Mercurial > repos > jackcurragh > ribogalaxy_bowtie_trans
comparison bowtie_transcriptome_wrapper/bowtie_transcriptomic_wrapper.xml @ 5:4586071dd843 draft default tip
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| author | jackcurragh |
|---|---|
| date | Thu, 09 Feb 2023 23:19:53 +0000 |
| parents | 0264a0f8b1d0 |
| children |
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| 4:0264a0f8b1d0 | 5:4586071dd843 |
|---|---|
| 160 <option value="indexed">Use a built-in index</option> | 160 <option value="indexed">Use a built-in index</option> |
| 161 <option value="history">Use one from the history</option> | 161 <option value="history">Use one from the history</option> |
| 162 </param> | 162 </param> |
| 163 <when value="indexed"> | 163 <when value="indexed"> |
| 164 <param name="index" type="select" label="Select a reference" help="if your reference of interest is not listed - contact RiboGalaxy team"> | 164 <param name="index" type="select" label="Select a reference" help="if your reference of interest is not listed - contact RiboGalaxy team"> |
| 165 <options from_data_table="bowtie_transcriptome_index"> | 165 <options from_data_table="bowtie_transcriptome_indexes"> |
| 166 <filter type="sort_by" column="2" /> | 166 <filter type="sort_by" column="2" /> |
| 167 <validator type="no_options" message="No indexes are available" /> | 167 <validator type="no_options" message="No indexes are available" /> |
| 168 </options> | 168 </options> |
| 169 </param> | 169 </param> |
| 170 </when> | 170 </when> |
| 429 <data format="sam" name="output" label="${tool.name} on ${on_string}: mapped reads"> | 429 <data format="sam" name="output" label="${tool.name} on ${on_string}: mapped reads"> |
| 430 <actions> | 430 <actions> |
| 431 <conditional name="refGenomeSource.genomeSource"> | 431 <conditional name="refGenomeSource.genomeSource"> |
| 432 <when value="indexed"> | 432 <when value="indexed"> |
| 433 <action type="metadata" name="dbkey"> | 433 <action type="metadata" name="dbkey"> |
| 434 <option type="from_data_table" name="bowtie_transcriptome_index" column="1" offset="0"> | 434 <option type="from_data_table" name="bowtie_transcriptome_indexes" column="1" offset="0"> |
| 435 <filter type="param_value" column="0" value="#" compare="startswith" keep="False"/> | 435 <filter type="param_value" column="0" value="#" compare="startswith" keep="False"/> |
| 436 <filter type="param_value" ref="refGenomeSource.index" column="0"/> | 436 <filter type="param_value" ref="refGenomeSource.index" column="0"/> |
| 437 </option> | 437 </option> |
| 438 </action> | 438 </action> |
| 439 </when> | 439 </when> |