Mercurial > repos > sarahinraauzeville > rnaseq_tophat2
annotate README_tophat2_toolshed @ 6:60f0a4bd7f97 draft default tip
Uploaded
| author | sarahinraauzeville |
|---|---|
| date | Fri, 12 Feb 2016 08:30:58 -0500 |
| parents | |
| children |
| rev | line source |
|---|---|
| 6 | 1 - Complete the PATH.ini file |
| 2 - To know your path to tophat2 bin, you could use this command line : | |
| 3 which tophat2 | |
| 4 | |
| 5 - Create a "workspace" directory in /database/files/ | |
| 6 - chmod 777 /path/to/database/files/workspace/ | |
| 7 - In sm_tophat2.pl file, complete the path to PATH.ini file | |
| 8 my $cfg = Config::IniFiles->new( -file => "/path/to/PATH.ini" ); | |
| 9 | |
| 10 - In your tool_conf.xml file, add this line in your RNAseq section : | |
| 11 <tool file="/path/to/sm_tophat2.xml" /> | |
| 12 | |
| 13 |