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1 <tool id="synteny_parse" name="synteny_parse">
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2 <description>Parse synteny information from BlastXML.</description>
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3 <requirements>
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4 <!-- <requirement type="package" version="2.7.4">python</requirement> -->
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5 <requirement type="package" version="1.65">biopython</requirement>
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6 <requirement type="python-module">Bio</requirement>
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7 <requirement type="python-module">Bio.Blast</requirement>
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8 </requirements>
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9 <command interpreter="python">synteny_parse.py
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10 --evalue="${minE.value}"
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11 --min-identity="${minID.value}"
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12 --min-query-coverage="${minQCOV.value}"
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13 $blastXML_in $out
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14 </command>
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15 <inputs>
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16 <param name="blastXML_in" type="data" format="xml" label="BLAST xml output" />
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17 <param name="minE" type="float" value="1e-10" label="e-value cutoff" />
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18 <param name="minID" type="float" value="0.75" label="identity cutoff" />
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19 <param name="minQCOV" type="float" value="0.75" label="query-coverage cutoff" />
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20 amino acid sequences" />
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21 </inputs>
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22 <outputs>
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23 <data format="tabular" name="out" label="Filtered Blast results ${on_string}" />
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24 </outputs>
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25
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26 <help>
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27 This tool does stuff.
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28 </help>
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29 </tool>
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30
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