From a7246deabd0e3e55899bd54fdec29623ac0dcf5e Mon Sep 17 00:00:00 2001
From: Donald Campbell <125581724+donaldcampbelljr@users.noreply.github.com>
Date: Thu, 19 Sep 2024 11:19:55 -0400
Subject: [PATCH] update the looper init_piface output to no longer use
 var_templates

---
 looper/utils.py | 3 +--
 1 file changed, 1 insertion(+), 2 deletions(-)

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}"
         },
     }