[med-svn] [artemis] 01/08: Patch source to allow code to compile with external jars

Afif Elghraoui afif-guest at moszumanska.debian.org
Thu Oct 22 12:51:50 UTC 2015


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afif-guest pushed a commit to branch master
in repository artemis.

commit 29b7c24b9165990b4a28469f6a530ddcb5885516
Author: Afif Elghraoui <afif at ghraoui.name>
Date:   Thu Oct 22 00:03:19 2015 -0700

    Patch source to allow code to compile with external jars
---
 debian/patches/CRAMReferenceSequenceFile.patch | 21 +++++++++++++++++++++
 debian/patches/series                          |  1 +
 2 files changed, 22 insertions(+)

diff --git a/debian/patches/CRAMReferenceSequenceFile.patch b/debian/patches/CRAMReferenceSequenceFile.patch
new file mode 100644
index 0000000..515f083
--- /dev/null
+++ b/debian/patches/CRAMReferenceSequenceFile.patch
@@ -0,0 +1,21 @@
+Description: Override abstract method
+ Compilation otherwise fails (at least using dependencies from Debian packages)
+ because an abstract class is not overridden. This patch provides a simple
+ override of the offending method
+Author: Afif Elghraoui <afif at ghraoui.name>
+Forwarded: no
+Last-Update: 2015-10-22
+--- artemis.orig/uk/ac/sanger/artemis/components/alignment/CRAMReferenceSequenceFile.java
++++ artemis/uk/ac/sanger/artemis/components/alignment/CRAMReferenceSequenceFile.java
+@@ -107,5 +107,8 @@
+     public void reset()
+     {
+     }
+-    
+-  }
+\ No newline at end of file
++
++    public void close()
++    {
++    }
++  }
diff --git a/debian/patches/series b/debian/patches/series
index 091507a..171c6d3 100644
--- a/debian/patches/series
+++ b/debian/patches/series
@@ -1,2 +1,3 @@
 class-path.patch
 java6.patch
+CRAMReferenceSequenceFile.patch

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