Submissions-App/CHANGELOG.md

202412.03

• Automated truncating of object names longer than 64 chars going into _auditlog
• Writer will now blank out the lookup table before writing to ensure removal of extraneous help info.
• Added support for running startup and teardown scripts.
• Created startup script to pull irida controls from secondary database.
• Added ability to not import reagents on first import.

202412.02

• Addition of turnaround time tracking
• Merged new Infopane with old ControlsView

202411.05

• Can now calculate turnaround time including holidays.

202411.04

• Add reagent from scrape now limits roles to those found in kit to prevent confusion.
• Added audit logs to track changes.
• Added completed_date column to _basicsubmission to track turnaround time.

202411.01

• Code clean up.
• Improved flexibility of Irida chart for subtyping.

202410.03

• Added code for cataloging of PCR controls.
• Data from control charts now exportable.
• Irida parser updated.

202410.02

• Trimmed down html timeline buttons for controls window.
• Improved paginator for submissions table.
• Refactor of Controls to support multiple types. (Note: Irida parser not updated yet.)

202410.01

• Reverted details exports from docx back to pdf.
• Large scale speedups for control chart construction.
• Reports are now given their own tab and can be updated in real time.

202409.05

• Replaced some lists with generators to improve speed, added javascript to templates for click events.
• Added in custom field for BasicSubmission which will allow limited new fields to be added to generic submission types.

202409.04

• Fixed wastewater sample writing bug.
• Added regex exclusion for KitTypeReagentRole.uses to trim down Bacteria Positive Control lot list.

202409.03

• Better navigation and clarity in details panes.
• Upgraded sample search to (semi) realtime search.
• Improved error messaging.

202409.02

• Creation of generic submissions using only database is now supported.

202408.05

• Improved scraping for gel info of Artic submissions.

202408.04

• Fixed false error throw when tips added in xl and from app.

202408.03

• Fixed issue backing up database file.

202407.05

• Fixed issue with scrolling form potentially altering combobox values.

202407.04

• Added support for postgresql databases (auto backup not functional).
• Improved portability and folder obscuring.

202407.02

• HTML template for 'About'.
• More flexible custom parsers/writers due to custom info items.
• Vastly increased portability of the reporting functions.

202407.01

• Better documentation.

202406.04

• Exported submission details will now be in docx format.
• Adding in tips to Equipment usage.
• New WastewaterArticAssociation will track previously missed sample info.

202406.02

• Attached Contact to Submission.
• Renamed ReagentType to ReagentRole to prevent confusion.

202405.04

• Improved Webview of submission details.
• Fixed Reagents not being updated on edit.
• Fixed data resorting after submitting new run.

202405.03

• Settings can now pull values from the db.
• Improved generic and WW specific PCR parsers.
• Various bug fixes.

202405.01

• New Excel writers

202404.05

• Addition of default query method using Kwargs.

202404.04

• Storing of default values in db rather than hardcoded.
• Removed usage of reportlab. PDF creation handled by PyQt6
• Reconfigured parsers, forms and reports around new default values.
• Fixed 'Missing' and 'Parsed' reagents disconnect in forms.

202404.03

• Package updates.
• Bug fixes for JSON updaters.

202404.02

• Various bug fixes.
• Move import PCR results to context menu.
• Automated backup of database.
• Added ability to sign off on submission in submission details.

202403.03

• Automated version construction.

202403.02

• Moved functions out of submission container to submission form
• Added submission editing functionality.

202403.01

• Added navigation in submission details to sample details.
• Updated cost calculations.

202402.04

• Addition of comments to gel box.

202402.01

• Addition of gel box for Artic quality control.

202401.04

• Large scale database refactor to increase modularity.

202401.01

• Improved tooltips and form regeneration.

202312.03

• Enabled creation of new submission types in gui.
• Enabled Equipment addition.

202312.02

• Bug fixes for switching kits

202312.01

• Control samples info now available in plate map.
• Backups will now create a regenerated xlsx file.
• Report generator now does sums automatically.

202311.04

• Added xlsx template files to the database.
• Switched session hand-off to sqlalchemy to abstract parent class.

202311.03

• Added in tabular log parser.
• Split main_window_functions into object specific functions.

202311.02

• Construct first strand integrated into Artic Import.
• Addition of query_or_create methods for some classes.

202311.01

• Kit integrity is now checked before creation of sql object to improve reagent type lookups.

202310.03

• Better flexibility with parsers pulling methods from database objects.

202310.02

• Improvements to First strand constructor.
• Submission forms can now be dragged and dropped into the form widget.

202310.01

• Controls linker is now depreciated.
• Controls will now be directly added to their submissions instead of having to run linker.
• Submission details now has additional html functionality in plate map.
• Added Submission Category to fields.
• Increased robustness of form parsers by adding custom procedures for each.

202309.04

• Updated KitAdder to add location info as well.
• Extraction kit can now be updated after import.
• Large scale refactoring to improve efficiency of database functions.

202309.03

• Autofill now adds name of reagent instead of type.

202309.02

• Massive restructure of app and database to allow better relationships between kits/reagenttypes & submissions/samples.

202308.03

• Large restructure of database to allow better relationships between kits/reagenttypes & submissions/samples.

202307.04

• Large scale refactor to clean up code.
• Settings now in the form of a pydantic object.
• Individual plate details now in html format.

202307.03

• Auto-filling of some empty cells in Excel file.
• Better pydantic validations of missing data.

202307.02

• Better column counting for cost recovery purposes.
• Improvements to pydantic validations.

202307.01

• Fixed bug where date increment of controls not working for multiple same dates.
• Fixed bug by having lookup of reagents by lot and reagenttype instead of just lot.
• Added in pydantic to validate submission info.
• Moved parser to metadata based recognition of submission type.

202306.03

• Improve WW plate mapping by using layout in submission forms rather than PCR.

202306.02

• Addition of bacterial plate maps to details export.
• Change in Artic cost calculation to reflect multiple output plates per submission.

202306.01

• Large scale shake up of import and scraper functions.
• Addition of Artic scrapers.

202305.05

• Hitpicking now creates source plate map image.
• Hitpick plate map is now included in exported plate results.

202305.04

• Added in hitpicking for plates with PCR results
• Fixed error when expiry date stored as int in Excel sheet.

202305.03

• Added a detailed tab to the cost report.

202305.02

• Added rudimentary barcode printing.
• Added ability to comment on submissions.
• Updated kit creation methods to keep pace with new cost calculations.

202305.01

• Improved kit cost calculation.

202304.04

• Added in discounts for kits based on kit used and submitting client.
• Kraken controls graph now only pulls top 50 results to prevent crashing.
• Improved cost calculations per column in a 96 well plate.

202304.01

• Improved function results output to ui.
• Added Well Call Assessment to PCR scraping.

202303.05

• Increased robustness of RSL plate number enforcement.
• Added in ability to scrape and include PCR results for wastewater.

202303.04

• Added in scraping of logs from the PCR table to add to wastewater submissions.
• Completed partial imports that will add in missing reagents found in the kit indicated by the user.
• Added web documentation to the help menu.

202303.03

• Increased robustness by utilizing PyQT6 widget names to pull data from forms instead of previously used label/input zip.
• Above allowed for creation of more helpful prompts.
• Added sorting feature to Submission summary.
• Reagent import dropdowns will now prioritize lot number found in a parsed sheet, moving it to the top of the list.