Support for Base Editor Data#395

Merged

bencap merged 37 commits into

release-2025.2.0from

feature/bencap/317/base-editor-data

May 8, 2025

Commits on May 6, 2025

Fix Docker Casing Warnings

bencap
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jstone-dev
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Refactor Dataframe Validation Logic

bencap
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Refactor Tests to Better Identify Dependency Separation Issues

bencap
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Bump Dependencies

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Check for Nonetype Target Sequences to Silence MyPy Error

bencap
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Replace DataSet Columns Setter in Worker Variant Mocker

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Add Base Editor Column to Target Accessions Table

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Validation logic and test cases for base editor data

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Add isBaseEditor Flag to Remaining Accession Tests

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Add GUIDE_SEQUENCE_COLUMN constant to mave lib

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Use existing boolean flag for transgenic marker in prefix validation

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Clarify error message for accession based variants with accessions missing from targets list

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Move guide sequence column to the end of the standard columns sorted list

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Add additional column validation tests

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Fix sort order of dataframe test case columns

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Use equality comparison over is operator for column name comparison

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Allow the Unix Domain Socket during test runs

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Add Multi-Variant Support for Accession Based Targets

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Multi-Variant Genomic Validation Tests

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Logical names for git action checks

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Bump SeqRepo Version, Add Volume to Dev Containers

bencap
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Add SeqRepo based seqfetcher to data provider

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Add SeqFetcher MyPy type stub

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Refactor fixes

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Use MaveHGVS to determine if variant is a multi-variant

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Fix tests for MaveHGVS parsing

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Rebase fixes (could fixup)

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wip: Use new MaveHGVS methods for allelic validation

bencap
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Fixed rebasing error.
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Updated MaveHGVS to version 0.7.0.
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Fixed: MaveHGVS parsing error handling
jstone-dev
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Fixed rebasing error.
jstone-dev
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Fixed rebasing error.
jstone-dev
committed

Commits on May 7, 2025

Ignore problematic MyPy error.
jstone-dev
committed

Commits on May 8, 2025