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varfish-org · Oct 20, 2023 · cc24cb8 · cc24cb8
1 parent 5994b6f
commit cc24cb8
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Showing 2 changed files with 204 additions and 126 deletions.
diff --git a/maintenance/management/commands/generate_result_set.py b/maintenance/management/commands/generate_result_set.py
@@ -121,42 +121,42 @@ def handle(self, *args, **options):
             #                 from variants.views import UUIDEncoder
             #                 json.dump(duplicates, f, indent=1, cls=UUIDEncoder)
             with open("orphaned_sv_flags.tsv", "w") as f:
-                f.write("case_uuid\tproject\tcase_name\tregion\tis_missing\tjson\n")
+                f.write("case_uuid\tproject\tcase_name\tregion\tlost\tjson\n")
                 for line in tsv_lines["svs"]["flags"]:
                     f.write(
-                        "{case_uuid}\t{project}\t{case_name}\t{chromosome}:{start}-{end}\t{is_missing}\t{json}\n".format(
+                        "{case_uuid}\t{project}\t{case_name}\t{chromosome}:{start}-{end}\t{lost}\t{json}\n".format(
                             **line
                         )
                     )
             with open("orphaned_sv_comments.tsv", "w") as f:
-                f.write("case_uuid\tproject\tcase_name\tregion\tis_missing\tjson\n")
+                f.write("case_uuid\tproject\tcase_name\tregion\tlost\tjson\n")
                 for line in tsv_lines["svs"]["comments"]:
                     f.write(
-                        "{case_uuid}\t{project}\t{case_name}\t{chromosome}:{start}-{end}\t{is_missing}\t{json}\n".format(
+                        "{case_uuid}\t{project}\t{case_name}\t{chromosome}:{start}-{end}\t{lost}\t{json}\n".format(
                             **line
                         )
                     )
             with open("orphaned_sm_flags.tsv", "w") as f:
-                f.write("case_uuid\tproject\tcase_name\tregion\tis_missing\tjson\n")
+                f.write("case_uuid\tproject\tcase_name\tregion\tlost\tjson\n")
                 for line in tsv_lines["sms"]["flags"]:
                     f.write(
-                        "{case_uuid}\t{project}\t{case_name}\t{chromosome}:{start}-{end}\t{is_missing}\t{json}\n".format(
+                        "{case_uuid}\t{project}\t{case_name}\t{chromosome}:{start}-{end}\t{lost}\t{json}\n".format(
                             **line
                         )
                     )
             with open("orphaned_sm_comments.tsv", "w") as f:
-                f.write("case_uuid\tproject\tcase_name\tregion\tis_missing\tjson\n")
+                f.write("case_uuid\tproject\tcase_name\tregion\tlost\tjson\n")
                 for line in tsv_lines["sms"]["comments"]:
                     f.write(
-                        "{case_uuid}\t{project}\t{case_name}\t{chromosome}:{start}-{end}\t{is_missing}\t{json}\n".format(
+                        "{case_uuid}\t{project}\t{case_name}\t{chromosome}:{start}-{end}\t{lost}\t{json}\n".format(
                             **line
                         )
                     )
             with open("orphaned_sm_acmg_ratings.tsv", "w") as f:
-                f.write("case_uuid\tproject\tcase_name\tregion\tis_missing\tjson\n")
+                f.write("case_uuid\tproject\tcase_name\tregion\tlost\tjson\n")
                 for line in tsv_lines["sms"]["acmg_ratings"]:
                     f.write(
-                        "{case_uuid}\t{project}\t{case_name}\t{chromosome}:{start}-{end}\t{is_missing}\t{json}\n".format(
+                        "{case_uuid}\t{project}\t{case_name}\t{chromosome}:{start}-{end}\t{lost}\t{json}\n".format(
                             **line
                         )
                     )