Merge pull request #362 from latchbio/rahuldesai1/fix-snakemake-confi…

…g-override fix: merge global config with user config instead of overriding
latchbio · Dec 21, 2023 · e9fdcb0 · e9fdcb0
2 parents 7b3a536 + 727989c
commit e9fdcb0
Showing 1 changed file with 3 additions and 2 deletions.
diff --git a/latch_cli/snakemake/workflow.py b/latch_cli/snakemake/workflow.py
@@ -1235,8 +1235,9 @@ def get_fn_code(
 
         need_conda = any(x.conda_env is not None for x in jobs)
 
-        if non_blob_parameters is not None and len(non_blob_parameters) > 0:
-            self.job.rule.workflow.globals["config"] = non_blob_parameters
+        if non_blob_parameters is not None:
+            for param, val in non_blob_parameters.items():
+                self.job.rule.workflow.globals["config"][param] = val
 
         snakemake_args = [
             "-m",