Meta Tests #6417

Run time

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Job	Run time
pytest-changes	5s
pre-commit	11s
prettier	47s
editorconfig	9s
nf-test-changes	8s
pytest (gsea/gsea, conda)	3m 57s
pytest (gsea/gsea, docker)	3m 23s
pytest (gsea/gsea, singularity)	3m 44s
pytest (sentieon/applyvarcal, docker)	13m 53s
pytest (sentieon/applyvarcal, singularity)	14m 43s
pytest (sentieon/bwaindex, docker)	2m 13s
pytest (sentieon/bwaindex, singularity)	2m 44s
pytest (sentieon/bwamem, docker)	24m 13s
pytest (sentieon/bwamem, singularity)	24m 41s
pytest (sentieon/datametrics, docker)	13m 18s
pytest (sentieon/datametrics, singularity)	13m 51s
pytest (sentieon/dedup, docker)	24m 14s
pytest (sentieon/dedup, singularity)	24m 40s
pytest (sentieon/dnamodelapply, docker)	13m 24s
pytest (sentieon/dnamodelapply, singularity)	13m 19s
pytest (sentieon/dnascope, docker)	35m 57s
pytest (sentieon/dnascope, singularity)	36m 15s
pytest (sentieon/gvcftyper, docker)	57m 19s
pytest (sentieon/gvcftyper, singularity)	57m 48s
pytest (sentieon/haplotyper, docker)	57m 24s
pytest (sentieon/haplotyper, singularity)	57m 15s
pytest (sentieon/readwriter, docker)	24m 36s
pytest (sentieon/readwriter, singularity)	25m 7s
pytest (sentieon/tnfilter, docker)	24m 52s
pytest (sentieon/tnfilter, singularity)	25m 9s
pytest (sentieon/tnhaplotyper2, docker)	55m 3s
pytest (sentieon/tnhaplotyper2, singularity)	56m 46s
pytest (sentieon/tnscope, docker)	13m 37s
pytest (sentieon/tnscope, singularity)	14m 7s
pytest (sentieon/varcal, docker)	13m 40s
pytest (sentieon/varcal, singularity)	14m 14s
pytest (sentieon/wgsmetrics, docker)	13m 5s
pytest (sentieon/wgsmetrics, singularity)	13m 17s
pytest (subworkflows/utils_nfcore_pipeline, conda)	1m 59s
pytest (subworkflows/utils_nfcore_pipeline, docker)	2m 2s
pytest (subworkflows/utils_nfcore_pipeline, singularity)	2m 12s
nf-core-lint (gsea/gsea)	59s
nf-core-lint (sentieon/applyvarcal)	52s
nf-core-lint (sentieon/bwaindex)	45s
nf-core-lint (sentieon/bwamem)	55s
nf-core-lint (sentieon/datametrics)	49s
nf-test (salmon/quant, conda)	5m 22s
nf-core-lint (sentieon/dedup)	50s
nf-test (salmon/quant, docker)	3m 12s
nf-test (salmon/quant, singularity)	4m 7s
nf-core-lint (sentieon/dnamodelapply)	44s
nf-core-lint (sentieon/dnascope)	44s
nf-test (salmon/index, conda)	5m 34s
nf-test (salmon/index, docker)	3m 18s
nf-core-lint (sentieon/gvcftyper)	45s
nf-test (salmon/index, singularity)	3m 12s
nf-core-lint (sentieon/haplotyper)	1m 3s
nf-test (bakta/bakta, docker)	6m 34s
nf-core-lint (sentieon/readwriter)	1m 0s
nf-test (bakta/bakta, singularity)	6m 6s
nf-test (bakta/baktadbdownload, docker)	7m 47s
nf-core-lint (sentieon/tnfilter)	47s
nf-test (bakta/baktadbdownload, singularity)	9m 43s
nf-core-lint (sentieon/tnhaplotyper2)	44s
nf-test (trimgalore, conda)	3m 6s
nf-core-lint (sentieon/tnscope)	49s
nf-test (trimgalore, docker)	2m 48s
nf-core-lint (sentieon/varcal)	56s
nf-core-lint (sentieon/wgsmetrics)	45s
nf-test (trimgalore, singularity)	2m 32s
nf-core-lint (subworkflows/utils_nfcore_pipeline)	43s
nf-test (rseqc/readdistribution, conda)	5m 34s
nf-core-lint (salmon/quant)	57s
nf-test (rseqc/readdistribution, docker)	2m 33s
nf-core-lint (salmon/index)	44s
nf-test (rseqc/readdistribution, singularity)	4m 37s
nf-core-lint (bakta/bakta)	1m 15s
nf-test (rseqc/bamstat, conda)	5m 34s
nf-core-lint (bakta/baktadbdownload)	56s
nf-test (rseqc/bamstat, docker)	3m 9s
nf-core-lint (trimgalore)	51s
nf-test (rseqc/bamstat, singularity)	3m 5s
nf-core-lint (rseqc/readdistribution)	55s
nf-test (rseqc/tin, conda)	5m 39s
nf-core-lint (rseqc/bamstat)	47s
nf-test (rseqc/tin, docker)	2m 45s
nf-core-lint (rseqc/tin)	49s
nf-test (rseqc/tin, singularity)	2m 33s
nf-core-lint (antismash/antismashlitedownloaddatabases)	45s
nf-test (antismash/antismashlitedownloaddatabases, conda)	50m 37s
nf-core-lint (antismash/antismashlite)	48s
nf-test (antismash/antismashlitedownloaddatabases, docker)	1h 11m 48s
nf-core-lint (custom/tx2gene)	49s
nf-test (antismash/antismashlitedownloaddatabases, singularity)	49m 52s
nf-core-lint (gatk4/selectvariants)	46s
nf-test (antismash/antismashlite, conda)	38m 28s
nf-core-lint (minimap2/align)	55s
nf-test (antismash/antismashlite, docker)	28m 57s
nf-core-lint (rsem/calculateexpression)	53s
nf-test (antismash/antismashlite, singularity)	36m 7s
nf-core-lint (rsem/preparereference)	48s
nf-test (custom/tx2gene, conda)	6m 52s
nf-core-lint (ucsc/bedgraphtobigwig)	52s
nf-test (custom/tx2gene, docker)	3m 18s
nf-core-lint (ucsc/bedclip)	52s
nf-test (custom/tx2gene, singularity)	5m 17s
nf-core-lint (bclconvert)	47s
nf-test (gatk4/selectvariants, conda)	3m 14s
nf-core-lint (rhocall/viz)	48s
nf-test (gatk4/selectvariants, docker)	2m 28s
nf-core-lint (wfmash)	46s
nf-test (gatk4/selectvariants, singularity)	2m 50s
nf-core-lint (bcftools/view)	1m 0s
nf-test (minimap2/align, conda)	3m 1s
nf-core-lint (star/align)	52s
nf-test (minimap2/align, docker)	2m 8s
nf-core-lint (star/genomegenerate)	1m 8s
nf-test (minimap2/align, singularity)	2m 30s
nf-core-lint (deeparg/downloaddata)	54s
nf-test (rsem/calculateexpression, conda)	4m 21s
nf-core-lint (deeparg/predict)	48s
nf-test (rsem/calculateexpression, docker)	3m 25s
nf-core-lint (sortmerna)	1m 9s
nf-test (rsem/calculateexpression, singularity)	5m 23s
nf-core-lint (tximeta/tximport)	1m 13s
nf-test (rsem/preparereference, conda)	5m 4s
nf-core-lint (subread/featurecounts)	51s
nf-core-lint (seqkit/concat)	50s
nf-test (rsem/preparereference, docker)	3m 33s
nf-test (rsem/preparereference, singularity)	3m 41s
nf-core-lint (umitools/extract)	47s
nf-test (ucsc/bedgraphtobigwig, conda)	2m 54s
nf-core-lint (hamronization/abricate)	51s
nf-test (ucsc/bedgraphtobigwig, docker)	2m 29s
nf-core-lint (hamronization/summarize)	52s
nf-test (ucsc/bedgraphtobigwig, singularity)	2m 28s
nf-core-lint (hamronization/fargene)	48s
nf-test (ucsc/bedclip, conda)	2m 51s
nf-core-lint (hamronization/deeparg)	46s
nf-test (ucsc/bedclip, docker)	2m 37s
nf-core-lint (hamronization/amrfinderplus)	44s
nf-test (ucsc/bedclip, singularity)	2m 23s
nf-core-lint (hamronization/rgi)	55s
nf-test (bclconvert, docker)	2m 19s
nf-core-lint (quartonotebook)	57s
nf-test (bclconvert, singularity)	2m 19s
nf-core-lint (samtools/cat)	51s
nf-test (rhocall/viz, conda)	3m 4s
nf-core-lint (samtools/calmd)	1m 0s
nf-test (rhocall/viz, docker)	2m 29s
nf-test (rhocall/viz, singularity)	2m 32s
nf-core-lint (samtools/bam2fq)	44s
nf-core-lint (samtools/collate)	1m 5s
nf-test (wfmash, conda)	2m 22s
nf-core-lint (samtools/ampliconclip)	55s
nf-test (wfmash, docker)	2m 6s
nf-core-lint (samtools/convert)	55s
nf-test (wfmash, singularity)	2m 0s
nf-core-lint (eklipse)	58s
nf-test (bcftools/view, conda)	3m 0s
nf-core-lint (stringtie/merge)	57s
nf-test (bcftools/view, docker)	2m 30s
nf-core-lint (stringtie/stringtie)	1m 4s
nf-test (bcftools/view, singularity)	2m 20s
nf-core-lint (subworkflows/bam_rseqc)	46s
nf-test (star/align, conda)	11m 44s
nf-core-lint (subworkflows/utils_nfcore_pipeline)	1m 0s
nf-test (star/align, docker)	9m 50s
nf-core-lint (subworkflows/preprocess_rnaseq)	45s
nf-test (star/align, singularity)	10m 0s
nf-test (star/genomegenerate, conda)	12m 54s
nf-test (star/genomegenerate, docker)	10m 42s
nf-test (star/genomegenerate, singularity)	11m 22s
nf-test (deeparg/downloaddata, conda)	11m 11s
nf-test (deeparg/downloaddata, docker)	8m 21s
nf-test (deeparg/downloaddata, singularity)	9m 52s
nf-test (deeparg/predict, conda)	8m 40s
nf-test (deeparg/predict, docker)	6m 47s
nf-test (deeparg/predict, singularity)	7m 8s
nf-test (sortmerna, conda)	6m 33s
nf-test (sortmerna, docker)	3m 26s
nf-test (sortmerna, singularity)	3m 23s
nf-test (tximeta/tximport, conda)	5m 44s
nf-test (tximeta/tximport, docker)	3m 45s
nf-test (tximeta/tximport, singularity)	3m 33s
nf-test (subread/featurecounts, conda)	2m 53s
nf-test (subread/featurecounts, docker)	2m 20s
nf-test (subread/featurecounts, singularity)	3m 5s
nf-test (seqkit/concat, conda)	2m 42s
nf-test (seqkit/concat, docker)	2m 35s
nf-test (seqkit/concat, singularity)	2m 4s
nf-test (umitools/extract, conda)	7m 27s
nf-test (umitools/extract, docker)	4m 2s
nf-test (umitools/extract, singularity)	3m 27s
nf-test (hamronization/abricate, conda)	3m 1s
nf-test (hamronization/abricate, docker)	2m 22s
nf-test (hamronization/abricate, singularity)	2m 19s
nf-test (hamronization/summarize, conda)	3m 15s
nf-test (hamronization/summarize, docker)	2m 23s
nf-test (hamronization/summarize, singularity)	2m 19s
nf-test (hamronization/fargene, conda)	4m 7s
nf-test (hamronization/fargene, docker)	7m 43s
nf-test (hamronization/fargene, singularity)	20s
nf-test (hamronization/deeparg, conda)	4m 8s
nf-test (hamronization/deeparg, docker)	2m 32s
nf-test (hamronization/deeparg, singularity)	3m 0s
nf-test (hamronization/amrfinderplus, conda)	2m 50s
nf-test (hamronization/amrfinderplus, docker)	2m 11s
nf-test (hamronization/amrfinderplus, singularity)	2m 15s
nf-test (hamronization/rgi, conda)	5m 20s
nf-test (hamronization/rgi, docker)	3m 58s
nf-test (hamronization/rgi, singularity)	3m 46s
nf-test (quartonotebook, docker)	3m 38s
nf-test (quartonotebook, singularity)	5m 27s
nf-test (samtools/cat, conda)	2m 24s
nf-test (samtools/cat, docker)	2m 17s
nf-test (samtools/cat, singularity)	3m 34s
nf-test (samtools/calmd, conda)	3m 1s
nf-test (samtools/calmd, docker)	2m 16s
nf-test (samtools/calmd, singularity)	2m 24s
nf-test (samtools/bam2fq, conda)	2m 22s
nf-test (samtools/bam2fq, docker)	2m 31s
nf-test (samtools/bam2fq, singularity)	2m 51s
nf-test (samtools/collate, conda)	2m 34s
nf-test (samtools/collate, docker)	2m 15s
nf-test (samtools/collate, singularity)	2m 42s
nf-test (samtools/ampliconclip, conda)	3m 3s
nf-test (samtools/ampliconclip, docker)	2m 28s
nf-test (samtools/ampliconclip, singularity)	2m 54s
nf-test (samtools/convert, conda)	2m 30s
nf-test (samtools/convert, docker)	2m 17s
nf-test (samtools/convert, singularity)	2m 39s
nf-test (eklipse, conda)	3m 34s
nf-test (eklipse, docker)	3m 22s
nf-test (eklipse, singularity)	3m 11s
nf-test (stringtie/merge, conda)	3m 36s
nf-test (stringtie/merge, docker)	2m 28s
nf-test (stringtie/merge, singularity)	2m 30s
nf-test (stringtie/stringtie, conda)	4m 37s
nf-test (stringtie/stringtie, docker)	2m 57s
nf-test (stringtie/stringtie, singularity)	2m 46s
nf-test (subworkflows/bam_rseqc, conda)	5m 4s
nf-test (subworkflows/bam_rseqc, docker)	2m 45s
nf-test (subworkflows/bam_rseqc, singularity)	2m 27s
nf-test (subworkflows/utils_nfcore_pipeline, conda)	2m 26s
nf-test (subworkflows/utils_nfcore_pipeline, docker)	2m 26s
nf-test (subworkflows/utils_nfcore_pipeline, singularity)	2m 48s
nf-test (subworkflows/preprocess_rnaseq, conda)	5m 8s
nf-test (subworkflows/preprocess_rnaseq, docker)	3m 14s
nf-test (subworkflows/preprocess_rnaseq, singularity)	2m 35s
confirm-pass	1s
	1d 3h 58m 47s

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Meta Tests #6417

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Meta Tests #6417

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