intial version

create_species_yaml.py

@@ -0,0 +1,13 @@
+"""
+Converts a txt file with species of interest and comments (1 per line) into the yaml format expected by the workflow
+"""
+LEADING_SPACE = '  '
+
+if __name__ == '__main__':
+    with open('reference/species_list.txt','rt') as ih, open('reference/species_list.yaml','wt') as oh:
+        oh.write('species_list:\n')
+        for line in ih:
+            if line.startswith('#'):
+                oh.write(LEADING_SPACE+line.strip()+'\n')
+                continue
+            oh.write(LEADING_SPACE+'- '+'_'.join(x.lower() for x in line.strip().split())+'\n')