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author osiris_phylogenetics <ucsb_phylogenetics@lifesci.ucsb.edu>
date Tue, 11 Mar 2014 12:19:13 -0700
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-1:000000000000 0:5b9a38ec4a39
1 <tool id="evolmap_output" name="EvolMAP Output Tool">
2 <description>Modifies EvolMAP output</description>
3 <command interpreter="perl">output.pl $file $numDiffGenes '$speciesList'
4 #for $file in $fileList
5 ${file.treeFile}
6 #end for</command>
7
8 <inputs>
9 <repeat name="fileList" title="Species fasta files - must be same order as original tree">
10 <param name="treeFile" type="data" format="fasta" label="fasta file"/>
11 </repeat>
12 <param name="file" type="data" label="EvolMAP output file"/>
13 <param name="numDiffGenes" type="integer" value="1" label="Number of different species" />
14 <param name="speciesList" type="text" area="true" size="3x25" label="Species tree - Must be same format as original EvolMAP run." />
15 </inputs>
16
17 <outputs>
18 <data from_work_dir="result.dat" format="txt"/>
19 </outputs>
20
21 <help>
22
23 http://labs.eemb.ucsb.edu/oakley/todd/
24
25 Modifies EvolMAP output. Must provide the original EvolMAP output and files used.
26
27 Input preconditions:
28 Species fasta files - must be inputted in the same order as the original tree from the EvolMAP run
29 EvolMAP output file - must be from an EvolMAP run
30 Number of different species - the number of different species you want searched and pulled to the output file
31 Species tree - must be the same tree you used to get the EvolMAP output file in the original EvolMAP run
32
33 Input file format:
34 FASTA (.fasta/.fa)
35
36 Output format:
37 Text (txt)
38 </help>
39
40 </tool>