Mercurial > repos > sarahinraauzeville > dos2unix

changeset 5:de565501c7d3 draft default tip

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Uploaded
author sarahinraauzeville
date Tue, 12 Dec 2017 09:40:48 -0500
parents 71f57a90f530
children
files README_dos2unix
diffstat 1 files changed, 31 insertions(+), 0 deletions(-) [+]
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/README_dos2unix	Tue Dec 12 09:40:48 2017 -0500
@@ -0,0 +1,31 @@
+************************************************************************************
+******        Add perl and xml wrapper files in tools/ d                      ******
+************************************************************************************
+
+
+Download files with hg clone in tools/ directory, then you have these files availables (wrappers and scripts):
+sm_dos2unix.pl  sm_dos2unix.xml
+and GalaxyPath.pm
+
+Add GalaxyPath.pm file in /path/to/galaxy_sources/ directory
+
+************************************************************************************
+******        tool_conf.xml file to update                                    ******
+************************************************************************************
+
+Add a tag <tool> in your section "convert formats" (for instance) in your config/tool_conf.xml file:
+        <tool file="my_tools/sm_dos2unix/sm_dos2unix.xml" />
+
+************************************************************************************
+******        Add paths in galaxy.ini configuation file                       ******
+************************************************************************************
+
+Add a my_bin/ directory in galaxy repository with symbolic links to binaries:
+[galaxy-preprod@vm-galaxy-preprod my_bin]$ pwd
+/galaxydata/galaxy-preprod/my_bin
+lrwxrwxrwx  1 galaxy-prod wbioinfo   11  3 juin   2016 dos2unix -> dos2unix3.1
+
+
+Add paths to binaries and a section [workPath], at the end of galaxy.ini file: 
+Dans geany ../../config/galaxy.ini &
+DOS=/galaxydata/galaxy-prod/my_bin/dos2unix