From 27c256b3cf64234c0cc13e2ae2edbdc9cd194db9 Mon Sep 17 00:00:00 2001 From: M Bernt Date: Mon, 16 May 2022 16:54:14 +0200 Subject: [PATCH] Enable Galaxy ``outputs_to_working_directory`` by default (#1199) --- planemo/galaxy/config.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/planemo/galaxy/config.py b/planemo/galaxy/config.py index 96f36664f..5beefd577 100644 --- a/planemo/galaxy/config.py +++ b/planemo/galaxy/config.py @@ -484,6 +484,7 @@ def config_join(*args): migrated_tools_config=empty_tool_conf, test_data_dir=test_data_dir, # TODO: make gx respect this shed_data_manager_config_file=shed_data_manager_config_file, + outputs_to_working_directory="True", # this makes Galaxy's files dir RO for dockerized testing ) ) _handle_container_resolution(ctx, kwds, properties) @@ -500,7 +501,6 @@ def config_join(*args): # sanitize_all_html = True # serve_xss_vulnerable_mimetypes = False # track_jobs_in_database = None - # outputs_to_working_directory = False # retry_job_output_collection = 0 env = _build_env_for_galaxy(properties, template_args)