . manpages

2013-05-19 Thread Emilien Klein 
Author: e2jk-guest
Date: 2013-05-19 21:20:06 + (Sun, 19 May 2013)
New Revision: 13664

Added:
   trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.manpages
   trunk/packages/gnuhealth/trunk/debian/manpages/
   trunk/packages/gnuhealth/trunk/debian/manpages/gnuhealth-server.1
   trunk/packages/gnuhealth/trunk/debian/manpages/gnuhealth.1
Removed:
   trunk/packages/gnuhealth/trunk/debian/gnuhealth-server.lintian-overrides
   trunk/packages/gnuhealth/trunk/debian/patches/
Modified:
   trunk/packages/gnuhealth/trunk/debian/TODO.Debian
   trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.py
   trunk/packages/gnuhealth/trunk/debian/gnuhealth-server.manpages
Log:
Write new manpages for the gnuhealth-client and gnuhealth-server packages. 
Those manpages are written from scratch (not using this manpage provided by 
upstream), include both information relative to the specificities of the Debian 
package and general information on GNU Health retrieved from 
http://www.gnuhealth.org/main-features.html


Modified: trunk/packages/gnuhealth/trunk/debian/TODO.Debian
===
--- trunk/packages/gnuhealth/trunk/debian/TODO.Debian   2013-05-19 20:41:09 UTC 
(rev 13663)
+++ trunk/packages/gnuhealth/trunk/debian/TODO.Debian   2013-05-19 21:20:06 UTC 
(rev 13664)
@@ -13,10 +13,6 @@
 
 
 
-Create a manpage for the `gnuhealth` command.
-
-
-
 Create a gnuhealth package that will depend on both gnuhealth-server and
 gnuhealth-client. This will allow for easy installation of everyting needed to
 run a GNU Health instance on a single machine.

Added: trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.manpages
===
--- trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.manpages 
(rev 0)
+++ trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.manpages 
2013-05-19 21:20:06 UTC (rev 13664)
@@ -0,0 +1,2 @@
+debian/manpages/gnuhealth.1
+

Modified: trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.py
===
--- trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.py   2013-05-19 
20:41:09 UTC (rev 13663)
+++ trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.py   2013-05-19 
21:20:06 UTC (rev 13664)
@@ -18,12 +18,12 @@
 ### END LICENSE
 
 # This script is a wrapper around tryton-client.
-# If a config and/or a profiles file wasn't found, it will create a new default
-# config and/or profiles file that is configured for a server running on the
-# same machine.
+# If a config and/or a profiles file wasn't found, it will create new default
+# files that are configured for a GNU Health (Tryton) server running on the 
same
+# machine.
 # In case the server is not on the same machine, the user will have to change
-# the server name at the first login, but port number, database name and user
-# will already be defaulted in.
+# the server name during the first startup, but port number, database name and
+# user will already be defaulted in.
 # After the default files are created, or if those files already exist,
 # tryton-client will be run.
 

Deleted: 
trunk/packages/gnuhealth/trunk/debian/gnuhealth-server.lintian-overrides
===
--- trunk/packages/gnuhealth/trunk/debian/gnuhealth-server.lintian-overrides
2013-05-19 20:41:09 UTC (rev 13663)
+++ trunk/packages/gnuhealth/trunk/debian/gnuhealth-server.lintian-overrides
2013-05-19 21:20:06 UTC (rev 13664)
@@ -1,3 +0,0 @@
-# Including the project's original manpage. The name corresponds to the
-# project's name.
-gnuhealth-server binary: manpage-has-bad-whatis-entry

Modified: trunk/packages/gnuhealth/trunk/debian/gnuhealth-server.manpages
===
--- trunk/packages/gnuhealth/trunk/debian/gnuhealth-server.manpages 
2013-05-19 20:41:09 UTC (rev 13663)
+++ trunk/packages/gnuhealth/trunk/debian/gnuhealth-server.manpages 
2013-05-19 21:20:06 UTC (rev 13664)
@@ -1 +1,2 @@
-health/man/gnuhealth.1
+debian/manpages/gnuhealth-server.1
+

Added: trunk/packages/gnuhealth/trunk/debian/manpages/gnuhealth-server.1
===
--- trunk/packages/gnuhealth/trunk/debian/manpages/gnuhealth-server.1   
(rev 0)
+++ trunk/packages/gnuhealth/trunk/debian/manpages/gnuhealth-server.1   
2013-05-19 21:20:06 UTC (rev 13664)
@@ -0,0 +1,86 @@
+.TH GNUHEALTH-SERVER 1 2013\-05\-19 1.8.1 GNU Health: Free Health and 
Hospital Information System
+.\  Hey, EMACS: -*- nroff -*-
+.\ Process this file with
+.\ groff -man -Tascii gnuhealth-server.1
+.\ First parameter, NAME, should be all caps
+.\ Second parameter, SECTION, should be 1-8, maybe w/ subsection
+.\ other parameters are allowed: see man(7), man(1)
+.\
+.\ Please

[med-svn] r13665 - trunk/community/papers/13_healthcafe

2013-05-19 Thread Andreas Tille 
Author: tille
Date: 2013-05-19 22:00:07 + (Sun, 19 May 2013)
New Revision: 13665

Modified:
   trunk/community/papers/13_healthcafe/debian-med-healthcafe.pdf
   trunk/community/papers/13_healthcafe/paper-text.tex
Log:
Fix duplicated phrase


Modified: trunk/community/papers/13_healthcafe/debian-med-healthcafe.pdf
===
(Binary files differ)

Modified: trunk/community/papers/13_healthcafe/paper-text.tex
===
--- trunk/community/papers/13_healthcafe/paper-text.tex 2013-05-19 21:20:06 UTC 
(rev 13664)
+++ trunk/community/papers/13_healthcafe/paper-text.tex 2013-05-19 22:00:07 UTC 
(rev 13665)
@@ -131,8 +131,8 @@
 the \DebianMed team as well.  For example, there even exist strong
 connections to derivatives like
 \printurl{http://nebc.nerc.ac.uk/tools/bio-linux/bio-linux-7-info}{BioLinux}
-is an Ubuntu derivative which which in turn is an Ubuntu derivative work
-closely with \DebianMed to profit from our work via Ubuntu.
+an Ubuntu derivative which works closely with \DebianMed to profit from
+our work via Ubuntu.
 
 % How do we work together
 


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[med-svn] r13666 - trunk/packages/gnuhealth/trunk/debian

2013-05-19 Thread Emilien Klein 
Author: e2jk-guest
Date: 2013-05-19 22:04:45 + (Sun, 19 May 2013)
New Revision: 13666

Modified:
   trunk/packages/gnuhealth/trunk/debian/TODO.Debian
   trunk/packages/gnuhealth/trunk/debian/control
Log:
New gnuhealth metapackage that allows for easy installation of everyting 
needed to run a GNU Health instance on a single machine.


Modified: trunk/packages/gnuhealth/trunk/debian/TODO.Debian
===
--- trunk/packages/gnuhealth/trunk/debian/TODO.Debian   2013-05-19 22:00:07 UTC 
(rev 13665)
+++ trunk/packages/gnuhealth/trunk/debian/TODO.Debian   2013-05-19 22:04:45 UTC 
(rev 13666)
@@ -13,16 +13,6 @@
 
 
 
-Create a gnuhealth package that will depend on both gnuhealth-server and
-gnuhealth-client. This will allow for easy installation of everyting needed to
-run a GNU Health instance on a single machine.
-Might need to pre-depend on -server, so that the client can detect it's
-installed and automatically select localhost as the server. Per Policy [1],
-this needs to be discussed on the debian-devel mailing list.
-[1] http://www.debian.org/doc/debian-policy/ch-binary.html#s-dependencies
-
-
-
 The health_qrcodes is now removed from the binary package, as it depends on a
 Python library that is currently not packaged:
 http://pypi.python.org/pypi/qrcode/2.4.2

Modified: trunk/packages/gnuhealth/trunk/debian/control
===
--- trunk/packages/gnuhealth/trunk/debian/control   2013-05-19 22:00:07 UTC 
(rev 13665)
+++ trunk/packages/gnuhealth/trunk/debian/control   2013-05-19 22:04:45 UTC 
(rev 13666)
@@ -107,3 +107,40 @@
 to the Patient chart.
   * Designed with industry standards in mind
 
+Package: gnuhealth
+Architecture: all
+Pre-Depends: dpkg (= 1.15.6~)
+Depends: ${shlibs:Depends}, ${python:Depends}, ${misc:Depends},
+ gnuhealth-server (= ${binary:Version}),
+ gnuhealth-client (= ${binary:Version})
+Description: Electronic Medical Record and Hospital Information System
+ GNU Health is a multi-user, highly scalable, centralized Electronic
+ Medical Record (EMR) and Hospital Information System (HIS) for Tryton,
+ so doctors and institutions all over the world, independently of their
+ economic status, will benefit from a centralized, high quality, secure
+ and scalable system.
+ .
+ This metapackage allows for easy installation of everyting needed to run a
+ GNU Health instance on a single machine.
+ .
+ GNU Health at a glance:
+  * Strong focus in family medicine and Primary Health Care
+  * Major interest in Socio-economics (housing conditions, substance
+abuse, education...)
+  * Diseases and Medical procedures standards (ICD-10 / ICD-10-PCS)
+  * Prescription writing
+  * Billing
+  * Patient Genetic and Hereditary risks: over 4200 genes related to
+diseases (NCBI / Genecards)
+  * Epidemiological and other statistical reports
+  * 100% paperless patient examination and history taking
+  * Patient Administration (creation, evaluations / consultations, history...)
+  * Doctor Administration
+  * Lab Administration
+  * Medicine / Drugs information (vademécum)
+  * Medical stock and supply chain management
+  * Hospital Financial Administration
+  * GNU Health allows one to attach documents (X-rays, Biopsy results, ...)
+to the Patient chart.
+  * Designed with industry standards in mind
+


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[med-svn] r13667 - trunk/packages/gnuhealth/trunk/debian

2013-05-19 Thread Emilien Klein 
Author: e2jk-guest
Date: 2013-05-19 23:52:47 + (Sun, 19 May 2013)
New Revision: 13667

Added:
   trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.desktop
   trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.menu
   trunk/packages/gnuhealth/trunk/debian/gnuhealth.xpm
Modified:
   trunk/packages/gnuhealth/trunk/debian/copyright
   trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.install
   trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.links
Log:
Add menu and .desktop files for gnuhealth-client


Modified: trunk/packages/gnuhealth/trunk/debian/copyright
===
--- trunk/packages/gnuhealth/trunk/debian/copyright 2013-05-19 22:04:45 UTC 
(rev 13666)
+++ trunk/packages/gnuhealth/trunk/debian/copyright 2013-05-19 23:52:47 UTC 
(rev 13667)
@@ -36,6 +36,13 @@
 License: GPL-3+
 Comment: Files were adapted from tryton-server's Debian package.
 
+Files: debian/gnuhealth.xpm
+Copyright: Leonardo D'Acchille - GNU Solidario
+   2013 Emilien Klein emilien+deb...@klein.st
+License: CC-BY-SA-3.0
+Comment: This file was generated from health/icons/gnuhealth_icon.svg
+ using The GIMP.
+
 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

Added: trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.desktop
===
--- trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.desktop  
(rev 0)
+++ trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.desktop  
2013-05-19 23:52:47 UTC (rev 13667)
@@ -0,0 +1,10 @@
+[Desktop Entry]
+Version=1.0
+Type=Application
+Name=GNU Health
+GenericName=Client for GNU Health
+Comment=Access the GNU Health server
+Exec=gnuhealth
+Icon=gnuhealth
+Terminal=false
+Categories=Education;Science;MedicalSoftware;

Modified: trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.install
===
--- trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.install  
2013-05-19 22:04:45 UTC (rev 13666)
+++ trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.install  
2013-05-19 23:52:47 UTC (rev 13667)
@@ -1,4 +1,6 @@
 debian/gnuhealth-client.py usr/share/gnuhealth-client
 debian/gnuhealth-client.tryton.conf etc/gnuhealth
 debian/gnuhealth-client.profiles.cfg etc/gnuhealth
+debian/gnuhealth.xpm usr/share/icons/gnuhealth
+debian/gnuhealth-client.desktop usr/share/applications
 

Modified: trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.links
===
--- trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.links
2013-05-19 22:04:45 UTC (rev 13666)
+++ trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.links
2013-05-19 23:52:47 UTC (rev 13667)
@@ -1,2 +1,3 @@
 /usr/share/gnuhealth-client/gnuhealth-client.py /usr/bin/gnuhealth
+/usr/share/icons/gnuhealth/gnuhealth.xpm /usr/share/pixmaps/gnuhealth.xpm
 

Added: trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.menu
===
--- trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.menu 
(rev 0)
+++ trunk/packages/gnuhealth/trunk/debian/gnuhealth-client.menu 2013-05-19 
23:52:47 UTC (rev 13667)
@@ -0,0 +1,4 @@
+?package(gnuhealth-client):needs=X11 section=Applications/Science/Medicine\
+  title=GNU Health longtitle=GNU Health - Health and Hospital Information 
System (Tryton Client)\
+  description=GNU Health is a free, centralized Health and Hospital 
Information System. It runs on top of Tryton, a high-level general purpose 
application platform.\
+  command=gnuhealth icon=/usr/share/pixmaps/gnuhealth.xpm

Added: trunk/packages/gnuhealth/trunk/debian/gnuhealth.xpm
===
--- trunk/packages/gnuhealth/trunk/debian/gnuhealth.xpm 
(rev 0)
+++ trunk/packages/gnuhealth/trunk/debian/gnuhealth.xpm 2013-05-19 23:52:47 UTC 
(rev 13667)
@@ -0,0 +1,401 @@
+/* XPM */
+static char * gnuhealth_icon_xpm[] = {
+32 32 366 2,
+  c None,
+. c #0D828C,
++ c #10858E,
+@ c #11858E,
+# c #11868F,
+$ c #12868F,
+% c #128790,
+ c #138891,
+* c #138991,
+= c #148992,
+- c #148A92,
+; c #148A93,
+ c #158B93,
+, c #158B94,
+' c #158C95,
+) c #148B94,
+! c #11898F,
+~ c #0E838D,
+{ c #198790,
+] c #1E8A93,
+^ c #1F8C95,
+/ c #208D96,
+( c #218F98,
+_ c #229099,
+: c #23929A,
+ c #24939C,
+[ c #25959D,
+} c #26969F,
+| c #2797A0,
+1 c #2899A1,
+2 c #299AA3,
+3 c #2A9CA4,
+4 c #2B9DA6,
+5 c #2C9FA7,
+6 c #2DA0A8,
+7 c #2EA2AA,
+8 c #2FA3AB,
+9 c #30A5AD,
+0 c #31A6AE,
+a c #32A7AF,
+b c #299EA8,
+c

[med-svn] r13668 - trunk/packages/gnuhealth/trunk/debian

2013-05-19 Thread Emilien Klein 
Author: e2jk-guest
Date: 2013-05-20 00:08:45 + (Mon, 20 May 2013)
New Revision: 13668

Modified:
   trunk/packages/gnuhealth/trunk/debian/README.Debian
Log:
Improve README.Debian a bit


Modified: trunk/packages/gnuhealth/trunk/debian/README.Debian
===
--- trunk/packages/gnuhealth/trunk/debian/README.Debian 2013-05-19 23:52:47 UTC 
(rev 13667)
+++ trunk/packages/gnuhealth/trunk/debian/README.Debian 2013-05-20 00:08:45 UTC 
(rev 13668)
@@ -1,13 +1,26 @@
 GNU Health for Debian
 -
 
-The Debian package takes care of creating the gnuhealth system user, the
-gnuhealth PostgreSQL role (i.e. database user) and the gnuhealth database,
-which is initialized and ready to use.
+The gnuhealth-server package takes care of creating the gnuhealth system
+user, the gnuhealth PostgreSQL role (i.e. database user) and the gnuhealth
+database, which is initialized and ready to use.
+This package introduces a new service (gnuhealth-server), which is a Tryton
+server running on a dedicated port (8482).
 
-The GNU Health package introduces a new service (gnuhealth-server), which is
-a Tryton server running on a dedicated port (8482).
+The gnuhealth-client package provides the `gnuhealth` command, which is a
+wrapper around `tryton-client`.
+If a config and/or a profiles file wasn't found, it will create new default
+files that are configured for a GNU Health (Tryton) server running on the same
+machine.
+In case the server is not on the same machine, the user will have to change
+the server name during the first startup, but port number, database name and
+user will already be defaulted in.
 
+The gnuhealth metapackage allows for easy installation of everyting needed to
+run a GNU Health instance on a single machine (it installs gnuhealth-server
+and gnuhealth-client)
+
+
 Configuring GNU Health
 ==
 
@@ -15,13 +28,17 @@
 wiki page:
   http://en.wikibooks.org/wiki/GNU_Health/Installation
 
-You will need to install the tryton-client package, either on the same machine
-as where you installed gnuhealth-server, or on a separate machine.
+The client can be installed either on the same machine as where you installed
+gnuhealth-server, or on a different machine.
 
 
 Creating a Connection Profile
 -
 
+Note: this step is only needed if you didn't install gnuhealth-client, as this
+package takes care of this automatically the first time you run the
+`gnuhealth` command.
+
 Open the Tryton client (run the `tryton-client` command)
 
 Click on Manage profiles, then click on Add. Give your new connection a name
@@ -42,7 +59,7 @@
 Now that you're back at the login screen, you'll notice that the selected
 Profile is the one you've just created. Fill in the login form:
 
-User name: The one you used previously usually, admin
+User name: The one you used previously (usually: admin)
 Password: the one entered while installing the gnuhealth-server package.
 
 
@@ -95,5 +112,5 @@
 Congratulations, you have completed the initial installation of GNU Health!
 
 
- -- Emilien Klein emilien+deb...@klein.st  Fri, 03 May 2013 22:59:28 +0200
+ -- Emilien Klein emilien+deb...@klein.st  Mon, 20 May 2013 02:04:29 +0200
 


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[med-svn] r13669 - trunk/packages/gnuhealth/trunk/debian

2013-05-19 Thread Emilien Klein 
Author: e2jk-guest
Date: 2013-05-20 00:18:19 + (Mon, 20 May 2013)
New Revision: 13669

Modified:
   trunk/packages/gnuhealth/trunk/debian/TODO.Debian
Log:
Update TODO about installing the demo database


Modified: trunk/packages/gnuhealth/trunk/debian/TODO.Debian
===
--- trunk/packages/gnuhealth/trunk/debian/TODO.Debian   2013-05-20 00:08:45 UTC 
(rev 13668)
+++ trunk/packages/gnuhealth/trunk/debian/TODO.Debian   2013-05-20 00:18:19 UTC 
(rev 13669)
@@ -37,8 +37,24 @@
 
 
 
-Install the Demo database?
+Install the Demo database. It should provide the demo database locally, and 
also
+set up two default profiles: one for the local demo database, and one for the
+online demo server provided by upstream:
 
+Server: health.gnusolidario.org:8000
+Database: health_18rc1
+User name: admin
+Password: gnusolidario
+
+Reason for installing the local demo database when there is an easy-accesible
+online demo: allows for local testing without an Internet connection.
+
+The gnuhealth-client's logic needs to be adapted. Right now if the Tryton
+profiles file is not present, it copies the default from the gnuhealth-client
+package. Now it will have to first check if there is a default profile for the
+demo (which would only exist if the gnuhealth-demo package had been installed),
+and else fall back to the non-demo profile file.
+
 https://en.wikibooks.org/wiki/GNU_Health/The_Demo_database
 
 Files: demo/*


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