| Previous changeset 74:d7a452cd17fb (2021-11-05) Next changeset 76:79cac1e2f422 (2021-11-05) |
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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 cec255ceca4b1dd39c4b5795cbfcf5f8e74fc9c7-dirty" |
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modified:
data_manager/kraken2_build_database.py |
| b |
| diff -r d7a452cd17fb -r 51f96d6d7e1d data_manager/kraken2_build_database.py --- a/data_manager/kraken2_build_database.py Fri Nov 05 19:36:43 2021 +0000 +++ b/data_manager/kraken2_build_database.py Fri Nov 05 19:51:19 2021 +0000 |
| [ |
| @@ -67,7 +67,6 @@ def __str__(self): return self.value - def kraken2_build_standard(kraken2_args, target_directory, data_table_name=DATA_TABLE_NAME): now = datetime.datetime.utcnow().strftime("%Y-%m-%dT%H%M%SZ") @@ -129,7 +128,7 @@ return data_table_entry -def kraken2_build_standard_prebuilt(standard_prebuilt_size, target_directory, data_table_name=DATA_TABLE_NAME): +def kraken2_build_standard_prebuilt(standard_prebuilt_size, prebuilt_date, target_directory, data_table_name=DATA_TABLE_NAME): now = datetime.datetime.utcnow().strftime("%Y-%m-%dT%H%M%SZ") @@ -154,7 +153,7 @@ '8': '_8gb', } # we may need to let the user choose the date when new DBs are posted. - date_url_str = args.prebuilt_date.replace('-', '') + date_url_str = prebuilt_date.replace('-', '') standard_prebuilt_size_url = size_to_url_str[standard_prebuilt_size] # download the pre-built database src = urlopen( @@ -408,6 +407,7 @@ elif str(args.database_type) == 'standard_prebuilt': data_manager_output = kraken2_build_standard_prebuilt( str(args.standard_prebuilt_size), + args.standard_prebuilt_date, target_directory ) elif str(args.database_type) == 'minikraken': |