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Important! Template update for nf-core/tools v3.0.1 #3021

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

Important! Template update for nf-core/tools v3.0.1 #3021

Triggered via pull request October 9, 2024 14:13
@maxulyssemaxulysse
synchronize #1401
nf-core-template-merge-3.0.1
Status Cancelled
Total duration 3m 26s
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113 errors and 38 warnings
subworkflows/nf-core/utils_nfschema_plugin/tests/main.nf.test docker NF-latest-everything
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subworkflows/nf-core/utils_nfschema_plugin/tests/main.nf.test docker NF-latest-everything
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subworkflows/nf-core/utils_nextflow_pipeline/tests/main.function.nf.test docker NF-24.04.2
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subworkflows/nf-core/utils_nextflow_pipeline/tests/main.function.nf.test docker NF-24.04.2
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subworkflows/nf-core/fastq_fastqc_umitools_trimgalore/tests/main.nf.test docker NF-latest-everything
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modules/nf-core/fastqc/tests/main.nf.test docker NF-latest-everything
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modules/nf-core/fastqc/tests/main.nf.test docker NF-latest-everything
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test PIPELINE_COMPLETION successfully completes: test PIPELINE_COMPLETION successfully completes#L1
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tests/star_rsem.nf.test docker NF-24.04.2
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test PIPELINE_COMPLETION successfully completes: test PIPELINE_COMPLETION successfully completes#L1
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subworkflows/local/utils_nfcore_rnaseq_pipeline/tests/main.pipeline_completion.workflow.nf.test docker NF-latest-everything
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test PIPELINE_INITIALISATION successfully completes with valid parameters: test PIPELINE_INITIALISATION successfully completes with valid parameters#L1
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Params: --featurecounts_group_type false: Params: --featurecounts_group_type false#L1
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Params: --featurecounts_group_type false - stub: Params: --featurecounts_group_type false - stub#L1
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Params: --pseudo_aligner kallisto --skip_qc --skip_alignment: Params: --pseudo_aligner kallisto --skip_qc --skip_alignment#L1
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Params: --pseudo_aligner salmon --skip_qc --skip_alignment - stub: Params: --pseudo_aligner salmon --skip_qc --skip_alignment - stub#L1
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Params: --remove_ribo_rna: Params: --remove_ribo_rna#L1
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tests/salmon.nf.test docker NF-latest-everything
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tests/skip_trimming.nf.test docker NF-24.04.2
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Params: --min_mapped_reads 90: Params: --min_mapped_reads 90#L1
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Should validate params: Should validate params#L1
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tests/min_mapped_reads.nf.test docker NF-latest-everything
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subworkflows/nf-core/utils_nfschema_plugin/tests/main.nf.test docker NF-24.04.2
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subworkflows/nf-core/utils_nfschema_plugin/tests/main.nf.test docker NF-24.04.2
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tests/skip_qc.nf.test docker NF-latest-everything
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tests/skip_qc.nf.test docker NF-latest-everything
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Params: --aligner star_rsem: Params: --aligner star_rsem#L1
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tests/min_mapped_reads.nf.test docker NF-24.04.2
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tests/min_mapped_reads.nf.test docker NF-24.04.2
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Params: --aligner hisat2: Params: --aligner hisat2#L1
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tests/kallisto.nf.test docker NF-24.04.2
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tests/kallisto.nf.test docker NF-24.04.2
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tests/star_rsem.nf.test docker NF-latest-everything
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tests/star_rsem.nf.test docker NF-latest-everything
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Params: default: Params: default#L1
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tests/default.nf.test docker NF-latest-everything
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Params: --remove_ribo_rna: Params: --remove_ribo_rna#L1
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tests/remove_ribo_rna.nf.test docker NF-latest-everything
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Params: default: Params: default#L1
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tests/default.nf.test docker NF-24.04.2
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tests/default.nf.test docker NF-24.04.2
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Params: --pseudo_aligner salmon --skip_qc --skip_alignment: Params: --pseudo_aligner salmon --skip_qc --skip_alignment#L1
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Params: --pseudo_aligner salmon --skip_qc --skip_alignment - stub: Params: --pseudo_aligner salmon --skip_qc --skip_alignment - stub#L1
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tests/salmon.nf.test docker NF-24.04.2
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tests/salmon.nf.test docker NF-24.04.2
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subworkflows/nf-core/fastq_fastqc_umitools_fastp/tests/main.nf.test docker NF-latest-everything
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subworkflows/nf-core/fastq_fastqc_umitools_fastp/tests/main.nf.test docker NF-24.04.2
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subworkflows/local/utils_nfcore_rnaseq_pipeline/tests/main.function.nf.test docker NF-latest-everything
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subworkflows/nf-core/fastq_fastqc_umitools_trimgalore/tests/main.nf.test docker NF-24.04.2
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subworkflows/nf-core/fastq_fastqc_umitools_trimgalore/tests/main.nf.test docker NF-24.04.2
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subworkflows/local/utils_nfcore_rnaseq_pipeline/tests/main.function.nf.test docker NF-24.04.2
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subworkflows/nf-core/utils_nfschema_plugin/tests/main.nf.test docker NF-latest-everything
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
subworkflows/nf-core/utils_nextflow_pipeline/tests/main.function.nf.test docker NF-24.04.2
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
subworkflows/nf-core/fastq_fastqc_umitools_trimgalore/tests/main.nf.test docker NF-latest-everything
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
modules/nf-core/fastqc/tests/main.nf.test docker NF-latest-everything
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
tests/star_rsem.nf.test docker NF-24.04.2
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
subworkflows/nf-core/utils_nfcore_pipeline/tests/main.workflow.nf.test docker NF-latest-everything
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
subworkflows/local/utils_nfcore_rnaseq_pipeline/tests/main.pipeline_completion.workflow.nf.test docker NF-latest-everything
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
subworkflows/local/utils_nfcore_rnaseq_pipeline/tests/main.pipeline_completion.workflow.nf.test docker NF-24.04.2
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
tests/skip_trimming.nf.test docker NF-latest-everything
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
subworkflows/nf-core/utils_nfcore_pipeline/tests/main.workflow.nf.test docker NF-24.04.2
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
subworkflows/local/utils_nfcore_rnaseq_pipeline/tests/main.pipeline_initialistion.workflow.nf.test docker NF-24.04.2
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
subworkflows/local/utils_nfcore_rnaseq_pipeline/tests/main.pipeline_initialistion.workflow.nf.test docker NF-latest-everything
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
subworkflows/nf-core/utils_nfcore_pipeline/tests/main.function.nf.test docker NF-24.04.2
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
subworkflows/nf-core/utils_nextflow_pipeline/tests/main.function.nf.test docker NF-latest-everything
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
tests/kallisto.nf.test docker NF-latest-everything
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
tests/featurecounts_group_type.nf.test docker NF-24.04.2
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
tests/salmon.nf.test docker NF-latest-everything
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
tests/skip_trimming.nf.test docker NF-24.04.2
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
subworkflows/nf-core/utils_nextflow_pipeline/tests/main.workflow.nf.test docker NF-latest-everything
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
tests/hisat2.nf.test docker NF-latest-everything
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
tests/featurecounts_group_type.nf.test docker NF-latest-everything
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
tests/skip_qc.nf.test docker NF-24.04.2
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
tests/remove_ribo_rna.nf.test docker NF-24.04.2
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
subworkflows/nf-core/utils_nextflow_pipeline/tests/main.workflow.nf.test docker NF-24.04.2
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
tests/min_mapped_reads.nf.test docker NF-latest-everything
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
subworkflows/nf-core/utils_nfschema_plugin/tests/main.nf.test docker NF-24.04.2
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
tests/skip_qc.nf.test docker NF-latest-everything
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
tests/min_mapped_reads.nf.test docker NF-24.04.2
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
subworkflows/nf-core/utils_nfcore_pipeline/tests/main.function.nf.test docker NF-latest-everything
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
tests/kallisto.nf.test docker NF-24.04.2
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
tests/star_rsem.nf.test docker NF-latest-everything
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
tests/hisat2.nf.test docker NF-24.04.2
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
tests/default.nf.test docker NF-latest-everything
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
tests/remove_ribo_rna.nf.test docker NF-latest-everything
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
tests/default.nf.test docker NF-24.04.2
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
modules/nf-core/multiqc/tests/main.nf.test docker NF-latest-everything
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
tests/salmon.nf.test docker NF-24.04.2
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/
modules/nf-core/multiqc/tests/main.nf.test docker NF-24.04.2
The following actions use a deprecated Node.js version and will be forced to run on node20: actions/setup-python@v4, mikepenz/action-junit-report@v3. For more info: https://github.blog/changelog/2024-03-07-github-actions-all-actions-will-run-on-node20-instead-of-node16-by-default/