Mercurial > repos > nilesh > rseqc

diff junction_saturation.xml @ 59:dbedfc5f5a3c draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/rseqc commit 247059e2527b66f1dbecf1e61496daef921040c3"
author iuc
date Sat, 18 Dec 2021 19:41:19 +0000
parents 5873cd7afb67
children 1421603cc95b
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--- a/junction_saturation.xml	Thu Nov 28 15:56:37 2019 -0500
+++ b/junction_saturation.xml	Sat Dec 18 19:41:19 2021 +0000
@@ -1,6 +1,6 @@
-<tool id="rseqc_junction_saturation" name="Junction Saturation" version="@WRAPPER_VERSION@.1">
+<tool id="rseqc_junction_saturation" name="Junction Saturation" version="@TOOL_VERSION@.1">
     <description>detects splice junctions from each subset and compares them to reference gene model</description>
-
+    <expand macro="bio_tools"/>
     <macros>
         <import>rseqc_macros.xml</import>
     </macros>
@@ -62,9 +62,9 @@
     <tests>
         <test>
             <param name="input" value="pairend_strandspecific_51mer_hg19_chr1_1-100000.bam" />
-            <param name="refgene" value="hg19_RefSeq_chr1_1-100000.bed" />
+            <param name="refgene" value="hg19_RefSeq_chr1_1-100000.bed" ftype="bed12"/>
             <param name="rscript_output" value="true" />
-            <output name="outputr" file="output.junctionSaturation_plot.r" compare="sim_size">
+            <output name="outputr" file="output.junctionSaturation_plot_r" compare="sim_size">
                 <assert_contents>
                     <has_line line="pdf('output.junctionSaturation_plot.pdf')" />
                     <has_line line="x=c(5,10,15,20,25,30,35,40,45,50,55,60,65,70,75,80,85,90,95,100)" />