Mercurial > repos > artbio > rsem
comparison rsem-bwt2.xml @ 1:49795544dac7 draft
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 |
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| 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> |