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Important! Template update for nf-core/tools v3.0.1 #373

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Important! Template update for nf-core/tools v3.0.1

Important! Template update for nf-core/tools v3.0.1 #373

Triggered via pull request October 11, 2024 11:16
@maxulyssemaxulysse
synchronize #152
nf-core-template-merge-3.0.1
Status Success
Total duration 2m 11s
Artifacts 1

linting.yml

on: pull_request
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17s
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nf-core
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44 errors and 1 warning
Test pipeline | annotation.Run with profile test | annotation with merge: Test pipeline | annotation#L1
Assertion failed: 2 of 2 assertions failed
Test Functions.Test Function getWorkflowVersion: Test Functions#L1
Assertion failed: 2 of 2 assertions failed
Test Functions.Test Function workflowCitation: Test Functions#L1
Assertion failed: 2 of 2 assertions failed
Test Functions.Test Function checkConfigProvided: Test Functions#L1
Assertion failed: 2 of 2 assertions failed
Test Functions.Test Function without logColours: Test Functions#L1
Assertion failed: 2 of 2 assertions failed
Test Functions.Test Function checkConfigProvided: Test Functions#L1
Assertion failed: 2 of 2 assertions failed
Test Functions.Test Function without logColours: Test Functions#L1
Assertion failed: 2 of 2 assertions failed
Test pipeline | bam_csi_index.Run with profile test | bam_csi_index: Test pipeline | bam_csi_index#L1
Assertion failed: 2 of 2 assertions failed
Test Workflow UTILS_NEXTFLOW_PIPELINE.Should not create params JSON if no output directory: Test Workflow UTILS_NEXTFLOW_PIPELINE#L1
Assertion failed: 1 of 1 assertions failed
Test Subworkflow UTILS_NFSCHEMA_PLUGIN.Should validate params - custom schema: Test Subworkflow UTILS_NFSCHEMA_PLUGIN#L1
Assertion failed: 1 of 2 assertions failed
Test Functions.Test Function checkCondaChannels: Test Functions#L1
Assertion failed: 1 of 2 assertions failed
Test Functions.Test Function dashedLine: Test Functions#L1
Assertion failed: 2 of 2 assertions failed
Test pipeline | bam_csi_index.Run with profile test | bam_csi_index: Test pipeline | bam_csi_index#L1
Assertion failed: 2 of 2 assertions failed
Test pipeline | annotation.Run with profile test | annotation with snpeff: Test pipeline | annotation#L1
Assertion failed: 2 of 2 assertions failed
Test pipeline | remove_duplicates.Run with profile test | remove_duplicates: Test pipeline | remove_duplicates#L1
Assertion failed: 2 of 2 assertions failed
Test Workflow UTILS_NEXTFLOW_PIPELINE.Should print version: Test Workflow UTILS_NEXTFLOW_PIPELINE#L1
Assertion failed: 2 of 2 assertions failed
Test Subworkflow UTILS_NFSCHEMA_PLUGIN.Should validate params: Test Subworkflow UTILS_NFSCHEMA_PLUGIN#L1
Assertion failed: 1 of 2 assertions failed
Test Workflow UTILS_NEXTFLOW_PIPELINE.Should dump params: Test Workflow UTILS_NEXTFLOW_PIPELINE#L1
Assertion failed: 1 of 1 assertions failed
Test Subworkflow UTILS_NFSCHEMA_PLUGIN.Should run nothing - custom schema: Test Subworkflow UTILS_NFSCHEMA_PLUGIN#L1
Assertion failed: 1 of 1 assertions failed
Test Workflow UTILS_NEXTFLOW_PIPELINE.Should run no inputs: Test Workflow UTILS_NEXTFLOW_PIPELINE#L1
Assertion failed: 1 of 1 assertions failed
Test Subworkflow UTILS_NFSCHEMA_PLUGIN.Should run nothing: Test Subworkflow UTILS_NFSCHEMA_PLUGIN#L1
Assertion failed: 1 of 1 assertions failed
Test Functions.Test Function dumpParametersToJSON: Test Functions#L1
Assertion failed: 1 of 1 assertions failed
Test Functions.Test Function nfCoreLogo: Test Functions#L1
Assertion failed: 2 of 2 assertions failed
Test pipeline | annotation.Run with profile test | annotation with merge: Test pipeline | annotation#L1
Assertion failed: 2 of 2 assertions failed
Test Workflow UTILS_NEXTFLOW_PIPELINE.Should dump params: Test Workflow UTILS_NEXTFLOW_PIPELINE#L1
Assertion failed: 1 of 1 assertions failed
Test Subworkflow UTILS_NFSCHEMA_PLUGIN.Should run nothing - custom schema: Test Subworkflow UTILS_NFSCHEMA_PLUGIN#L1
Assertion failed: 1 of 1 assertions failed
Test Workflow UTILS_NEXTFLOW_PIPELINE.Should print version: Test Workflow UTILS_NEXTFLOW_PIPELINE#L1
Assertion failed: 2 of 2 assertions failed
Test Subworkflow UTILS_NFSCHEMA_PLUGIN.Should validate params: Test Subworkflow UTILS_NFSCHEMA_PLUGIN#L1
Assertion failed: 1 of 2 assertions failed
Test pipeline | annotation.Run with profile test | annotation with snpeff: Test pipeline | annotation#L1
Assertion failed: 2 of 2 assertions failed
Test pipeline | remove_duplicates.Run with profile test | remove_duplicates: Test pipeline | remove_duplicates#L1
Assertion failed: 2 of 2 assertions failed
Test Functions.Test Function dumpParametersToJSON: Test Functions#L1
Assertion failed: 1 of 1 assertions failed
Test Functions.Test Function nfCoreLogo: Test Functions#L1
Assertion failed: 2 of 2 assertions failed
Test pipeline | annotation.Run with profile test | annotation with vep: Test pipeline | annotation#L1
Assertion failed: 2 of 2 assertions failed
Test pipeline | skip_baserecalibration.Run with profile test | skip_baserecalibration: Test pipeline | skip_baserecalibration#L1
Assertion failed: 2 of 2 assertions failed
Test pipeline | annotation.Run with profile test | annotation with vep: Test pipeline | annotation#L1
Assertion failed: 2 of 2 assertions failed
Test pipeline | skip_baserecalibration.Run with profile test | skip_baserecalibration: Test pipeline | skip_baserecalibration#L1
Assertion failed: 2 of 2 assertions failed
Test Functions.Test Function checkCondaChannels: Test Functions#L1
Assertion failed: 1 of 2 assertions failed
Test Functions.Test Function dashedLine: Test Functions#L1
Assertion failed: 2 of 2 assertions failed
Test Workflow UTILS_NEXTFLOW_PIPELINE.Should not create params JSON if no output directory: Test Workflow UTILS_NEXTFLOW_PIPELINE#L1
Assertion failed: 1 of 1 assertions failed
Test Subworkflow UTILS_NFSCHEMA_PLUGIN.Should validate params - custom schema: Test Subworkflow UTILS_NFSCHEMA_PLUGIN#L1
Assertion failed: 1 of 2 assertions failed
Test Workflow UTILS_NEXTFLOW_PIPELINE.Should run no inputs: Test Workflow UTILS_NEXTFLOW_PIPELINE#L1
Assertion failed: 1 of 1 assertions failed
Test Subworkflow UTILS_NFSCHEMA_PLUGIN.Should run nothing: Test Subworkflow UTILS_NFSCHEMA_PLUGIN#L1
Assertion failed: 1 of 1 assertions failed
Test Functions.Test Function getWorkflowVersion: Test Functions#L1
Assertion failed: 2 of 2 assertions failed
Test Functions.Test Function workflowCitation: Test Functions#L1
Assertion failed: 2 of 2 assertions failed
nf-core
The following actions use a deprecated Node.js version and will be forced to run on node20: pietrobolcato/[email protected]. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/

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