[med-svn] [subread] 01/04: d/patches/getopt4exactSNP.patch: attempt to fix #784929 d/changelog: upload to experimental

[Alex Mestiashvili]

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malex-guest pushed a commit to branch master
in repository subread.

commit 2e287f8c51a563a552648e3682bc631c7e9ecba3
Author: Alexandre Mestiashvili <alex at biotec.tu-dresden.de>
Date:   Wed May 13 22:22:47 2015 +0200

    d/patches/getopt4exactSNP.patch: attempt to fix #784929
    d/changelog: upload to experimental
---
 debian/changelog                     |  6 ++++++
 debian/patches/getopt4exactSNP.patch | 13 +++++++++++++
 debian/patches/series                |  1 +
 3 files changed, 20 insertions(+)

diff --git a/debian/changelog b/debian/changelog
index 9d2e4d5..24c2d79 100644
--- a/debian/changelog
+++ b/debian/changelog
@@ -1,3 +1,9 @@
+subread (1.4.6-p2+dfsg-3) experimental; urgency=medium
+
+  * d/patches/getopt4exactSNP.patch: attempt to fix #784929
+
+ -- Alexandre Mestiashvili <alex at biotec.tu-dresden.de>  Wed, 13 May 2015 22:22:24 +0200
+
 subread (1.4.6-p2+dfsg-2) unstable; urgency=medium
 
   * d/patches/gcc_flags_cleanup.patch: remove -mtune=core2 and mmmx,msse* flags
diff --git a/debian/patches/getopt4exactSNP.patch b/debian/patches/getopt4exactSNP.patch
new file mode 100644
index 0000000..f104e33
--- /dev/null
+++ b/debian/patches/getopt4exactSNP.patch
@@ -0,0 +1,13 @@
+Description: getopt_long return int, not char
+Origin: Bug#784929
+--- subread.orig/src/SNPCalling.c
++++ subread/src/SNPCalling.c
+@@ -1524,7 +1524,7 @@
+ 	for(xk1=0;xk1<1;xk1++){
+ 
+ 
+-	char c;
++	int c;
+ 	char in_SAM_file[5000];
+ 	char out_BED_file[300];
+ 	char temp_path[300];
diff --git a/debian/patches/series b/debian/patches/series
index c7d6d2a..741e6f6 100644
--- a/debian/patches/series
+++ b/debian/patches/series
@@ -1,3 +1,4 @@
+getopt4exactSNP.patch
 gcc_flags_cleanup.patch
 fix_syntax.patch
 inject_hardening_flags.patch

-- 
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