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implemented gene & transcript UI submission (KANBAN-584) #193

Merged
merged 46 commits into from
Aug 16, 2024
Merged

implemented gene & transcript UI submission (KANBAN-584) #193

merged 46 commits into from
Aug 16, 2024

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mluypaert
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Implemented UI components required for user-friendly gene and transcript entry

@mluypaert
Added gene entry field + gene info retrieval
184d14e
@mluypaert
webUI deps update
b01ead7
@mluypaert
First PoC for gene/transcript/exon UI retrieval through generic-seque…
0bafe8d 
…nce-panel package functions
@mluypaert
Removed code duplication and root-level jbrowse dependency in favor o…
c4dda77 
…f generic-sequence-panel dependencies and modules
@mluypaert
Minor whitespacing cleanup
86ff0e5
@mluypaert
Sorted imports
dfe5084
@mluypaert
Enabled stricter style checking to ensure typescript version compatib…
ef1e1e4 
…ility on typescript upgrades
@mluypaert
Minor code cleanup
d58e71e
@mluypaert
Typescript typing fixes
6fca81b
@mluypaert
Auto-open transcript select list on update during focus
16ffcdc
@mluypaert
Import and use public website lib/utils.js functions.
5228e83 
alliance-genome/agr_ui#1345 needs merging to test
and later main branch, before updating URL to import from main branch before merging to PAVI main branch.
@mluypaert
Added error handling on gene retrieval errors
b634aa9
@mluypaert
Refactored gene/transcript entry into separate component
009f31e
@mluypaert
Updated public website branch to test branch
f0882f8
@mluypaert
Implement changes made to AGR public data portal jbrowse data release…
674abb7 
… definition
@mluypaert
Require agrjBrowseDataRelease prop for JobSubmitForm component
14f75e0
@mluypaert
Change public UI imports from test to main branch
f24400a
@mluypaert
Reformatted tsconfig.json to prevent obfuscating automatic next.js up…
21a57dc 
…dates
@mluypaert
Component definitions cleanup
1704a7a
@mluypaert
Report used agrjBrowseDataRelease
4f9a4f1
@mluypaert
Moved qs to peer dependencies (public UI import dependency)
af3d7fc
@mluypaert
Enable entry of multiple AlignmentEntries
c4256ae
@mluypaert
Enable horizontal alignment of gene and transcript fields for table look
61df61c
@mluypaert
Typecheck and ESLint error and warning fixes
a03b2fd
@mluypaert
Defined readonly properties on all interfaces
a98805c
@mluypaert
Restyled "add more" button to be less outstanding
86e9a22
@mluypaert
Enabled payload generation from AlignmentEntry component data and pay…
3389d0d 
…load passthrough to parent components (WIP)
@mluypaert
Refactored clientComponents into separate component files
9f3c1ff
@mluypaert
UI folder hierarchy refactor to group files per component
0974cf4
@mluypaert
Fixed single entry row initiation
fac7a88
@mluypaert
Fixed AlignmentEntry.payloadPortion fn to pull all info from input ar…
4065b66 
…guments
@mluypaert
Connect AlignmentEntryList to JobSubmitForm and submit payload on sub…
a17f6e9 
…mit click
@mluypaert
Fix for state update during render errors (replaced state by ref)
73e3ed1
@mluypaert
Typed updatePayloadPart function and props
f2a2b3e
@mluypaert
Updated typescript type and interface naming to PascalCase to match n…
f5976ce 
…aming conventions
@mluypaert
Disabling of submit button on incomplete input
d017ea4
@mluypaert
Use indexed Map instead of Array for entry-record and -payload storag…
e0b032a 
…e to prevent race conditions errors
@mluypaert
Fixed state update during render errors.
195dd22 
Return cleanup fns in useEffects and initiate payload at AlignementEntry render rather than AlignmentEntryList render.
@mluypaert
AlignmentEntry state cleanup
4045eb5
@mluypaert
More AlignmentEntry state cleanup (prevent state syncing issues)
c7c6f72
@mluypaert
ES warning cleanup
92071d7
@mluypaert
Enabled removal of records from AlignmentEntryList
86f9818
@mluypaert
Trigger payload update on transcript chip removal
e473fe2
@mluypaert mluypaert added the no-deps-lock-updates AGR - Assign to PRs that should not get automatic dependency lock file updates label Aug 16, 2024
@github-actions GitHub Actions
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no-deps-lock-updates label detected, so automatic dependency lock file updates are disabled. No (additional) dependency updates will be made when merging this PR.

@mluypaert
Upgrade usage of docker-compose from v1 to v2
34667af 
To mitigate GH actions error, likely caused by v1 deprecation
@github-actions GitHub Actions
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no-deps-lock-updates label detected, so automatic dependency lock file updates are disabled. No (additional) dependency updates will be made when merging this PR.

@github-actions GitHub Actions
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no-deps-lock-updates label detected, so automatic dependency lock file updates are disabled. No (additional) dependency updates will be made when merging this PR.

@mluypaert mluypaert merged commit 3d15308 into main Aug 16, 2024
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@mluypaert mluypaert deleted the KANBAN-584-gene-transcript-submission branch August 16, 2024 15:29
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