diff --git a/looper/utils.py b/looper/utils.py index aa2f6300..5a8279bd 100644 --- a/looper/utils.py +++ b/looper/utils.py @@ -440,9 +440,8 @@ def init_generic_pipeline(pipelinepath: Optional[str] = None): generic_pipeline_dict = { "pipeline_name": "default_pipeline_name", "output_schema": "output_schema.yaml", - "var_templates": {"pipeline": "{looper.piface_dir}/count_lines.sh"}, "sample_interface": { - "command_template": "{pipeline.var_templates.pipeline} {sample.file} " + "command_template": "{looper.piface_dir}/count_lines.sh {sample.file} " "--output-parent {looper.sample_output_folder}" }, }