9751: Override realpath in CollectionFsAccess

[arvados.git] / sdk / cwl / arvados_cwl / __init__.py

diff --git a/sdk/cwl/arvados_cwl/__init__.py b/sdk/cwl/arvados_cwl/__init__.py
index 7bd9df344cb927713fcafb6d1ff98ad68adb1cc2..fd9e74f8575167f7aa003ef32d9c449596810408 100644 (file)
--- a/sdk/cwl/arvados_cwl/__init__.py
+++ b/sdk/cwl/arvados_cwl/__init__.py
@@ -124,7 +124,9 @@ class ArvCwlRunner(object):
         self.debug = kwargs.get("debug")
         self.ignore_docker_for_reuse = kwargs.get("ignore_docker_for_reuse")
 
-        self.fs_access = kwargs["make_fs_access"](kwargs["basedir"])
+        make_fs_access = kwargs.get("make_fs_access") or partial(CollectionFsAccess, api_client=self.api)
+        self.fs_access = make_fs_access(kwargs["basedir"])
+        kwargs["make_fs_access"] = make_fs_access
         kwargs["enable_reuse"] = kwargs.get("enable_reuse")
         kwargs["use_container"] = True
         kwargs["tmpdir_prefix"] = "tmp"