update pipestatmanager configuration

databio · Jan 25, 2021 · 4b66aa8 · 4b66aa8
1 parent 7257eca
commit 4b66aa8
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Showing 2 changed files with 8 additions and 3 deletions.
diff --git a/pypiper/manager.py b/pypiper/manager.py
@@ -350,12 +350,17 @@ def __init__(
 
         # pipesatat setup
         potential_namespace = getattr(self, "sample_name", self.name)
+
+        # don't force default pipestat_results_file value unless
+        # pipestat config not provided
+        if pipestat_config is None and pipestat_results_file is None:
+            pipestat_results_file = pipeline_filepath(
+                self, filename="pipestat_results.yaml")
         self._pipestat_manager = PipestatManager(
             namespace=pipestat_namespace or potential_namespace,
             record_identifier=pipestat_record_id or potential_namespace,
             schema_path=pipestat_schema,
-            results_file_path=pipestat_results_file or pipeline_filepath(
-                self, filename="pipestat_results.yaml"),
+            results_file_path=pipestat_results_file,
             config=pipestat_config
         )
 

diff --git a/requirements/reqs-ngstk.txt b/requirements/reqs-ngstk.txt
@@ -1,4 +1,4 @@
 numpy
 pandas
 pysam
-yacman
+yacman