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CHORES: Update STRINGTIE module to use path rather than map #6374

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CHORES: Update STRINGTIE module to use path rather than map

CHORES: Update STRINGTIE module to use path rather than map #6374

Triggered via pull request February 12, 2024 11:07
@maxulyssemaxulysse
synchronize #4879
adamrtalbot:stringtie_update_paths
Status Cancelled
Total duration 1m 2s
Artifacts –

test.yml

on: pull_request
nf-test-changes
13s
nf-test-changes
pytest-changes
7s
pytest-changes
prettier
37s
prettier
editorconfig
9s
editorconfig
pre-commit
13s
pre-commit
Matrix: nf-test
Matrix: nf-core-lint
Matrix: pytest
confirm-pass
0s
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54 errors and 7 warnings
nf-core-lint (subworkflows/preprocess_rnaseq)
Canceling since a higher priority waiting request for 'Run tests-4879' exists
nf-core-lint (stringtie/stringtie)
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nf-test (bcftools/view, conda)
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nf-core-lint (stringtie/merge)
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nf-core-lint (subworkflows/bam_rseqc)
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nf-test (bcftools/view, singularity)
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nf-test (bclconvert, docker)
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nf-test (bcftools/view, docker)
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nf-core-lint (wfmash)
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nf-test (bclconvert, singularity)
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nf-test (rhocall/viz, conda)
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nf-test (rhocall/viz, docker)
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nf-test (rsem/preparereference, conda)
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nf-test (rhocall/viz, singularity)
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nf-test (rsem/preparereference, docker)
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nf-test (rsem/preparereference, singularity)
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nf-test (rseqc/bamstat, conda)
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nf-test (sortmerna, conda)
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nf-test (rseqc/bamstat, docker)
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nf-test (rseqc/bamstat, singularity)
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nf-test (sortmerna, singularity)
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nf-test (sortmerna, docker)
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nf-test (stringtie/merge, singularity)
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nf-test (stringtie/merge, conda)
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nf-test (stringtie/stringtie, docker)
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nf-test (stringtie/merge, docker)
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nf-test (stringtie/stringtie, conda)
Canceling since a higher priority waiting request for 'Run tests-4879' exists
nf-test (subworkflows/bam_rseqc, docker)
Canceling since a higher priority waiting request for 'Run tests-4879' exists
nf-test (subworkflows/bam_rseqc, conda)
Canceling since a higher priority waiting request for 'Run tests-4879' exists
nf-test (stringtie/stringtie, singularity)
Canceling since a higher priority waiting request for 'Run tests-4879' exists
nf-test (subworkflows/bam_rseqc, singularity)
Canceling since a higher priority waiting request for 'Run tests-4879' exists
nf-test (subworkflows/preprocess_rnaseq, conda)
Canceling since a higher priority waiting request for 'Run tests-4879' exists
nf-test (subworkflows/preprocess_rnaseq, docker)
Canceling since a higher priority waiting request for 'Run tests-4879' exists
nf-test (wfmash, docker)
Canceling since a higher priority waiting request for 'Run tests-4879' exists
nf-core-lint (sortmerna)
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nf-core-lint (sortmerna)
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nf-test (wfmash, conda)
Canceling since a higher priority waiting request for 'Run tests-4879' exists
nf-test (subworkflows/preprocess_rnaseq, singularity)
Canceling since a higher priority waiting request for 'Run tests-4879' exists
nf-test (wfmash, singularity)
Canceling since a higher priority waiting request for 'Run tests-4879' exists
nf-core-lint (rsem/preparereference)
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nf-core-lint (rsem/preparereference)
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pytest (gsea/gsea, docker)
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nf-core-lint (rhocall/viz)
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nf-core-lint (rhocall/viz)
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nf-core-lint (bcftools/view)
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nf-core-lint (bcftools/view)
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nf-core-lint (gsea/gsea)
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pytest (gsea/gsea, conda)
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nf-core-lint (rseqc/bamstat)
The operation was canceled.
nf-core-lint (bclconvert)
Canceling since a higher priority waiting request for 'Run tests-4879' exists
nf-core-lint (bclconvert)
The operation was canceled.
pytest (gsea/gsea, singularity)
The operation was canceled.
prettier
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prettier
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pytest-changes
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: mirpedrol/paths-filter@main. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
nf-test-changes
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: mirpedrol/paths-filter@main. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
pre-commit
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v3, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
pytest (gsea/gsea, docker)
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, actions/setup-java@v3, nf-core/setup-nextflow@v1. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
pytest (gsea/gsea, conda)
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
nf-core-lint (rseqc/bamstat)
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4, actions/cache@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
pytest (gsea/gsea, singularity)
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/setup-python@v4. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.