✅ Add ci with nf-test #1

juanesarango · 2024-01-19T22:12:18Z

Reference files are cached in the docker container.
Tests work with test data only for Amber and Cobalt, but not for Purple. It fails creating the segmentation for an incomplete bam. So I have successful unit tests for Amber and Cobalt, and test that it fails as expected in Purple.

juanesarango added 19 commits January 19, 2024 17:09

✅ first attempt to run workflow in gh

0ee0d70

🐋 cache docker image

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⚡️ set gh cores to 4

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🐋 use docker buildx to support multiple platform

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🔧 update commands inside container

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🔧 update hmtools resources version

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🔧 update test bams and references

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🔧 update test bams and references files

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🔧 run absolute paths in tests

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🔧 fix test data paths

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✅ add test reference dicts files

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🤖 add nf-test for unit and end2end testing

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✅ remove unused lint from ci

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✅ fix main.nf test assertions

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✅ fix main.nf test assertions

c363f8d

🔧 delete unused worklow file

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🔧 add assertions to e2e test

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🔧 change e2e assertions

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🔧 fix e2e assertions

ff7367e

juanesarango changed the title ~~✅ first attempt to run workflow in gh~~ ✅ Add ci with nf-test Jan 23, 2024

juanesarango merged commit b31b329 into main Jan 23, 2024
1 check passed

juanesarango deleted the add-test branch January 23, 2024 18:10

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