update the looper init_piface output to no longer use var_templates

pepkit · Sep 19, 2024 · a7246de · a7246de
1 parent f23f5aa
commit a7246de
Showing 1 changed file with 1 addition and 2 deletions.
diff --git 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}"
         },
     }