From e450e68b03a52f7a1139b2e749037853f4909d7c Mon Sep 17 00:00:00 2001 From: Taylor Salo Date: Mon, 3 Jun 2024 11:32:30 -0400 Subject: [PATCH] Remove unnecessary apply parameters. --- cubids/workflows.py | 12 +++--------- 1 file changed, 3 insertions(+), 9 deletions(-) diff --git a/cubids/workflows.py b/cubids/workflows.py index 307be51b..e01ccc78 100644 --- a/cubids/workflows.py +++ b/cubids/workflows.py @@ -359,10 +359,8 @@ def apply( acq_group_level, config, edited_summary_tsv, - edited_tsv_prefix, files_tsv, new_tsv_prefix, - output_prefix, container, ): """Apply the tsv changes. @@ -379,14 +377,10 @@ def apply( Path to the grouping config file. edited_summary_tsv : :obj:`pathlib.Path` Path to the edited summary tsv. - edited_tsv_prefix : :obj:`pathlib.Path` - Path to the edited tsv prefix. files_tsv : :obj:`pathlib.Path` Path to the files tsv. new_tsv_prefix : :obj:`pathlib.Path` Path to the new tsv prefix. - output_prefix : :obj:`pathlib.Path` - Output filename prefix. container : :obj:`str` Container in which to run the workflow. """ @@ -412,8 +406,8 @@ def apply( # Run it through a container container_type = _get_container_type(container) bids_dir_link = str(bids_dir.absolute()) + ":/bids" - input_summary_tsv_dir_link = str(edited_tsv_prefix.parent.absolute()) + ":/in_summary_tsv:ro" - input_files_tsv_dir_link = str(edited_tsv_prefix.parent.absolute()) + ":/in_files_tsv:ro" + input_summary_tsv_dir_link = str(edited_summary_tsv.parent.absolute()) + ":/in_summary_tsv:ro" + input_files_tsv_dir_link = str(edited_summary_tsv.parent.absolute()) + ":/in_files_tsv:ro" output_tsv_dir_link = str(new_tsv_prefix.parent.absolute()) + ":/out_tsv:rw" # FROM BOND-GROUP @@ -422,7 +416,7 @@ def apply( input_config_dir_link = str(config.parent.absolute()) + ":/in_config:ro" linked_input_config = "/in_config/" + config.name - linked_output_prefix = "/tsv/" + output_prefix.name + linked_output_prefix = "/tsv/" + new_tsv_prefix.name #### linked_input_summary_tsv = "/in_summary_tsv/" + edited_summary_tsv.name