Mercurial > repos > sarahinraauzeville > dos2unix
comparison README_dos2unix @ 5:de565501c7d3 draft default tip
Uploaded
| author | sarahinraauzeville |
|---|---|
| date | Tue, 12 Dec 2017 09:40:48 -0500 |
| parents | |
| children |
comparison
equal
deleted
inserted
replaced
| 4:71f57a90f530 | 5:de565501c7d3 |
|---|---|
| 1 ************************************************************************************ | |
| 2 ****** Add perl and xml wrapper files in tools/ d ****** | |
| 3 ************************************************************************************ | |
| 4 | |
| 5 | |
| 6 Download files with hg clone in tools/ directory, then you have these files availables (wrappers and scripts): | |
| 7 sm_dos2unix.pl sm_dos2unix.xml | |
| 8 and GalaxyPath.pm | |
| 9 | |
| 10 Add GalaxyPath.pm file in /path/to/galaxy_sources/ directory | |
| 11 | |
| 12 ************************************************************************************ | |
| 13 ****** tool_conf.xml file to update ****** | |
| 14 ************************************************************************************ | |
| 15 | |
| 16 Add a tag <tool> in your section "convert formats" (for instance) in your config/tool_conf.xml file: | |
| 17 <tool file="my_tools/sm_dos2unix/sm_dos2unix.xml" /> | |
| 18 | |
| 19 ************************************************************************************ | |
| 20 ****** Add paths in galaxy.ini configuation file ****** | |
| 21 ************************************************************************************ | |
| 22 | |
| 23 Add a my_bin/ directory in galaxy repository with symbolic links to binaries: | |
| 24 [galaxy-preprod@vm-galaxy-preprod my_bin]$ pwd | |
| 25 /galaxydata/galaxy-preprod/my_bin | |
| 26 lrwxrwxrwx 1 galaxy-prod wbioinfo 11 3 juin 2016 dos2unix -> dos2unix3.1 | |
| 27 | |
| 28 | |
| 29 Add paths to binaries and a section [workPath], at the end of galaxy.ini file: | |
| 30 Dans geany ../../config/galaxy.ini & | |
| 31 DOS=/galaxydata/galaxy-prod/my_bin/dos2unix |