ebi-eva-common-pyutils 0.8.0__py3-none-any.whl → 0.8.1__py3-none-any.whl

{ebi_eva_common_pyutils-0.8.0.dist-info → ebi_eva_common_pyutils-0.8.1.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.2
 Name: ebi_eva_common_pyutils
-Version: 0.8.0
+Version: 0.8.1
 Summary: EBI EVA - Common Python Utilities
 Home-page: https://github.com/EBIVariation/eva-common-pyutils
 License: Apache

{ebi_eva_common_pyutils-0.8.0.dist-info → ebi_eva_common_pyutils-0.8.1.dist-info}/RECORD

@@ -22,18 +22,18 @@ ebi_eva_common_pyutils/taxonomy/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm
 ebi_eva_common_pyutils/taxonomy/taxonomy.py,sha256=aXmRQ3NAaJotwmmOA2-u2XtcUT6iih-0_e-3QOxynoA,2578
 ebi_eva_common_pyutils/variation/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 ebi_eva_common_pyutils/variation/contig_utils.py,sha256=kMNEW_P2yPnd8Xx1tep19hy5ee7ojxz6ZOO1grTQsRQ,5230
-ebi_eva_common_pyutils-0.8.0.data/scripts/archive_directory.py,sha256=0lWJ0ju_AB2ni7lMnJXPFx6U2OdTGbe-WoQs-4BfKOM,4976
+ebi_eva_common_pyutils-0.8.1.data/scripts/archive_directory.py,sha256=0lWJ0ju_AB2ni7lMnJXPFx6U2OdTGbe-WoQs-4BfKOM,4976
 ebi_eva_internal_pyutils/__init__.py,sha256=AbpHGcgLb-kRsJGnwFEktk7uzpZOCcBY74-YBdrKVGs,1
 ebi_eva_internal_pyutils/archive_directory.py,sha256=IxVEfh_gaCiT652k0Q_-58fonRusy1yzXu7BCO8yVLo,4989
 ebi_eva_internal_pyutils/config_utils.py,sha256=EGRC5rsmU_ug7OY9-t1UW1XZXRsauSyZB9xPcBux8ts,7909
 ebi_eva_internal_pyutils/metadata_utils.py,sha256=t9PcXZdbfjDBP04GJenC4bxm2nOLd8oI_MP9eNe9IBQ,15221
 ebi_eva_internal_pyutils/mongo_utils.py,sha256=YxKHtb5ygDiGLOtEiiAMFCP2ow6FL9Kq0K5R0mWNdXY,3575
 ebi_eva_internal_pyutils/pg_utils.py,sha256=FUQVwiX_7F2-4sSzoaCVX2me0zAqR8nGIj6NW5d304A,4398
-ebi_eva_internal_pyutils/spring_properties.py,sha256=Tn207DmZehFt7oExseNsXFAnsxr7bX9yiGl4t9mpGVA,15165
+ebi_eva_internal_pyutils/spring_properties.py,sha256=on67qAz2GzVr9zl3E6wOhqWDScPFQrJERoQzynjW0TU,15181
 ebi_eva_internal_pyutils/mongodb/__init__.py,sha256=cH89mspotx2u8XxvpaDjjLCaSQqE8-8cCd11s2LMvpg,74
 ebi_eva_internal_pyutils/mongodb/mongo_database.py,sha256=P6_PR9_KICxafypM1hESxkOJI52T098ynNUML2FzJac,9668
-ebi_eva_common_pyutils-0.8.0.dist-info/LICENSE,sha256=xx0jnfkXJvxRnG63LTGOxlggYnIysveWIZ6H3PNdCrQ,11357
-ebi_eva_common_pyutils-0.8.0.dist-info/METADATA,sha256=HI0gRr-e_clv_BenWgJWkHVIBSR5l4uq3i-iMarOjhk,1022
-ebi_eva_common_pyutils-0.8.0.dist-info/WHEEL,sha256=jB7zZ3N9hIM9adW7qlTAyycLYW9npaWKLRzaoVcLKcM,91
-ebi_eva_common_pyutils-0.8.0.dist-info/top_level.txt,sha256=sXoiqiGU8vlMQpFWDlKrekxhlusk06AhkOH3kSvDT6c,48
-ebi_eva_common_pyutils-0.8.0.dist-info/RECORD,,
+ebi_eva_common_pyutils-0.8.1.dist-info/LICENSE,sha256=xx0jnfkXJvxRnG63LTGOxlggYnIysveWIZ6H3PNdCrQ,11357
+ebi_eva_common_pyutils-0.8.1.dist-info/METADATA,sha256=MqbS8fd8giBoGXVm39K3Nmvxrm62Mrxl40FzX9PiRF8,1022
+ebi_eva_common_pyutils-0.8.1.dist-info/WHEEL,sha256=jB7zZ3N9hIM9adW7qlTAyycLYW9npaWKLRzaoVcLKcM,91
+ebi_eva_common_pyutils-0.8.1.dist-info/top_level.txt,sha256=sXoiqiGU8vlMQpFWDlKrekxhlusk06AhkOH3kSvDT6c,48
+ebi_eva_common_pyutils-0.8.1.dist-info/RECORD,,

ebi_eva_internal_pyutils/spring_properties.py

@@ -132,16 +132,16 @@ class SpringPropertiesGenerator:
         merge = {**self._common_accessioning_properties(assembly_accession, read_preference, chunk_size), **props}
         return merge
 
-    def get_accessioning_properties(self, *, target_assembly=None, fasta=None, assembly_report=None,
-                                    project_accession=None, aggregation='BASIC', taxonomy_accession=None,
-                                    vcf_file='', output_vcf='', chunk_size=100):
+    def get_accessioning_properties(self, *, read_preference='primary', job_name=None, target_assembly=None, fasta=None,
+                                    assembly_report=None, project_accession=None, aggregation='BASIC',
+                                    taxonomy_accession=None, vcf_file='', output_vcf='', chunk_size=100):
         """Properties for accessioning pipeline."""
         return self._format(
             self._common_accessioning_clustering_properties(assembly_accession=target_assembly,
-                                                            read_preference='secondaryPreferred',
+                                                            read_preference=read_preference,
                                                             chunk_size=chunk_size),
             {
-                'spring.batch.job.names': 'CREATE_SUBSNP_ACCESSION_JOB',
+                'spring.batch.job.names': job_name,
                 'parameters.assemblyReportUrl': self._format_str('file:{0}', assembly_report),
                 'parameters.contigNaming': 'NO_REPLACEMENT',
                 'parameters.fasta': fasta,