| Previous changeset 60:0e635abf01ff (2019-07-26) Next changeset 62:38c99b294264 (2019-10-23) |
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Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_build_kraken2_database/ commit 66c35bd1ec30e6cd16d16f3cc98c2c5b56533a48-dirty |
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modified:
data_manager/kraken2_build_database.py |
| b |
| diff -r 0e635abf01ff -r bf6408089cbc data_manager/kraken2_build_database.py --- a/data_manager/kraken2_build_database.py Fri Jul 26 19:54:59 2019 -0400 +++ b/data_manager/kraken2_build_database.py Mon Jul 29 15:53:28 2019 -0400 |
| [ |
| @@ -83,15 +83,14 @@ subprocess.check_call(['kraken2-build'] + args, cwd=target_directory) - args = [ - '--threads', str(kraken2_args["threads"]), - '--db', database_path - ] - if kraken2_args["clean"]: - args.append('--clean') - - subprocess.check_call(['kraken2-build'] + args, cwd=target_directory) + args = [ + '--threads', str(kraken2_args["threads"]), + '--clean', + '--db', database_path + ] + + subprocess.check_call(['kraken2-build'] + args, cwd=target_directory) data_table_entry = { 'data_tables': { @@ -197,15 +196,14 @@ subprocess.check_call(['kraken2-build'] + args, cwd=target_directory) - args = [ - '--threads', str(kraken2_args["threads"]), - '--db', database_path - ] + if kraken2_args["clean"]: + args = [ + '--threads', str(kraken2_args["threads"]), + '--clean', + '--db', database_path + ] - if kraken2_args["clean"]: - args.append('--clean') - - subprocess.check_call(['kraken2-build'] + args, cwd=target_directory) + subprocess.check_call(['kraken2-build'] + args, cwd=target_directory) data_table_entry = { 'data_tables': { @@ -254,15 +252,14 @@ subprocess.check_call(['kraken2-build'] + args, cwd=target_directory) - args = [ - '--threads', str(kraken2_args["threads"]), - '--db', custom_database_name - ] + if kraken2_args["clean"]: + args = [ + '--threads', str(kraken2_args["threads"]), + '--clean', + '--db', custom_database_name + ] - if kraken2_args["clean"]: - args.append('--clean') - - subprocess.check_call(['kraken2-build'] + args, cwd=target_directory) + subprocess.check_call(['kraken2-build'] + args, cwd=target_directory) data_table_entry = { 'data_tables': { |