Mercurial > repos > jackcurragh > ribogalaxy_bowtie_transcriptome
comparison bowtie_transcriptome_wrapper/bowtie_transcriptomic_wrapper.xml @ 7:d57209761277 draft
Uploaded
| author | jackcurragh |
|---|---|
| date | Fri, 22 Apr 2022 11:08:21 +0000 |
| parents | 14deb381fa27 |
| children | f6ef1c85b045 |
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| 6:c9c772693fdd | 7:d57209761277 |
|---|---|
| 158 <option value="indexed">Use a built-in index</option> | 158 <option value="indexed">Use a built-in index</option> |
| 159 <option value="history">Use one from the history</option> | 159 <option value="history">Use one from the history</option> |
| 160 </param> | 160 </param> |
| 161 <when value="indexed"> | 161 <when value="indexed"> |
| 162 <param name="index" type="select" label="Select a reference" help="if your reference of interest is not listed - contact RiboGalaxy team"> | 162 <param name="index" type="select" label="Select a reference" help="if your reference of interest is not listed - contact RiboGalaxy team"> |
| 163 <options from_data_table="bowtie_indexes"> | 163 <options from_data_table="bowtie_transcriptome_indexes"> |
| 164 <filter type="sort_by" column="2" /> | 164 <filter type="sort_by" column="2" /> |
| 165 <validator type="no_options" message="No indexes are available" /> | 165 <validator type="no_options" message="No indexes are available" /> |
| 166 </options> | 166 </options> |
| 167 </param> | 167 </param> |
| 168 </when> | 168 </when> |
| 427 <data format="sam" name="output" label="${tool.name} on ${on_string}: mapped reads"> | 427 <data format="sam" name="output" label="${tool.name} on ${on_string}: mapped reads"> |
| 428 <actions> | 428 <actions> |
| 429 <conditional name="refGenomeSource.genomeSource"> | 429 <conditional name="refGenomeSource.genomeSource"> |
| 430 <when value="indexed"> | 430 <when value="indexed"> |
| 431 <action type="metadata" name="dbkey"> | 431 <action type="metadata" name="dbkey"> |
| 432 <option type="from_data_table" name="bowtie_indexes" column="1" offset="0"> | 432 <option type="from_data_table" name="bowtie_transcriptome_indexes" column="1" offset="0"> |
| 433 <filter type="param_value" column="0" value="#" compare="startswith" keep="False"/> | 433 <filter type="param_value" column="0" value="#" compare="startswith" keep="False"/> |
| 434 <filter type="param_value" ref="refGenomeSource.index" column="0"/> | 434 <filter type="param_value" ref="refGenomeSource.index" column="0"/> |
| 435 </option> | 435 </option> |
| 436 </action> | 436 </action> |
| 437 </when> | 437 </when> |