Mercurial > repos > galaxyp > openms_compnovo

comparison CompNovo.xml @ 11:00a6c0493f91 draft

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit f608f41d45664d04d3124c6ebc791bf8a566b3c5-dirty
author galaxyp
date Fri, 17 May 2019 10:23:00 -0400
parents 26e734d108e8
children 77d92924bb5a
comparison
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10:0aeb99c66732 11:00a6c0493f91
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>CompNovo 13 <command detect_errors="aggressive"><![CDATA[CompNovo
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_out: 18 #if $param_out:
102 #end if 102 #end if
103 #if $adv_opts.param_algorithm_residue_set: 103 #if $adv_opts.param_algorithm_residue_set:
104 -algorithm:residue_set "$adv_opts.param_algorithm_residue_set" 104 -algorithm:residue_set "$adv_opts.param_algorithm_residue_set"
105 #end if 105 #end if
106 #end if 106 #end if
107 </command> 107 ]]></command>
108 <inputs> 108 <inputs>
109 <param name="param_in" type="data" format="mzml" optional="False" label="input file in mzML format" help="(-in) "/> 109 <param name="param_in" type="data" format="mzml" optional="False" label="input file in mzML format" help="(-in) "/>
110 <param name="param_algorithm_tryptic_only" type="text" size="30" value="true" label="if set to true only tryptic peptides are reported" help="(-tryptic_only) "> 110 <param name="param_algorithm_tryptic_only" type="text" size="30" value="true" label="if set to true only tryptic peptides are reported" help="(-tryptic_only) ">
111 <sanitizer> 111 <sanitizer>
112 <valid initial="string.printable"> 112 <valid initial="string.printable">
5216 <data name="param_out" format="idxml"/> 5216 <data name="param_out" format="idxml"/>
5217 </outputs> 5217 </outputs>
5218 <help>Performs a de novo peptide identification using the CompNovo engine. 5218 <help>Performs a de novo peptide identification using the CompNovo engine.
5219 5219
5220 5220
5221 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/TOPP_CompNovo.html</help> 5221 For more information, visit https://abibuilder.informatik.uni-tuebingen.de/archive/openms/Documentation/release/2.3.0/html/TOPP_CompNovo.html</help>
5222 </tool> 5222 </tool>