From ae2df4847bc933b236920474a15f9994ea75886e Mon Sep 17 00:00:00 2001
From: pavlemarinkovic <pavle.marinkovic@sbgenomics.com>
Date: Thu, 11 Jul 2024 17:22:06 +0200
Subject: [PATCH] Use wrabbit 0.2.1

---
 requirements.txt          |  2 +-
 sbpack/noncwl/nextflow.py | 12 +++++-------
 2 files changed, 6 insertions(+), 8 deletions(-)

diff --git a/requirements.txt b/requirements.txt
index cb076c3..69b3136 100755
--- a/requirements.txt
+++ b/requirements.txt
@@ -1,6 +1,6 @@
 ruamel.yaml >= 0.16
 sevenbridges-python >= 2.0
 nf-core==2.1
-wrabbit==0.2.0
+wrabbit==0.2.1
 cwlformat
 packaging
\ No newline at end of file
diff --git a/sbpack/noncwl/nextflow.py b/sbpack/noncwl/nextflow.py
index f52950b..b581ae8 100755
--- a/sbpack/noncwl/nextflow.py
+++ b/sbpack/noncwl/nextflow.py
@@ -46,6 +46,9 @@ def nf_schema_build(self):
         Build nextflow schema using nf_core schema build feature and save to
         a file
         """
+        if self.nf_schema_path:
+            return
+
         nf_schema_path = os.path.join(
             self.workflow_path,
             NF_SCHEMA_DEFAULT_NAME,
@@ -64,6 +67,8 @@ def nf_schema_build(self):
         )
         self.nf_schema_path = nf_schema_path
 
+        self.init_config_files()
+
 
 def main():
     # CLI parameters
@@ -248,13 +253,6 @@ def main():
             schema = yaml.safe_load(s)
             nf_wrapper.sb_wrapper.load(schema)
     else:
-        # build schema
-        # Do this only if the nextflow_schema.json is missing
-        if not nf_wrapper.nf_schema_path:
-            nf_wrapper.nf_schema_build()
-            # update the nextflow_schema.json location
-            nf_wrapper.init_config_files()
-
         # Create app
         nf_wrapper.generate_sb_app(
             execution_mode=execution_mode,