# HG changeset patch
# User gga
# Date 1505914952 14400
# Node ID 0ab9b5af30e7aabf91326bdc09dca463baa430e6
# Parent  9779fb963d699c644c7ce2bbf29f6d1cd4f191c5
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/apollo commit 079b759c21c00200544a6d8d5521617dce8ca70d

diff -r 9779fb963d69 -r 0ab9b5af30e7 create_or_update_organism.py
--- a/create_or_update_organism.py	Wed Sep 20 09:08:28 2017 -0400
+++ b/create_or_update_organism.py	Wed Sep 20 09:42:32 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'])]