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Run testdata in ci #121

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Merged
marrip merged 6 commits into from
Jul 2, 2026
+30 −5
Merged

Run testdata in ci #121

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aeefbea
ci: upgrade unittesting to python 3.14.0
marrip Jul 2, 2026
07a63fc
ci: add full test action
marrip Jul 2, 2026
7379e61
ci: correct docker command
marrip Jul 2, 2026
69af180
chore: update devcontainer
marrip Jul 2, 2026
06a6be9
ci: add full test for hus data
marrip Jul 2, 2026
c828037
ci: correct full test name for HUS
marrip Jul 2, 2026
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11 changes: 10 additions & 1 deletion .devcontainer/devcontainer.json
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Original file line number Diff line number Diff line change
Expand Up @@ -3,7 +3,16 @@
{
"name": "Python 3",
// Or use a Dockerfile or Docker Compose file. More info: https://containers.dev/guide/dockerfile
"image": "mcr.microsoft.com/devcontainers/python:0-3.11",
"image": "mcr.microsoft.com/devcontainers/python:3.14-trixie",

"containerEnv": {
"HTTP_PROXY": "${localEnv:HTTP_PROXY}",
"HTTPS_PROXY": "${localEnv:HTTPS_PROXY}",
"NO_PROXY": "${localEnv:NO_PROXY}",
"http_proxy": "${localEnv:HTTP_PROXY}",
"https_proxy": "${localEnv:HTTPS_PROXY}",
"no_proxy": "${localEnv:NO_PROXY}"
},

// Features to add to the dev container. More info: https://containers.dev/features.
"features": {
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24 changes: 20 additions & 4 deletions .github/workflows/test.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -2,18 +2,18 @@ name: Python test
on: push

jobs:
test:
unit-test:
name: Run unit tests
runs-on: ubuntu-latest
steps:
-
name: Check out the repo
uses: actions/checkout@v4
-
name: Set up Python 3.12.8
name: Set up Python 3.14.0
uses: actions/setup-python@v4
with:
python-version: 3.12.8
python-version: 3.14.0
-
name: Install dependencies
run: pip install -r requirements.txt -r requirements-test.txt
Expand All @@ -26,4 +26,20 @@ jobs:
job-summary: true
custom-arguments: -q
click-to-expand: true
report-title: 'PRONTO unit testing'
report-title: 'PRONTO unit testing'
full-test:
name: Run full test
runs-on: ubuntu-latest
steps:
-
name: Check out the repo
uses: actions/checkout@v4
-
name: Build docker image
run: docker build -t pronto:full-test .
-
name: Run full test OUS
run: docker run --rm -v $(pwd)/test_data/ous:/data/sample_data/analysis_results -v $(pwd)/test_data/ous/251114_A02134_0115_BHCJCKDRX7_TSO_500_LocalApp_postprocessing_results/InPreD_PRONTO_metadata.txt:/pronto/In/InPreD_PRONTO_metadata.txt pronto:full-test /pronto/Script/PRONTO.py
-
name: Run full test HUS
run: docker run --rm -v $(pwd)/test_data/hus:/data/sample_data/analysis_results -v $(pwd)/test_data/InPreD_PRONTO_metadata.txt:/pronto/In/InPreD_PRONTO_metadata.txt pronto:full-test /pronto/Script/PRONTO.py