Mercurial > repos > dfornika > mentalist
changeset 15:fd3c9d4c6c5a draft
planemo upload for repository https://github.com/WGS-TB/MentaLiST/tree/master/galaxy commit 7e8b159e34b91cb5e76ba86feaea24158565606b-dirty
| author | dfornika |
|---|---|
| date | Wed, 11 Oct 2017 16:57:28 -0400 |
| parents | 73919ea9e001 |
| children | 0b3b4f9276b4 |
| files | data_managers/data_manager_mentalist_download_pubmlst/data_manager/mentalist_download_pubmlst.py |
| diffstat | 1 files changed, 1 insertions(+), 1 deletions(-) [+] |
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--- a/data_managers/data_manager_mentalist_download_pubmlst/data_manager/mentalist_download_pubmlst.py Wed Oct 11 16:55:06 2017 -0400 +++ b/data_managers/data_manager_mentalist_download_pubmlst/data_manager/mentalist_download_pubmlst.py Wed Oct 11 16:57:28 2017 -0400 @@ -14,7 +14,7 @@ def mentalist_download_pubmlst( data_manager_dict, kmer_size, scheme, params, target_directory, data_table_names=DEFAULT_DATA_TABLE_NAMES ): database_path = scheme.lower().replace(" ", "_").translate(None, string.punctuation) + "_k" + str(kmer_size) + "_pubmlst" - database_name = data_table_path + ".h5" + database_name = database_path + ".h5" display_name = scheme + " k=" + str(kmer_size) + " (PubMLST)" args = [ 'mentalist', 'download_pubmlst', '--db', database_name, '-k', str(kmer_size), '-s', scheme, '-o', database_path] proc = subprocess.Popen( args=args, shell=False, cwd=target_directory )