0.21.2

• [UI]: Fixed bug where concatenate files was POSTing to incorrect URL. (0.21.2)
• [UI]: Fixed bug where SVG files could not be exported through the advanced visualization page. (0.21.2)
• [UI]: Fixed bug where users could not share more than nine samples. (0.21.2)

0.21.1

• [UI]: Fixed bug where .xls file could not be uploaded through the file picker on the metadata upload page. (0.21.1)

0.21.0

• [Workflow]: Added version 0.1 of a pipeline for runing MentaLiST (version 0.1.3).
• [Workflow]: Added version 0.1 of a pipeline for runing Mash against the refseq database refseq_masher.
• [UI]: Fixed bug where user could not cancel the upload of a sequence file on the Sample Files page.
• [UI/Workflow]: Fixed bug where users could not submit large analyses due to an HTTP 414 "Request URI Too Long" error.
• [Developer]: Removed old gulp dependencies from the package.json file.
• [Developer]: Update to stable releases of node and yarn.
• [Administration]: Disabled automated SISTR results from saving to sample metadata. Also disabled retrospective results from being added during the database update. Installations that have already performed the 0.20.0 update will have their retrospective automated SISTR results automatically added to sample metadata. Installations that jump directly to 0.20.1 and above will not have this data added to sample metadata. (0.20.1)
• [UI/Workflow]: Preview analysis output files in a tabular or plain-text view in the analysis details page under the Preview tab.

0.20.1

• [Administration]: Disabled automated SISTR results from saving to sample metadata. Also disabled retrospective results from being added during the database update. Installations that have already performed the 0.20.0 update will have their retrospective automated SISTR results automatically added to sample metadata. Installations that jump directly to 0.20.1 and above will not have this data added to sample metadata.

0.20.0

• [Developer]: Fixed exception being thrown related to permission denied for updating samples when a normal user (collaborator on a project) runs the assembly pipeline (0.19.1).
• [UI]: Allowing admins to manually prioritize high importance analyses.
• [Developer]: Removed dandelion from project > samples page.
• [UI]: Fixed issue where Projects table could not be exported (0.19.2).
• [UI]: Fixed user menu icons misaligning in Firefox (0.19.2).
• [Developer]: Updated front end templating engine to Thymeleaf v3.
• [Administration]: Added option to expire passwords after a configured number of days. Set security.password.expiry in /etc/irida/irida.conf to configure.
• [Administration]: Limiting users from reusing passwords.
• [Developer]: Updated webpack compile path to be resources/dist.
• [Developer]: Webpack now extracts css / scss into its own bundles.
• [UI]: Added minification to production javascript.
• [UI]: Fixed issue where delete project button was always enabled, and created an error when clicked. (0.19.3)
• [UI]: Clean up of the main navigation bar code, and removed its dependency on angular-ui.
• [UI]: Fixed reflow layout of pipeline launch page.
• [UI]: Changed the wording of 'copying' samples to 'sharing' samples.
• [UI]: Allow users to share (copy) samples from a remote project. Disabled menu items for move and merge.
• [Developer]: Ran prettier on all javascript files within resources/js.
• [Developer]: Ran prettier on all scss files within resources/sass.
• [Developer]: Add a git pre-commit hook to ensure prettier formatting.
• [UI]: Fixed issue where all activities page could not be displayed.
• [UI]: Fixed issue where time stamps where not displayed on activities pages.
• [UI]: Fixed issue where breadcrumbs were not displaying on the Project > Line List and Project > Analyses pages.
• [UI]: Cleaned up sub-navigation elements on samples and files.
• [UI]: Updated Remote API pages (datatables, and removed Noty modals).
• [UI]: Fixed issue where breadcrumbs not displaying on the Samples > File > QC Analsis pages.
• [UI]: Removed search box from sequencing run page.
• [UI/Workflow]: Galaxy job error info retrieved from Galaxy if a workflow submission fails. Job error info is shown in Analyses table and on the Analysis page if it exists.
• [UI]: Fixed issue with Upload Sequence Files button when SequenceFiles page resized.
• [UI]: SISTR able to write metadata back to samples

0.19.3

• [UI]: Fixed issue where delete project button was always enabled, and created an error when clicked. (0.19.3)

0.19.2

• [Developer]: Fixed exception being thrown related to permission denied for updating samples when a normal user (collaborator on a project) runs the assembly pipeline (0.19.1).
• [UI]: Fixed issue where Projects table could not be exported (0.19.2).
• [UI]: Fixed user menu icons misaligning in Firefox (0.19.2).

0.19.0

• [Developer] Removed the requirement for pipeline developers to add an Analysis subclass and database tables for pipelines. All pipeline results can now be stored in the Analysis class.
• [Developer]: Fixed issue where bootstrap was being loaded twice onto the page. (0.18.1)
• [UI]: Fixed URL for concatenation of sample sequence files. (0.18.1)
• [Developer]: Removed dandelion from: Announcements, Cart, Sequencing Runs, Login, Project Settings - Landing, Events, Create Sample, Line List, Announcements - Create & Read, Livestampjs, Pipelines Launch, lodash, NCBI Export Page, Session Handler, Project Members and Groups Server Side, NCBI export lists, Groups Listing, Group Members.
• [UI]: Added empty state if no files exist in a sample.
• [UI]: Added ability to associate assemblies with a sample.
• [UI]: Fix broken link for concatenating files. (0.18.2)
• [UI]: Fix broken permissions for downloading reference files not associated with a project. (0.18.2)
• [UI]: Fixed issued with layout of the events panel on the dashboard page. (0.18.2)
• [UI]: Fixed issue with local samples causing problems in synchronized projects. (0.18.2)
• [API]: Fixed permission issue when asking for permission for analysis results using sequencing objects with no associated samples (0.18.3).
• [UI]: Cleaned up styles on DataTables with fixed columns.
• [Developer]: Upgraded to v5.3.0 of npm, and changed build process to use yarn.
• [API]: NCBI uploads automatically retry after failure.
• [UI]: Added global project and sample search from top toolbar.
• [UI]: Changed user's modified date to "Last Login" in user list.
• [Developer]: Created production and development webpack builds.
• [UI]: Fixed issue with uploading .fastqc files in IE, and allow for uploading for fastqc.gz in all browsers (0.18.4).
• [UI]: Added ability to update an analysis submission name after it's been submitted.
• [Developer]: Added run-tests.sh script for running local integration tests.
• [UI]: Fixed issue with exporting csv and excel from Project > Samples pages (0.18.5).
• [UI]: Fixed bug with importing large excel file that contained columns with only a header and no other data in column.
• [UI]: Fixed project sync settings from resetting themselves.

0.18.5

• [UI]: Fixed issue with exporting csv and excel from Project > Samples pages (0.18.5).

0.18.4

• [UI]: Fixed issue with uploading .fastqc files in IE, and allow for uploading for fastqc.gz in all browsers (0.18.4).