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comparison IDSplitter.xml @ 4:6ead64a594bd draft default tip

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/openms commit 7a5239910fda9ed90cca286a38855703b40b1b56-dirty
author bgruening
date Wed, 27 Jan 2016 10:06:49 -0500
parents 3d84209d3178
children
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3:ec62782f6c68 4:6ead64a594bd
1 <?xml version='1.0' encoding='UTF-8'?> 1 <?xml version="1.0" encoding="UTF-8"?>
2 <tool id="IDSplitter" name="IDSplitter" version="1.12.0"> 2 <!--This is a configuration file for the integration of a tools into Galaxy (https://galaxyproject.org/). This file was automatically generated using CTD2Galaxy.-->
3 <description>Splits protein/peptide identifications off of annotated data files</description> 3 <!--Proposed Tool Section: [Utilities]-->
4 <macros> 4 <tool id="IDSplitter" name="IDSplitter" version="2.0.0">
5 <token name="@EXECUTABLE@">IDSplitter</token> 5 <description>Splits protein/peptide identifications off of annotated data files</description>
6 <import>macros.xml</import> 6 <macros>
7 </macros> 7 <token name="@EXECUTABLE@">IDSplitter</token>
8 <expand macro="stdio"/> 8 <import>macros.xml</import>
9 <expand macro="requirements"/> 9 </macros>
10 <command>IDSplitter 10 <expand macro="references"/>
11 <expand macro="stdio"/>
12 <expand macro="requirements"/>
13 <command>IDSplitter
11 14
12 -in ${param_in} 15 #if $param_in:
13 -out ${param_out} 16 -in $param_in
14 -id_out ${param_id_out} 17 #end if
15 -threads \${GALAXY_SLOTS:-24} 18 #if $param_out:
19 -out $param_out
20 #end if
21 #if $param_id_out:
22 -id_out $param_id_out
23 #end if
24 -threads \${GALAXY_SLOTS:-24}
25 #if $adv_opts.adv_opts_selector=='advanced':
26 #if $adv_opts.param_force:
27 -force
28 #end if
29 #end if
16 </command> 30 </command>
17 <inputs> 31 <inputs>
18 <param name="param_in" type="data" format="mzML,featureXML,consensusXML" optional="False" label="Input file (data annotated with identifications)" help="(-in)"/> 32 <param format="xml,consensusxml,mzml" help="(-in) " label="Input file (data annotated with identifications)" name="param_in" optional="False" type="data"/>
19 </inputs> 33 <expand macro="advanced_options">
20 <outputs> 34 <param checked="false" falsevalue="" help="(-force) " label="Overwrite tool specific checks" name="param_force" optional="True" truevalue="-force" type="boolean"/>
21 <data name="param_out" label="Output file (data without identifications). Either 'out' or 'id_out' are required. They can be used together." format="consensusXML"> 35 </expand>
22 <change_format> 36 </inputs>
23 <when input="param_out_type" value="mzML" format="mzML"/> 37 <outputs>
24 <when input="param_out_type" value="featureXML" format="featureXML"/> 38 <data format="input" metadata_source="param_in" name="param_out"/>
25 </change_format> 39 <data format="xml" name="param_id_out"/>
26 </data> 40 </outputs>
27 <data name="param_id_out" label="Output file (identifications). Either 'out' or 'id_out' are required. They can be used together." format="idXML"/> 41 <help>Splits protein/peptide identifications off of annotated data files
28 </outputs>
29 <help>**What it does**
30
31 Splits protein/peptide identifications off of annotated data files
32 42
33 43
34 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/UTILS_IDSplitter.html 44 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/UTILS_IDSplitter.html</help>
35 45 </tool>
36 @REFERENCES@
37 </help>
38 </tool>