Mercurial > repos > iracooke > msgfplus
comparison msgfplus_search.xml @ 3:0cfe768bbda1
Fixed tool wrapper
| author | iracooke |
|---|---|
| date | Mon, 04 Mar 2013 20:33:35 -0500 |
| parents | 50002ff2c1f3 |
| children | 366e62d86881 |
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| 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 |