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comparison msgfplus_search.xml @ 3:0cfe768bbda1

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Fixed tool wrapper
author iracooke
date Mon, 04 Mar 2013 20:33:35 -0500
parents 50002ff2c1f3
children 366e62d86881
comparison
equal deleted inserted replaced
2:37a41ca93b5e 3:0cfe768bbda1
5 <requirement type="package" version="20121116">protk_msgfplus</requirement> 5 <requirement type="package" version="20121116">protk_msgfplus</requirement>
6 </requirements> 6 </requirements>
7 7
8 8
9 <description>Run an MSGF+ Search</description> 9 <description>Run an MSGF+ Search</description>
10
11
12
13 <description>Run an X!Tandem Search</description>
14
15 <command>
16 #if $database.source_select=="built_in":
17 rvm 1.9.3@protk-1.1.9 do tandem_search.rb -d $database.dbkey
18 #else #rvm 1.9.3@protk-1.1.9 do tandem_search.rb -d $database.fasta_file
19 #end if
20
21 10
22 <command> 11 <command>
23 #if $database.source_select=="built_in": 12 #if $database.source_select=="built_in":
24 rvm 1.9.3@protk-1.1.9 do msgfplus_search.rb --galaxy -d $database.dbkey 13 rvm 1.9.3@protk-1.1.9 do msgfplus_search.rb --galaxy -d $database.dbkey
25 #else #rvm 1.9.3@protk-1.1.9 do msgfplus_search.rb -d $database.fasta_file 14 #else #rvm 1.9.3@protk-1.1.9 do msgfplus_search.rb -d $database.fasta_file