Mercurial > repos > bgruening > deeptools_correct_gc_bias

changeset 3:7e5e30b9755d draft

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planemo upload for repository https://github.com/fidelram/deepTools/tree/master/galaxy/wrapper/ commit 2e8510e4f4015f51f7726de5697ba2de9b4e2f4c
author bgruening
date Wed, 09 Mar 2016 18:23:25 -0500
parents 029fd5891708
children 82685a75add1
files correctGCBias.xml deepTools_macros.xml test-data/bamCoverage_result5.bw test-data/computeMatrix_result1.gz test-data/computeMatrix_result2.gz test-data/computeMatrix_result3.gz test-data/heatmapper_result1.png test-data/heatmapper_result2.png test-data/heatmapper_result2.tabular test-data/plotCorrelation_result1.png test-data/plotCoverage_result1.png test-data/plotPCA_result1.png test-data/plotPCA_result2.png test-data/plotPCA_result2.tabular test-data/profiler_result1.png test-data/profiler_result2.png test-data/profiler_result2.tabular
diffstat 17 files changed, 14 insertions(+), 5 deletions(-) [+]
line wrap: on
line diff
--- a/correctGCBias.xml	Thu Feb 18 11:51:08 2016 -0500
+++ b/correctGCBias.xml	Wed Mar 09 18:23:25 2016 -0500
@@ -32,7 +32,7 @@
     <inputs>
         <param argument="--GCbiasFrequenciesFile" type="data" format="tabular" label="Output of computeGCBias" help="" />
         <param argument="--bamInput" format="bam" type="data"
-            label="BAM file" help="This should be same file that was used for computeGCbias. The BAM file must be sorted." />
+            label="BAM file" help="This should be same file that was used for computeGCbias." />
         <expand macro="reference_genome_source" />
         <expand macro="effectiveGenomeSize" />
         <expand macro="region_limit_operation" />
--- a/deepTools_macros.xml	Thu Feb 18 11:51:08 2016 -0500
+++ b/deepTools_macros.xml	Wed Mar 09 18:23:25 2016 -0500
@@ -72,12 +72,12 @@
     </xml>
 
     <token name="@THREADS@">--numberOfProcessors "\${GALAXY_SLOTS:-4}"</token>
-    <token name="@WRAPPER_VERSION@">2.1.0</token>
+    <token name="@WRAPPER_VERSION@">2.2.2</token>
     <xml name="requirements">
         <requirements>
             <requirement type="package" version="2.7.10">python</requirement>
             <requirement type="binary">@BINARY@</requirement>
-            <requirement type="package" version="2.1.0">deepTools</requirement>
+            <requirement type="package" version="2.2.2">deepTools</requirement>
             <yield />
         </requirements>
         <expand macro="stdio" />
@@ -310,13 +310,13 @@
     <xml name="multiple_input_bams">
         <param argument="--bamfiles" type="data" format="bam" min="1"
             label="Bam file" multiple="true"
-            help="The BAM file must be sorted."/>
+            help=""/>
     </xml>
 
     <xml name="multiple_input_bams_min2">
         <param argument="--bamfiles" type="data" format="bam" min="2"
             label="Bam file" multiple="true"
-            help="The BAM file must be sorted."/>
+            help=""/>
     </xml>
 
     <xml name="multiple_input_bigwigs">
Binary file test-data/bamCoverage_result5.bw has changed
Binary file test-data/computeMatrix_result1.gz has changed
Binary file test-data/computeMatrix_result2.gz has changed
Binary file test-data/computeMatrix_result3.gz has changed
Binary file test-data/heatmapper_result1.png has changed
Binary file test-data/heatmapper_result2.png has changed
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/heatmapper_result2.tabular	Wed Mar 09 18:23:25 2016 -0500
@@ -0,0 +1,3 @@
+bin labels		-0.0Kb	0.0Kb
+bins		1	2
+file_0	genes	2477942.34473	2610259.65234
Binary file test-data/plotCorrelation_result1.png has changed
Binary file test-data/plotCoverage_result1.png has changed
Binary file test-data/plotPCA_result1.png has changed
Binary file test-data/plotPCA_result2.png has changed
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/plotPCA_result2.tabular	Wed Mar 09 18:23:25 2016 -0500
@@ -0,0 +1,3 @@
+Component	bowtie2-test1.bam	bowtie2-test1.bam	Eigenvalue
+1	-0.707106781187	-0.707106781187	6.0
+2	-0.707106781187	0.707106781187	1.23259516441e-32
Binary file test-data/profiler_result1.png has changed
Binary file test-data/profiler_result2.png has changed
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/profiler_result2.tabular	Wed Mar 09 18:23:25 2016 -0500
@@ -0,0 +1,3 @@
+bin labels		-0.0Kb	0.0Kb
+bins		1	2
+file_0	genes	2477942.34473	2610259.65234