Mercurial > repos > peterjc > tmhmm_and_signalp
comparison tools/protein_analysis/wolf_psort.xml @ 18:eb6ac44d4b8e draft
Suite v0.2.8, record Promoter 2 verion + misc internal updates
| author | peterjc |
|---|---|
| date | Tue, 01 Sep 2015 09:56:36 -0400 |
| parents | e6cc27d182a8 |
| children | a19b3ded8f33 |
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| 17:e6cc27d182a8 | 18:eb6ac44d4b8e |
|---|---|
| 1 <tool id="wolf_psort" name="WoLF PSORT" version="0.0.8"> | 1 <tool id="wolf_psort" name="WoLF PSORT" version="0.0.9"> |
| 2 <description>Eukaryote protein subcellular localization prediction</description> | 2 <description>Eukaryote protein subcellular localization prediction</description> |
| 3 <requirements> | |
| 4 <requirement type="binary">runWolfPsortSummary</requirement> | |
| 5 <requirement type="binary">psort</requirement> | |
| 6 </requirements> | |
| 7 <stdio> | |
| 8 <!-- Anything other than zero is an error --> | |
| 9 <exit_code range="1:" /> | |
| 10 <exit_code range=":-1" /> | |
| 11 </stdio> | |
| 3 <command interpreter="python"> | 12 <command interpreter="python"> |
| 4 wolf_psort.py $organism "\$GALAXY_SLOTS" "$fasta_file" "$tabular_file" | 13 wolf_psort.py $organism "\$GALAXY_SLOTS" "$fasta_file" "$tabular_file" |
| 5 ##If the environment variable isn't set, get "", and python wrapper | 14 ##If the environment variable isn't set, get "", and python wrapper |
| 6 ##defaults to four threads. | 15 ##defaults to four threads. |
| 7 </command> | 16 </command> |
| 8 <stdio> | |
| 9 <!-- Anything other than zero is an error --> | |
| 10 <exit_code range="1:" /> | |
| 11 <exit_code range=":-1" /> | |
| 12 </stdio> | |
| 13 <inputs> | 17 <inputs> |
| 14 <param name="fasta_file" type="data" format="fasta" label="FASTA file of protein sequences"/> | 18 <param name="fasta_file" type="data" format="fasta" label="FASTA file of protein sequences"/> |
| 15 <param name="organism" type="select" display="radio" label="Organism"> | 19 <param name="organism" type="select" display="radio" label="Organism"> |
| 16 <option value="animal">Animal</option> | 20 <option value="animal">Animal</option> |
| 17 <option value="plant">Plant</option> | 21 <option value="plant">Plant</option> |
| 19 </param> | 23 </param> |
| 20 </inputs> | 24 </inputs> |
| 21 <outputs> | 25 <outputs> |
| 22 <data name="tabular_file" format="tabular" label="WoLF PSORT $organism results" /> | 26 <data name="tabular_file" format="tabular" label="WoLF PSORT $organism results" /> |
| 23 </outputs> | 27 </outputs> |
| 24 <requirements> | |
| 25 <requirement type="binary">runWolfPsortSummary</requirement> | |
| 26 </requirements> | |
| 27 <tests> | 28 <tests> |
| 28 <test> | 29 <test> |
| 29 <param name="fasta_file" value="four_human_proteins.fasta" ftype="fasta"/> | 30 <param name="fasta_file" value="four_human_proteins.fasta" ftype="fasta"/> |
| 30 <param name="organism" value="animal"/> | 31 <param name="organism" value="animal"/> |
| 31 <output name="tabular_file" file="four_human_proteins.wolf_psort.tabular" ftype="tabular"/> | 32 <output name="tabular_file" file="four_human_proteins.wolf_psort.tabular" ftype="tabular"/> |