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| author | Peter Amstutz | 2020-04-30 12:28:08 -0400 |
|---|---|---|
| committer | GitHub | 2020-04-30 12:28:08 -0400 |
| commit | ead1cfc4eebb1c150fc345983834556a23d14bac (patch) | |
| tree | f2ec888cbf1cb1ebb0ad13d843aa09263463b040 | |
| parent | 3b69ffa7d7f3b24a393bbf11b9de79a9eb96eac6 (diff) | |
| parent | 6165495618b9c2ad3ad7b8bd95ed807d022ebf1c (diff) | |
| download | bh20-seq-resource-ead1cfc4eebb1c150fc345983834556a23d14bac.tar.gz bh20-seq-resource-ead1cfc4eebb1c150fc345983834556a23d14bac.tar.lz bh20-seq-resource-ead1cfc4eebb1c150fc345983834556a23d14bac.zip | |
Merge pull request #47 from AndreaGuarracino/patch-15
fixed UO_0000036 for year
| -rwxr-xr-x | scripts/from_genbank_to_fasta_and_yaml.py | 2 |
1 files changed, 1 insertions, 1 deletions
diff --git a/scripts/from_genbank_to_fasta_and_yaml.py b/scripts/from_genbank_to_fasta_and_yaml.py index 900f087..6f046ea 100755 --- a/scripts/from_genbank_to_fasta_and_yaml.py +++ b/scripts/from_genbank_to_fasta_and_yaml.py @@ -200,7 +200,7 @@ for path_metadata_xxx_xml in [os.path.join(dir_metadata, name_metadata_xxx_xml) if 'age' in GBQualifier_value_text: info_for_yaml_dict['host']['host_age'] = int(GBQualifier_value_text_list[2].split('age ')[1]) - info_for_yaml_dict['host']['host_age_unit'] = 'year' + info_for_yaml_dict['host']['host_age_unit'] = 'http://purl.obolibrary.org/obo/UO_0000036' elif GBQualifier_name_text == 'collected_by': if any([x in GBQualifier_value_text.lower() for x in ['institute', 'hospital', 'city', 'center']]): info_for_yaml_dict['sample']['collecting_institution'] = GBQualifier_value_text |