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alpha.6#274

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nebfield merged 30 commits intomainPGScatalog/pgsc_calc:mainfrom devPGScatalog/pgsc_calc:devCopy head branch name to clipboardMay 24, 2024

+2,455-485

Commits

Commits on Apr 9, 2024

• Check for _ in sampleset names

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Commits on Apr 18, 2024

• fix samplesheet path to point to VCF

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• drop vcf suffix

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• update tests with removed vcf suffix

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• include inputs when relabelling (geno and sample files are unchanged)

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Commits on Apr 19, 2024

• add more tests for results structure

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Commits on Apr 25, 2024

• Expose documentation about switching versions.

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Commits on May 2, 2024

• add cloud / JSON samplesheet docs

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• add multiple chromosomes example

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• add links to JSON samplesheet

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Commits on May 10, 2024

• explicitly set default results to $PWD/results

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Commits on May 13, 2024

• Fix typo in output.rst

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Commits on May 21, 2024

• Add in documentation about popsimilarity file.

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• Merge pull request #295 from PGScatalog/doc_popsim

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Commits on May 23, 2024

• migrate to pygscatalog utilities (#296)

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• Improve pca (#267)

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• remove duplicate container definition (pygscatalog)

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• fix duplicate freq flags

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• bump workflow version

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• don't upload output directory in ancestry tests

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• add docker uid runOption to test config

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• just use working directory as tmpdir

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• drop deprecated docker.userEmulation

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• update upload-artifact to v4

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• fix join failure caused by wrong meta in afreq output (VCF)

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• Superseded by pgscatalog-intersect

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• Update pgscatalog_utils conda environment

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• use stable container tags

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• bump pgscatalog.core version

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Commits on May 24, 2024

• docs runthrough

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