Mercurial > repos > artbio > rsem

comparison rsem-bwt2.xml @ 1:49795544dac7 draft

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planemo upload for repository https://github.com/artbio/tools-artbio/tree/master/tools/rsem commit 62e8088d5f73cbb9b2f93e23a74636c77a06b492
author artbio
date Sun, 01 Apr 2018 18:28:24 -0400
parents e5e836936d60
children 9fa602bc29ec
comparison
equal deleted inserted replaced
0:e5e836936d60 1:49795544dac7
1 <tool id="rsembowtie2" name="RSEM-Bowtie2" version="0.4.0"> 1 <tool id="rsembowtie2" name="RSEM-Bowtie2" version="@WRAPPER_VERSION@">
2 <description></description> 2 <description></description>
3 <macros> 3 <macros>
4 <import>macros.xml</import> 4 <import>macros.xml</import>
5 </macros> 5 </macros>
6 <requirements> 6 <requirements>
239 <param name="refSrc" type="select" label="RSEM Reference Source"> 239 <param name="refSrc" type="select" label="RSEM Reference Source">
240 <option value="history">From your history</option> 240 <option value="history">From your history</option>
241 <option value="self">Prepare RSEM Reference with this tool</option> 241 <option value="self">Prepare RSEM Reference with this tool</option>
242 </param> 242 </param>
243 <when value="history"> 243 <when value="history">
244 <param name="rsem_ref" type="data" format="rsem_ref" label="RSEM reference" /> 244 <param name="rsem_ref" type="data" format="rsem_bt2_ref" label="RSEM reference" />
245 </when> 245 </when>
246 <when value="self"> 246 <when value="self">
247 </when> 247 </when>
248 </conditional> 248 </conditional>
249 <conditional name="input"> 249 <conditional name="input">
319 </when> 319 </when>
320 </conditional> 320 </conditional>
321 </inputs> 321 </inputs>
322 322
323 <outputs> 323 <outputs>
324 <data format="rsem_ref" name="reference_file" label="RSEM ${job.reference_name} reference"> 324 <data format="rsem_bt2_ref" name="reference_file" label="RSEM ${job.reference_name} reference">
325 <filter>job['select_job'] == "index"</filter> 325 <filter>job['select_job'] == "index"</filter>
326 </data> 326 </data>
327 <data format="tabular" name="gene_abundances" label="${run_rsem.sample}.gene_abundances" from_work_dir="rsem_output.genes.results"> 327 <data format="tabular" name="gene_abundances" label="${run_rsem.sample}.gene_abundances" from_work_dir="rsem_output.genes.results">
328 <filter>run_rsem['select'] == "Yes"</filter> 328 <filter>run_rsem['select'] == "Yes"</filter>
329 </data> 329 </data>