Added repeatmodeler/builddatabase (#5416) #25

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Job	Run time
pre-commit	1m 8s
editorconfig	9s
nf-test-changes	5s
prettier	50s
pytest-changes	8s
pytest (arriba/arriba, conda)	1s
pytest (arriba/arriba, docker)	1s
pytest (arriba/arriba, singularity)	1s
pytest (ashlar, conda)	1s
pytest (ashlar, docker)	1s
pytest (ashlar, singularity)	1s
pytest (ensemblvep/filtervep, conda)	1s
pytest (ensemblvep/filtervep, docker)	1s
pytest (ensemblvep/filtervep, singularity)	1s
pytest (gatk4/bedtointervallist, conda)	1s
pytest (gatk4/bedtointervallist, docker)	1s
pytest (gatk4/bedtointervallist, singularity)	1s
pytest (gatk4/cnnscorevariants, docker)	1s
pytest (gatk4/cnnscorevariants, singularity)	1s
pytest (gatk4/determinegermlinecontigploidy, docker)	1s
pytest (gatk4/germlinecnvcaller, docker)	1s
pytest (gatk4/germlinecnvcaller, singularity)	1s
pytest (gatk4/postprocessgermlinecnvcalls, docker)	1s
pytest (gatk4/postprocessgermlinecnvcalls, singularity)	1s
pytest (peka, conda)	1s
pytest (peka, docker)	1s
pytest (peka, singularity)	1s
pytest (proteus/readproteingroups, conda)	1s
pytest (proteus/readproteingroups, docker)	1s
pytest (proteus/readproteingroups, singularity)	1s
pytest (seqkit/fx2tab, conda)	1s
pytest (seqkit/fx2tab, docker)	1s
pytest (seqkit/fx2tab, singularity)	1s
pytest (seqkit/tab2fx, conda)	1s
pytest (seqkit/tab2fx, docker)	1s
pytest (seqkit/tab2fx, singularity)	1s
pytest (shapeit5/ligate, conda)	1s
pytest (shapeit5/ligate, docker)	1s
pytest (shapeit5/ligate, singularity)	1s
pytest (subworkflows/vcf_phase_shapeit5, conda)	1s
pytest (subworkflows/vcf_phase_shapeit5, docker)	1s
pytest (subworkflows/vcf_phase_shapeit5, singularity)	1s
nf-core-lint (arriba/arriba)	1s
nf-core-lint (ashlar)	1s
nf-core-lint (ensemblvep/filtervep)	1s
nf-core-lint (gatk4/bedtointervallist)	1s
nf-core-lint (gatk4/cnnscorevariants)	1s
nf-core-lint (gatk4/determinegermlinecontigploidy)	1s
nf-core-lint (gatk4/germlinecnvcaller)	1s
nf-core-lint (gatk4/postprocessgermlinecnvcalls)	1s
nf-core-lint (peka)	1s
nf-core-lint (proteus/readproteingroups)	1s
nf-core-lint (seqkit/fx2tab)	1s
nf-core-lint (seqkit/tab2fx)	1s
nf-core-lint (shapeit5/ligate)	1s
nf-core-lint (subworkflows/vcf_phase_shapeit5)	1s
nf-core-lint (celesta)	1s
nf-core-lint (kalign/align)	1s
nf-core-lint (wisecondorx/predict)	1s
nf-core-lint (wisecondorx/convert)	1s
nf-core-lint (wisecondorx/gender)	1s
nf-core-lint (wisecondorx/newref)	1s
nf-core-lint (crabz/decompress)	1s
nf-core-lint (crabz/compress)	1s
nf-core-lint (isoseq3/tag)	1s
nf-core-lint (bbmap/bbmerge)	1s
nf-core-lint (seqfu/stats)	1s
nf-core-lint (fastqc)	1s
nf-core-lint (picard/addorreplacereadgroups)	1s
nf-core-lint (picard/markduplicates)	1s
nf-core-lint (bakta/bakta)	1s
nf-core-lint (bakta/baktadbdownload)	1s
nf-core-lint (svtyper/svtypersso)	1s
nf-core-lint (lofreq/viterbi)	1s
nf-core-lint (gecco/run)	1s
nf-core-lint (tiddit/sv)	1s
nf-core-lint (ngsbits/samplegender)	1s
nf-core-lint (phispy)	1s
nf-core-lint (fastme)	1s
nf-core-lint (gtfsort)	1s
nf-core-lint (angsd/gl)	1s
nf-core-lint (krakentools/extractkrakenreads)	1s
nf-core-lint (toulligqc)	1s
nf-core-lint (amplify/predict)	1s
nf-core-lint (nanofilt)	1s
nf-core-lint (kaiju/mergeoutputs)	1s
nf-core-lint (mosdepth)	1s
nf-core-lint (pyrodigal)	1s
nf-core-lint (gnu/split)	1s
nf-core-lint (circularmapper/circulargenerator)	1s
nf-core-lint (wittyer)	1s
nf-core-lint (scimap/spatiallda)	1s
nf-core-lint (openms/idmerger)	1s
nf-core-lint (openms/peptideindexer)	1s
nf-core-lint (openms/peakpickerhires)	1s
nf-core-lint (openms/idfilter)	1s
nf-core-lint (president)	1s
nf-core-lint (meryl/histogram)	1s
nf-core-lint (meryl/count)	1s
nf-core-lint (meryl/unionsum)	1s
nf-core-lint (summarizedexperiment/summarizedexperiment)	1s
nf-core-lint (learnmsa/align)	1s
nf-core-lint (vcftools)	1s
nf-core-lint (hmmer/hmmsearch)	1s
nf-core-lint (bedtools/merge)	1s
nf-core-lint (bedtools/sort)	1s
nf-core-lint (atlasgeneannotationmanipulation/gtf2featureannotation)	1s
nf-core-lint (repeatmodeler/builddatabase)	1s
nf-core-lint (snpeff/snpeff)	1s
nf-core-lint (molkartgarage/clahe)	1s
nf-core-lint (bcftools/stats)	1s
nf-core-lint (bcftools/filter)	1s
nf-core-lint (bcftools/mpileup)	1s
nf-core-lint (bcftools/sort)	1s
nf-core-lint (mcquant)	1s
nf-core-lint (genomescope2)	1s
nf-core-lint (deepcell/mesmer)	1s
nf-core-lint (cnvkit/batch)	1s
nf-core-lint (quartonotebook)	1s
nf-core-lint (gatk4/svannotate)	1s
nf-core-lint (gatk4/bedtointervallist)	1s
nf-core-lint (gatk4/combinegvcfs)	1s
nf-core-lint (gatk4/addorreplacereadgroups)	1s
nf-core-lint (gatk4/svcluster)	1s
nf-core-lint (gatk4/splitncigarreads)	1s
nf-core-lint (gatk4/estimatelibrarycomplexity)	1s
nf-core-lint (gatk4/mutect2)	1s
nf-core-lint (merfin/hist)	1s
nf-core-lint (controlfreec/assesssignificance)	1s
nf-core-lint (controlfreec/freec)	1s
nf-core-lint (controlfreec/makegraph2)	1s
nf-core-lint (controlfreec/freec2circos)	1s
nf-core-lint (controlfreec/makegraph)	1s
nf-core-lint (controlfreec/freec2bed)	1s
nf-core-lint (htsnimtools/vcfcheck)	1s
nf-core-lint (igvreports)	1s
nf-core-lint (metamaps/mapdirectly)	1s
nf-core-lint (taxonkit/name2taxid)	1s
nf-core-lint (leviosam2/lift)	1s
nf-core-lint (leviosam2/index)	1s
nf-core-lint (deepvariant)	1s
nf-core-lint (deseq2/differential)	1s
nf-core-lint (manta/germline)	1s
nf-core-lint (manta/somatic)	1s
nf-core-lint (manta/tumoronly)	1s
nf-core-lint (agat/convertspgxf2gxf)	1s
nf-core-lint (agat/convertspgff2tsv)	1s
nf-core-lint (bamstats/generalstats)	1s
nf-core-lint (humid)	1s
nf-core-lint (htseq/count)	1s
nf-core-lint (bases2fastq)	1s
nf-core-lint (cellranger/vdj)	1s
nf-core-lint (cellranger/mkref)	1s
nf-core-lint (cellranger/count)	1s
nf-core-lint (cellranger/mkvdjref)	1s
nf-core-lint (cellranger/mkgtf)	1s
nf-core-lint (cellranger/multi)	1s
nf-core-lint (salmon/quant)	1s
nf-core-lint (salmon/index)	1s
nf-core-lint (decoupler/decoupler)	1s
nf-core-lint (islandpath)	1s
nf-core-lint (anota2seq/anota2seqrun)	1s
nf-core-lint (bracken/build)	1s
nf-core-lint (bracken/combinebrackenoutputs)	1s
nf-core-lint (bracken/bracken)	1s
nf-core-lint (popscle/demuxlet)	1s
nf-core-lint (popscle/dscpileup)	1s
nf-core-lint (xengsort/index)	1s
nf-core-lint (wfmash)	1s
nf-core-lint (cellpose)	1s
nf-core-lint (dragmap/hashtable)	1s
nf-core-lint (dragmap/align)	1s
nf-core-lint (pretextmap)	1s
nf-core-lint (fastp)	1s
nf-core-lint (velocyto)	1s
nf-core-lint (plink/gwas)	1s
nf-core-lint (plink/hwe)	1s
nf-core-lint (plink/ld)	1s
nf-core-lint (plink/epistasis)	1s
nf-core-lint (plink/fastepistasis)	1s
nf-core-lint (ale)	1s
nf-core-lint (fastx/collapser)	1s
nf-core-lint (bwamem2/mem)	1s
nf-core-lint (bwamem2/index)	1s
nf-core-lint (iqtree)	1s
nf-core-lint (maltextract)	1s
nf-core-lint (liftoff)	1s
nf-core-lint (quilt/quilt)	1s
nf-core-lint (ensemblvep/download)	1s
nf-core-lint (ensemblvep/vep)	1s
nf-core-lint (samtools/faidx)	1s
nf-core-lint (glimpse2/ligate)	1s
nf-core-lint (bedops/convert2bed)	1s
nf-core-lint (strelka/germline)	1s
nf-core-lint (strelka/somatic)	1s
nf-core-lint (gt/gff3validator)	1s
nf-core-lint (propr/propd)	1s
nf-core-lint (propr/propr)	1s
nf-core-lint (minimap2/align)	1s
nf-core-lint (minimap2/index)	1s
nf-core-lint (spaceranger/mkref)	1s
nf-core-lint (spaceranger/count)	1s
nf-core-lint (spaceranger/mkgtf)	1s
nf-core-lint (rgi/main)	1s
nf-core-lint (rgi/cardannotation)	1s
nf-core-lint (glimpse/chunk)	1s
nf-core-lint (glimpse/sample)	1s
nf-core-lint (glimpse/concordance)	1s
nf-core-lint (glimpse/ligate)	1s
nf-core-lint (glimpse/phase)	1s
nf-core-lint (cobrameta)	1s
nf-core-lint (bowtie2/align)	1s
nf-core-lint (tcoffee/align)	1s
nf-core-lint (tcoffee/tcs)	1s
nf-core-lint (gtdbtk/classifywf)	1s
nf-core-lint (amrfinderplus/run)	1s
nf-core-lint (demuxem)	1s
nf-core-lint (eggnogmapper)	1s
nf-core-lint (gawk)	1s
nf-core-lint (prodigal)	1s
nf-core-lint (mygene)	1s
nf-core-lint (bamcmp)	1s
nf-core-lint (sratools/prefetch)	1s
nf-core-lint (kraken2/add)	1s
nf-core-lint (kraken2/build)	1s
nf-core-lint (kraken2/kraken2)	1s
nf-core-lint (bamclipper)	1s
nf-core-lint (subworkflows/bam_create_som_pon_gatk)	1s
nf-core-lint (subworkflows/quantify_pseudo_alignment)	1s
nf-core-lint (subworkflows/bam_dedup_stats_samtools_umicollapse)	1s
nf-core-lint (subworkflows/bam_markduplicates_picard)	1s
nf-core-lint (subworkflows/fasta_build_add_kraken2)	1s
nf-core-lint (subworkflows/fastq_align_dna)	1s
nf-core-lint (subworkflows/fastq_align_bowtie2)	1s
nf-core-lint (subworkflows/fastq_align_bamcmp_bwa)	1s
nf-core-lint (subworkflows/fastq_taxonomic_profile_metaphlan)	1s
nf-core-lint (subworkflows/fastq_fastqc_umitools_fastp)	1s
nf-core-lint (subworkflows/fasta_build_add_kraken2_bracken)	1s
nf-core-lint (subworkflows/vcf_impute_glimpse)	1s
nf-core-lint (subworkflows/fastq_align_mapad)	1s
nf-core-lint (subworkflows/fastq_download_prefetch_fasterqdump_sratools)	1s
confirm-pass	1s
	6m 17s

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Added repeatmodeler/builddatabase (#5416) #25

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Added repeatmodeler/builddatabase (#5416) #25

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