DIR

Author: bpblanken

v03_pipeline/lib/model/environment.py

@@ -13,8 +13,8 @@
 HAIL_TMP_DIR = os.environ.get('HAIL_TMP_DIR', '/tmp')  # noqa: S108
 HAIL_SEARCH_DATA_DIR = os.environ.get('HAIL_SEARCH_DATA_DIR', '/seqr/hail-search-data')
 LOADING_DATASETS_DIR = os.environ.get('LOADING_DATASETS_DIR', '/seqr/seqr-loading-temp')
-PRIVATE_REFERENCE_DATASETS_DIR_DIR = os.environ.get(
-    'PRIVATE_REFERENCE_DATASETS_DIR_DIR',
+PRIVATE_REFERENCE_DATASETS_DIR = os.environ.get(
+    'PRIVATE_REFERENCE_DATASETS_DIR',
     '/seqr/seqr-reference-data-private',
 )
 REFERENCE_DATASETS_DIR = os.environ.get(
@@ -50,7 +50,7 @@ class Env:
     GRCH37_TO_GRCH38_LIFTOVER_REF_PATH: str = GRCH37_TO_GRCH38_LIFTOVER_REF_PATH
     GRCH38_TO_GRCH37_LIFTOVER_REF_PATH: str = GRCH38_TO_GRCH37_LIFTOVER_REF_PATH
     LOADING_DATASETS_DIR: str = LOADING_DATASETS_DIR
-    PRIVATE_REFERENCE_DATASETS_DIR_DIR: str = PRIVATE_REFERENCE_DATASETS_DIR_DIR
+    PRIVATE_REFERENCE_DATASETS_DIR: str = PRIVATE_REFERENCE_DATASETS_DIR
     PROJECT_ID: str | None = PROJECT_ID
     REFERENCE_DATASETS_DIR: str = REFERENCE_DATASETS_DIR
     SHOULD_REGISTER_ALLELES: bool = SHOULD_REGISTER_ALLELES

v03_pipeline/lib/paths.py

@@ -32,7 +32,7 @@ def _v03_reference_data_prefix(
     reference_genome: ReferenceGenome,
 ) -> str:
     root = (
-        Env.PRIVATE_REFERENCE_DATASETS_DIR_DIR
+        Env.PRIVATE_REFERENCE_DATASETS_DIR
         if access_control == AccessControl.PRIVATE
         else Env.REFERENCE_DATASETS_DIR
     )