jumble parameter in mkconfig, closes #101 (#103)

* jumble parameter in `mkconfig`, closes #101 * format, lint
matsengrp · Jun 18, 2022 · 7d99d0c · 7d99d0c
1 parent 5020a64
commit 7d99d0c
Showing 1 changed file with 6 additions and 1 deletion.
diff --git a/gctree/mkconfig.py b/gctree/mkconfig.py
@@ -26,6 +26,11 @@ def get_parser():
     parser.add_argument(
         "--quick", action="store_true", help="quicker (less thourough) dnapars"
     )
+    parser.add_argument(
+        "--jumble",
+        default=10,
+        help="search tree space with this many random permutations of the input sequences",
+    )
     parser.add_argument(
         "--bootstrap",
         type=int,
@@ -48,7 +53,7 @@ def main(arg_list=None):
     print("J")
     # random seed for tree search
     print("1")
-    print("10")
+    print(args.jumble)
     if args.bootstrap:
         print("M")
         print("D")