Mercurial > repos > cschu > cs_test_me

comparison synteny_parse.xml @ 0:a512d17b12c9 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author cschu
date Wed, 01 Apr 2015 05:34:17 -0400
parents
children
comparison
equal deleted inserted replaced
-1:000000000000 0:a512d17b12c9
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="1.62">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