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| author | Andrea Guarracino | 2020-07-09 00:39:48 +0200 |
|---|---|---|
| committer | GitHub | 2020-07-09 00:39:48 +0200 |
| commit | 6207501c9b504936a61f232d33344e04350b0aed (patch) | |
| tree | 5c765b0ba6aec27691778f96fa788170b572c705 | |
| parent | be87a630a614657a7e2ca941724716be46b93b34 (diff) | |
| download | bh20-seq-resource-6207501c9b504936a61f232d33344e04350b0aed.tar.gz bh20-seq-resource-6207501c9b504936a61f232d33344e04350b0aed.tar.lz bh20-seq-resource-6207501c9b504936a61f232d33344e04350b0aed.zip | |
fixed bug that lead to invalid sample_sequencing_technology values
| -rwxr-xr-x | scripts/download_genbank_data/from_genbank_to_fasta_and_yaml.py | 3 |
1 files changed, 1 insertions, 2 deletions
diff --git a/scripts/download_genbank_data/from_genbank_to_fasta_and_yaml.py b/scripts/download_genbank_data/from_genbank_to_fasta_and_yaml.py index cb94787..39e401a 100755 --- a/scripts/download_genbank_data/from_genbank_to_fasta_and_yaml.py +++ b/scripts/download_genbank_data/from_genbank_to_fasta_and_yaml.py @@ -219,11 +219,10 @@ for path_metadata_xxx_xml in [os.path.join(dir_metadata, name_metadata_xxx_xml) seq_tec = seq_tec.strip() if seq_tec in term_to_uri_dict: seq_tec = term_to_uri_dict[seq_tec] + new_seq_tec_list.append(seq_tec) else: missing_value_list.append('\t'.join([accession_version, 'sample_sequencing_technology', seq_tec])) - new_seq_tec_list.append(seq_tec) - if len(new_seq_tec_list) > 0: info_for_yaml_dict['technology']['sample_sequencing_technology'] = [x for x in new_seq_tec_list] else: |