Mercurial > repos > galaxyp > openms_ptpredict

comparison PTPredict.xml @ 13:5050f2a61098 draft default tip

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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 05:10:06 -0400
parents ede19e2761ff
children
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12:ede19e2761ff 13:5050f2a61098
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>PTPredict 13 <command detect_errors="aggressive"><![CDATA[PTPredict
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:
27 #if $adv_opts.adv_opts_selector=='advanced': 27 #if $adv_opts.adv_opts_selector=='advanced':
28 #if $adv_opts.param_force: 28 #if $adv_opts.param_force:
29 -force 29 -force
30 #end if 30 #end if
31 #end if 31 #end if
32 </command> 32 ]]></command>
33 <inputs> 33 <inputs>
34 <param name="param_in" type="data" format="idxml" optional="False" label="input file" help="(-in) "/> 34 <param name="param_in" type="data" format="idxml" optional="False" label="input file" help="(-in) "/>
35 <param name="param_svm_model" type="data" format="txt" optional="False" label="svm model in libsvm format (can be produced by PTModel)" help="(-svm_model) "/> 35 <param name="param_svm_model" type="data" format="txt" optional="False" label="svm model in libsvm format (can be produced by PTModel)" help="(-svm_model) "/>
36 <param name="param_max_number_of_peptides" type="integer" value="100000" label="the maximum number of peptides considered at once (bigger number will lead to faster results but needs more memory)" help="(-max_number_of_peptides) &lt;br&gt;"/> 36 <param name="param_max_number_of_peptides" type="integer" value="100000" label="the maximum number of peptides considered at once (bigger number will lead to faster results but needs more memory)" help="(-max_number_of_peptides) &lt;br&gt;"/>
37 <expand macro="advanced_options"> 37 <expand macro="advanced_options">
42 <data name="param_out" format="idxml"/> 42 <data name="param_out" format="idxml"/>
43 </outputs> 43 </outputs>
44 <help>predicts the likelihood of peptides to be proteotypic via svm_model which is trained by PTModel 44 <help>predicts the likelihood of peptides to be proteotypic via svm_model which is trained by PTModel
45 45
46 46
47 For more information, visit http://ftp.mi.fu-berlin.de/OpenMS/release-documentation/html/TOPP_PTPredict.html</help> 47 For more information, visit https://abibuilder.informatik.uni-tuebingen.de/archive/openms/Documentation/release/2.3.0/html/TOPP_PTPredict.html</help>
48 </tool> 48 </tool>