Mercurial > repos > iuc > reprof
diff reprof.xml @ 3:8a1cd8a32a72 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/reprof commit 746aa691891448484ef9f6417c708b6c7e8f60b0
| author | iuc |
|---|---|
| date | Wed, 02 Dec 2015 16:34:05 -0500 |
| parents | 141da185be70 |
| children | 5a02100f8f6e |
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--- a/reprof.xml Wed Dec 02 15:14:28 2015 -0500 +++ b/reprof.xml Wed Dec 02 16:34:05 2015 -0500 @@ -6,27 +6,51 @@ </macros> <expand macro="requirements"/> <command detect_errors="aggressive"><![CDATA[ - ##if str($query.ext) == 'pssm': - ##end if - ln -s $query query.fa; python $__tool_directory__/reprof.py query.fa $REPROF_MODEL_DIR ]]></command> <inputs> <param name="query" label="Protein sequences" type="data" format="fasta" /> + <param name="outputs" type="select" multiple="true" label="Additional Outputs"> + <option value="pE">Probability of Extended/Sheet</option> + <option value="pH">Probability of Helix</option> + <option value="pL">Probability of Loop</option> + <option value="RI_S">Secondary Structure Reliability Index</option> + + <option value="PACC">Absolute Solvent Accessibility</option> + <option value="PREL">Relative Solvent Accessibility</option> + <option value="P10">Relative Solvent Accessibility</option> + <option value="RI_A">Solvent Accessibility Reliability Index</option> + </param> </inputs> <outputs> <data format="gff3" name="secondary_structure" from_work_dir="secondary_structure.gff3" label="Secondary Structure of ${on_string}"/> - <data format="wig" name="pE" from_work_dir="pE.wig" label="Probability of Extended/Sheet (${on_string})"/> - <data format="wig" name="pH" from_work_dir="pH.wig" label="Probability of Helix (${on_string})" /> - <data format="wig" name="pL" from_work_dir="pL.wig" label="Probability of Loop (${on_string})" /> - <data format="wig" name="RI_S" from_work_dir="RI_S.wig" label="Secondary Structure Reliability Index (${on_string})"/> + <data format="wig" name="pE" from_work_dir="pE.wig" label="Probability of Extended/Sheet (${on_string})"> + <filter>'pE' in outputs</filter> + </data> + <data format="wig" name="pH" from_work_dir="pH.wig" label="Probability of Helix (${on_string})"> + <filter>'pH' in outputs</filter> + </data> + <data format="wig" name="pL" from_work_dir="pL.wig" label="Probability of Loop (${on_string})" > + <filter>'pL' in outputs</filter> + </data> + <data format="wig" name="RI_S" from_work_dir="RI_S.wig" label="Secondary Structure Reliability Index (${on_string})"> + <filter>'RI_S' in outputs</filter> + </data> <data format="gff3" name="solvent_accessibility" from_work_dir="solvent_accessibility.gff3" label="Solvent Accessibile Regions of ${on_string}" /> - <data format="wig" name="PACC" from_work_dir="PACC.wig" label="Absolute Solvent Accessibility of ${on_string}"/> - <data format="wig" name="PREL" from_work_dir="PREL.wig" label="Relative Solvent Accessibility of ${on_string}"/> - <data format="wig" name="P10" from_work_dir="P10.wig" label="Relative Solvent Accessibility (0-9) of ${on_string}"/> - <data format="wig" name="RI_A" from_work_dir="RI_A.wig" label="Solvent Accessibility Reliability Index (${on_string})"/> + <data format="wig" name="PACC" from_work_dir="PACC.wig" label="Absolute Solvent Accessibility of ${on_string}"> + <filter>'PACC' in outputs</filter> + </data> + <data format="wig" name="PREL" from_work_dir="PREL.wig" label="Relative Solvent Accessibility of ${on_string}"> + <filter>'PREL' in outputs</filter> + </data> + <data format="wig" name="P10" from_work_dir="P10.wig" label="Relative Solvent Accessibility (0-9) of ${on_string}"> + <filter>'P10' in outputs</filter> + </data> + <data format="wig" name="RI_A" from_work_dir="RI_A.wig" label="Solvent Accessibility Reliability Index (${on_string})"> + <filter>'RI_A' in outputs</filter> + </data> </outputs> <tests> <test>