[med-svn] r6681 - in trunk/packages/ampliconnoise/trunk/debian: . patches source
Timothy Booth
tbooth-guest at alioth.debian.org
Wed Apr 27 16:53:22 UTC 2011
Author: tbooth-guest
Date: 2011-04-27 16:53:21 +0000 (Wed, 27 Apr 2011)
New Revision: 6681
Added:
trunk/packages/ampliconnoise/trunk/debian/patches/fix-clean-of-seqnoisem.patch
trunk/packages/ampliconnoise/trunk/debian/patches/fix-path-for-data.patch
trunk/packages/ampliconnoise/trunk/debian/patches/series
trunk/packages/ampliconnoise/trunk/debian/source/
trunk/packages/ampliconnoise/trunk/debian/source/format
Modified:
trunk/packages/ampliconnoise/trunk/debian/changelog
trunk/packages/ampliconnoise/trunk/debian/control
trunk/packages/ampliconnoise/trunk/debian/rules
Log:
Include data in package.
Modified: trunk/packages/ampliconnoise/trunk/debian/changelog
===================================================================
--- trunk/packages/ampliconnoise/trunk/debian/changelog 2011-04-27 15:53:24 UTC (rev 6680)
+++ trunk/packages/ampliconnoise/trunk/debian/changelog 2011-04-27 16:53:21 UTC (rev 6681)
@@ -1,8 +1,14 @@
-ampliconnoise (1.22-1ubuntu1) lucid; urgency=low
+ampliconnoise (1.22-1ubuntu3) lucid; urgency=low
+ * Included required data and set paths to find it.
+
+ -- Tim Booth <tbooth at ceh.ac.uk> Wed, 27 Apr 2011 17:48:14 +0100
+
+ampliconnoise (1.22-1ubuntu2) lucid; urgency=low
+
* Build for Lucid.
- -- Tim Booth <tbooth at ceh.ac.uk> Wed, 27 Apr 2011 16:09:27 +0100
+ -- Tim Booth <tbooth at ceh.ac.uk> Wed, 27 Apr 2011 17:40:28 +0100
ampliconnoise (1.22-1) unstable; urgency=low
Modified: trunk/packages/ampliconnoise/trunk/debian/control
===================================================================
--- trunk/packages/ampliconnoise/trunk/debian/control 2011-04-27 15:53:24 UTC (rev 6680)
+++ trunk/packages/ampliconnoise/trunk/debian/control 2011-04-27 16:53:21 UTC (rev 6681)
@@ -2,7 +2,7 @@
Section: science
Priority: extra
Maintainer: Tim Booth <tbooth at ceh.ac.uk>
-Build-Depends: quilt (>= 0.46-7~), debhelper (>= 7), libgsl0-dev
+Build-Depends: quilt (>= 0.46-7~), debhelper (>= 7.1~), libgsl0-dev
Standards-Version: 3.8.3
Homepage: http://code.google.com/p/ampliconnoise/
Added: trunk/packages/ampliconnoise/trunk/debian/patches/fix-clean-of-seqnoisem.patch
===================================================================
--- trunk/packages/ampliconnoise/trunk/debian/patches/fix-clean-of-seqnoisem.patch (rev 0)
+++ trunk/packages/ampliconnoise/trunk/debian/patches/fix-clean-of-seqnoisem.patch 2011-04-27 16:53:21 UTC (rev 6681)
@@ -0,0 +1,8 @@
+--- a/SeqNoiseM/makefile
++++ b/SeqNoiseM/makefile
+@@ -13,4 +13,4 @@
+ $(CC) $(CFLAGS) -c $*.c
+
+ clean:
+- rm -rf *.o SeqNoise
++ rm -rf *.o SeqNoiseM
Added: trunk/packages/ampliconnoise/trunk/debian/patches/fix-path-for-data.patch
===================================================================
--- trunk/packages/ampliconnoise/trunk/debian/patches/fix-path-for-data.patch (rev 0)
+++ trunk/packages/ampliconnoise/trunk/debian/patches/fix-path-for-data.patch 2011-04-27 16:53:21 UTC (rev 6681)
@@ -0,0 +1,112 @@
+Description: Upstream changes introduced in version 1.22-1ubuntu3
+ This patch has been created by dpkg-source during the package build.
+ Here's the last changelog entry, hopefully it gives details on why
+ those changes were made:
+ .
+ ampliconnoise (1.22-1ubuntu3) lucid; urgency=low
+ .
+ * Included required data and set paths to find it.
+ .
+ The person named in the Author field signed this changelog entry.
+Author: Tim Booth <tbooth at ceh.ac.uk>
+
+---
+The information above should follow the Patch Tagging Guidelines, please
+checkout http://dep.debian.net/deps/dep3/ to learn about the format. Here
+are templates for supplementary fields that you might want to add:
+
+Origin: <vendor|upstream|other>, <url of original patch>
+Bug: <url in upstream bugtracker>
+Bug-Debian: http://bugs.debian.org/<bugnumber>
+Forwarded: <no|not-needed|url proving that it has been forwarded>
+Reviewed-By: <name and email of someone who approved the patch>
+Last-Update: <YYYY-MM-DD>
+
+--- ampliconnoise-1.22.orig/SeqNoise/SeqNoise.h
++++ ampliconnoise-1.22/SeqNoise/SeqNoise.h
+@@ -113,7 +113,7 @@ typedef struct s_Master
+ /********DEFAULTS***********/
+ #define DEF_SIGMA 30.0
+ #define DEF_CUT 0.08
+-#define LOOKUP_FILE "../Data/Tran.dat"
++#define LOOKUP_FILE "/usr/share/ampliconnoise/Data/Tran.dat"
+ /***************************/
+
+ /******Programming Constants************/
+--- ampliconnoise-1.22.orig/SeqDistM/SeqDistM.h
++++ ampliconnoise-1.22/SeqDistM/SeqDistM.h
+@@ -71,7 +71,7 @@ typedef struct s_Data
+
+ /* User defined structures */
+
+-#define LOOKUP_FILE "../Data/Tran.dat"
++#define LOOKUP_FILE "/usr/share/ampliconnoise/Data/Tran.dat"
+
+
+ typedef struct s_Align
+--- ampliconnoise-1.22.orig/SeqDist/SeqDist.h
++++ ampliconnoise-1.22/SeqDist/SeqDist.h
+@@ -71,7 +71,7 @@ typedef struct s_Data
+
+ /* User defined structures */
+
+-#define LOOKUP_FILE "../Data/Tran.dat"
++#define LOOKUP_FILE "/usr/share/ampliconnoise/Data/Tran.dat"
+
+
+ typedef struct s_Align
+--- ampliconnoise-1.22.orig/SeqNoiseM/SeqNoiseM.h
++++ ampliconnoise-1.22/SeqNoiseM/SeqNoiseM.h
+@@ -113,7 +113,7 @@ typedef struct s_Master
+ /********DEFAULTS***********/
+ #define DEF_SIGMA 30.0
+ #define DEF_CUT 0.08
+-#define LOOKUP_FILE "../Data/Tran.dat"
++#define LOOKUP_FILE "/usr/share/ampliconnoise/Data/Tran.dat"
+ /***************************/
+
+ /******Programming Constants************/
+--- ampliconnoise-1.22.orig/PyroNoiseM/PyroNoiseM.h
++++ ampliconnoise-1.22/PyroNoiseM/PyroNoiseM.h
+@@ -36,7 +36,7 @@
+
+ #define OVERCALL_THRESH 6.0 /*?*/
+
+-#define LOOKUP_FILE "../Data/LookUp_E123.dat"
++#define LOOKUP_FILE "/usr/share/ampliconnoise/Data/LookUp_E123.dat"
+
+ #define OUT_FILE_STUB "-out"
+ #define INIT_FILE "-lin"
+--- ampliconnoise-1.22.orig/PyroNoise/PyroNoise.h
++++ ampliconnoise-1.22/PyroNoise/PyroNoise.h
+@@ -37,7 +37,7 @@
+
+ #define OVERCALL_THRESH 6.0 /*?*/
+
+-#define LOOKUP_FILE "../Data/LookUp_E123.dat"
++#define LOOKUP_FILE "/usr/share/ampliconnoise/Data/LookUp_E123.dat"
+
+ #define OUT_FILE_STUB "-out"
+ #define INIT_FILE "-lin"
+--- ampliconnoise-1.22.orig/Perseus/Perseus.h
++++ ampliconnoise-1.22/Perseus/Perseus.h
+@@ -86,7 +86,7 @@ typedef struct s_Data
+ #define WEIGHTDELIM '_'
+
+ #define N_BASES 4
+-#define LOOKUP_FILE "../Data/Tran.dat"
++#define LOOKUP_FILE "/usr/share/ampliconnoise/Data/Tran.dat"
+
+ #ifndef min
+ #define min(x, y) ((x) < (y) ? (x) : (y))
+--- ampliconnoise-1.22.orig/PyroDist/PyroDist.h
++++ ampliconnoise-1.22/PyroDist/PyroDist.h
+@@ -34,7 +34,7 @@
+ #define LEFT 1
+ #define UP 2
+
+-#define LOOKUP_FILE "../Data/LookUp_E123.dat"
++#define LOOKUP_FILE "/usr/share/ampliconnoise/Data/LookUp_E123.dat"
+ #define MAX_PACKET_SIZE 1048576
+
+ #define BINS 1000
Added: trunk/packages/ampliconnoise/trunk/debian/patches/series
===================================================================
--- trunk/packages/ampliconnoise/trunk/debian/patches/series (rev 0)
+++ trunk/packages/ampliconnoise/trunk/debian/patches/series 2011-04-27 16:53:21 UTC (rev 6681)
@@ -0,0 +1,2 @@
+fix-clean-of-seqnoisem.patch
+fix-path-for-data.patch
Modified: trunk/packages/ampliconnoise/trunk/debian/rules
===================================================================
--- trunk/packages/ampliconnoise/trunk/debian/rules 2011-04-27 15:53:24 UTC (rev 6680)
+++ trunk/packages/ampliconnoise/trunk/debian/rules 2011-04-27 16:53:21 UTC (rev 6681)
@@ -15,4 +15,5 @@
override_dh_auto_install:
make install
dh_install bin/* /usr/bin
+ dh_install Data/* /usr/share/ampliconnoise/Data/
Added: trunk/packages/ampliconnoise/trunk/debian/source/format
===================================================================
--- trunk/packages/ampliconnoise/trunk/debian/source/format (rev 0)
+++ trunk/packages/ampliconnoise/trunk/debian/source/format 2011-04-27 16:53:21 UTC (rev 6681)
@@ -0,0 +1 @@
+3.0 (quilt)
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