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comparison msgfplus_search.xml @ 7:b3f2bd49029c

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Uploaded
author iracooke
date Tue, 05 Mar 2013 00:20:42 -0500
parents 366e62d86881
children 4f6cbe948065
comparison
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6:ce2f26664c9d 7:b3f2bd49029c
1 <tool id="proteomics_search_msgfplus_1" name="MSGF+ MSMS Search" version="1.0.0"> 1 <tool id="proteomics_search_msgfplus_1" name="MSGF+ MSMS Search" version="1.0.1">
2 2
3 <requirements> 3 <requirements>
4 <requirement type="package" version="1.1.9">galaxy_protk</requirement> 4 <requirement type="package" version="1.2.0">galaxy_protk</requirement>
5 <requirement type="package" version="20130227">msgfplus</requirement> 5 <requirement type="package" version="20130227">msgfplus</requirement>
6 <requirement type="package" version="3_0_4388">proteowizard</requirement> 6 <requirement type="package" version="3_0_4388">proteowizard</requirement>
7 </requirements> 7 </requirements>
8 8
9 9
10 <description>Run an MSGF+ Search</description> 10 <description>Run an MSGF+ Search</description>
11 11
12 <command> 12 <command>
13 #if $database.source_select=="built_in": 13 #if $database.source_select=="built_in":
14 rvm 1.9.3@protk-1.1.9 do msgfplus_search.rb --galaxy -d $database.dbkey 14 rvm 1.9.3@protk-1.2.0 do msgfplus_search.rb --galaxy -d $database.dbkey
15 #else #rvm 1.9.3@protk-1.1.9 do msgfplus_search.rb -d $database.fasta_file 15 #else #rvm 1.9.3@protk-1.2.0 do msgfplus_search.rb --galaxy -d $database.fasta_file
16 #end if 16 #end if
17 17
18 --var-mods=' 18 --var-mods='
19 $variable_mods 19 $variable_mods
20 #for $custom_variable_mod in $custom_variable_mods: 20 #for $custom_variable_mod in $custom_variable_mods: