Author: satta
Date: 2016-09-17 14:36:47 +0000 (Sat, 17 Sep 2016)
New Revision: 22818

Added:
   trunk/packages/mssstest/tags/3.0-5/
   trunk/packages/mssstest/tags/3.0-5/debian/README.Debian
   trunk/packages/mssstest/tags/3.0-5/debian/changelog
   trunk/packages/mssstest/tags/3.0-5/debian/control
   trunk/packages/mssstest/tags/3.0-5/debian/patches/gcc6.patch
   trunk/packages/mssstest/tags/3.0-5/debian/patches/hardening.patch
   trunk/packages/mssstest/tags/3.0-5/debian/patches/series
   trunk/packages/mssstest/tags/3.0-5/debian/rules
Removed:
   trunk/packages/mssstest/tags/3.0-5/debian/README.Debian
   trunk/packages/mssstest/tags/3.0-5/debian/changelog
   trunk/packages/mssstest/tags/3.0-5/debian/control
   trunk/packages/mssstest/tags/3.0-5/debian/patches/hardening.patch
   trunk/packages/mssstest/tags/3.0-5/debian/patches/series
   trunk/packages/mssstest/tags/3.0-5/debian/rules
Log:
[svn-buildpackage] Tagging mssstest 3.0-5

Deleted: trunk/packages/mssstest/tags/3.0-5/debian/README.Debian
===================================================================
--- trunk/packages/mssstest/trunk/debian/README.Debian  2016-09-17 13:59:40 UTC 
(rev 22813)
+++ trunk/packages/mssstest/tags/3.0-5/debian/README.Debian     2016-09-17 
14:36:47 UTC (rev 22818)
@@ -1,70 +0,0 @@
-mssstest for Debian
--------------------
-
-The orignal source is seeking for two files edss.txt and global.dat
-in the current directory.  Under Debian these files were moved to
-/usr/share/mssstest and the code was adjusted.  I do not think that
-this change conflicts with the license (Andreas Tille <ti...@debian.org>)
-Please use the bug reporting tool reportbug to report any problems with
-this change. Alternatively you can mail the maintainer of this package.  
-
-The C source code is very clear. Please provide patches to improve the
-user interface if you have spare resources. As Goran weinh...@debian.org
-rightously pointed out, the license does not allow any such modifications,
-though it is my firm belief, that this is of a mere shift in focus of
-the upstream fellows who just see people dying and want to help. I heard
-from multiple directions that these guys are actually nice, even if they
-did not get to me with respect with our problems with this license.
-
-In order to eventually close the bug I have attached our original email
-exchange and removed the tiny changes to the upstream's makefile.
-
-Steffen Möller
-
-
-
-From rich...@roxburgh.net.nz Fri Dec 17 12:40:29 2004
-To: Steffen Moeller <moel...@pzr3.pzr.uni-rostock.de>
-Subject: RE: MSSStest, request for preprint
-
-Dear Steffen
-
-Thanks for your interest in MSSStest. It's great to have the paper finally
-accepted by Neurology and we are very proud of our little program.
-
-We are also flattered by your interest in distributing it as part of the
-Debian database. However, I am far from clear why anyone would want to buy
-it at a new stand etc when its so readily available for download for free
-and I'm pretty sure that people will be able to find it pretty easily by
-just putting MSSStest into Google.
-
-I enclose the preprint that you requested.
-
-Regards
-
-Richard
-
-
-
------Original Message-----
-From: Steffen Moeller [mailto:moel...@pzr3.pzr.uni-rostock.de]
-Sent: 02 December 2004 11:25
-To: rich...@roxburgh.net.nz
-Subject: MSSStest, request for preprint
-
-
-[...]
-
-I personally wanted to spread this idea, also for its application to
-other diseases.  You tool will therefore appear in the Debian Linux
-distribution in not too far future. I thought this would be of your
-interest. It is a pity that you do not allow the program to be sold. The
-Debian CDs are sold, mostly together with a Computer magazine at a news
-stand for a few Euros.
-
-I am certain that you did not want to prohibit the distribution of your
-software via such channels. If you could remove this clause then at least
-Debian would be helped to provide the package on all the 11 Platforms it
-supports which it would not do for packages it interprets as "non-free".
-
-[...]

Copied: trunk/packages/mssstest/tags/3.0-5/debian/README.Debian (from rev 
22816, trunk/packages/mssstest/trunk/debian/README.Debian)
===================================================================
--- trunk/packages/mssstest/tags/3.0-5/debian/README.Debian                     
        (rev 0)
+++ trunk/packages/mssstest/tags/3.0-5/debian/README.Debian     2016-09-17 
14:36:47 UTC (rev 22818)
@@ -0,0 +1,70 @@
+mssstest for Debian
+-------------------
+
+The original source is seeking for two files edss.txt and global.dat
+in the current directory.  Under Debian these files were moved to
+/usr/share/mssstest and the code was adjusted.  I do not think that
+this change conflicts with the license (Andreas Tille <ti...@debian.org>)
+Please use the bug reporting tool reportbug to report any problems with
+this change. Alternatively you can mail the maintainer of this package.  
+
+The C source code is very clear. Please provide patches to improve the
+user interface if you have spare resources. As Goran weinh...@debian.org
+rightously pointed out, the license does not allow any such modifications,
+though it is my firm belief, that this is of a mere shift in focus of
+the upstream fellows who just see people dying and want to help. I heard
+from multiple directions that these guys are actually nice, even if they
+did not get to me with respect with our problems with this license.
+
+In order to eventually close the bug I have attached our original email
+exchange and removed the tiny changes to the upstream's makefile.
+
+Steffen Möller
+
+
+
+From rich...@roxburgh.net.nz Fri Dec 17 12:40:29 2004
+To: Steffen Moeller <moel...@pzr3.pzr.uni-rostock.de>
+Subject: RE: MSSStest, request for preprint
+
+Dear Steffen
+
+Thanks for your interest in MSSStest. It's great to have the paper finally
+accepted by Neurology and we are very proud of our little program.
+
+We are also flattered by your interest in distributing it as part of the
+Debian database. However, I am far from clear why anyone would want to buy
+it at a new stand etc when its so readily available for download for free
+and I'm pretty sure that people will be able to find it pretty easily by
+just putting MSSStest into Google.
+
+I enclose the preprint that you requested.
+
+Regards
+
+Richard
+
+
+
+-----Original Message-----
+From: Steffen Moeller [mailto:moel...@pzr3.pzr.uni-rostock.de]
+Sent: 02 December 2004 11:25
+To: rich...@roxburgh.net.nz
+Subject: MSSStest, request for preprint
+
+
+[...]
+
+I personally wanted to spread this idea, also for its application to
+other diseases.  You tool will therefore appear in the Debian Linux
+distribution in not too far future. I thought this would be of your
+interest. It is a pity that you do not allow the program to be sold. The
+Debian CDs are sold, mostly together with a Computer magazine at a news
+stand for a few Euros.
+
+I am certain that you did not want to prohibit the distribution of your
+software via such channels. If you could remove this clause then at least
+Debian would be helped to provide the package on all the 11 Platforms it
+supports which it would not do for packages it interprets as "non-free".
+
+[...]

Deleted: trunk/packages/mssstest/tags/3.0-5/debian/changelog
===================================================================
--- trunk/packages/mssstest/trunk/debian/changelog      2016-09-17 13:59:40 UTC 
(rev 22813)
+++ trunk/packages/mssstest/tags/3.0-5/debian/changelog 2016-09-17 14:36:47 UTC 
(rev 22818)
@@ -1,83 +0,0 @@
-mssstest (3.0-4) unstable; urgency=low
-
-  * debian/upstream/metadata: Added citation information
-  * DEP5
-  * debhelper 9
-  * cme fix dpkg-control
-  * DEP3 headers
-  * propagate hardening options
-
- -- Andreas Tille <ti...@debian.org>  Tue, 26 Jan 2016 11:39:01 +0100
-
-mssstest (3.0-3) unstable; urgency=low
-
-  * Finally removed debian/watch because upstream does not seem to
-    release new versions
-    Closes: #450107
-  * debian/source/format: 3.0 (quilt)
-  * debian/control:
-    - Standards-Version: 3.9.2 (no changes needed)
-    - Fixed Vcs fields
-  * Debhelper 8 (control+compat)
-
- -- Andreas Tille <ti...@debian.org>  Sat, 24 Dec 2011 09:43:01 +0100
-
-mssstest (3.0-2) unstable; urgency=low
-
-  * Deactivated debian/watch: Upstream does not use version
-    numbering on downloadable tarball.
-  * debian/control:
-    - Standards-Version: 3.8.3 (added README.source)
-    - Debhelper 7
-    - Removed cdbs dependency
-  * debian/rules: make use of dh
-
- -- Andreas Tille <ti...@debian.org>  Tue, 06 Oct 2009 14:47:59 +0200
-
-mssstest (3.0-1) unstable; urgency=low
-
-  * New upstream version
-  * New version can not be obtained via watch file from upstream
-    but just out of the README file inside the archive.  Fixed
-    watch file anyway to notice when upstream changed this policy
-  * Group maintenance with permission of maintainer Steffen Möller
-  * Moved manpage and wrapper script to debian directory
-  * Added Homepage field
-  * Standards-Version: 3.8.0 (no changes needed)
-  * Vcs fields
-  * XS-Autobuild: yes
-  * No versioned debhelper dependency
-  * Use quilt and cdbs
-  * Fix gcc-4.3 problem
-  * Use explicite path /usr/share/mssstest to the data files instead
-    requiring the user to have these files in the local directory.
-    This step was documented in README.Debian.  As a consequence
-    mssstest.sh was removed because it is not needed any more
-  * Patch makefile to get the name of resulting executable in lower
-    cases and without .exe extension
-  * debian/menu: Applications/Science/Medicine
-
- -- Andreas Tille <ti...@debian.org>  Sun, 20 Jul 2008 21:51:26 +0200
-
-mssstest (2.0-2) unstable; urgency=low
-
-  * Reacting on bug report (Closes:Bug#292339)
-    - No modifying upstream source.
-    - Adding email indirectly proving upstream to agree
-      with a distribution of MSSStest with Debian.
-
-  * Moved some files from /usr/share/doc/mssstest
-    to /usr/share/mssstest, binary now located in
-    /usr/lib/mssstest.
-
-  * Provided wrapper to start binary in /usr/lib/mssstest
-    from /usr/bin/mssstest.
-
- -- Steffen Moeller <moel...@pzr.uni-rostock.de>  Tue, 05 May 2005 17:05:26 
+0200
-
-mssstest (2.0-1) unstable; urgency=low
-
-  * Initial Release (Closes:Bug#283695).
-
- -- Steffen Moeller <moel...@pzr.uni-rostock.de>  Tue, 30 Nov 2004 16:32:26 
+0100
-

Copied: trunk/packages/mssstest/tags/3.0-5/debian/changelog (from rev 22817, 
trunk/packages/mssstest/trunk/debian/changelog)
===================================================================
--- trunk/packages/mssstest/tags/3.0-5/debian/changelog                         
(rev 0)
+++ trunk/packages/mssstest/tags/3.0-5/debian/changelog 2016-09-17 14:36:47 UTC 
(rev 22818)
@@ -0,0 +1,95 @@
+mssstest (3.0-5) unstable; urgency=medium
+
+  * Team upload.
+  * Fix building with GCC 6.
+    - Add missing qualifier.
+    Closes: #836930
+  * Bump Standards-Version.
+  * Fix typo in README.Debian.
+  * Add full hardening.
+
+ -- Sascha Steinbiss <sa...@debian.org>  Sat, 17 Sep 2016 14:34:20 +0000
+
+mssstest (3.0-4) unstable; urgency=low
+
+  * debian/upstream/metadata: Added citation information
+  * DEP5
+  * debhelper 9
+  * cme fix dpkg-control
+  * DEP3 headers
+  * propagate hardening options
+
+ -- Andreas Tille <ti...@debian.org>  Tue, 26 Jan 2016 11:39:01 +0100
+
+mssstest (3.0-3) unstable; urgency=low
+
+  * Finally removed debian/watch because upstream does not seem to
+    release new versions
+    Closes: #450107
+  * debian/source/format: 3.0 (quilt)
+  * debian/control:
+    - Standards-Version: 3.9.2 (no changes needed)
+    - Fixed Vcs fields
+  * Debhelper 8 (control+compat)
+
+ -- Andreas Tille <ti...@debian.org>  Sat, 24 Dec 2011 09:43:01 +0100
+
+mssstest (3.0-2) unstable; urgency=low
+
+  * Deactivated debian/watch: Upstream does not use version
+    numbering on downloadable tarball.
+  * debian/control:
+    - Standards-Version: 3.8.3 (added README.source)
+    - Debhelper 7
+    - Removed cdbs dependency
+  * debian/rules: make use of dh
+
+ -- Andreas Tille <ti...@debian.org>  Tue, 06 Oct 2009 14:47:59 +0200
+
+mssstest (3.0-1) unstable; urgency=low
+
+  * New upstream version
+  * New version can not be obtained via watch file from upstream
+    but just out of the README file inside the archive.  Fixed
+    watch file anyway to notice when upstream changed this policy
+  * Group maintenance with permission of maintainer Steffen Möller
+  * Moved manpage and wrapper script to debian directory
+  * Added Homepage field
+  * Standards-Version: 3.8.0 (no changes needed)
+  * Vcs fields
+  * XS-Autobuild: yes
+  * No versioned debhelper dependency
+  * Use quilt and cdbs
+  * Fix gcc-4.3 problem
+  * Use explicite path /usr/share/mssstest to the data files instead
+    requiring the user to have these files in the local directory.
+    This step was documented in README.Debian.  As a consequence
+    mssstest.sh was removed because it is not needed any more
+  * Patch makefile to get the name of resulting executable in lower
+    cases and without .exe extension
+  * debian/menu: Applications/Science/Medicine
+
+ -- Andreas Tille <ti...@debian.org>  Sun, 20 Jul 2008 21:51:26 +0200
+
+mssstest (2.0-2) unstable; urgency=low
+
+  * Reacting on bug report (Closes:Bug#292339)
+    - No modifying upstream source.
+    - Adding email indirectly proving upstream to agree
+      with a distribution of MSSStest with Debian.
+
+  * Moved some files from /usr/share/doc/mssstest
+    to /usr/share/mssstest, binary now located in
+    /usr/lib/mssstest.
+
+  * Provided wrapper to start binary in /usr/lib/mssstest
+    from /usr/bin/mssstest.
+
+ -- Steffen Moeller <moel...@pzr.uni-rostock.de>  Tue, 05 May 2005 17:05:26 
+0200
+
+mssstest (2.0-1) unstable; urgency=low
+
+  * Initial Release (Closes:Bug#283695).
+
+ -- Steffen Moeller <moel...@pzr.uni-rostock.de>  Tue, 30 Nov 2004 16:32:26 
+0100
+

Deleted: trunk/packages/mssstest/tags/3.0-5/debian/control
===================================================================
--- trunk/packages/mssstest/trunk/debian/control        2016-09-17 13:59:40 UTC 
(rev 22813)
+++ trunk/packages/mssstest/tags/3.0-5/debian/control   2016-09-17 14:36:47 UTC 
(rev 22818)
@@ -1,24 +0,0 @@
-Source: mssstest
-Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
-Uploaders: Steffen Moeller <moel...@debian.org>,
-           Andreas Tille <ti...@debian.org>
-Section: non-free/science
-XS-Autobuild: yes
-Priority: optional
-Build-Depends: debhelper (>= 9)
-Standards-Version: 3.9.6
-Vcs-Browser: 
https://anonscm.debian.org/viewvc/debian-med/trunk/packages/mssstest/
-Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/mssstest/trunk/
-Homepage: https://www-gene.cimr.cam.ac.uk/MSgenetics/GAMES/MSSS/index.html
-
-Package: mssstest
-Architecture: any
-Depends: ${shlibs:Depends},
-         ${misc:Depends}
-Description: Normalisation of disease scores for patients with Multiple 
Sclerosis
- MSSStest is a program for implementing the method described in the
- article The Multiple Sclerosis Severity Score. R. Roxburgh S. Seaman et
- al. (2004), accepted for publication by Neurology. It calculates MSSS
- scores and uses these scores to test for differences between disease
- progression rates in different groups defined by genotype at some locus. A
- brief description of the method is given below.

Copied: trunk/packages/mssstest/tags/3.0-5/debian/control (from rev 22816, 
trunk/packages/mssstest/trunk/debian/control)
===================================================================
--- trunk/packages/mssstest/tags/3.0-5/debian/control                           
(rev 0)
+++ trunk/packages/mssstest/tags/3.0-5/debian/control   2016-09-17 14:36:47 UTC 
(rev 22818)
@@ -0,0 +1,24 @@
+Source: mssstest
+Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
+Uploaders: Steffen Moeller <moel...@debian.org>,
+           Andreas Tille <ti...@debian.org>
+Section: non-free/science
+XS-Autobuild: yes
+Priority: optional
+Build-Depends: debhelper (>= 9)
+Standards-Version: 3.9.8
+Vcs-Browser: 
https://anonscm.debian.org/viewvc/debian-med/trunk/packages/mssstest/
+Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/mssstest/trunk/
+Homepage: https://www-gene.cimr.cam.ac.uk/MSgenetics/GAMES/MSSS/index.html
+
+Package: mssstest
+Architecture: any
+Depends: ${shlibs:Depends},
+         ${misc:Depends}
+Description: Normalisation of disease scores for patients with Multiple 
Sclerosis
+ MSSStest is a program for implementing the method described in the
+ article The Multiple Sclerosis Severity Score. R. Roxburgh S. Seaman et
+ al. (2004), accepted for publication by Neurology. It calculates MSSS
+ scores and uses these scores to test for differences between disease
+ progression rates in different groups defined by genotype at some locus. A
+ brief description of the method is given below.

Copied: trunk/packages/mssstest/tags/3.0-5/debian/patches/gcc6.patch (from rev 
22816, trunk/packages/mssstest/trunk/debian/patches/gcc6.patch)
===================================================================
--- trunk/packages/mssstest/tags/3.0-5/debian/patches/gcc6.patch                
                (rev 0)
+++ trunk/packages/mssstest/tags/3.0-5/debian/patches/gcc6.patch        
2016-09-17 14:36:47 UTC (rev 22818)
@@ -0,0 +1,13 @@
+DescriptionL fix building with GCC6
+Author: Sascha Steinbiss <sa...@debian.org>
+--- a/neededroutines.cpp
++++ b/neededroutines.cpp
+@@ -169,7 +169,7 @@
+   int *intranks;
+ 
+   intranks = new int [len+1];
+-  rank(len, arr, intranks);
++  ::rank(len, arr, intranks);
+ 
+   for (i=1; i<=len; i++)
+     ranks[i] = (float) intranks[i];

Deleted: trunk/packages/mssstest/tags/3.0-5/debian/patches/hardening.patch
===================================================================
--- trunk/packages/mssstest/trunk/debian/patches/hardening.patch        
2016-09-17 13:59:40 UTC (rev 22813)
+++ trunk/packages/mssstest/tags/3.0-5/debian/patches/hardening.patch   
2016-09-17 14:36:47 UTC (rev 22818)
@@ -1,24 +0,0 @@
-Description: propagate hardening options
-Author: Andreas Tille <ti...@debian.org>
-Last-Update: Tue, 26 Jan 2016 11:39:01 +0100
-
---- a/makefile
-+++ b/makefile
-@@ -3,14 +3,14 @@ mi = neededroutines
- 
- 
- mssstest: $(mi).o $(mu).o
--      g++ -g -o mssstest $(mi).o $(mu).o -lm -lc
-+      g++ -g -o mssstest $(mi).o $(mu).o -lm -lc $(LDFLAGS)
- 
- 
- $(mi).o: $(mi).cpp $(mi).h
--      g++ -c $(mi).cpp  -g -o $(mi).o
-+      g++ $(CXXFLAGS) -c $(mi).cpp  -g -o $(mi).o
- 
- $(mu).o: $(mu).cpp
--      g++ -c $(mu).cpp  -g -o $(mu).o
-+      g++ $(CXXFLAGS) -c $(mu).cpp  -g -o $(mu).o
- 
- clean:
-       rm -f *.o

Copied: trunk/packages/mssstest/tags/3.0-5/debian/patches/hardening.patch (from 
rev 22816, trunk/packages/mssstest/trunk/debian/patches/hardening.patch)
===================================================================
--- trunk/packages/mssstest/tags/3.0-5/debian/patches/hardening.patch           
                (rev 0)
+++ trunk/packages/mssstest/tags/3.0-5/debian/patches/hardening.patch   
2016-09-17 14:36:47 UTC (rev 22818)
@@ -0,0 +1,24 @@
+Description: propagate hardening options
+Author: Andreas Tille <ti...@debian.org>
+Last-Update: Tue, 26 Jan 2016 11:39:01 +0100
+
+--- a/makefile
++++ b/makefile
+@@ -3,14 +3,14 @@
+ 
+ 
+ mssstest: $(mi).o $(mu).o
+-      g++ -g -o mssstest $(mi).o $(mu).o -lm -lc
++      g++ -g -o mssstest $(mi).o $(mu).o -lm -lc $(LDFLAGS)
+ 
+ 
+ $(mi).o: $(mi).cpp $(mi).h
+-      g++ -c $(mi).cpp  -g -o $(mi).o
++      g++ $(CPPFLAGS) $(CXXFLAGS) -c $(mi).cpp  -g -o $(mi).o
+ 
+ $(mu).o: $(mu).cpp
+-      g++ -c $(mu).cpp  -g -o $(mu).o
++      g++ $(CPPFLAGS) $(CXXFLAGS) -c $(mu).cpp  -g -o $(mu).o
+ 
+ clean:
+       rm -f *.o

Deleted: trunk/packages/mssstest/tags/3.0-5/debian/patches/series
===================================================================
--- trunk/packages/mssstest/trunk/debian/patches/series 2016-09-17 13:59:40 UTC 
(rev 22813)
+++ trunk/packages/mssstest/tags/3.0-5/debian/patches/series    2016-09-17 
14:36:47 UTC (rev 22818)
@@ -1,4 +0,0 @@
-20_gcc-4.3.patch
-10_fixdatapath.patch
-10_makefile.patch
-hardening.patch

Copied: trunk/packages/mssstest/tags/3.0-5/debian/patches/series (from rev 
22816, trunk/packages/mssstest/trunk/debian/patches/series)
===================================================================
--- trunk/packages/mssstest/tags/3.0-5/debian/patches/series                    
        (rev 0)
+++ trunk/packages/mssstest/tags/3.0-5/debian/patches/series    2016-09-17 
14:36:47 UTC (rev 22818)
@@ -0,0 +1,5 @@
+20_gcc-4.3.patch
+10_fixdatapath.patch
+10_makefile.patch
+hardening.patch
+gcc6.patch

Deleted: trunk/packages/mssstest/tags/3.0-5/debian/rules
===================================================================
--- trunk/packages/mssstest/trunk/debian/rules  2016-09-17 13:59:40 UTC (rev 
22813)
+++ trunk/packages/mssstest/tags/3.0-5/debian/rules     2016-09-17 14:36:47 UTC 
(rev 22818)
@@ -1,6 +0,0 @@
-#!/usr/bin/make -f
-# debian/rules file for mssstest
-# Andreas Tille <ti...@debian.org>, GPL
-
-%:
-       dh $@

Copied: trunk/packages/mssstest/tags/3.0-5/debian/rules (from rev 22816, 
trunk/packages/mssstest/trunk/debian/rules)
===================================================================
--- trunk/packages/mssstest/tags/3.0-5/debian/rules                             
(rev 0)
+++ trunk/packages/mssstest/tags/3.0-5/debian/rules     2016-09-17 14:36:47 UTC 
(rev 22818)
@@ -0,0 +1,8 @@
+#!/usr/bin/make -f
+# debian/rules file for mssstest
+# Andreas Tille <ti...@debian.org>, GPL
+
+export DEB_BUILD_MAINT_OPTIONS = hardening=+all
+
+%:
+       dh $@


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