Mercurial > repos > guerler > spring_map
view spring_map.xml @ 1:f70e6398f3bb draft
"planemo upload commit aa6c4b1d15a2d5361d68c7eb313551bddf2700fa"
author | guerler |
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date | Mon, 29 Mar 2021 21:47:48 +0000 |
parents | 023800b21a2a |
children | 5f5cdcfaa1a9 |
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<tool id="spring_map" name="SPRING Map" license="MIT" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="20.01"> <description>with BLAST</description> <macros> <import>macros.xml</import> </macros> <expand macro="requirements" /> <command detect_errors="exit_code"><![CDATA[ spring_map.py @pdb_source@ -l '$list' -c '$cross' -e $evalue -o '$output' -g '$log' ]]> </command> <inputs> <expand macro="pdb_source" /> <param name="list" type="data" format="tabular" label="PDB Chain Identifiers" help="List of PDB chains `PDB_CHAIN`." /> <param name="cross" type="data" format="tabular" label="Cross Reference (unmapped)" help="Unmapped SPRING PDB Cross Reference as produced by SPRING Cross tool." /> <param name="evalue" type="float" value="0.0" min="0.0" max="1.0" label="E-value Threshold" help="Specify an e-Value threshold to filter the alignment results" /> <expand macro="logfile" /> </inputs> <outputs> <data format="tabular" name="output" label="SPRING Map Cross Reference" /> <data format="txt" name="log" label="SPRING Map Log"> <filter>logfile</filter> </data> </outputs> <tests> <test expect_num_outputs="1"> <conditional name="pdb_source"> <param name="pdb_source_selector" value="history" /> <param name="ffdata" value="cross/pdb.ffdata" /> <param name="ffindex" value="cross/pdb.ffindex" /> </conditional> <param name="list" value="map/chains.tabular" ftype="tabular" /> <param name="cross" value="cross/reference.tabular" ftype="tabular" /> <output name="output" file="map/mapped.reference.tabular" /> </test> <test expect_num_outputs="2"> <conditional name="pdb_source"> <param name="pdb_source_selector" value="indexed" /> <param name="pdb" value="pdb01_cross" /> </conditional> <param name="list" value="map/chains.tabular" ftype="tabular" /> <param name="cross" value="cross/reference.tabular" ftype="tabular" /> <param name="logfile" value="true" /> <output name="output" file="map/mapped.reference.tabular" /> </test> </tests> <help><![CDATA[ **What it does** Creates additional columns for the SPRING cross reference containing the chain identifier of the homologues from the template library. ]]> </help> <expand macro="citations" /> </tool>