Mercurial > repos > nilesh > rseqc
diff RNA_fragment_size.xml @ 54:5873cd7afb67 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/rseqc commit 62a9135bf04aec398d3172d17ccd60f5242d8e82
| author | iuc |
|---|---|
| date | Wed, 13 Jun 2018 18:02:25 -0400 |
| parents | 09846d5169fa |
| children | dbedfc5f5a3c |
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--- a/RNA_fragment_size.xml Tue Mar 20 05:37:48 2018 -0400 +++ b/RNA_fragment_size.xml Wed Jun 13 18:02:25 2018 -0400 @@ -1,4 +1,4 @@ -<tool id="rseqc_RNA_fragment_size" name="RNA fragment size" version="@WRAPPER_VERSION@"> +<tool id="rseqc_RNA_fragment_size" name="RNA fragment size" version="@WRAPPER_VERSION@.1"> <description> calculates the fragment size for each gene/transcript </description> @@ -35,7 +35,18 @@ <test> <param name="input" value="pairend_strandspecific_51mer_hg19_chr1_1-100000.bam" /> <param name="refgene" value="hg19_RefSeq_chr1_1-100000.bed" /> - <output name="output" file="output.RNA_fragment_size.txt" /> + <output name="output"> + <assert_contents> + <has_line_matching expression="^chrom\ttx_start\ttx_end\tsymbol\tfrag_count\tfrag_mean\tfrag_median\tfrag_std$" /> + <has_line_matching expression="^chr1\t11873\t14409\tNR_046018\t1\t0\t0\t0$" /> + <has_line_matching expression="^chr1\t14361\t29370\tNR_024540\t14\t66.5\t51.0\t41.119599080\d+$" /> + <has_line_matching expression="^chr1\t17368\t17436\tNR_106918\t0\t0\t0\t0$" /> + <has_line_matching expression="^chr1\t17368\t17436\tNR_107062\t0\t0\t0\t0$" /> + <has_line_matching expression="^chr1\t34610\t36081\tNR_026818\t0\t0\t0\t0$" /> + <has_line_matching expression="^chr1\t34610\t36081\tNR_026820\t0\t0\t0\t0$" /> + <has_line_matching expression="^chr1\t69090\t70008\tNM_001005484\t0\t0\t0\t0$" /> + </assert_contents> + </output> </test> </tests>