Mercurial > repos > nilesh > rseqc
diff RPKM_saturation.xml @ 50:f242ee103277 draft
planemo upload for repository https://github.com/lparsons/galaxy_tools/tree/master/tools/rseqc commit 91ad241aa3f34b70649d13a5f18611da7577a5ee
| author | lparsons |
|---|---|
| date | Tue, 03 May 2016 16:36:57 -0400 |
| parents | 6b33e31bda10 |
| children | 09846d5169fa |
line wrap: on
line diff
--- a/RPKM_saturation.xml Thu Jul 16 17:43:43 2015 -0400 +++ b/RPKM_saturation.xml Tue May 03 16:36:57 2016 -0400 @@ -77,17 +77,30 @@ <data format="pdf" name="outputpdf" from_work_dir="output.saturation.pdf" label="${tool.name} on ${on_string} (PDF)"/> </outputs> - <!-- Unable to succefully run this script with test data <tests> <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="outputxls" file="output.eRPKM.xls"/> - <output name="outputrawxls" file="output.rawCount.xls"/> - <output name="outputr" file="output.saturation.r"/> + <param name="input" value="pairend_strandspecific_51mer_hg19_random.bam"/> + <param name="refgene" value="hg19.HouseKeepingGenes_30.bed"/> + <output name="outputxls"> + <assert_contents> + <has_n_columns n="26" /> + <has_line_matching expression="chr1\t16174358\t16266950\tNM_015001.*" /> + </assert_contents> + </output> + <output name="outputrawxls"> + <assert_contents> + <has_n_columns n="26" /> + <has_line_matching expression="chr1\t16174358\t16266950\tNM_015001.*" /> + </assert_contents> + </output> + <output name="outputr"> + <assert_contents> + <has_text text="pdf('output.saturation.pdf')" /> + <has_line_matching expression="S5=c\(\d+\.\d+\)" /> + </assert_contents> + </output> </test> </tests> - --> <help><![CDATA[ RPKM_saturation.py