phc-ingestion 0.10.8__tar.gz → 0.10.9__tar.gz

{phc-ingestion-0.10.8 → phc-ingestion-0.10.9}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: phc-ingestion
-Version: 0.10.8
+Version: 0.10.9
 Summary: Functions for LifeOmic PHC genomic ingestions
 License: MIT
 Author-email: LifeOmic Development <development@lifeomic.com>

{phc-ingestion-0.10.8 → phc-ingestion-0.10.9}/ingestion/nebula/manifest_assembler.py

@@ -160,7 +160,7 @@ class ManifestAssembler:
             raise RuntimeError(f"Patient with kit id {self.kit_id} not found")
         patient_birth_date = patient.get("birthDate")
         if not patient_birth_date:
-            raise RuntimeError("Patient birth date is a required to create a manifest")
+            raise RuntimeError("Patient birth date is required to create a manifest")
 
         organization: Organization | None = self.__fetch_resource_by_type_and_reference(
             "Organization", patient.get("managingOrganization")

{phc-ingestion-0.10.8 → phc-ingestion-0.10.9}/ingestion/nebula/process.py

@@ -1,6 +1,7 @@
 import os
 
 from ingestion.nebula.constants import NEBULA_TEST_TYPE
+from ingestion.shared_util.ga4gh import create_yaml
 from ingestion.vcf_standardization.standardize import standardize_vcf
 from lifeomic_logging import scoped_logger
 from ingestion.nebula.manifest_assembler import ManifestAssembler
@@ -43,6 +44,8 @@ def process(vcf_file, out_path, file_name, source_file_id, ingestion_id, account
             }
         ]
 
+        create_yaml(manifest, file_name)
+
         # Hard-code genome reference for Nebula VCFs
         genome_reference = "GRCh38"
 

{phc-ingestion-0.10.8 → phc-ingestion-0.10.9}/pyproject.toml

@@ -1,6 +1,6 @@
 [project]
 name = "phc-ingestion"
-version = "0.10.8"
+version = "0.10.9"
 description = "Functions for LifeOmic PHC genomic ingestions"
 authors = [
     { name = "LifeOmic Development", email = "development@lifeomic.com" },