Gen3 Monthly Release 2024.08 vpodc.data-commons.org 1721813084

[PlanXCyborg]

Applying version 2024.08 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

• portal
  • Discovery: The Pending state has been renamed to Waiting and has became the default state for metadata that doesn't have an authz value. If an env is using this state, it needs to update its portal config accordingly (HP-1525 Feat/disco status icon data-portal#1558)
  • Need to update to CEDAR wrapper 0.5.0 https://github.com/uc-cdis/cedar-wrapper-service/releases/tag/0.5.0 for this feature (Chore/update get clinical trial metadata function data-portal#1540)

Breaking changes

• fence
  • New Database Migration (using alembic) was added and is required. (Chore/pps-301 fence#1114)