Mercurial > repos > gga > apollo_export
comparison create_or_update_organism.py @ 3:236155b4e5f9 draft
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/apollo commit 079b759c21c00200544a6d8d5521617dce8ca70d
author | gga |
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date | Wed, 20 Sep 2017 09:43:36 -0400 |
parents | b4a85d0c85b8 |
children | 950fb2bf116d |
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2:d1d6d9fdbfbd | 3:236155b4e5f9 |
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42 except Exception: | 42 except Exception: |
43 org = None | 43 org = None |
44 | 44 |
45 if org: | 45 if org: |
46 has_perms = False | 46 has_perms = False |
47 old_directory = org.directory | 47 old_directory = org['directory'] |
48 for user_owned_organism in gx_user.organismPermissions: | 48 for user_owned_organism in gx_user.organismPermissions: |
49 if 'WRITE' in user_owned_organism['permissions']: | 49 if 'WRITE' in user_owned_organism['permissions']: |
50 has_perms = True | 50 has_perms = True |
51 break | 51 break |
52 | 52 |
63 genus=args.genus, | 63 genus=args.genus, |
64 species=args.species, | 64 species=args.species, |
65 public=args.public | 65 public=args.public |
66 ) | 66 ) |
67 time.sleep(2) | 67 time.sleep(2) |
68 if(args.remove_old_directory): | 68 if args.remove_old_directory and args.jbrowse != old_directory: |
69 shutil.rmtree(old_directory) | 69 shutil.rmtree(old_directory) |
70 | 70 |
71 data = [wa.organisms.findOrganismById(org['id'])] | 71 data = [wa.organisms.findOrganismById(org['id'])] |
72 | 72 |
73 else: | 73 else: |