Version 2.1.2

[2.1.2]

Added

Changed

• Changed cached method from simple to file system as it would be thread safe

Fixed

• Fixed cache issue that could result in chromosome information not being updated
• Fixed max arg error when searching for some genes

Version 2.1.1

[2.1.1]

Added

Changed

• Updated flask and pinned connexion to v2
• Updated node version of github action to 17.x

Fixed

• Fixed annotation tracks being hidden behind other elements
• Increased contrast of region selector
• Chromosome bands are displayed properly

[ Version 2.1.0 ]

[2.1.0]

Added

• Added seperate error page for when accessing a sample not in the database
• load chromosome-info stores centromere position and cyto band info
• Display viewed chromosome region in cytogenetic ideogram figure

Changed

Fixed

• Can now display samples that doesnt have data on all chromosomes

[ Version 2.0.1 ]

Added

Changed

• Do not warn when using default configuration

Fixed

• Missing tbi files now returns 404 status code
• Fixed sort order of samples table
• Prevent "internal error" when trying to access sample not in database

Version 2.0.0

[ Version 2.0.0 ]

Added

• Command line interface for manageing Gens
• Commands for loading transcripts, annotations and chromosome size into database
• Include api spec, html and static files in distribution
• Display when databases last updated in /about.html
• Display current configuration /about.html
• Added landing page that show uploaded samples
• Added load sample command for loading samples into gens database
• Added index command for creating new indexes
• Added view sample command for displaying sample information
• Added pagination samples table

Changed

• Changed development status from Alpha to Stable
• Samples are loaded based on the paths given when uploading the sample
• Gens no longer uses HG38_PATH and HG37_PATH variables
• Use genome build instead of hg_type throughout the codebase and in API calls

Fixed

• Fixed typo in variable name

Version 1.2.1

[1.2.1]

Added

• Reinstated tooltips to display additional information on genetic elements

Changed

• Use popper for positioning tooltips

Version 1.2.0

[1.2.0]

Added

• Added github workflow for running pytest on PRs
• Added unit tests
• Added labels to the annotation tracks
• Added js unit tests with jest and linting with eslint

Changed

• Changed positive strand color of transcripts to a more constrasting color
• Temporarily disabled on hover popups in annotation tracks
• Transcripts are represented as arrows in lower resolutions
• Highlight MANE transcript in name and with a brighter color
• Annotaion tracks are disabled if api returns an error at some point
• Annotation track DOMs are constructed with template macros
• Don't show "Loading..." when panning the interactive view with the mouse
• Changed default chromosome region to display to entire chromosome 1
• Restored ability to view entire chromosome when zoomed in by clicking on it in the chromosome overview.
• Build js package with webpack instead of gulp
• Remove dependency on three.js

Fixed

• Gene names are now centered below transcript
• Fixed assignement of height order when updating transcript data
• get-variant-data returns 404 if case cant be found
• Hide trancscript tracks when requesting new data from api
• Fixed alignment of annotation tracks near chromosome end

Fix errors when searching for gens and genetic regions

[1.1.2]

Added

• Added error pages for 404, 416, 500 and missing samples
• Added watch cmd to npm run to launch a gulp server watches and updates js/css assets
• Shift - Click now Zoom in

Changed

• Refactored page definitions into blueprint module
• Removed entrypoint script

Fixed

• Navigation shortcuts does not trigger in text fields
• Fixed crash when searching for only chromosome
• Restored ability to search for transcripts by gene name
• Fixed crash when Shift - Click in interactive canvas
• Fixed checking of api return status in drawInteractiveContent
• Aligned highlight in interactive canvas

v1.1.1

Added gunicorn to Gens docker image