# HG changeset patch
# User gga
# Date 1505914933 14400
# Node ID b8e4642ef5ddd1b9bf9ad2dc3029e4e87de39e99
# Parent  1e46cf5c24a51276a409d0d5488d09fa8b150510
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/apollo commit 079b759c21c00200544a6d8d5521617dce8ca70d

diff -r 1e46cf5c24a5 -r b8e4642ef5dd create_or_update_organism.py
--- a/create_or_update_organism.py	Wed Sep 20 09:08:15 2017 -0400
+++ b/create_or_update_organism.py	Wed Sep 20 09:42:13 2017 -0400
@@ -44,7 +44,7 @@
 
     if org:
         has_perms = False
-        old_directory = org.directory
+        old_directory = org['directory']
         for user_owned_organism in gx_user.organismPermissions:
             if 'WRITE' in user_owned_organism['permissions']:
                 has_perms = True
@@ -65,7 +65,7 @@
             public=args.public
         )
         time.sleep(2)
-        if(args.remove_old_directory):
+        if args.remove_old_directory and args.jbrowse != old_directory:
             shutil.rmtree(old_directory)
 
         data = [wa.organisms.findOrganismById(org['id'])]