Mercurial > repos > galaxyp > openms_mrmmapper

comparison MRMMapper.xml @ 7:305bf5edf3ce draft

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5
author galaxyp
date Wed, 15 May 2019 07:57:35 -0400
parents f74d3da5abd2
children 9a62bfe7661d
comparison
equal deleted inserted replaced
6:c0388664d0fe 7:305bf5edf3ce
8 <import>macros.xml</import> 8 <import>macros.xml</import>
9 </macros> 9 </macros>
10 <expand macro="references"/> 10 <expand macro="references"/>
11 <expand macro="stdio"/> 11 <expand macro="stdio"/>
12 <expand macro="requirements"/> 12 <expand macro="requirements"/>
13 <command>MRMMapper 13 <command detect_errors="aggressive"><![CDATA[MRMMapper
14 14
15 #if $param_in: 15 #if $param_in:
16 -in $param_in 16 -in $param_in
17 #end if 17 #end if
18 #if $param_tr: 18 #if $param_tr:
36 #if $adv_opts.adv_opts_selector=='advanced': 36 #if $adv_opts.adv_opts_selector=='advanced':
37 #if $adv_opts.param_force: 37 #if $adv_opts.param_force:
38 -force 38 -force
39 #end if 39 #end if
40 #end if 40 #end if
41 </command> 41 ]]></command>
42 <inputs> 42 <inputs>
43 <param name="param_in" type="data" format="mzml" optional="False" label="Input file containing chromatograms (converted mzXML file)" help="(-in) "/> 43 <param name="param_in" type="data" format="mzml" optional="False" label="Input file containing chromatograms (converted mzXML file)" help="(-in) "/>
44 <param name="param_tr" type="data" format="traml" optional="False" label="transition file" help="(-tr) "/> 44 <param name="param_tr" type="data" format="traml" optional="False" label="transition file" help="(-tr) "/>
45 <param name="param_precursor_tolerance" type="float" value="0.1" label="Precursor tolerance when mapping (in Th)" help="(-precursor_tolerance) "/> 45 <param name="param_precursor_tolerance" type="float" value="0.1" label="Precursor tolerance when mapping (in Th)" help="(-precursor_tolerance) "/>
46 <param name="param_product_tolerance" type="float" value="0.1" label="Product tolerance when mapping (in Th)" help="(-product_tolerance) "/> 46 <param name="param_product_tolerance" type="float" value="0.1" label="Product tolerance when mapping (in Th)" help="(-product_tolerance) "/>
54 <data name="param_out" format="mzml"/> 54 <data name="param_out" format="mzml"/>
55 </outputs> 55 </outputs>
56 <help>MRMMapper maps measured chromatograms (mzML) and the transitions used (TraML) 56 <help>MRMMapper maps measured chromatograms (mzML) and the transitions used (TraML)
57 57
58 58
59 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/TOPP_MRMMapper.html</help> 59 For more information, visit https://abibuilder.informatik.uni-tuebingen.de/archive/openms/Documentation/release/2.3.0/html/TOPP_MRMMapper.html</help>
60 </tool> 60 </tool>