Mercurial > repos > cschu > cs_test_me
comparison synteny_parse.xml @ 2:ea73705ac0f6 draft default tip
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author | cschu |
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date | Wed, 01 Apr 2015 05:36:10 -0400 |
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1:4fdaf732231a | 2:ea73705ac0f6 |
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1 <tool id="synteny_parse" name="synteny_parse"> | |
2 <description>Parse synteny information from BlastXML.</description> | |
3 <requirements> | |
4 <!-- <requirement type="package" version="2.7.4">python</requirement> --> | |
5 <requirement type="package" version="1.65">biopython</requirement> | |
6 <requirement type="python-module">Bio</requirement> | |
7 <requirement type="python-module">Bio.Blast</requirement> | |
8 </requirements> | |
9 <command interpreter="python">synteny_parse.py | |
10 --evalue="${minE.value}" | |
11 --min-identity="${minID.value}" | |
12 --min-query-coverage="${minQCOV.value}" | |
13 $blastXML_in $out | |
14 </command> | |
15 <inputs> | |
16 <param name="blastXML_in" type="data" format="xml" label="BLAST xml output" /> | |
17 <param name="minE" type="float" value="1e-10" label="e-value cutoff" /> | |
18 <param name="minID" type="float" value="0.75" label="identity cutoff" /> | |
19 <param name="minQCOV" type="float" value="0.75" label="query-coverage cutoff" /> | |
20 amino acid sequences" /> | |
21 </inputs> | |
22 <outputs> | |
23 <data format="tabular" name="out" label="Filtered Blast results ${on_string}" /> | |
24 </outputs> | |
25 | |
26 <help> | |
27 This tool does stuff. | |
28 </help> | |
29 </tool> | |
30 |