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amstilp merged 87 commits intodeploy/stageUW-GAC/primed-django:deploy/stagefrom mainUW-GAC/primed-django:mainCopy head branch name to clipboardApr 30, 2024

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Commits on Jan 25, 2024

• Initial work to support drupal user and user data auditing

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• Update dependencies needed for json api interactions and mocking

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• Add jsonapi relative path to settings and env

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• Iterative refining of the audit results and user data audit tests

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• Rework test audit structure to support relationships users->sites.

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• Fix issue where we were not correctly capturing all drupal uids audited

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• Make sure we apply no updates unless we are in update mode

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• log whether we are in update mode

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Commits on Jan 26, 2024

• Add gitleaks:allow to test secrets

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Commits on Feb 2, 2024

• More clearly capture what is updated during audit. Add flag based support for deactiving missing and blocked drupal users

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Commits on Mar 8, 2024

• Merge changes from main

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• Merge branch 'main' into feature/audit-drupal-data

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• Add more coverage, more clear handling or not handling of issues. Rudimentary reporting to stdout

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• Add option for capturing and reporting user site removal but not making updates.

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Commits on Mar 15, 2024

• Merge branch 'main' into feature/audit-drupal-data

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Commits on Mar 22, 2024

• Change intended_workspace_type to intended_usage

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• Update forms for TemplateWorkspace intended_usage

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• Update views for TemplateWorkspace intended_usage change

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• Merge pull request #518 from UW-GAC/feature/template-workspace-intended-type-free-text

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Commits on Mar 24, 2024

• Bump tablib from 3.5.0 to 3.6.0

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Commits on Mar 25, 2024

• Merge pull request #520 from UW-GAC/dependabot/pip/tablib-3.6.0

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Commits on Apr 1, 2024

• Add MariaDB 10.5 to CI

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Commits on Apr 2, 2024

• Merge pull request #522 from UW-GAC/maint/add-mariadb-10.5-to-ci

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Commits on Apr 3, 2024

• Update to use generic PRIMEDAudit classes. Add support for inactive anvil accounts

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• Merge branch 'main' into feature/audit-drupal-data

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Commits on Apr 5, 2024

• Consolidate dbGaP workspace user and staff tables

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• Consolidate CDSA workspace staff and user tables

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• Consolidate Collaborative analysis workspace tables

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• Consolidate open access workspace tables

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• Consolidate default workspace tables

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• Remove billing project from user workspace tables

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• Split data prep workspace table into staff and user tables

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• Only show associated data prep workspace table to staff users

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• Improve tests for data summary view

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Commits on Apr 6, 2024

• Show CDSA workspaces in Data Summary view

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• Merge pull request #525 from UW-GAC/feature/table-consolidation

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• Make DUO lists visible to all with View permission

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• Merge pull request #526 from UW-GAC/feature/data-summary-cdsa-workspaces

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• Merge pull request #527 from UW-GAC/feature/duo-lists-view-permission

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Commits on Apr 7, 2024

• Bump tablib from 3.6.0 to 3.6.1

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• Bump django-tree-queries from 0.16.1 to 0.18.0

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• Bump django-model-utils from 4.4.0 to 4.5.0

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• Bump werkzeug from 3.0.1 to 3.0.2

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• Bump types-requests from 2.31.0.20240311 to 2.31.0.20240406

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Commits on Apr 8, 2024

• Merge dependabot/pip/types-requests-2.31.0.20240406 into combined-prs-branch

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• Merge dependabot/pip/werkzeug-3.0.2 into combined-prs-branch

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• Merge dependabot/pip/django-model-utils-4.5.0 into combined-prs-branch

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• Merge dependabot/pip/django-tree-queries-0.18.0 into combined-prs-branch

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• Merge dependabot/pip/tablib-3.6.1 into combined-prs-branch

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• Merge branch 'main' into combined-prs-branch

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• Merge pull request #534 from UW-GAC/combined-prs-branch

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• Bump django-picklefield from 3.1 to 3.2

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• Merge pull request #529 from UW-GAC/dependabot/pip/django-picklefield-3.2

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Commits on Apr 10, 2024

• Add a helper function to generate pheno inventory json input

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• Add a view to show the generated workspaces input

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• Add some javascript to copy from a pre tag to the clipboard

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• Change javascript to copy workspaces input on click

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• Typo fixes

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Commits on Apr 12, 2024

• Add email template and support for emailing results

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• Handle drupal inactive, django active. Add threshold for automatic user deactivation.

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• Merge branch 'main' into feature/audit-drupal-data

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• Fix tenacity version that got changed in merge

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• Remove duplicate requirement caused by merge

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• Merge pull request #536 from UW-GAC/feature/audit-drupal-data

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Commits on Apr 14, 2024

• Bump sqlparse from 0.4.4 to 0.5.0

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Commits on Apr 15, 2024

• Bump sqlparse from 0.4.4 to 0.5.0 in /requirements

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Commits on Apr 22, 2024

• Merge dependabot/pip/requirements/sqlparse-0.5.0 into combined-prs-branch

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• Merge dependabot/pip/sqlparse-0.5.0 into combined-prs-branch

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• Merge branch 'main' into combined-prs-branch

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• Merge pull request #539 from UW-GAC/combined-prs-branch

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• Add script to create test data for the phenotype inventoryw orkflow

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• Add pre-commit.ci badge to README

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• Remove linting job from CI

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• Merge pull request #541 from UW-GAC/maint/use-pre-commit-ci

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Commits on Apr 26, 2024

• Disable button and change text upon copy

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• Right align the copy text button

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• Remove right-alignment, which doesn't work well with a wide page

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Commits on Apr 29, 2024

• Sort names of studies in phenotype inventory workflow helper

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• Try upgrading flake8 in pre-commit file

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• Merge pull request #535 from UW-GAC/feature/phenotype-inventory-workflow-input

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• Add ruff to requirements file

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• Run ruff check --fix on all files

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• Add ruff configuration and rerun ruff check

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• Run ruff format on all files

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• Replace black/isort/flake8 with ruff in pre-commit config

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• Remove flake8, isort, and black from requirements file

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Commits on Apr 30, 2024

• Merge pull request #550 from UW-GAC/maint/use-ruff

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