Repair benchmark report workflow compatibility #424
FloWuennelinting.yml
on: pull_request
pre-commit
25s
nf-core
52s
Annotations
18 errors and 2 warnings
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pre-commit
Process completed with exit code 1.
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nf-core
Process completed with exit code 1.
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Test Process BENCHMARK_REPORT.Should run with removing failed tasks:
Test Process BENCHMARK_REPORT#L1
Assertion failed:
assert process.success
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BENCHMARK_REPORT
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Test pipeline.-profile test:
Test pipeline#L1
Assertion failed:
2 of 2 assertions failed
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Test Process PLOT_RUN_GANTT.Should run without failures:
Test Process PLOT_RUN_GANTT#L1
Assertion failed:
2 of 2 assertions failed
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Test Workflow NF_AGGREGATE.Should run without failures:
Test Workflow NF_AGGREGATE#L1
Assertion failed:
3 of 3 assertions failed
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Test Process SEQERA_RUNS_DUMP.Should run without failures:
Test Process SEQERA_RUNS_DUMP#L1
java.lang.RuntimeException: Process has no output channels. process.out can not be used.
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Test Workflow PIPELINE_INITIALISATION.Should run without failures:
Test Workflow PIPELINE_INITIALISATION#L1
Assertion failed:
2 of 2 assertions failed
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Test Process MULTIQC.sarscov2 single-end [fastqc]:
Test Process MULTIQC#L1
Assertion failed:
4 of 4 assertions failed
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Test Process MULTIQC.sarscov2 single-end [fastqc] [config]:
Test Process MULTIQC#L1
Assertion failed:
4 of 4 assertions failed
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Test Process MULTIQC.sarscov2 single-end [fastqc] - stub:
Test Process MULTIQC#L1
Assertion failed:
2 of 2 assertions failed
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Test Functions.Test Function getWorkflowVersion:
Test Functions#L1
Assertion failed:
2 of 2 assertions failed
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Test Functions.Test Function dumpParametersToJSON:
Test Functions#L1
Assertion failed:
1 of 1 assertions failed
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Test Functions.Test Function checkCondaChannels:
Test Functions#L1
Assertion failed:
1 of 2 assertions failed
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Test Subworkflow UTILS_NFSCHEMA_PLUGIN.Should run nothing:
Test Subworkflow UTILS_NFSCHEMA_PLUGIN#L1
Assertion failed:
1 of 1 assertions failed
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Test Subworkflow UTILS_NFSCHEMA_PLUGIN.Should validate params:
Test Subworkflow UTILS_NFSCHEMA_PLUGIN#L1
Assertion failed:
1 of 2 assertions failed
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Test Subworkflow UTILS_NFSCHEMA_PLUGIN.Should run nothing - custom schema:
Test Subworkflow UTILS_NFSCHEMA_PLUGIN#L1
Assertion failed:
1 of 1 assertions failed
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Test Subworkflow UTILS_NFSCHEMA_PLUGIN.Should validate params - custom schema:
Test Subworkflow UTILS_NFSCHEMA_PLUGIN#L1
Assertion failed:
1 of 2 assertions failed
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pre-commit
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683, actions/setup-python@0b93645e9fea7318ecaed2b359559ac225c90a2b. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Node.js 20 will be removed from the runner on September 16th, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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nf-core
Node.js 20 actions are deprecated. The following actions are running on Node.js 20 and may not work as expected: ./setup-nextflow/subaction, actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683, actions/setup-java@8df1039502a15bceb9433410b1a100fbe190c53b, actions/setup-python@0b93645e9fea7318ecaed2b359559ac225c90a2b, actions/upload-artifact@b4b15b8c7c6ac21ea08fcf65892d2ee8f75cf882, pietrobolcato/action-read-yaml@1.1.0. Actions will be forced to run with Node.js 24 by default starting June 2nd, 2026. Node.js 20 will be removed from the runner on September 16th, 2026. Please check if updated versions of these actions are available that support Node.js 24. To opt into Node.js 24 now, set the FORCE_JAVASCRIPT_ACTIONS_TO_NODE24=true environment variable on the runner or in your workflow file. Once Node.js 24 becomes the default, you can temporarily opt out by setting ACTIONS_ALLOW_USE_UNSECURE_NODE_VERSION=true. For more information see: https://github.blog/changelog/2025-09-19-deprecation-of-node-20-on-github-actions-runners/
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linting-logs
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sha256:cb6121441621cd012a48251998634f85ef2fc6499734849cd615247d25b2dbc8
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