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labeler on: pull_request

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Run nf-test on: pull_request 49

nf-test-changes

x64 | conda | 1

x64 | docker | 1

x64 | singularity | 1

x64 | conda | 2

x64 | docker | 2

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x64 | singularity | 16

confirm-pass-nf-test

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check-files

confirm-pass-nf-test

Run when nf-test-gpu tests are skipped on: pull_request

check-files

confirm-pass-gpu

Run Linting on: pull_request 3

pre-commit

nf-core-changes

nf-core lint subworkflows (abundance_differential_filter)

nf-core lint subworkflows (archive_extract)

nf-core lint subworkflows (bam_impute_quilt)

nf-core lint subworkflows (bam_impute_quilt2)

nf-core lint subworkflows (bam_impute_stitch)

nf-core lint subworkflows (bam_stats_mirna_mirtop)

nf-core lint subworkflows (bam_subsampledepth_samtools)

nf-core lint subworkflows (bam_taps_conversion)

nf-core lint subworkflows (bam_variant_calling_mpileup_bcftools)

nf-core lint subworkflows (bam_variant_calling_sort_freebayes_bcftools)

nf-core lint subworkflows (bam_vcf_impute_glimpse2)

nf-core lint subworkflows (bcl_demultiplex)

nf-core lint subworkflows (deepvariant)

nf-core lint subworkflows (faa_seqfu_seqkit)

nf-core lint subworkflows (fasta_bgzip_index_dict_samtools)

nf-core lint subworkflows (fasta_gtf_bam_rpbp)

nf-core lint subworkflows (fastq_align_mapad)

nf-core lint subworkflows (fastq_extract_kraken_krakentools)

nf-core lint subworkflows (fastq_fetch_clean_hostile)

nf-core lint subworkflows (fastq_find_mirna_mirdeep2)

nf-core lint subworkflows (fastq_preprocess_seqkit)

nf-core lint subworkflows (fastq_qc_stats)

nf-core lint subworkflows (fastq_qc_trim_filter_setstrandedness)

nf-core lint subworkflows (fastq_remove_rrna)

nf-core lint subworkflows (fastq_removeadapters_merge)

nf-core lint subworkflows (fastq_sanitise_seqkit)

nf-core lint subworkflows (fastq_shortreads_preprocess_qc)

nf-core lint subworkflows (fastq_taxonomic_profile_metaphlan)

nf-core lint subworkflows (gtf_hybridmerge_gffcompare)

nf-core lint subworkflows (homer_groseq)

nf-core lint subworkflows (opt_flip_track_stat)

nf-core lint subworkflows (orftable_fasta_gtf_buildorfcatalogue)

nf-core lint subworkflows (quant_tximport_summarizedexperiment)

nf-core lint subworkflows (tiff_segmentation_vpt)

nf-core lint subworkflows (utils_nfschema_plugin)

nf-core lint subworkflows (vcf_annotate_ensemblvep)

nf-core lint subworkflows (vcf_annotate_ensemblvep_snpeff)

nf-core lint subworkflows (vcf_annotate_snpeff)

nf-core lint subworkflows (vcf_extract_relate_somalier)

nf-core lint subworkflows (vcf_filter_bcftools_ensemblvep)

nf-core lint subworkflows (vcf_gather_bcftools)

nf-core lint subworkflows (vcf_impute_beagle5)

nf-core lint subworkflows (vcf_impute_glimpse)

nf-core lint subworkflows (vcf_impute_minimac4)

nf-core lint subworkflows (vcf_phase_shapeit5)

confirm-pass-lint

Run GPU nf-tests on: pull_request

nf-test-changes

GPU Test | g4dn.xlarge | docker | 1

GPU Test | g4dn.xlarge | singularity | 1

GPU Test | g4dn.xlarge | docker | 2

GPU Test | g4dn.xlarge | singularity | 2

GPU Test | g4dn.2xlarge | ${{ matrix.profile }} | ${{ matrix.shard }}

confirm-pass-gpu

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