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CI: add gpu tag test job #478

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Commits on Dec 2, 2024

  1. CI: add gpu tag test job

    @sateeshperi
    sateeshperi committed Dec 2, 2024
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  2. CI: add gpu tag test job

    @sateeshperi
    sateeshperi committed Dec 2, 2024
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  3. CI: add gpu tag test job

    @sateeshperi
    sateeshperi committed Dec 2, 2024
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  4. CI: add gpu tag test job

    @sateeshperi
    sateeshperi committed Dec 2, 2024
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  5. CI: add gpu tag test job

    @sateeshperi
    sateeshperi committed Dec 2, 2024
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  6. CI: add gpu tag test job

    @sateeshperi
    sateeshperi committed Dec 2, 2024
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  7. CI: add gpu tag test job

    @sateeshperi
    sateeshperi committed Dec 2, 2024
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  8. CI: add gpu tag test job

    @sateeshperi
    sateeshperi committed Dec 2, 2024
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  9. CI: add gpu tag test job

    @sateeshperi
    sateeshperi committed Dec 2, 2024
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  10. CI: add gpu tag test job

    @sateeshperi
    sateeshperi committed Dec 2, 2024
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  11. CI: add gpu tag test job

    @sateeshperi
    sateeshperi committed Dec 2, 2024
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  12. CI: add gpu tag test job

    @sateeshperi
    sateeshperi committed Dec 2, 2024
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  13. add bwameth_gpu test

    @sateeshperi
    sateeshperi committed Dec 2, 2024
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  14. add gpu profile to config

    @sateeshperi
    sateeshperi committed Dec 2, 2024
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  15. add bwameth gpu test + snap

    @sateeshperi
    sateeshperi committed Dec 2, 2024
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  16. update bwameth default test formatting

    @sateeshperi
    sateeshperi committed Dec 2, 2024
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  17. update bwameth use_gpu test with index name

    @sateeshperi
    sateeshperi committed Dec 2, 2024
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  18. minor formatting fix

    @sateeshperi
    sateeshperi committed Dec 2, 2024
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  19. add fq2bammeth config + test + snap, ci: nf-test job filter by tag cpu

    @sateeshperi
    sateeshperi committed Dec 2, 2024
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  20. ci: nf-test job filter by tag cpu

    @sateeshperi
    sateeshperi committed Dec 2, 2024
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  21. add cpu/gpu tags to tests

    @sateeshperi
    sateeshperi committed Dec 2, 2024
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  22. touch cpu and gpu test for debug

    @sateeshperi
    sateeshperi committed Dec 2, 2024
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  23. add bwameth run_qualimap test

    @sateeshperi
    sateeshperi committed Dec 2, 2024
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  24. add setup python step

    @sateeshperi
    sateeshperi committed Dec 2, 2024
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Commits on Dec 3, 2024

  1. restrict num shards for cpu/gpu to 2

    @sateeshperi
    sateeshperi committed Dec 3, 2024
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  2. add nf-test-shard and nf-test actions

    @sateeshperi
    sateeshperi committed Dec 3, 2024
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  3. add ci triggers

    @sateeshperi
    sateeshperi committed Dec 3, 2024
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  4. lint: ignore ci.yml

    @sateeshperi
    sateeshperi committed Dec 3, 2024
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  5. update nf-test-shard action

    @sateeshperi
    sateeshperi committed Dec 3, 2024
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  6. update nf-test-shard action

    @sateeshperi
    sateeshperi committed Dec 3, 2024
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  7. add tags input for nf-test action

    @sateeshperi
    sateeshperi committed Dec 3, 2024
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  8. Update .github/actions/nf-test-shard/action.yml 

    Co-authored-by: Matthias Hörtenhuber <[email protected]>
    @sateeshperi @mashehu
    sateeshperi and mashehu authored Dec 3, 2024
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  9. install pdiff

    @sateeshperi
    sateeshperi committed Dec 3, 2024
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  10. nf-test-shard output checkout

    @sateeshperi
    sateeshperi committed Dec 3, 2024
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  11. nf-test-shard output checkout

    @sateeshperi
    sateeshperi committed Dec 3, 2024
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  12. fix job outputs

    @sateeshperi
    sateeshperi committed Dec 3, 2024
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  13. fix job outputs

    @sateeshperi
    sateeshperi committed Dec 3, 2024
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  14. fix nf-test-shard action

    @sateeshperi
    sateeshperi committed Dec 3, 2024
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  15. fix nf-test-shard action

    @sateeshperi
    sateeshperi committed Dec 3, 2024
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  16. fix nf-test-shard action

    @sateeshperi
    sateeshperi committed Dec 3, 2024
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  17. fix nf-test-shard action

    @sateeshperi
    sateeshperi committed Dec 3, 2024
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  18. get-shards matrix json parse

    @sateeshperi
    sateeshperi committed Dec 3, 2024
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  19. get-shards matrix json parse

    @sateeshperi
    sateeshperi committed Dec 3, 2024
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  20. get-shards matrix json parse

    @sateeshperi
    sateeshperi committed Dec 3, 2024
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  21. fix sharding

    @sateeshperi
    sateeshperi committed Dec 3, 2024
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  22. Now filtering nf-test dry-run by --tag, picking up Executed instead o… 

    …f related and capped shards with max_shards
    @GallVp
    GallVp committed Dec 3, 2024
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  23. Fixed gpu typo, removed docker_self_hosted and bumped default resources

    @GallVp
    GallVp committed Dec 3, 2024
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  24. Reduced resources

    @GallVp
    GallVp committed Dec 3, 2024
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Commits on Dec 4, 2024

  1. add back docker_self_hosted profile + remove disk cleanup step

    @sateeshperi
    sateeshperi committed Dec 4, 2024
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  2. test latest-everything also for cpu tests

    @sateeshperi
    sateeshperi committed Dec 4, 2024
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  3. update bwameth cpu tests snaps

    @sateeshperi
    sateeshperi committed Dec 4, 2024
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Commits on Dec 5, 2024

  1. update bwameth gpu test snap

    @sateeshperi
    sateeshperi committed Dec 5, 2024
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  2. setup-nextflow use v2.0.0

    @sateeshperi
    sateeshperi committed Dec 5, 2024
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  3. Update .github/workflows/linting.yml 

    Co-authored-by: Matthias Hörtenhuber <[email protected]>
    @sateeshperi @mashehu
    sateeshperi and mashehu authored Dec 5, 2024
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  4. Update .github/workflows/linting.yml

    @mashehu
    mashehu authored Dec 5, 2024
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  5. going back to uriginal setup-nextflow version

    @mashehu
    mashehu authored Dec 5, 2024
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  6. try v2.1.1

    @mashehu
    mashehu committed Dec 5, 2024
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  7. try 2.1.2

    @mashehu
    mashehu committed Dec 5, 2024
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  8. try 2.1.3

    @mashehu
    mashehu committed Dec 5, 2024
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  9. reset to broader v2 now that it is working again

    @mashehu
    mashehu committed Dec 5, 2024
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  10. try again 2.1.3 explicitly

    @mashehu
    mashehu committed Dec 5, 2024
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  11. try 2.1.4

    @mashehu
    mashehu committed Dec 5, 2024
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  12. and now reset back to v2

    @mashehu
    mashehu committed Dec 5, 2024
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  13. increase max_shards to 15

    @sateeshperi
    sateeshperi committed Dec 5, 2024
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Commits on Dec 9, 2024

  1. Corrected test labels, GPU tests with latest-everything, corrected en… 

    …v vars and excluded cancelled from confirm-pass
    @GallVp
    GallVp committed Dec 9, 2024
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  2. Disabled latest-everything for now

    @GallVp
    GallVp committed Dec 9, 2024
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  3. Bumped nxf min version to 24.10.2

    @GallVp
    GallVp committed Dec 9, 2024
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  4. update qualimap paths in nftignore

    @sateeshperi
    sateeshperi committed Dec 9, 2024
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Commits on Dec 10, 2024

  1. remove test folder contents only

    @sateeshperi
    sateeshperi committed Dec 10, 2024
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  2. use ubuntu-latest as default runner

    @sateeshperi
    sateeshperi committed Dec 10, 2024
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  3. use ubuntu-latest as default runner

    @sateeshperi
    sateeshperi committed Dec 10, 2024
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  4. use ubuntu-latest as default runner

    @sateeshperi
    sateeshperi committed Dec 10, 2024
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  5. use ubuntu-latest as default runner

    @sateeshperi
    sateeshperi committed Dec 10, 2024
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  6. add latest-everything to matrix

    @sateeshperi
    sateeshperi committed Dec 10, 2024
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  7. correct NXF VER for nf-test

    @sateeshperi
    sateeshperi committed Dec 10, 2024
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  8. rm latest-everything from matrix

    @sateeshperi
    sateeshperi committed Dec 10, 2024
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Commits on Dec 11, 2024

  1. use gpu profile in tests config

    @sateeshperi
    sateeshperi committed Dec 11, 2024
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  2. update test gpu configs

    @sateeshperi
    sateeshperi committed Dec 11, 2024
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