fix: interpret skip_libraries in sv_calling (#383)

bihealth · Apr 11, 2023 · 60be51d · 60be51d
1 parent 573c72f
commit 60be51d
Showing 1 changed file with 2 additions and 1 deletion.
diff --git a/snappy_pipeline/workflows/common/sv_calling.py b/snappy_pipeline/workflows/common/sv_calling.py
@@ -40,7 +40,8 @@ def get_result_files(self):
             #: Generate all concrete output paths.
             for path_tpl in result_paths_tpls:
                 for library_name in self.index_ngs_library_to_pedigree.keys():
-                    yield from expand(path_tpl, mapper=[mapper], library_name=library_name)
+                    if library_name not in self.config[self.name].get("skip_libraries", []):
+                        yield from expand(path_tpl, mapper=[mapper], library_name=library_name)
 
 
 class SvCallingGetLogFileMixin: