put symlinks in an indir

grubaughlab · Aug 30, 2023 · 6550b76 · 6550b76
1 parent e573498
commit 6550b76
Showing 1 changed file with 3 additions and 0 deletions.
diff --git a/denv_pipeline/utils/set_up_scripts.py b/denv_pipeline/utils/set_up_scripts.py
@@ -101,6 +101,9 @@ def symlink_setup(config, cwd):
 
     symlink = config["symlink"]
 
+    if not os.path.exists(config["indir"]):
+        misc.make_directory(config["indir"])
+
     os.chdir(config["indir"])
     os.system(f"ycgaFastq {symlink}")
     os.chdir(cwd)