annotate spring_cross.xml @ 41:f316caf098a6 draft default tip

"planemo upload commit 685e1236afde7cf6bb0c9236de06998d2c211dd3"
author guerler
date Mon, 01 Mar 2021 15:02:36 +0000
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1 <tool id="spring_cross" name="SPRING Cross" version="0.1.0" python_template_version="3.5" license="MIT">
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2 <description>reference builder</description>
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3 <command detect_errors="exit_code"><![CDATA[
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4 python3 '$__tool_directory__/spring_cross.py' -i '$index' -d '$database' -o '$output' -g '$log'
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5 ]]></command>
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6 <inputs>
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7 <param format="ffindex" name="index" type="data" label="PDB Database Index" help="Database Index file."/>
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8 <param format="ffdata" name="database" type="data" label="PDB Database" help="Database Data file."/>
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9 </inputs>
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10 <outputs>
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11 <data format="tabular" name="output" label="SPRING Cross Reference"/>
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12 <data format="txt" name="log" label="SPRING Cross Log"/>
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13 </outputs>
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14 <help><![CDATA[
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15 Creates a 2-column cross reference between a list of input chains and all interacting chains found in the provided PDB database. This reference is required as
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16 input for the SPRING min-Z calculator.
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17 ]]></help>
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18 <tests>
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19 <test>
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20 <param name="index" value="cross/pdb.ffindex" />
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21 <param name="database" value="cross/pdb.ffdata" />
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22 <output name="output" file="cross/reference.tabular"/>
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23 </test>
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24 </tests>
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25 <citations>
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26 <citation type="bibtex">
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27 @misc{githubhh-suite,
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28 author = {Guerler, Govindarajoo, Zhang},
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29 year = {2013},
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30 title = {Mapping Monomeric Threading to Protein-Protein Structure Prediction},
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31 publisher = {ACS Publications},
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32 journal = {Journal of Chemical Information and Modeling},
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33 url = {https://pubs.acs.org/doi/10.1021/ci300579r},
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34 }
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35 </citation>
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36 </citations>
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37 </tool>