# HG changeset patch
# User dave
# Date 1447447355 18000
# Node ID 68e581bd3a36b48a0b0f7d4a340871aae0c4615d
# Parent 91bd6dfe97f7f0c431c6aa9931eee12a041b24e9
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/qorts commit 1f232ed80ea6ef2192647e293040a22c9733b260-dirty
diff -r 91bd6dfe97f7 -r 68e581bd3a36 dependency_configs/tool_dependencies.xml
--- a/dependency_configs/tool_dependencies.xml Tue Jun 04 09:53:52 2013 -0400
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000
@@ -1,14 +0,0 @@
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diff -r 91bd6dfe97f7 -r 68e581bd3a36 qorts_macros.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/qorts_macros.xml Fri Nov 13 15:42:35 2015 -0500
@@ -0,0 +1,8 @@
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+ java -jar \$JAVA_JAR_PATH/QoRTs.jar
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+ QoRTs
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+
\ No newline at end of file
diff -r 91bd6dfe97f7 -r 68e581bd3a36 qorts_qc.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/qorts_qc.xml Fri Nov 13 15:42:35 2015 -0500
@@ -0,0 +1,165 @@
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+ qorts_macros.xml
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+ quality control RNA-Seq reads
+ "${stdio}" 2>&1
+ ]]>
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+ ('NVC' in functions)
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+ ('NVC' in functions)
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+ ('NVC' in functions or 'writeClippedNVC' in functions)
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+ ('NVC' in functions or 'writeClippedNVC' in functions)
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+ ('GCDistribution' in functions)
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+ ('GCDistribution' in functions)
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+ ('GCDistribution' in functions)
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+ ('GCDistribution' in functions)
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+ ('GCDistribution' in functions)
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+ ('QualityScoreDistribution' in functions)
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+ ('QualityScoreDistribution' in functions)
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+ ('writeJunctionSeqCounts' in functions or 'makeJunctionBed,writeJunctionSeqCounts,writeSpliceExon,JunctionCalcs' in functions)
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+ ('writeKnownSplices' in functions)
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+ ('writeNovelSplices' in functions)
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+ ('annotatedSpliceExonCounts' in functions)
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+ ('writeClippedNVC' in functions)
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+ ('writeClippedNVC' in functions)
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+ ('writeClippedNVC' in functions)
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+ ('writeClippedNVC' in functions)
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+ ('writeClippedNVC' in functions)
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+ ('writeClippedNVC' in functions)
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+ ('CigarOpDistribution' in functions)
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+ ('CigarOpDistribution' in functions)
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+ ('CigarOpDistribution' in functions)
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+ ('CigarOpDistribution' in functions)
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+ ('InsertSize' in functions)
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+ ('InsertSize' in functions)
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+ ('InsertSize' in functions)
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+ ('chromCounts' in functions)
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+ ('writeGeneCounts' in functions)
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+ ('writeDESeq' in functions)
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+ ('writeDEXSeq' in functions)
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+ ('writeGeneBody' in functions)
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+ ('writeGeneBody' in functions)
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+ ('makeJunctionBed,writeJunctionSeqCounts,writeSpliceExon,JunctionCalcs' in functions or 'makeAllBrowserTracks' in functions)
+
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+ ('makeWiggles' in functions or 'makeAllBrowserTracks' in functions)
+
+
+
\ No newline at end of file
diff -r 91bd6dfe97f7 -r 68e581bd3a36 tool_dependencies.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml Fri Nov 13 15:42:35 2015 -0500
@@ -0,0 +1,6 @@
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