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

Plus updated the default sorting rules.

* 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

* ENSWBSITES-888: Filter transcript functionality and writing test for the functionality of filtering by so_term

Implemented transcripts sorting and added tests, set minimum 6 transcripts to show filter and sort label

Only show filter and sort when there is > 3 transcripts, remove npx command as it breaks for windows system, add filter and sort redux state

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

* Updates to left column in transcript list
Co-authored-by: Andrey Azov <andrey@ebi.ac.uk>

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

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

* 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>

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

* 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>

* sort default transcripts

* PR suggestions

* More PR suggestions

* 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