diff data_manager/extract.py @ 5:6ab91825be22 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_fetch_busco/ commit d46d2ec37b9b8f08d58472978c51b4c46e7ed18c

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/data_manager/extract.py	Fri Apr 04 10:12:43 2025 +0000
@@ -0,0 +1,23 @@
+import json
+import os
+import re
+import sys
+
+busco_db = os.path.join(sys.argv[1], "lineages")
+busco_db_value = sys.argv[2]
+dmjson = sys.argv[3]
+
+content = []
+for d in os.scandir(busco_db):
+    if not d.is_dir():
+        continue
+    if not os.path.exists(os.path.join(d, "dataset.cfg")):
+        continue
+    name = re.sub(r"_odb\d+", "", d.name)
+    name = name.replace("_", " ").capitalize()
+    content.append({'value': d.name, 'name': name, 'db_value': busco_db_value})
+
+with open(dmjson, "w") as fh:
+    json.dump({"data_tables": {"busco_database_options": content}}, fh)
+
+print(f'{len(content)} x busco_db\n')