Code

synapser refactor phase a#171

Code

Merged

anngvu merged 37 commits intodevelop-synapsernf-osi/nfportalutils:develop-synapserfrom patch/synapser-phase-anf-osi/nfportalutils:patch/synapser-phase-aCopy head branch name to clipboardJul 15, 2024

+929-471

Commits

Commits on Feb 23, 2024

• Start refactor on access utils

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• Rework manifest_generate bc can no longer access inner creds obj

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• Update some find_ funs bec on which list_project_datasets has dep

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• Update annotations.R

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• Update annotation_qc.R

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• Update assign_study_data_types.R

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• Update access_utils.R

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• Update access utils-related vignette

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• Update add_publication_from_pubmed.R

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• Update datasets.R

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• Update tests

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• Reorganize datasets, separate out subset

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• Update docs

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• Resolve additional in annotation_qc

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• Update login for relevant vignettes

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• Fix vignette

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• Pkgdown needs pip install for new vignettes

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• Add small helper for tutorial

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• Fix

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• Clean up vignette

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Commits on Feb 24, 2024

• Update other add_publication

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• Provide other copy fun bc no .syn reference for synapseutils

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• Regen docs, NAMESPACE

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• Update pkgdown index

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• More vignettes

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Commits on Feb 27, 2024

• Refactor for add_pub

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• Update internal copy util

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• Update vignette

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• Update README

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• Update docs

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Commits on Mar 1, 2024

• Update README.md

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• Constrain synapser version

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Commits on Mar 4, 2024

• Update CI with more specific versioning and installation methods

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Commits on Mar 12, 2024

• Doc previews per #176

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• Start installation vignette

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• Update vignette

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Commits on Mar 13, 2024

• More instructions, clear cache

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