diff --git a/commit0/harness/run_pytest_ids.py b/commit0/harness/run_pytest_ids.py
index 37f011e..166f991 100644
--- a/commit0/harness/run_pytest_ids.py
+++ b/commit0/harness/run_pytest_ids.py
@@ -108,7 +108,7 @@ def main(
             if not found_remote_branch:
                 raise Exception(f"Branch {branch} does not exist locally or remotely.")
     patch = generate_patch_between_commits(
-        local_repo, example["base_commit"], commit_id
+        local_repo, example["base_commit"], commit_id, example["src_dir"]
     )
     patch_file = Path(log_dir / "patch.diff")
     patch_file.write_text(patch)
diff --git a/commit0/harness/utils.py b/commit0/harness/utils.py
index 8a44685..821bac4 100644
--- a/commit0/harness/utils.py
+++ b/commit0/harness/utils.py
@@ -163,7 +163,7 @@ def create_repo_on_github(
 
 
 def generate_patch_between_commits(
-    repo: git.Repo, old_commit: str, new_commit: str
+    repo: git.Repo, old_commit: str, new_commit: str, src_dir: str
 ) -> str:
     """Generate a patch string by comparing two specified commits.
 
@@ -172,6 +172,7 @@ def generate_patch_between_commits(
         repo (git.Repo): An instance of the git.Repo object representing the repository.
         old_commit (str): The hash or reference to the old commit.
         new_commit (str): The hash or reference to the new commit.
+        src_dir (str): The source directory to exclude from the patch.
 
     Returns:
     -------