Mercurial > repos > galaxyp > openms

comparison IDExtractor.xml @ 0:3070d71e0e5c draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author bgruening
date Thu, 16 Apr 2015 08:37:04 -0400
parents
children
comparison
equal deleted inserted replaced
-1:000000000000 0:3070d71e0e5c
1 <?xml version='1.0' encoding='UTF-8'?>
2 <tool id="IDExtractor" name="IDExtractor" version="2.0.0">
3 <description>Extracts 'n' peptides randomly or best 'n' from idXML files.</description>
4 <macros>
5 <token name="@EXECUTABLE@">IDExtractor</token>
6 <import>macros.xml</import>
7 </macros>
8 <expand macro="stdio"/>
9 <expand macro="requirements"/>
10 <command>IDExtractor
11
12 #if $param_in:
13 -in $param_in
14 #end if
15 #if $param_out:
16 -out $param_out
17 #end if
18 #if $param_number_of_peptides:
19 -number_of_peptides $param_number_of_peptides
20 #end if
21 #if $param_number_of_rand_invokations:
22 -number_of_rand_invokations $param_number_of_rand_invokations
23 #end if
24 #if $param_best_hits:
25 -best_hits
26 #end if
27 -threads \${GALAXY_SLOTS:-24}
28 #if $adv_opts.adv_opts_selector=='advanced':
29 #if $adv_opts.param_force:
30 -force
31 #end if
32 #end if
33 </command>
34 <inputs>
35 <param name="param_in" type="data" format="idxml" optional="False" label="input file" help="(-in) "/>
36 <param name="param_number_of_peptides" type="integer" min="1" optional="True" value="10" label="Number of randomly chosen peptides" help="(-number_of_peptides) "/>
37 <param name="param_number_of_rand_invokations" type="integer" min="0" optional="True" value="0" label="Number of rand invocations before random draw" help="(-number_of_rand_invokations) "/>
38 <param name="param_best_hits" type="boolean" truevalue="-best_hits" falsevalue="" checked="false" optional="True" label="If this flag is set the best n peptides are chosen" help="(-best_hits) "/>
39 <expand macro="advanced_options">
40 <param name="param_force" type="boolean" truevalue="-force" falsevalue="" checked="false" optional="True" label="Overwrite tool specific checks" help="(-force) "/>
41 </expand>
42 </inputs>
43 <outputs>
44 <data name="param_out" format="idxml"/>
45 </outputs>
46 <help>**What it does**
47
48 Extracts 'n' peptides randomly or best 'n' from idXML files.
49
50
51 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/UTILS_IDExtractor.html</help>
52 <expand macro="references"/>
53 </tool>