GitLab

- Make sure that the segments connecting the exon boxes are always drawn correctly
   by deriving the coordinates and the widths of the connecting segments from the precalculated coordinates
   and widths of the exon boxes
- Make sure that the right border of the last exon box does not extend beyond the total transcript width
   by using a custom interpolation function that always interpolates to the smallest integer
   rather than to the nearest one.
Co-authored-by: Imran Salam <imran@ebi.ac.uk>

* ENSWBSITES-1110: Display transcript metadata in transcript accordian
- retrieve metadata from thoas (gencode_basic, tsl, appris, ccds)
- update component to display metadata
- Modify transcript object by setting each key instead of overwriting
- rename git-column-gap to column-gap since new CSS standard

Also, add a ShowHide component, which consists of a label associated with a chevron

Plus updated the default sorting rules.

- added a Node-based rendering server
- refactored build process (added dedicated script files for development and production build)
- refactored routing, so that it can be reused both on the client and on the server side
- added Page-type components for every app; currently they are the only components that run on the server and add the dynamic meta tags to the page
- updated redux code so that it doesn't try to access browser-specific apis during the startup
Co-authored-by: Kamal Dodiya <kamal@ebi.ac.uk>

* ENSWBSITES-1038: Applying transcript filters to protein view and showing message when there are no transcripts after applying filters on protein view

* repositioning filter and sort box
* readapting grid layout for geneview content to fit in filters
* Update styles to adjust the height of a grid row to the height of its content
* add box-shadow to filter box
* make red dot bigger when filters are active, filter label white when active
* fix background when scrolling for filter label
* using one icon (chevron down) for both chevron up and down and applying relevant transformation
* fix selected tabs when filterbox is open
* Set a minimum height for the panel so that it doesnt look squash when there is one line.
* set min-height in each child body style
* body style is passed as props to panel component

Remove transcript symbols from EV transcript image and GB drawer

* Add Bookmarks to Entity Viewer

* remove REST calls to fetch uniprot ids

Clicking on the protein id in the transcript accordion will now open the protein view, automatically expands the selected protein and scroll it into the view.

- Added loaders to both ProteinList & ProteinListItemInfo
- Added the functionality to expand the first transcript by default in both transcript and protein view
-  Added the functionality to retain the scroll position when revisiting the transcript and protein view.
- Created useRestoreScrollPosition hook

- fix checkbox styling in instant protein download component
- show the blue protein bar in the protein image
- show external references in EntityViewer sidebar

* Entity viewer design review changes
* Scaleswitcher changed to entityTypeIndicator and move it to global shared component

- also, disable tabs in gene view for panels that have no content

The view was always getting set as transcripts as the default value was defined in the wrong place.

The following states are now maintained in entity viewer:
- View
- Expanded transcripts
- Expanded transcript downloads
- Expanded proteins

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

* Gene view tabs availability

* Remove geneId

* Check for protein_Coding transcripts

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

* 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

* [ENSWEBSITES-491] genome browser link component for entity viewer

* Create ViewInApp shared component and replace all traces of app links created

* Add onClick and remove Link; 

* Add proper tests
Co-authored-by: Andrey Azov <andrey@ebi.ac.uk>

* WIP: add transcript list item info

* add styling and make content dynamic

* use flex instead of grid for list item info

* PR suggestions

* fix import case sensitive warning

* PR suggestions

* fix styling

* add tests

* put transcript list item info inside transcript list item

* add some breathing space for the transcript list items

* Add white stroke for svg rectangles in UnsplicedTranscript in DefaultTranscriptList

* Hide grid bars behind transcript info panel

* Amino acid length is an integer

* PR suggestions

* fix wrong number of coding exons shown

* use formatter to display transcript location str

* use findIndex to get the first and last coding exon indexes

* check if firstcodingexonindex and lastcodingexonindexes exist when calculating amino acid length

* check if first and last coding exon indexes exist when calculating num of coding exons

* remove exon index checks and fix createExons that causes the tests to break
Co-authored-by: Andrey Azov <andrey@ebi.ac.uk>

* Entity viewer gene view tab

* Add gene view to the state

* Maintain selected tab states

* Clean ups

* Panel content colour change

* Panel width changes

* PR review changes

* Pointer shadow and enum

* Fix types

* Update state in fragments

* Update entityViewerGeneViewReducer

* More cleanups

* Update tabs behaviour

* Variable name changes

* Remove unused actionCreators

* No objectIds

* Update if statements

* Revert apollo client uri
Co-authored-by: jyothishnt <joyjoy.nt@gmail.com>
Co-authored-by: Andrey Azov <andrey.azov@gmail.com>

* add transcripts table with panels

* move common styling of middle content to transcripts table

* PR suggestions

* change table row to use grid instead of inline grid

* add default transcripts list header

* PR suggestions

* add entity viewer content layout

* Rename EntityViewerContent to GeneView

* refactor folder structure for EV

* renamed gene view components

* remove background and height from gene view