GitLab

This commit fixes the issues with restoring the track states in the following scenarios:
- Restoring after browser refresh
- Switching between species
- Switching between apps

Changes that required manual intervention:

- webpack-merge no longer has default export
- replaced apollo-boost and @apollo/react-hooks with apollo-client v.3
- ran npx browserslist@latest --update-db to update caniuse-lite

* add protein sequence download

* fix wrong cds sequence

* fix styling of protein sequend download

* PR suggestions

* fix download wrapper styling

* Export soft-black colour and added to storybook

* fix tabs button alignment

* ENSWBSITES-497: filter and sort component

* PR #303 feedback

* fix classname merging

* PR #303 feedback, renaming component, fix size for smaller screen

* Reduc box sizes so that it align with transcript image below

* Remove entityviewer transcriptfilter as this is not used anywhere

* Improved checkbox and radio styling (same layout for both)

* fix classname issue

* Added checkbox with long labels and in grid layout

* Fix test case failing because of styles empty when no classnames passed as props

* Update the Checkbox component to avoid modifying the scss import

* Update tests

* fullwidth for filterbox is 100% by default
Co-authored-by: Andrey Azov <andrey@ebi.ac.uk>

* Use web thoas endpoint

* Use proper genomeID

* Remove TODO

* Use helper to parse stable_id

* Get objectId

* Change to .build-nginx-wp

* Update Ngnixreview

* Add thoas proxy in dev config

* Remove /thoas from target URL

* Sample date for homo_sapiens_GCA_000001405_14

* Change thoas url
Co-authored-by: Kamal Dodiya <kamal@ebi.ac.uk>

* add uniprot and pdbe ids

* refactor data fetching for protein list item info

* use shared component for displaying external references

* refactor ProteinFeaturesCount

* more PR suggestions

* more PR suggestions

* add collapsed exons image

* fix exon image design issues

* fix wrong reference spliced rna length

* remove introns from image

* redesign changes

* redesign protein domain and collapsed exon images

* fix type issue

* group svg elements properly in exons image

* disable function return type in eslint

* fix protein domain image scale

* draw collapsed exons image using protein info

* add comments to the protein images

* PR suggestions

* rename CollapsedExonsImage to ProteinImage

* fix comments in protein domain image

* Update use outsideclick to support multiple refs

* Fix tests

* Fix more tests

* Update homepage

* Handle removed elements

* Uppercase c

* PR review cleanups

* Simplify loop

* Remove anonymous function

* Fix bugs in useOutsideClick and update the story

* Put back BIG_DESKTOP
Co-authored-by: Andrey Azov <andrey@ebi.ac.uk>

* Fix browser navigation bugs

* Fix tests

* Fix reset issue

* Removed unused props

* Add missing mock function

* Remove unwanted code

* Remove unused css

* Remove if block

* Revert thoas enpoint change

- also, update config of copy-webpack-plugin, which has changed its api in version 6 slightly

Update gitlab-ci to allow deployment of all branches.
(except for special branches whose name begins with the string `nodeploy`)

* add lookup types

* add lookup rest adaptors

* fetch data from lookup for gene

* add protein type and fixture

* add protein list item and refactor EV rest fetching

* fix storybook issues

* fix styling issues

* add coding exon count

* PR suggestions

* PR suggestions

* remove unused protein type

* fix protein domain image story

* add abort controller to cancel api requests on unmount

* add switch to mount current tab content only in gene function

* remove unused class name from protein list item

* change props name from product to protein in ProteinDomainImage

* fix protein domain image not rendering

* PR suggestions and styling fixes

* fix styling issues in protein list item

* add ebi icons package

* add protein features count

* use https for all entity viewer URLs

* PR suggestions

* remove ebi icons package and use static svgs for protein features count

* add licence notice for icons

* name ebi properly

* Fix browser routing - homepage to gb

* Pass genomeId to url for genome browser constructor
Co-authored-by: Andrey Azov <andrey@ebi.ac.uk>

* Add view-in-app component to transcript view accordion on entity viewer

* update test: wrap component inside MemoryRouter to use useParams()

* Headings for new document

* Full draft of ADR

* Move file to correct folder bc Atom is stupid

* Minor updates

* Rewrite to cover more options

* Rewritten to incorporate conclusions from more detailed research

* Datails of chosen software

* Updated after further research

* Clarifications to pricing

* Final draft of ADR

- Add InstantDownloadTranscript to Zmenu
- Add useApiService to fetch data from components

* Gene view tabs availability

* Remove geneId

* Check for protein_Coding transcripts

* Fix overview content and topbar pointer

* Fix JS error and sample data keys

* xref accordion pointer fixes

* Get xrefs from thoas

* Temp genomeId comment

* Better types

* Better namings

* Hide transcript xrefs

* Transcript xref group

Add licence header to all typescript files in the src and stories directories

Add cache with the least-recently-used invalidation strategy

* add lookup types

* add lookup rest adaptors

* fetch data from lookup for gene

* add protein type and fixture

* add protein list item and refactor EV rest fetching

* fix storybook issues

* fix styling issues

* add coding exon count

* PR suggestions

* PR suggestions

* remove unused protein type

* fix protein domain image story

* add abort controller to cancel api requests on unmount

* add switch to mount current tab content only in gene function

* remove unused class name from protein list item

* change props name from product to protein in ProteinDomainImage

* fix protein domain image not rendering

* PR suggestions and styling fixes

* fix styling issues in protein list item

* use pointer cursor for protein list item to make it look clickable

* add AbortController to sentry ignore errors list

* EV sticky tabs and filter

* Style changes

* Tabs z index

Notable changes:

- typescript got updated to 3.9
- jest got a major update to v.26
- eslint got a major update to v.7

Notice that after updating jest to v.26 test suite is running 25-50% slower.

* ENSWBSITES-543: extending current component to have styled radio buttons

* ENSWBSITES-543: Add radio to storybook

* ENSWBSITES-543: Add radio to storybook and rearrange components alphabetically

* renaming radio to radio group as suggested in PR283 review

* stylesheet not needed anymore

* ENSWBSITES-543: fix data types

* ENSWBSITES-543: git mess when renaming files, now pushing the missing files and removing old files

* ENSWBSITES-543: git mess when renaming files, now pushing the missing files and removing old files

* ENSWBSITES-543: more renaming radio to radioGroup

* fix test error when renaming css classes

* Update tests and class names

* Remove a test
Co-authored-by: Andrey Azov <andrey@ebi.ac.uk>

Also:
- change the black colour across the site, and add soft-black colour
- update the Checkbox component to change cursor appearance to pointer
  when mousing over label, and to catalogue classNames props
  that can be passed to the Checkbox.
- update the Button component so that the active state of the PrimaryButton and
   SecondaryButton have a 1px-wide border (to avoid changes in button size
   when toggling between disabled and enabled states of the button)
- add option to prettier config to remove trailing commas from objects