22.05

• [ALL]: Upgraded to Spring Boot 2.6.6 which fixes CVE-2022-22965. (22.03.1)
• [Developer/UI]: Fixed Project details to be transactional to resolve scalability issue on large projects >5000 samples. (22.03.1)
• [Developer/UI]: Fixed updates in UI service classes to use @transactional annotation to fix scalability issue on large projects >5000 samples. (22.03.1)
• [Developer]: Add --no-yarn to skip the yarn build in run.sh
• [Developer]: Updated frontend dependencies: babel, eslint, postcss, and webpack
• [Database]: Updated group and user project queries to improve performance for all pages/calls that depend on project permissions.
• [UI]: Updated Create Remote Api to use Ant Design.
• [UI]: Removed old bootstrap client details/edit page and updated with a modal on the clients listing page.
• [UI]: Updated Dashboard Recent Activity to use Ant Design.
• [Developer]: Updated to Ant Design v4.19.3.
• [Developer]: Removed unused DataTables code.
• [UI]: Sorted columns for advanced charts and added labels to tiny charts on admin statistics page.
• [UI]: Fixed: Allow organism name not included in the current taxonomy.
• [Developer]: Removed prop-types as a front-end development dependency.
• [UI]: Updated User and Admin help documentation URLs.
• [Developer/UI]: Refreshed the user account page.
• [UI]: Updated message displayed to user when an invalid reference file is uploaded while launching a workflow.
• [Developer]: Updated nodejs to v16.15.0 in the pom.xml file.
• [Developer]: Updated redux API within the cart page to use Redux Toolkit.
• [All]: Added functionality for project managers to restrict metadata fields depending on the Collaborator's metadata role on the project.
• [Developer]: Removed IRIDA virtual appliance build scripts and references in documentation.
• [Workflow]: Disable the built-in SISTR and the MentaLiST pipelines by default as they are deprecated. They can be re-enabled in /etc/irida/irida.conf.
• [Workflow]: Automated pipelines which become marked as disabled will now be prevented from running, similar to out-of-date automated pipelines.
• [Developer]: Upgrade to Apache POI 5.2.2, and switched to excel-streaming-reader 3.6.1 from xlsx-streamer 2.1.0
• [UI]: Added clarification that deleting or removing genomics data will not remove the underlying data files (e.g., sequencing data) but will only make it inaccessible.
• [UI]: Updated project samples page to use Ant Design.
• [Documentation]: Updated SNVPhyl install instructions since installing bcftools_view separately is no longer needed. Fixed broken link for sequence read test data. Removed Search option since it no longer works in our documentation.
• [UI]: Fixed: Excel output file preview displaying numeric values as a whole number rather than in scientific notation.
• [UI]: Updated the sequence run page to use Ant Design.
• [UI]: Updated forgot password, account activation, and reset password pages to use Ant Design.
• [Developer/Workflow]: Fixed issue with deleting AnalysisSubmission raising null pointer execptions due to bean wiring issue (issue #1287).