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Sample create delete api v2#330

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cosa65 merged 37 commits intomasterhms-dbmi-cellenics/api:masterfrom sample-create-delete-v2hms-dbmi-cellenics/api:sample-create-delete-v2Copy head branch name to clipboardApr 12, 2022

+1,201-493

Commits

Commits on Apr 4, 2022

• Add sample create endpoint for api v2

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• Uncomment pattern rhapsody

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• Fix naming of sample technology on sample create

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Commits on Apr 5, 2022

• WIP

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• Migrate models to classes so that we can pass the sql client we want them to use on creation (this way we can make them all use the same transaction)

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• Add transactions for createExperiment model calls and createSample as well

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• Add trx.commit

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Commits on Apr 6, 2022

• Change transaction handling to a more knex-handled approach

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• Update sample creation transaction handling too

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• Add sample remove api v2

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• Reenable expressAuthorizationMiddleware for sample#deleteSample

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Commits on Apr 7, 2022

• Fix merge conflicts

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• Fix broken renaming

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• Fix broken renaming

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• Capitalize tests

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• Fix tests and add processingconfig back in

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• Fix some tests

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• Fix tests by adding some functionality to support mocking of inherited BasicModel methods and alternative usage of knex transaction

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• Update snapshot

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• Add rename to fix ci

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• Fix tests

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• Missing rename fix

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Commits on Apr 8, 2022

• Add createNewSampleValues for metadata tracks when creating a new sample

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• Rename removeSample to deleteSample and add tests for 2 model/Expeirment functions

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• Add test for sampleController

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• Finish tests for model/MetadataTrack

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• Add routes tests for sample

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• Minor rename

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• Add tests for BasicModel

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• Cleanup snapshots

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• Some cleanup and reordering

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• Simplify experimentController

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Commits on Apr 11, 2022

• Add erro tests

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• Add error check for transaction in experiment

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• Add 403 errors in openapi validation

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• Add transaction check

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• Extract table names into tableNames file

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