Code

Merge 23.11 into 24.3#152

Code

Merged

bbimber merged 49 commits intodiscvr-24.3bimberlabinternal/BimberLabKeyModules:discvr-24.3from 24.3_fb_mergebimberlabinternal/BimberLabKeyModules:24.3_fb_mergeCopy head branch name to clipboardApr 4, 2024

+3,220-247

Commits

Commits on Feb 9, 2024

• Default to including animals with status = Unknown in MCC ETL

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Commits on Feb 12, 2024

• mGAP demographics table should use mGAP-specific table

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Commits on Feb 14, 2024

• Enhance MCC census import

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• Enhance MCC census import

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Commits on Feb 15, 2024

• Update MccTest data

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Commits on Feb 16, 2024

• Allow sex=unknown in MCC

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Commits on Feb 22, 2024

• Add more validation checks to MccMaintenanceTask

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• Misc improvements to the MCC

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• Fix typo

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Commits on Feb 23, 2024

• Create automatic MCC queries to aggregate data across containers for ETL

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• Set FK for MCC demographicsParents

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• Allow GeographicOriginStep to save results

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• Add MCC reference data

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• Initial work on HIVRC module

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• Correct webpart name in hivrc

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Commits on Feb 26, 2024

• Bugfixes to MCC import page

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Commits on Feb 28, 2024

• Updates to MCC

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• Improve HIVRC header panel

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Commits on Feb 29, 2024

• Update MCC reports.tsv

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• Correct typo

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• Refactor LaboratorySerivce to allow registration of DemographicsProvider and perform minor refactors related to generics

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Commits on Mar 1, 2024

• Augment the HIVRC module

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• Add warning about mismatches alternateIds

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Commits on Mar 4, 2024

• Null checks for MccUserSchema

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Commits on Mar 6, 2024

• Bugfix to mcc census

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• Add step to populate MCC genomic datasets

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• Bugfix to MCC ETL

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• Bugfix to MCC ETL

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• Add columns to MCC view

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• Separate MCC genomic ETL

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• Run mcc-genomics ahead of general mcc ETL

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• Update several MCC views

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Commits on Mar 7, 2024

• Update several MCC views

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• Update MCC query

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Commits on Mar 9, 2024

• Convert text() to unsafe() and add scriptNonce

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Commits on Mar 14, 2024

• Increase RAM for kinship tasks

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Commits on Mar 15, 2024

• Increase logging in CellRangerVDJUtils

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• Update SequenceJobResourceAllocator

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Commits on Mar 17, 2024

• Bump follow-redirects from 1.15.4 to 1.15.6 in /mcc (#148)

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Commits on Mar 20, 2024

• Remove inline onclick handlers

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Commits on Mar 22, 2024

• Fix SQL error

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• Improve mGapMaintenanceTask

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• Improve purchasing and vendor Id resolution

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Commits on Mar 24, 2024

• Change error to warning

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• Update mcc package-lock.json

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Commits on Mar 25, 2024

• Add PMR ETL steps to prepare kinship files for import and trigger import (#150)

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Commits on Mar 28, 2024

• Ensure SEURAT_MAX_THREADS is an integer

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Commits on Apr 3, 2024

• Improve MCC logging

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• Fix merge conflicts

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