15028: Update cwltool/schema-salad deps, fix tests

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

diff --git a/sdk/cwl/arvados_cwl/executor.py b/sdk/cwl/arvados_cwl/executor.py
index 0e46c53606f4b79694d8bd2acfe240b1195409f8..2875dbc22263314bd04c2699e93370d841c0c89c 100644 (file)
--- a/sdk/cwl/arvados_cwl/executor.py
+++ b/sdk/cwl/arvados_cwl/executor.py
@@ -187,6 +187,7 @@ http://doc.arvados.org/install/install-api-server.html#disable_api_methods
         self.loadingContext.fetcher_constructor = self.fetcher_constructor
         self.loadingContext.resolver = partial(collectionResolver, self.api, num_retries=self.num_retries)
         self.loadingContext.construct_tool_object = self.arv_make_tool
+        self.loadingContext.do_update = False
 
         # Add a custom logging handler to the root logger for runtime status reporting
         # if running inside a container
@@ -461,7 +462,8 @@ http://doc.arvados.org/install/install-api-server.html#disable_api_methods
                 logger.error("Creating CollectionReader for '%s' '%s': %s", k, v, e)
                 raise
             except IOError as e:
-                logger.warning("While preparing output collection: %s", e)
+                logger.error("While preparing output collection: %s", e)
+                raise
 
         def rewrite(fileobj):
             fileobj["location"] = generatemapper.mapper(fileobj["location"]).target