Merge pull request #241 from Ensembl/mbarba/seq_region_lrg

Seq_region lrg support
Ensembl · Jun 19, 2024 · a8b00f6 · a8b00f6
2 parents 1b1691e + 31968e6
commit a8b00f6
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diff --git a/src/python/ensembl/io/genomio/data/schemas/seq_region.json b/src/python/ensembl/io/genomio/data/schemas/seq_region.json
@@ -39,7 +39,8 @@
             "contig",
             "chunk",
             "primary_assembly",
-            "clone"
+            "clone",
+            "lrg"
           ]
         },
         "omit" : { "type" : "boolean", "description" : "prevent loading/processing of the scaffold" },

diff --git a/src/python/ensembl/io/genomio/seq_region/dump.py b/src/python/ensembl/io/genomio/seq_region/dump.py
@@ -307,7 +307,7 @@ def main() -> None:
     parser.add_argument_src_path(
         "--external_db_map", default=_DEFAULT_MAP.resolve(), help="File with external_db mapping"
     )
-    parser.add_log_arguments()
+    parser.add_log_arguments(add_log_file=True)
     args = parser.parse_args()
     init_logging_with_args(args)