cancervariants/fusion-curation issues and pull requests

#276 - build(deps): bump webpack-dev-middleware from 5.3.3 to 5.3.4 in /client

Pull Request - State: open - Opened by dependabot[bot] 6 months ago
Labels: dependencies

#275 - Consolidate server configs to `pyproject.toml`

Issue - State: open - Opened by jsstevenson 9 months ago
Labels: build

#274 - Use `ruff` for linting/formatting server code

Issue - State: open - Opened by jsstevenson 9 months ago
Labels: cleanup

#273 - feat: add transcript lookup for genes

Pull Request - State: open - Opened by katiestahl 11 months ago

#272 - update fusor version

Issue - State: open - Opened by katiestahl 11 months ago
Labels: priority:high

#271 - fix get_uniprot_refs database handling

Issue - State: open - Opened by korikuzma 12 months ago
Labels: priority:low, technical debt

#270 - build: pin exact gene version

Pull Request - State: closed - Opened by jsstevenson 12 months ago - 2 comments

#269 - docs: update API doc organization

Pull Request - State: closed - Opened by jsstevenson almost 1 year ago

#268 - bugfix: removing identifier in front of chromosome on auto populate

Pull Request - State: closed - Opened by katiestahl about 1 year ago

#267 - Autocomplete updates

Pull Request - State: closed - Opened by katiestahl about 1 year ago

#266 - merge main into staging

Pull Request - State: closed - Opened by katiestahl about 1 year ago

#265 - Genomic coordinates lookup nonfunctional

Issue - State: closed - Opened by katiestahl about 1 year ago - 1 comment
Labels: bug, help wanted, priority:high

#264 - feat: relax requirements on minimum information model components for …

Pull Request - State: closed - Opened by katiestahl about 1 year ago

#263 - fix: adding validation to disallow same-gene fusions (#251)

Pull Request - State: closed - Opened by katiestahl about 1 year ago

#262 - change W3 CURIE requirement to plain, fully formed URI

Issue - State: open - Opened by katiestahl about 1 year ago
Labels: requirement, ux, priority:high

#261 - relax requirements of minimum information model components

Issue - State: closed - Opened by katiestahl about 1 year ago
Labels: requirement, ux, priority:high

#260 - Issue 256

Pull Request - State: closed - Opened by katiestahl about 1 year ago

#259 - style: use Ruff and Black

Pull Request - State: closed - Opened by jsstevenson about 1 year ago
Labels: priority:high

#258 - build: use latest FUSOR prerelease

Pull Request - State: closed - Opened by jsstevenson about 1 year ago

#257 - fix: elements reappearing after being deleted

Pull Request - State: closed - Opened by katiestahl about 1 year ago - 1 comment

#256 - race condition when deleting items when they're still validating

Issue - State: closed - Opened by katiestahl about 1 year ago
Labels: bug, requirement, priority:high

#255 - fix: don't allow edit of chromosome field after auto-population

Pull Request - State: closed - Opened by katiestahl about 1 year ago - 1 comment

#254 - provide prepopulated options for assay metadata

Issue - State: open - Opened by katiestahl about 1 year ago
Labels: requirement, ux, priority:high

#253 - use backend warnings

Issue - State: open - Opened by katiestahl about 1 year ago
Labels: priority:low, technical debt

#252 - Add links back to page in summary errors

Issue - State: open - Opened by jsstevenson about 1 year ago - 1 comment
Labels: ux, priority:medium

#251 - fix: adding validation to disallow same-gene fusions

Pull Request - State: closed - Opened by katiestahl about 1 year ago - 1 comment

#250 - add validation to disallow same-gene fusions

Issue - State: closed - Opened by katiestahl about 1 year ago
Labels: bug, priority:medium

#249 - Staging

Pull Request - State: closed - Opened by jsstevenson about 1 year ago

#248 - feat: optionally enable tooltips

Pull Request - State: closed - Opened by jsstevenson about 1 year ago - 1 comment

#247 - fix: include reg element nomenclature in preview

Pull Request - State: closed - Opened by jsstevenson about 1 year ago

#246 - fix: display error for out-of-range exons

Pull Request - State: closed - Opened by jsstevenson about 1 year ago

#245 - Autocomplete updates

Pull Request - State: closed - Opened by jsstevenson about 1 year ago

#244 - Add loading indicator/animation for automated requests

Issue - State: open - Opened by jsstevenson about 1 year ago - 1 comment
Labels: enhancement, priority:medium

#243 - Out-of-range exon not giving warning/indication in transcript segment UI

Issue - State: closed - Opened by jsstevenson about 1 year ago
Labels: bug, priority:high

#242 - Merge pull request #241 from cancervariants/staging

Pull Request - State: closed - Opened by jsstevenson about 1 year ago

#241 - Staging

Pull Request - State: closed - Opened by jsstevenson about 1 year ago

#240 - feat: provide # of possible completions if they exceed MAX_SUGGESTIONS

Pull Request - State: closed - Opened by jsstevenson about 1 year ago - 1 comment

#239 - fix: pin latest FUSOR to remove ID prefixes from nomenclature

Pull Request - State: closed - Opened by jsstevenson about 1 year ago

#238 - cicd: update sc_product_id

Pull Request - State: closed - Opened by korikuzma about 1 year ago
Labels: priority:medium, ci/cd

#237 - cicd: update sc_product_id

Pull Request - State: closed - Opened by korikuzma about 1 year ago
Labels: priority:medium, ci/cd

#236 - Suggest regulatory elements

Issue - State: open - Opened by jsstevenson about 1 year ago
Labels: enhancement, priority:low

#235 - cicd: fix Elastic Beanstalk deployment

Pull Request - State: closed - Opened by jsstevenson about 1 year ago

#234 - cicd: get elastic beanstalk to deploy

Pull Request - State: closed - Opened by korikuzma about 1 year ago
Labels: ci/cd

#233 - fix: use updated gene normalizer API

Pull Request - State: closed - Opened by jsstevenson about 1 year ago - 2 comments

#232 - Fetch assets from S3 if unavailable locally

Issue - State: closed - Opened by jsstevenson about 1 year ago - 1 comment
Labels: enhancement

#231 - fix: fixing ui issues such as incorrect displays and readability issues

Pull Request - State: closed - Opened by katiestahl about 1 year ago

#230 - Make "previous symbol" one line in gene autocomplete

Issue - State: closed - Opened by katiestahl about 1 year ago

#229 - UI bug fixes

Pull Request - State: closed - Opened by katiestahl about 1 year ago

#228 - Overhaul MANE transcript util results table

Issue - State: open - Opened by jsstevenson about 1 year ago - 1 comment
Labels: enhancement, ux, priority:high

#227 - Improve feedback for invalid transcript accession in convert coordinates util

Issue - State: closed - Opened by jsstevenson about 1 year ago - 1 comment
Labels: bug, ux, priority:high

#226 - Provide loading animation for long data fetches

Issue - State: open - Opened by jsstevenson about 1 year ago
Labels: enhancement, ux

#225 - Demo buttons everywhere

Issue - State: open - Opened by jsstevenson about 1 year ago
Labels: ux, priority:high

#224 - Support HTTPS

Issue - State: open - Opened by jsstevenson about 1 year ago
Labels: bug

#223 - Improve icons

Issue - State: closed - Opened by jsstevenson about 1 year ago
Labels: ux

#222 - Look up transcripts for gene

Issue - State: open - Opened by jsstevenson about 1 year ago - 2 comments
Labels: enhancement, ux, priority:high

#221 - Gene autocomplete should display # of possible completions if too many

Issue - State: closed - Opened by jsstevenson about 1 year ago
Labels: ux, priority:high

#220 - Optionally make tooltips chill out

Issue - State: closed - Opened by jsstevenson about 1 year ago - 2 comments
Labels: ux, priority:medium

#219 - build: fix deployment issues

Pull Request - State: closed - Opened by jsstevenson about 1 year ago

#218 - "Continue" button should be disabled on summary page

Issue - State: closed - Opened by jsstevenson about 1 year ago
Labels: bug, ux

#217 - fix: clean up utils requests

Pull Request - State: closed - Opened by jsstevenson about 1 year ago
Labels: priority:high

#216 - Nomenclature representation of transcript segments should not include namespace

Issue - State: closed - Opened by ahwagner about 1 year ago
Labels: bug, duplicate, priority:high

#215 - Docs

Issue - State: open - Opened by jsstevenson over 1 year ago
Labels: documentation, priority:low

#214 - build: require latest FUSOR release

Pull Request - State: closed - Opened by jsstevenson over 1 year ago

#213 - Staging

Pull Request - State: closed - Opened by jsstevenson over 1 year ago

#212 - Revert "Revert "fix: update build commands for python 3.11""

Pull Request - State: closed - Opened by jsstevenson over 1 year ago

#211 - Staging

Pull Request - State: closed - Opened by jsstevenson over 1 year ago

#210 - Revert "fix: update build commands for python 3.11"

Pull Request - State: closed - Opened by jsstevenson over 1 year ago

#209 - fix: update build commands for python 3.11 (#208)

Pull Request - State: closed - Opened by jsstevenson over 1 year ago

#208 - fix: update build commands for python 3.11

Pull Request - State: closed - Opened by jsstevenson over 1 year ago

#207 - Fix failing backend tests

Issue - State: closed - Opened by jsstevenson over 1 year ago - 1 comment
Labels: bug

#206 - fix: correct accession descriptions (#205)

Pull Request - State: closed - Opened by jsstevenson over 1 year ago

#205 - fix: correct accession descriptions

Pull Request - State: closed - Opened by jsstevenson over 1 year ago

#204 - improve UX for chromosome selection

Issue - State: open - Opened by katiestahl over 1 year ago - 1 comment
Labels: requirement, ux, priority:medium

#203 - add example data

Issue - State: open - Opened by katiestahl over 1 year ago
Labels: requirement, ux, priority:low

#202 - Staging

Pull Request - State: closed - Opened by katiestahl over 1 year ago

#201 - refactoring and updating branding colors to match VICC site

Pull Request - State: closed - Opened by katiestahl over 1 year ago

#200 - update branding colors

Issue - State: closed - Opened by katiestahl over 1 year ago
Labels: ux, chore

#199 - Enable residue vs interresidue mode for coordinates

Issue - State: open - Opened by jsstevenson over 1 year ago
Labels: enhancement, priority:medium

#198 - identifiers in nomenclature should not be CURIEs

Issue - State: open - Opened by katiestahl over 1 year ago - 2 comments
Labels: bug

#197 - Sequence lookup FASTA download tries to download from localhost

Issue - State: closed - Opened by katiestahl over 1 year ago - 1 comment
Labels: bug

#196 - Visual bug in coordinate conversion tool

Issue - State: closed - Opened by katiestahl over 1 year ago - 2 comments
Labels: bug, good first issue

#194 - fix: correct request path in prod

Pull Request - State: closed - Opened by jsstevenson almost 2 years ago

#190 - implement a plugin or config option for absolute paths

Issue - State: open - Opened by katiestahl almost 2 years ago
Labels: good first issue, technical debt

#189 - Transcript segment element shouldn't always require an ending exon

Issue - State: closed - Opened by jsstevenson almost 2 years ago - 1 comment
Labels: bug

#188 - Move regulatory element to structure page

Pull Request - State: closed - Opened by katiestahl almost 2 years ago - 2 comments

#171 - Allow additional regulatory element construction params

Issue - State: open - Opened by jsstevenson almost 2 years ago
Labels: enhancement, ux, priority:medium

#170 - Finalize color theme definitions

Issue - State: open - Opened by jsstevenson almost 2 years ago
Labels: ux, technical debt

#168 - Make things more selectable

Issue - State: open - Opened by jsstevenson almost 2 years ago
Labels: ux

#144 - Create demo that contains a Templated Sequence

Issue - State: open - Opened by katiestahl almost 2 years ago
Labels: enhancement

#112 - Make CLI adhere to CLIG

Issue - State: open - Opened by jsstevenson about 2 years ago
Labels: enhancement, ux

#99 - Templated sequence only valid with `assembly:chr` queries

Issue - State: open - Opened by korikuzma about 2 years ago
Labels: enhancement, ux

#88 - Use uta_tools endpoints for coordinate utilities

Issue - State: open - Opened by jsstevenson over 2 years ago
Labels: technical debt

#85 - Set up public-facing URL

Issue - State: closed - Opened by jsstevenson over 2 years ago - 1 comment
Labels: requirement

#72 - Upgrade to MaterialUI v5

Issue - State: open - Opened by jsstevenson almost 3 years ago
Labels: technical debt

#61 - Smarter gene autocomplete suggestion ordering

Issue - State: open - Opened by jsstevenson almost 3 years ago
Labels: enhancement, ux

#60 - Custom gene autocomplete hook/styling

Issue - State: open - Opened by jsstevenson almost 3 years ago
Labels: ux

#57 - Manuscript release

Issue - State: closed - Opened by jsstevenson almost 3 years ago
Labels: Epic

#50 - Add tests/checks on GH Actions

Issue - State: open - Opened by jsstevenson about 3 years ago
Labels: test, ci/cd

#21 - Refactor as serverless

Issue - State: open - Opened by jsstevenson about 3 years ago
Labels: technical debt

#16 - Front end unit tests

Issue - State: open - Opened by jsstevenson about 3 years ago
Labels: enhancement, test

GitHub / cancervariants/fusion-curation issues and pull requests