[med-svn] r18866 - in trunk/packages/trimmomatic/trunk/debian: . bin

[Andreas Tille]

Author: tille
Date: 2015-02-26 21:25:20 +0000 (Thu, 26 Feb 2015)
New Revision: 18866

Added:
   trunk/packages/trimmomatic/trunk/debian/README.Debian
Modified:
   trunk/packages/trimmomatic/trunk/debian/bin/TrimmomaticPE
   trunk/packages/trimmomatic/trunk/debian/changelog
   trunk/packages/trimmomatic/trunk/debian/install
Log:
Add proper description for programm call in README.Debian


Added: trunk/packages/trimmomatic/trunk/debian/README.Debian
===================================================================
--- trunk/packages/trimmomatic/trunk/debian/README.Debian	                        (rev 0)
+++ trunk/packages/trimmomatic/trunk/debian/README.Debian	2015-02-26 21:25:20 UTC (rev 18866)
@@ -0,0 +1,11 @@
+Trimmomatic for Debian
+======================
+
+The adapters are installed to /usr/share/trimmomatic/*.fa
+Here is an example command line:
+
+  TrimmomaticSE --phred33 input.fq.gz output.fq.gz \
+     ILLUMINACLIP:/usr/share/trimmomatic/TruSeq3-SE:2:30:10 \
+     LEADING:3 TRAILING:3 SLIDINGWINDOW:4:15 MINLEN:36
+
+ -- Andreas Tille <tille at debian.org>  Thu, 26 Feb 2015 21:52:47 +0100

Modified: trunk/packages/trimmomatic/trunk/debian/bin/TrimmomaticPE
===================================================================
--- trunk/packages/trimmomatic/trunk/debian/bin/TrimmomaticPE	2015-02-26 21:16:42 UTC (rev 18865)
+++ trunk/packages/trimmomatic/trunk/debian/bin/TrimmomaticPE	2015-02-26 21:25:20 UTC (rev 18866)
@@ -8,5 +8,4 @@
     exit 1
 fi
 
-export ILLUMINACLIP=/usr/share/${ILLUMINACLIP}/adapters
 java -classpath "$JARVERSION" org.usadellab.$PKGNAME.$FUNCTIONTOCALL $@

Modified: trunk/packages/trimmomatic/trunk/debian/changelog
===================================================================
--- trunk/packages/trimmomatic/trunk/debian/changelog	2015-02-26 21:16:42 UTC (rev 18865)
+++ trunk/packages/trimmomatic/trunk/debian/changelog	2015-02-26 21:25:20 UTC (rev 18866)
@@ -1,6 +1,6 @@
 trimmomatic (0.32+dfsg-3) UNRELEASED; urgency=medium
 
-  * Install adapter files
+  * Install adapter files and document their usage in d/README.Debian
     Closes: #779296
 
  -- Andreas Tille <tille at debian.org>  Thu, 26 Feb 2015 21:52:47 +0100

Modified: trunk/packages/trimmomatic/trunk/debian/install
===================================================================
--- trunk/packages/trimmomatic/trunk/debian/install	2015-02-26 21:16:42 UTC (rev 18865)
+++ trunk/packages/trimmomatic/trunk/debian/install	2015-02-26 21:25:20 UTC (rev 18866)
@@ -1,2 +1,2 @@
 debian/bin/*	usr/bin
-adapters	usr/share/trimmomatic
+adapters/*	usr/share/trimmomatic