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Feature/remove molecular markers #45

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8012e0d
feat(catalogue): add molecular markers
MatsJohansen87 Nov 7, 2023
8b82244
feat(result-table): add slots
MatsJohansen87 Nov 7, 2023
ac41ba3
Merge pull request #24 from samply/feat/add-slot-to-result-table
MatsJohansen87 Nov 9, 2023
5e622ec
refactor: removed primary diagnosis from age stratifier
torbrenner Nov 21, 2023
5aa51e0
Merge pull request #26 from samply/refactor/split-age-stratifier
torbrenner Nov 21, 2023
111284e
feat: add support for aggregation between groups and stratifiers
MatsJohansen87 Dec 20, 2023
e8eb5d9
feat(result summary): combine specimens and histologies
MatsJohansen87 Dec 20, 2023
16dcc7c
feat(result table): add support for aggregation between groups and sp…
MatsJohansen87 Dec 20, 2023
f1af84a
feat(results components): add documentary
MatsJohansen87 Dec 20, 2023
a278559
fix(backend config): comment in other sites
MatsJohansen87 Dec 20, 2023
2a4ee64
Merge pull request #27 from samply/feature/ffpe-specimen
patrickskowronekdkfz Dec 20, 2023
a57f6ff
feat(sample_kind): change texts and legend mappings
MatsJohansen87 Dec 21, 2023
89107ba
chore(logs): remove logs
MatsJohansen87 Dec 21, 2023
cf71586
Merge pull request #28 from samply/feature/change-biosamples-texts
MatsJohansen87 Dec 21, 2023
b67a908
fix(searchbar): search for entities works
MatsJohansen87 Dec 21, 2023
926e16f
Merge pull request #29 from samply/feature/25-fix-entities-in-searchbar
MatsJohansen87 Dec 21, 2023
c9ba12b
Added more sample cr
patrickskowronekdkfz Jan 9, 2024
2422ab6
Merge pull request #30 from samply/fix/textforspecimen
patrickskowronekdkfz Jan 9, 2024
861cc0d
hack: this commit will fix the issue with wrong coding at some site. …
patrickskowronekdkfz Jan 10, 2024
578b9ce
Merge pull request #31 from samply/fix/diagnosisDiagramCodes
patrickskowronekdkfz Jan 10, 2024
0de77b2
Added Infobox for results
patrickskowronekdkfz Jan 11, 2024
85de681
Changed Bar Chart Colors
patrickskowronekdkfz Jan 11, 2024
514ebcd
Added old structure
patrickskowronekdkfz Jan 11, 2024
c2e0832
Added sub cre
patrickskowronekdkfz Jan 11, 2024
7e3449b
Fixed Piechart will no longer show empty sets
patrickskowronekdkfz Jan 11, 2024
3a9c680
Fix sites
patrickskowronekdkfz Jan 11, 2024
962ee15
Add button aminimation
patrickskowronekdkfz Jan 11, 2024
e39082a
Changed text for specimen description
patrickskowronekdkfz Jan 12, 2024
95bfae6
Merge pull request #34 from samply/fix/textForSpecimen2
patrickskowronekdkfz Jan 12, 2024
cc973e2
Merge pull request #33 from samply/fix/barColorCCP
patrickskowronekdkfz Jan 12, 2024
9314258
fixed css of new info button
patrickskowronekdkfz Jan 12, 2024
9b7da6a
Merge pull request #32 from samply/fix/pieSiteChart
patrickskowronekdkfz Jan 12, 2024
b71830d
Merge pull request #35 from samply/feat/hintResult
patrickskowronekdkfz Jan 12, 2024
93a8db4
Changed Specimen Text based on feedback
patrickskowronekdkfz Jan 15, 2024
963f66d
Merge pull request #36 from samply/fix/specimenText3
MatsJohansen87 Jan 15, 2024
fbddd1c
Fix: use Berlin-test instead of berlin
patrickskowronekdkfz Jan 15, 2024
3ee85c0
change all other gender labels
patrickskowronekdkfz Jan 15, 2024
e5fba46
fixed broder around rersult info buttton
patrickskowronekdkfz Jan 15, 2024
464780a
Changed message in result info box
patrickskowronekdkfz Jan 15, 2024
a2239db
feat(result table): make pagination more visible
MatsJohansen87 Jan 16, 2024
3ce4312
fix(catalog): correct gender names
MatsJohansen87 Jan 17, 2024
046784d
fix(result table): change page size back to 10
MatsJohansen87 Jan 17, 2024
76491c3
Merge pull request #38 from samply/feature/ui-fixes-2024-01-16
MatsJohansen87 Jan 17, 2024
4924cc8
Merge branch 'develop' into fix/namingGenderNames
MatsJohansen87 Jan 17, 2024
9fb5cec
Merge pull request #37 from samply/fix/namingGenderNames
MatsJohansen87 Jan 17, 2024
17825cd
fix(result summary): change info button to svelte component
MatsJohansen87 Jan 23, 2024
6c5dcf0
ci: renamed docker image
torbrenner Jan 23, 2024
17451c9
feat(result summary): add style to info button
MatsJohansen87 Jan 23, 2024
28d7a07
Merge pull request #39 from samply/fix/info-button
torbrenner Jan 23, 2024
8a0f01d
feat(results): remove bio-samples from summary
MatsJohansen87 Jan 23, 2024
aa2d768
feat(mappings): change catalogue and gender chart mapping
MatsJohansen87 Jan 23, 2024
03f3c38
feat(store interface): add possibility to access relevant stores from…
MatsJohansen87 Jan 24, 2024
29415c8
chore(comments): remove unnessesary comments
MatsJohansen87 Jan 24, 2024
8863e17
feat(ast api): add api to get ast
MatsJohansen87 Jan 25, 2024
5d35e6d
feat(data passer): add apis for removing items and values
MatsJohansen87 Jan 25, 2024
a8b24fb
feat(type export): add type export WIP
MatsJohansen87 Jan 30, 2024
261098d
build: set proper package name
torbrenner Jan 30, 2024
c2dc23a
build: added script for creating new versions
torbrenner Jan 30, 2024
aeede4b
build: release version 0.0.1-0
torbrenner Jan 30, 2024
4499a36
build: release version 0.0.2-0
torbrenner Jan 30, 2024
5023263
feat(npm package): library works as npm works as module
MatsJohansen87 Jan 31, 2024
bf7fc92
Merge branch 'feature/expose-types' of https://github.com/MatsJohanse…
MatsJohansen87 Jan 31, 2024
aeda16f
chore(npm version): update local install version
MatsJohansen87 Jan 31, 2024
d2e9eaf
0.0.3-0
torbrenner Jan 31, 2024
1c6f798
fix: permission issue after repository rename
torbrenner Feb 1, 2024
1c25105
Merge pull request #42 from samply/fix/dockerBuilds
torbrenner Feb 5, 2024
94c5d12
Merge branch 'develop' into feature/expose-types
MatsJohansen87 Feb 5, 2024
a5add35
fix(docker build): remove lens library dependency for npm install
MatsJohansen87 Feb 5, 2024
d3c5977
fix(docker build): temporarily remove type imports from projects to l…
MatsJohansen87 Feb 5, 2024
cdc1702
feat(type export): remove imports in aggregated file
MatsJohansen87 Feb 5, 2024
38f88df
fix(lens library import): replce module import to dist files
MatsJohansen87 Feb 5, 2024
472d3d5
fix(dependencies): remove circular dependency
MatsJohansen87 Feb 5, 2024
a33bf82
fix(WIP: build): stop removing @samply subfolder
MatsJohansen87 Feb 5, 2024
b106357
fix(WIP: build): stop removing @samply subfolder
MatsJohansen87 Feb 5, 2024
d194870
fix(WIP: build): fix dist import
MatsJohansen87 Feb 5, 2024
bdfca8b
fix(WIP: build): fix dist import
MatsJohansen87 Feb 5, 2024
774dbec
fix(WIP: build): fix dist import
MatsJohansen87 Feb 5, 2024
d16a758
fix(WIP: build): fix dist import
MatsJohansen87 Feb 5, 2024
bc16f4f
fix(WIP: build): fix dist import
MatsJohansen87 Feb 5, 2024
ba56e8e
fix(WIP: build): fix dist import
MatsJohansen87 Feb 5, 2024
cdd2ce1
fix: remove samply lens from package-lock
torbrenner Feb 6, 2024
7f1fdc2
fix: try only one build platform
torbrenner Feb 6, 2024
19c702c
build: added ci for publishing package
torbrenner Feb 6, 2024
eaee5f9
Merge pull request #43 from samply/feature/expose-types
MatsJohansen87 Feb 6, 2024
7a64714
feat(catalogue): merge develop
MatsJohansen87 Feb 6, 2024
f512e35
Merge pull request #41 from samply/feature/make-stores-accessible
MatsJohansen87 Feb 6, 2024
53829b0
Merge branch 'develop' into feature/34-35-ui-fixes
MatsJohansen87 Feb 6, 2024
78aef6c
fix(project): set to CCP
MatsJohansen87 Feb 6, 2024
cba77ec
Merge pull request #40 from samply/feature/34-35-ui-fixes
MatsJohansen87 Feb 6, 2024
0dfa71f
feat(catalogue): remove molecular markers
MatsJohansen87 Feb 6, 2024
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12 changes: 10 additions & 2 deletions .github/workflows/docker-develop.yml
Original file line number Diff line number Diff line change
@@ -1,4 +1,4 @@
name: Build and Push Develop Image samply/lens-web-components
name: Build and Push Develop Image samply/lens

on:
push:
Expand All @@ -9,13 +9,21 @@ on:
- develop
jobs:
build:
# Necessary after this repository was renamed from samply/lens-web-components to samply/lens
permissions:
contents: read
packages: write
pull-requests: read
security-events: write
statuses: read
# This workflow defines how a samply docker image is built, tested and published.
# Visit: https://github.com/samply/github-workflows/blob/main/.github/workflows/docker-ci.yml, for more information
uses: samply/github-workflows/.github/workflows/docker-ci.yml@main
with:
image-name: "samply/lens-web-components"
image-name: "samply/lens"
build-args: |
TARGET_ENVIRONMENT=staging
build-platforms: "linux/amd64"
# This passes the secrets from calling workflow to the called workflow
secrets:
DOCKERHUB_USERNAME: ${{ secrets.DOCKERHUB_USERNAME }}
Expand Down
14 changes: 11 additions & 3 deletions .github/workflows/docker.yml
Original file line number Diff line number Diff line change
@@ -1,12 +1,12 @@
name: Build and Push Image samply/lens-web-components
name: Build and Push Image samply/lens

on:
push:
branches:
- main
# Build then a new version is tagged
tags:
- '*.*.*'
- 'v*.*.*'
pull_request:
branches:
- main
Expand All @@ -15,13 +15,21 @@ on:
- cron: '0 1 * * *'
jobs:
build:
# Necessary after this repository was renamed from samply/lens-web-components to samply/lens
permissions:
contents: read
packages: write
pull-requests: read
security-events: write
statuses: read
# This workflow defines how a samply docker image is built, tested and published.
# Visit: https://github.com/samply/github-workflows/blob/main/.github/workflows/docker-ci.yml, for more information
uses: samply/github-workflows/.github/workflows/docker-ci.yml@main
with:
image-name: "samply/lens-web-components"
image-name: "samply/lens"
build-args: |
TARGET_ENVIRONMENT=production
build-platforms: "linux/amd64"
# This passes the secrets from calling workflow to the called workflow
secrets:
DOCKERHUB_USERNAME: ${{ secrets.DOCKERHUB_USERNAME }}
Expand Down
24 changes: 24 additions & 0 deletions .github/workflows/release.yml
Original file line number Diff line number Diff line change
@@ -0,0 +1,24 @@
name: "Samply.Lens Github Workflow"
on:
push:
tags:
- "v[0-9]+.[0-9]+.[0-9]+"

jobs:
build-and-publish:
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v3
- uses: actions/setup-node@v3
with:
node-version: 20
registry-url: 'https://registry.npmjs.org'
cache: 'npm'
- run: npm ci
- name: "Build @samply/lens"
run: npm run build
- name: "Publish @samply/lens"
run: cd dist/ && npm publish --access public
env:
NODE_AUTH_TOKEN: ${{secrets.NPM_TOKEN}}

33 changes: 33 additions & 0 deletions .github/workflows/verify-new-code.yml
Original file line number Diff line number Diff line change
@@ -0,0 +1,33 @@
name: "Samply.Lens verify new Code"
on:
pull_request:
branches:
- main
- develop
push:
branches:
- develop

jobs:
verify-code:
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v3
with:
fetch-depth: '0'
- uses: actions/setup-node@v3
with:
node-version: 20
cache: 'npm'
- run: npm ci
# for now disable code format check, will be activated later
# name: "Check Code Format"
# run: npm run format:check
- name: "Check Security"
run: npm run security:check
# - name: "Verify Commit Messages"
# run: npm run lint:commits
# - name: "Svelte Check"
# run: npm run check
# for now disable linting, will be activated later
# run: npm run lint
22 changes: 22 additions & 0 deletions .github/workflows/verify-new-release.yml
Original file line number Diff line number Diff line change
@@ -0,0 +1,22 @@
name: "Samply.Lens verify new Release"
on:
pull_request:
branches:
- main

jobs:
verify-new-release:
runs-on: ubuntu-latest
if: github.event_name == 'pull_request'
steps:
- uses: actions/checkout@v3
with:
fetch-depth: 0
- run: git checkout --track origin/main
- run: git checkout --track origin/develop
- name: "Ensure Package Version changed"
run: |
if [ "$(git diff main develop -- package.json | grep version | wc -l)" -eq 0 ]; then \
echo "::error:: Please run `npm run version` before merging to main!"; \
exit 1; \
fi
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