added stub to bcftools mpileup (#5514) #1
wxicutest.yml
on: push
Matrix: nf-test
Matrix: nf-core-lint
Matrix: pytest
confirm-pass
0s
Annotations
150 errors and 5 warnings
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pytest (arriba/arriba, docker)
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pytest (arriba/arriba, singularity)
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pytest (ensemblvep/filtervep, conda)
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pytest (ensemblvep/filtervep, docker)
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pytest (seqkit/tab2fx, singularity)
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pytest (seqkit/fx2tab, singularity)
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pytest (peka, conda)
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pytest (proteus/readproteingroups, docker)
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pytest (seqkit/tab2fx, docker)
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pytest (proteus/readproteingroups, singularity)
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pytest (ensemblvep/filtervep, singularity)
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pytest (peka, singularity)
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pytest (proteus/readproteingroups, conda)
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pytest (seqkit/fx2tab, conda)
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pytest (seqkit/fx2tab, docker)
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pytest (arriba/arriba, conda)
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nf-core-lint (bamcmp)
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pytest (seqkit/tab2fx, conda)
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nf-core-lint (bedops/convert2bed)
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nf-core-lint (bracken/bracken)
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nf-core-lint (anota2seq/anota2seqrun)
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nf-core-lint (propr/propd)
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nf-core-lint (bracken/build)
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nf-core-lint (subworkflows/bam_dedup_stats_samtools_umicollapse)
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nf-core-lint (popscle/demuxlet)
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nf-core-lint (eggnogmapper)
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nf-core-lint (ensemblvep/vep)
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nf-core-lint (ensemblvep/download)
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nf-core-lint (gawk)
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nf-core-lint (subworkflows/fasta_build_add_kraken2_bracken)
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nf-core-lint (agat/convertspgff2tsv)
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nf-core-lint (atlasgeneannotationmanipulation/gtf2featureannotation)
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nf-core-lint (bcftools/mpileup)
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nf-core-lint (agat/convertspgxf2gxf)
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nf-core-lint (subworkflows/fastq_align_bamcmp_bwa)
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nf-core-lint (bracken/combinebrackenoutputs)
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nf-core-lint (subworkflows/fasta_build_add_kraken2)
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nf-core-lint (cellranger/multi)
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nf-core-lint (subworkflows/fastq_align_bowtie2)
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nf-core-lint (arriba/arriba)
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nf-core-lint (deseq2/differential)
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nf-core-lint (ensemblvep/filtervep)
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nf-core-lint (humid)
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nf-core-lint (htsnimtools/vcfcheck)
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nf-core-lint (peka)
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nf-core-lint (salmon/quant)
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nf-core-lint (proteus/readproteingroups)
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nf-core-lint (salmon/index)
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nf-core-lint (wfmash)
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nf-core-lint (seqkit/fx2tab)
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nf-core-lint (seqkit/tab2fx)
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nf-core-lint (wisecondorx/predict)
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nf-core-lint (wisecondorx/convert)
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nf-core-lint (wisecondorx/gender)
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nf-core-lint (wisecondorx/newref)
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nf-test (bamcmp, conda)
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nf-test (bamcmp, docker)
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nf-test (bedops/convert2bed, docker)
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nf-test (bamcmp, singularity)
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nf-test (bedops/convert2bed, conda)
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nf-test (bedops/convert2bed, singularity)
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nf-test (bracken/bracken, conda)
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nf-test (bracken/bracken, docker)
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nf-test (eggnogmapper, singularity)
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nf-test (subworkflows/fasta_build_add_kraken2, singularity)
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nf-test (subworkflows/bam_dedup_stats_samtools_umicollapse, conda)
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nf-test (eggnogmapper, docker)
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nf-test (eggnogmapper, conda)
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nf-test (subworkflows/fasta_build_add_kraken2, docker)
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nf-test (subworkflows/fasta_build_add_kraken2_bracken, conda)
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nf-test (subworkflows/bam_dedup_stats_samtools_umicollapse, singularity)
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nf-test (subworkflows/fasta_build_add_kraken2_bracken, docker)
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nf-test (subworkflows/fasta_build_add_kraken2, conda)
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nf-test (subworkflows/fasta_build_add_kraken2_bracken, singularity)
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nf-test (subworkflows/fastq_align_bamcmp_bwa, conda)
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nf-test (subworkflows/fastq_align_bamcmp_bwa, singularity)
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nf-test (subworkflows/fastq_align_bamcmp_bwa, docker)
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nf-test (subworkflows/fastq_align_bowtie2, singularity)
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nf-test (subworkflows/fastq_align_bowtie2, docker)
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nf-test (anota2seq/anota2seqrun, docker)
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nf-test (agat/convertspgff2tsv, singularity)
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nf-test (anota2seq/anota2seqrun, singularity)
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nf-test (anota2seq/anota2seqrun, conda)
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nf-test (bracken/bracken, singularity)
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nf-test (bracken/build, conda)
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nf-test (bracken/build, docker)
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nf-test (bracken/build, singularity)
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nf-test (bracken/combinebrackenoutputs, conda)
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nf-test (bracken/combinebrackenoutputs, singularity)
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nf-test (bracken/combinebrackenoutputs, docker)
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nf-test (cellranger/multi, singularity)
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nf-test (ensemblvep/vep, docker)
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nf-test (ensemblvep/download, conda)
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nf-test (ensemblvep/download, docker)
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nf-test (ensemblvep/vep, singularity)
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nf-test (gawk, conda)
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nf-test (popscle/demuxlet, docker)
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nf-test (ensemblvep/download, singularity)
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nf-test (propr/propd, conda)
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nf-test (gawk, docker)
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nf-test (gawk, singularity)
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nf-test (popscle/demuxlet, singularity)
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nf-test (propr/propd, docker)
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nf-test (salmon/index, docker)
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nf-test (propr/propd, singularity)
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nf-test (subworkflows/fastq_align_bowtie2, conda)
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nf-test (wfmash, docker)
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nf-test (subworkflows/bam_dedup_stats_samtools_umicollapse, docker)
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nf-test (wfmash, singularity)
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nf-test (wfmash, conda)
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nf-test (agat/convertspgxf2gxf, conda)
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nf-test (agat/convertspgxf2gxf, singularity)
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nf-test (agat/convertspgff2tsv, conda)
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nf-test (atlasgeneannotationmanipulation/gtf2featureannotation, docker)
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nf-test (agat/convertspgxf2gxf, docker)
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nf-test (bcftools/mpileup, conda)
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nf-test (atlasgeneannotationmanipulation/gtf2featureannotation, singularity)
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nf-test (cellranger/multi, docker)
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nf-test (atlasgeneannotationmanipulation/gtf2featureannotation, conda)
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nf-test (agat/convertspgff2tsv, docker)
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nf-test (deseq2/differential, docker)
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nf-test (htsnimtools/vcfcheck, docker)
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nf-test (htsnimtools/vcfcheck, conda)
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nf-test (deseq2/differential, conda)
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nf-test (bcftools/mpileup, docker)
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nf-test (humid, singularity)
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nf-test (htsnimtools/vcfcheck, singularity)
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nf-test (humid, conda)
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nf-test (deseq2/differential, singularity)
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nf-test (humid, docker)
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nf-test (bcftools/mpileup, singularity)
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nf-test (salmon/index, conda)
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nf-test (salmon/index, singularity)
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nf-test (popscle/demuxlet, conda)
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nf-test (salmon/quant, conda)
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nf-test (salmon/quant, docker)
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nf-test (wisecondorx/convert, docker)
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nf-test (wisecondorx/convert, singularity)
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nf-test (wisecondorx/convert, conda)
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nf-test (wisecondorx/gender, docker)
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nf-test (wisecondorx/gender, conda)
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nf-test (wisecondorx/newref, docker)
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nf-test (wisecondorx/predict, singularity)
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nf-test (wisecondorx/newref, conda)
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nf-test (wisecondorx/predict, docker)
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nf-test (wisecondorx/newref, singularity)
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nf-test (wisecondorx/predict, conda)
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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/.
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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/.
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pre-commit
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pre-commit
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pre-commit
The `python-version` input is not set. The version of Python currently in `PATH` will be used.
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