Mercurial > repos > abims-sbr > pogs
comparison POGs.xml @ 4:b7bd93fc0ac9 draft
planemo upload for repository https://github.com/abims-sbr/adaptsearch commit 8a27e74e95c5639292ca09c7e1680acd1088dcdd-dirty
| author | abims-sbr |
|---|---|
| date | Mon, 29 May 2017 07:45:07 -0400 |
| parents | be2128ad0030 |
| children | dad7053ba20e |
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| 3:1c1798e15bb1 | 4:b7bd93fc0ac9 |
|---|---|
| 24 | 24 |
| 25 <inputs> | 25 <inputs> |
| 26 <param name="zip" type="data" format="no_unzip.zip,zip" label="Choose your ZIP file" help="Contains the files filter after the tool oase" /> | 26 <param name="zip" type="data" format="no_unzip.zip,zip" label="Choose your ZIP file" help="Contains the files filter after the tool oase" /> |
| 27 <param name="zip_file" type="data" format="no_unzip.zip,zip" label="Choose your ZIP file " help="Contains homologous sequences in PROTEIC format, ONLY A ZIP FILE" /> | 27 <param name="zip_file" type="data" format="no_unzip.zip,zip" label="Choose your ZIP file " help="Contains homologous sequences in PROTEIC format, ONLY A ZIP FILE" /> |
| 28 <param name="minseq" type="integer" value="3" label="Drop orthogroups with less than n species" /> | 28 <param name="minseq" type="integer" value="3" label="Drop orthogroups with less than n species" /> |
| 29 <param name="paralogs" type="select" label="Paralogs filtering" help="Yes : paralogs sequences will be (naively) filtered to keep only one sequence. No : the whole orthogroup will be removed." > | 29 <param name="paralogs" type="select" label="Paralogs savage removal" help="Yes : orthogroups with paralogs will be fully removed. No : paralogs sequences will be (naively) filtered to keep only one sequence." > |
| 30 <option value="yes">Yes</option> | 30 <option value="yes">Yes</option> |
| 31 <option value="no">No</option> | 31 <option value="no">No</option> |
| 32 </param> | 32 </param> |
| 33 </inputs> | 33 </inputs> |
| 34 | 34 |
| 37 <data format="no_unzip.zip" name="output_zip" label="POGs_locus_orthologs_unaligned" from_work_dir="POGs_locus_orthologs_unaligned.zip" /> | 37 <data format="no_unzip.zip" name="output_zip" label="POGs_locus_orthologs_unaligned" from_work_dir="POGs_locus_orthologs_unaligned.zip" /> |
| 38 </outputs> | 38 </outputs> |
| 39 | 39 |
| 40 <tests> | 40 <tests> |
| 41 <test> | 41 <test> |
| 42 <param name="zip" ftype="zip" value="filter_oase_results_for_pogs.zip" /> | 42 <param name="zip" ftype="zip" value="outputfilter.zip" /> |
| 43 <param name="zip_file" ftype="zip" value="test_03_output_Pairwise_PROT_inputPOGS.zip" /> | 43 <param name="zip_file" ftype="zip" value="outputpairwise.zip" /> |
| 44 <param name="minseq" value="2" /> | 44 <param name="minseq" value="2" /> |
| 45 <param name="paralogs" value="no" /> | 45 <param name="paralogs" value="no" /> |
| 46 <output name="output" value="test_03.out" /> | 46 <output name="output" value="test_03.out" /> |
| 47 </test> | 47 </test> |
| 48 <test> | 48 <test> |
| 49 <param name="zip" ftype="zip" value="filter_oase_results_for_pogs.zip" /> | 49 <param name="zip" ftype="zip" value="outputfilter.zip" /> |
| 50 <param name="zip_file" ftype="zip" value="test_03_output_Pairwise_PROT_inputPOGS.zip" /> | 50 <param name="zip_file" ftype="zip" value="outputpairwise.zip" /> |
| 51 <param name="minseq" value="2" /> | 51 <param name="minseq" value="2" /> |
| 52 <param name="paralogs" value="yes" /> | 52 <param name="paralogs" value="yes" /> |
| 53 <output name="output" value="test_03b.out" /> | 53 <output name="output" value="test_03b.out" /> |
| 54 </test> | 54 </test> |
| 55 </tests> | 55 </tests> |