Mercurial > repos > sanbi-uwc > data_manager_fetch_refseq
changeset 12:45baee31ca39 draft
planemo upload for repository https://github.com/pvanheus/refseq_fasta_data_manager commit b682adad2c3c74567d23e1a5cf2bfcc3df1c96ae-dirty
| author | sanbi-uwc |
|---|---|
| date | Fri, 07 Sep 2018 20:14:04 -0400 |
| parents | b1e8f8a613e6 |
| children | dd9f976e9d97 |
| files | data_manager/fetch_refseq.py data_manager/fetch_refseq.xml |
| diffstat | 2 files changed, 2 insertions(+), 2 deletions(-) [+] |
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--- a/data_manager/fetch_refseq.py Fri Sep 07 20:07:55 2018 -0400 +++ b/data_manager/fetch_refseq.py Fri Sep 07 20:14:04 2018 -0400 @@ -147,7 +147,7 @@ today_str = date.today().strftime('%Y-%m-%d') # ISO 8601 date format [release_num, fasta_files] = get_refseq_division(division_name, mol_types, output_directory, args.debug, args.compress) if args.galaxy_datamanager_filename is not None: - for i, mol_type in enumerate(args.mol_types): + for i, mol_type in enumerate(mol_types): assert mol_type in fasta_files[i], "Filename does not contain expected mol_type ({}, {})".format(mol_type, fasta_files[i]) unique_key = division_name + '.' + release_num + '.' + mol_type + '.' + today_str dbkey = division_name + '.' + release_num + '.' + mol_type
--- a/data_manager/fetch_refseq.xml Fri Sep 07 20:07:55 2018 -0400 +++ b/data_manager/fetch_refseq.xml Fri Sep 07 20:14:04 2018 -0400 @@ -1,4 +1,4 @@ -<tool id="data_manager_fetch_refseq" name="RefSeq data manager" version="0.0.12" tool_type="manage_data"> +<tool id="data_manager_fetch_refseq" name="RefSeq data manager" version="0.0.13" tool_type="manage_data"> <description>Fetch FASTA data from NCBI RefSeq and update all_fasta data table</description> <requirements> <requirement type="package" version="3">python</requirement>