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comparison searchgui.xml @ 35:5a38c0d33704 draft

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/peptideshaker commit a9c70724c3561247e91f0b69b35022adcf3445ff
author galaxyp
date Mon, 27 Feb 2017 13:16:20 -0500
parents bce45e9e6d70
children 7f2aeb19650f
comparison
equal deleted inserted replaced
34:0ebf3d3e4c90 35:5a38c0d33704
1 <tool id="search_gui" name="Search GUI" version="@SEARCHGUI_VERSION@.0"> 1 <tool id="search_gui" name="Search GUI" version="@SEARCHGUI_VERSION@.1">
2 <description> 2 <description>
3 Perform protein identification using various search engines and prepare results for input to Peptide Shaker 3 Perform protein identification using various search engines and prepare results for input to Peptide Shaker
4 </description> 4 </description>
5 <macros> 5 <macros>
6 <import>macros.xml</import> 6 <import>macros.xml</import>
57 -out SEARCHGUI_IdentificationParameters.par 57 -out SEARCHGUI_IdentificationParameters.par
58 58
59 @GENERAL_PARAMETERS@ 59 @GENERAL_PARAMETERS@
60 60
61 -db input_database.fasta 61 -db input_database.fasta
62 $protein_database_options.use_gene_mapping
62 #if $protein_database_options.use_gene_mapping: 63 #if $protein_database_options.use_gene_mapping:
63 $protein_database_options.use_gene_mapping
64 $protein_database_options.update_gene_mapping 64 $protein_database_options.update_gene_mapping
65 #else:
66 -updateGeneMapping 0
65 #end if 67 #end if
66 68
67 #if $advanced_options.xtandem.xtandem_advanced == "yes" 69 #if $advanced_options.xtandem.xtandem_advanced == "yes"
68 70
69 -xtandem_npeaks ${advanced_options.xtandem.xtandem_npeaks} 71 -xtandem_npeaks ${advanced_options.xtandem.xtandem_npeaks}