From 0427b3cdd1cd09d3c969ea23f56e2ca3d9c81ace Mon Sep 17 00:00:00 2001
From: Andrea Guarracino
Date: Sun, 19 Apr 2020 22:35:45 +0200
Subject: added 'np/op' control for specimen_source

---
 scripts/from_genbank_to_fasta_and_yaml.py | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

(limited to 'scripts')

diff --git a/scripts/from_genbank_to_fasta_and_yaml.py b/scripts/from_genbank_to_fasta_and_yaml.py
index 33615fa..0c410d7 100644
--- a/scripts/from_genbank_to_fasta_and_yaml.py
+++ b/scripts/from_genbank_to_fasta_and_yaml.py
@@ -186,7 +186,7 @@ if not os.path.exists(dir_fasta_and_yaml_today):
                         if GBQualifier_value_text in term_to_uri_dict:
                             info_for_yaml_dict['sample']['specimen_source'] = term_to_uri_dict[GBQualifier_value_text]
                         else:
-                            if GBQualifier_value_text in ['NP/OP swab', 'nasopharyngeal and oropharyngeal swab', 'nasopharyngeal/oropharyngeal swab', 'np/np swab']:
+                            if GBQualifier_value_text in ['NP/OP swab', 'nasopharyngeal and oropharyngeal swab', 'nasopharyngeal/oropharyngeal swab', 'np/np swab', 'np/op']:
                                 info_for_yaml_dict['sample']['specimen_source'] = term_to_uri_dict['nasopharyngeal swab']
                                 info_for_yaml_dict['sample']['specimen_source2'] = term_to_uri_dict['oropharyngeal swab']
                             else:
-- 
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