Detect thread counts on -j0 and ensure use of less threads than que…

…ry blocks
althonos · Dec 12, 2024 · e69be7d · e69be7d
1 parent 8737685
commit e69be7d
Showing 1 changed file with 5 additions and 0 deletions.
diff --git a/orthoani/__init__.py b/orthoani/__init__.py
@@ -214,6 +214,11 @@ def _hits(
 ) -> List[BlastRow]:
     """Compute the hits from ``query`` to ``reference``."""
 
+    if threads > len(query):
+        threads = len(query)
+    if threads == 0:
+        threads = os.cpu_count() or 1
+
     # initialize blast
     blastn = pyncbitk.algo.BlastN(
         evalue=1e-15,