From ba8c23625dea3d869eab821007e8f5db2eaf9dfe Mon Sep 17 00:00:00 2001
From: AndreaGuarracino
Date: Sat, 14 Nov 2020 23:30:53 +0100
Subject: added a check on host_age

---
 scripts/create_sra_metadata/create_sra_metadata.py | 6 ++++--
 1 file changed, 4 insertions(+), 2 deletions(-)

(limited to 'scripts/create_sra_metadata')

diff --git a/scripts/create_sra_metadata/create_sra_metadata.py b/scripts/create_sra_metadata/create_sra_metadata.py
index 89624fd..df77daf 100644
--- a/scripts/create_sra_metadata/create_sra_metadata.py
+++ b/scripts/create_sra_metadata/create_sra_metadata.py
@@ -178,8 +178,10 @@ for i, EXPERIMENT_PACKAGE in enumerate(EXPERIMENT_PACKAGE_SET):
                         missing_value_list.append('\t'.join([accession, 'host_sex', VALUE_text]))
             elif TAG_text in ['host_age', 'host age']:
                 if is_integer(VALUE_text):
-                    info_for_yaml_dict['host']['host_age'] = int(VALUE_text)
-                    info_for_yaml_dict['host']['host_age_unit'] = 'http://purl.obolibrary.org/obo/UO_0000036'
+                    host_age = is_integer(VALUE_text)
+                    if host_age > 0 and host_age < 110:
+                        info_for_yaml_dict['host']['host_age'] = host_age
+                        info_for_yaml_dict['host']['host_age_unit'] = 'http://purl.obolibrary.org/obo/UO_0000036'
             elif TAG_text == 'collected_by':
                 if VALUE_text.lower() not in ['not available', 'missing']:
                     name = VALUE_text in ['Dr. Susie Bartlett', 'Ahmed Babiker', 'Aisi Fu', 'Brandi Williamson', 'George Taiaroa', 'Natacha Ogando', 'Tim Dalebout', 'ykut Ozdarendeli']
-- 
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