From bf8f13af6f083d382b4a3900566ef5e329084cbf Mon Sep 17 00:00:00 2001
From: Pjotr Prins
Date: Mon, 4 Jan 2021 09:41:58 +0000
Subject: Removing refs. No point in guessing terms

---
 workflows/pull-data/genbank/ref.py | 23 -----------------------
 1 file changed, 23 deletions(-)
 delete mode 100644 workflows/pull-data/genbank/ref.py

(limited to 'workflows/pull-data')

diff --git a/workflows/pull-data/genbank/ref.py b/workflows/pull-data/genbank/ref.py
deleted file mode 100644
index d2a377e..0000000
--- a/workflows/pull-data/genbank/ref.py
+++ /dev/null
@@ -1,23 +0,0 @@
-# ---- BELOW IS JUST FOR REFERENCE ----
-
-if field_in_yaml == 'sequencing_coverage':
-    # A regular expression would be better!
-    try:
-        technology[field_in_yaml] = [
-            float(tech_info_to_parse.replace('(average)', '').replace("reads/nt", '').
-                  replace('(average for 6 sequences)', '').replace(',', '.').strip(' xX>'))
-        ]
-    except ValueError:
-        print(accession_version, "Couldn't make sense of Coverage '%s'" % tech_info_to_parse)
-        pass
-
-
-elif GBQualifier_name_text == 'collected_by':
-    if any([x in GBQualifier_value_text.lower() for x in ['institute', 'hospital', 'city', 'center']]):
-        sample['collecting_institution'] = GBQualifier_value_text
-    else:
-        sample['collector_name'] = GBQualifier_value_text
-
-elif GBQualifier_name_text == 'isolation_source':
-if GBQualifier_value_text.upper() in field_to_term_to_uri_dict['ncbi_speciesman_source']:
-    GBQualifier_value_text = GBQualifier_value_text.upper()  # For example, in case of 'usa: wa'
-- 
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