Mercurial > repos > nilesh > rseqc
comparison RNA_fragment_size.xml @ 59:dbedfc5f5a3c draft
"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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| 58:1a052c827e88 | 59:dbedfc5f5a3c |
|---|---|
| 1 <tool id="rseqc_RNA_fragment_size" name="RNA fragment size" version="@WRAPPER_VERSION@.1"> | 1 <tool id="rseqc_RNA_fragment_size" name="RNA fragment size" version="@TOOL_VERSION@.1"> |
| 2 <description> | 2 <description> |
| 3 calculates the fragment size for each gene/transcript | 3 calculates the fragment size for each gene/transcript |
| 4 </description> | 4 </description> |
| 5 | 5 <expand macro="bio_tools"/> |
| 6 <macros> | 6 <macros> |
| 7 <import>rseqc_macros.xml</import> | 7 <import>rseqc_macros.xml</import> |
| 8 </macros> | 8 </macros> |
| 9 | 9 |
| 10 <expand macro="requirements" /> | 10 <expand macro="requirements" /> |
| 32 </outputs> | 32 </outputs> |
| 33 | 33 |
| 34 <tests> | 34 <tests> |
| 35 <test> | 35 <test> |
| 36 <param name="input" value="pairend_strandspecific_51mer_hg19_chr1_1-100000.bam" /> | 36 <param name="input" value="pairend_strandspecific_51mer_hg19_chr1_1-100000.bam" /> |
| 37 <param name="refgene" value="hg19_RefSeq_chr1_1-100000.bed" /> | 37 <param name="refgene" value="hg19_RefSeq_chr1_1-100000.bed" ftype="bed12"/> |
| 38 <output name="output"> | 38 <output name="output"> |
| 39 <assert_contents> | 39 <assert_contents> |
| 40 <has_line_matching expression="^chrom\ttx_start\ttx_end\tsymbol\tfrag_count\tfrag_mean\tfrag_median\tfrag_std$" /> | 40 <has_line_matching expression="^chrom\ttx_start\ttx_end\tsymbol\tfrag_count\tfrag_mean\tfrag_median\tfrag_std$" /> |
| 41 <has_line_matching expression="^chr1\t11873\t14409\tNR_046018\t1\t0\t0\t0$" /> | 41 <has_line_matching expression="^chr1\t11873\t14409\tNR_046018\t1\t0\t0\t0$" /> |
| 42 <has_line_matching expression="^chr1\t14361\t29370\tNR_024540\t14\t66.5\t51.0\t41.119599080\d+$" /> | 42 <has_line_matching expression="^chr1\t14361\t29370\tNR_024540\t14\t66.5\t51.0\t41.119599080\d+$" /> |