Gen3 Monthly Release 2024.05 vpodc.data-commons.org 1715222216

[PlanXCyborg]

Applying version 2024.05 to vpodc.data-commons.org

[github-actions]

vpodc.data-commons.org

❌ etlMapping.yaml - gitops.json mismatch

• Field error: Field [patients] in explorerConfig.guppyConfig.dataType not found in etlMapping
• Field error: Field [project_id] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [Days_To_Birth] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [Days_To_Death] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [DeceasedFlag] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [Ethnicity] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [Gender] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [Race] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [project_id] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [ActionableMutations.Lab] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [ActionableMutations.Gene] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [ActionableMutations.DaysFromAnchorDateToBxDate] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [project_id] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [Oncology_Primary.Multiplicitycounter] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [Oncology_Primary.ICDOSite] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [Oncology_Primary.Radiation] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [Oncology_Primary.Chemotherapy] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [Oncology_Primary.DaysFromAnchorDateToDiagnosisDate] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [Oncology_Primary.Gradedifferentiation] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [Oncology_Primary.Laterality] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [Oncology_Primary.Stagegroupbest] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [Oncology_Primary.RadiationsurgerySequence] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [Oncology_Primary.Histologyicdo3X] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [Oncology_Primary.Lymphvascularinvasionl] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [Oncology_Primary.SeerSummaryStage2000] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [Oncology_Primary.PhysiciansStage] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [Oncology_Primary.DaysFromAnchorDateToMostdefinitivesurgDate] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [Oncology_Primary.ChemotherapyFac] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [Oncology_Primary.TumorSize] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [Oncology_Primary.SequenceNumber] in explorerConfig.filters.tabs.fields not found in etlMapping
• Field error: Field [project_id] in explorerConfig.table.fields not found in etlMapping
• Field error: Field [Race] in explorerConfig.table.fields not found in etlMapping
• Field error: Field [Ethnicity] in explorerConfig.table.fields not found in etlMapping
• Field error: Field [Gender] in explorerConfig.table.fields not found in etlMapping
• Field error: Field [ActionableMutations.Lab] in explorerConfig.table.fields not found in etlMapping
• Field error: Field [Oncology_Primary.Multiplicitycounter] in explorerConfig.table.fields not found in etlMapping
• Field error: Field [Oncology_Primary.ICDOSite] in explorerConfig.table.fields not found in etlMapping

[github-actions]

vpodc.data-commons.org/manifest.json

Deployment changes

• hatchery
  • No longer utilizes the distribute-licenses cloud-automation cron job (Chore/use dynamodb gen3 user license hatchery#89)

Breaking changes

• hatchery
  • The misnamed nextflow.instance-type configuration is now nextflow.compute-environment-type, used to configure the batch compute environment type. A new nextflow.instance-type configuration can be used to configure the batch jobs instance type. (MIDRC-586 Add compute-environment-type and repurpose instance-type hatchery#90)