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fq lint module update: exit on failed validation #17409

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fq lint module update: exit on failed validation

fq lint module update: exit on failed validation #17409

Re-run triggered November 29, 2024 16:05
@pinin4fjordspinin4fjords
#7000
pluto-biosciences:fq-lint-exit
Status Failure
Total duration 32m 18s
Artifacts –

test.yml

on: pull_request
nf-test-changes
1m 13s
nf-test-changes
pytest-changes
5s
pytest-changes
prettier
29s
prettier
editorconfig
10s
editorconfig
pre-commit
52s
pre-commit
Matrix: nf-test-gpu
Matrix: nf-test
Matrix: nf-core-lint-modules
Matrix: nf-core-lint-modules
Matrix: pytest
confirm-pass
0s
confirm-pass
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9 errors and 36 warnings
nf-core-lint-modules (fastq_qc_trim_filter_setstrandedness)
Process completed with exit code 1.
nf-core-lint-modules (wittyer)
Process completed with exit code 1.
nf-test-gpu (modules/nf-core/parabricks/fq2bammeth, docker_self_hosted, singularity)
Process completed with exit code 1.
nf-test-gpu (modules/nf-core/parabricks/fq2bam, docker_self_hosted, singularity)
Process completed with exit code 1.
nf-test (subworkflows/nf-core/fastq_qc_trim_filter_setstrandedness, singularity)
Process completed with exit code 1.
nf-test-gpu (modules/nf-core/parabricks/applybqsr, docker_self_hosted, singularity)
Process completed with exit code 1.
nf-test (subworkflows/nf-core/fastq_qc_trim_filter_setstrandedness, docker_self_hosted)
Process completed with exit code 1.
nf-test (subworkflows/nf-core/fastq_qc_trim_filter_setstrandedness, conda)
Process completed with exit code 1.
confirm-pass
Process completed with exit code 1.
nf-core-lint-modules (parabricks/fq2bam)
Failed to restore: "/usr/bin/tar" failed with error: The process '/usr/bin/tar' failed with exit code 2
nf-core-lint-modules (trgt/plot)
Failed to restore: "/usr/bin/tar" failed with error: The process '/usr/bin/tar' failed with exit code 2
nf-core-lint-modules (wittyer)
Failed to restore: "/usr/bin/tar" failed with error: The process '/usr/bin/tar' failed with exit code 2
nf-core-lint-modules (trgt/merge)
Failed to restore: "/usr/bin/tar" failed with error: The process '/usr/bin/tar' failed with exit code 2
nf-core-lint-modules (trgt/genotype)
Failed to restore: "/usr/bin/tar" failed with error: The process '/usr/bin/tar' failed with exit code 2
nf-core-lint-modules (parabricks/applybqsr)
Failed to restore: "/usr/bin/tar" failed with error: The process '/usr/bin/tar' failed with exit code 2
nf-core-lint-modules (fastqc)
Failed to restore: "/usr/bin/tar" failed with error: The process '/usr/bin/tar' failed with exit code 2
nf-test (modules/nf-core/trgt/plot, singularity)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test (modules/nf-core/trgt/plot, docker_self_hosted)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test-gpu (modules/nf-core/parabricks/fq2bammeth, docker_self_hosted, singularity)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test-gpu (modules/nf-core/parabricks/fq2bam, docker_self_hosted, singularity)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test (subworkflows/nf-core/fastq_qc_trim_filter_setstrandedness, singularity)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test (modules/nf-core/trgt/genotype, docker_self_hosted)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test (modules/nf-core/trgt/merge, docker_self_hosted)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test (modules/nf-core/wittyer, docker_self_hosted)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test (modules/nf-core/wittyer, singularity)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test (modules/nf-core/trgt/merge, singularity)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test (modules/nf-core/trgt/genotype, singularity)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test-gpu (modules/nf-core/parabricks/applybqsr, docker_self_hosted, singularity)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test (subworkflows/nf-core/fastq_qc_trim_filter_setstrandedness, docker_self_hosted)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test (subworkflows/nf-core/fastq_qc_trim_filter_setstrandedness, conda)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test (modules/nf-core/fastqc, singularity)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test (modules/nf-core/fastqc, docker_self_hosted)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test (modules/nf-core/trgt/genotype, conda)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test (modules/nf-core/trgt/merge, conda)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test (modules/nf-core/trgt/plot, conda)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test (subworkflows/nf-core/fastq_fastqc_umitools_trimgalore, docker_self_hosted)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test (subworkflows/nf-core/fastq_fastqc_umitools_trimgalore, singularity)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test (modules/nf-core/fastqc, conda)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test (subworkflows/nf-core/fastq_align_dedup_bismark, singularity)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test (subworkflows/nf-core/fastq_align_dedup_bismark, docker_self_hosted)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test (subworkflows/nf-core/fastq_fastqc_umitools_fastp, singularity)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test (subworkflows/nf-core/fastq_fastqc_umitools_fastp, docker_self_hosted)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test (subworkflows/nf-core/fastq_fastqc_umitools_trimgalore, conda)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test (subworkflows/nf-core/fastq_fastqc_umitools_fastp, conda)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
nf-test (subworkflows/nf-core/fastq_align_dedup_bismark, conda)
The `python-version` input is not set. The version of Python currently in `PATH` will be used.