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Added nextflow.config to fix software versions #60

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Added nextflow.config to fix software versions

Added nextflow.config to fix software versions #60

Run time

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Job Run time
editorconfig
1s
nf-test-changes
8s
pytest-changes
1s
prettier
1s
nf-test (bam_sort_stats_samtools, docker)
1m 58s
nf-test (bam_sort_stats_samtools, singularity)
2m 28s
nf-test (bam_sort_stats_samtools, conda)
3m 21s
nf-test (fastq_download_prefetch_fasterqdump_sratools, docker)
2m 13s
nf-test (fastq_download_prefetch_fasterqdump_sratools, singularity)
3m 20s
nf-test (fastq_download_prefetch_fasterqdump_sratools, conda)
3m 31s
nf-test (nfcorepipelineutils, docker)
1m 59s
nf-test (nfcorepipelineutils, singularity)
1m 56s
nf-test (nfcorepipelineutils, conda)
1m 53s
nf-test (vcf_impute_glimpse, docker)
2m 41s
nf-test (vcf_impute_glimpse, singularity)
2m 43s
nf-test (vcf_impute_glimpse, conda)
5m 4s
nf-test (nextflowpipelineutils, docker)
1m 51s
nf-test (nextflowpipelineutils, singularity)
2m 10s
nf-test (nextflowpipelineutils, conda)
2m 10s
nf-test (art/illumina, docker)
2m 51s
nf-test (art/illumina, singularity)
2m 26s
nf-test (art/illumina, conda)
2m 47s
nf-test (bismark/genomepreparation, docker)
1m 59s
nf-test (bismark/genomepreparation, singularity)
2m 23s
nf-test (bismark/genomepreparation, conda)
2m 54s
nf-test (bismark/methylationextractor, docker)
1m 56s
nf-test (bismark/methylationextractor, singularity)
2m 1s
nf-test (bismark/methylationextractor, conda)
2m 55s
nf-test (bismark/summary, docker)
2m 9s
nf-test (bismark/summary, singularity)
2m 26s
nf-test (bismark/summary, conda)
2m 50s
nf-test (bismark/align, docker)
3m 51s
nf-test (bismark/align, singularity)
4m 3s
nf-test (bismark/align, conda)
5m 14s
nf-test (bismark/deduplicate, docker)
1m 44s
nf-test (bismark/deduplicate, singularity)
1m 39s
nf-test (bismark/deduplicate, conda)
3m 3s
nf-test (bismark/report, docker)
2m 0s
nf-test (bismark/report, singularity)
2m 10s
nf-test (bismark/report, conda)
3m 35s
nf-test (bismark/coverage2cytosine, docker)
1m 59s
nf-test (bismark/coverage2cytosine, singularity)
2m 14s
nf-test (bismark/coverage2cytosine, conda)
2m 49s
nf-test (hisat2/align, docker)
2m 35s
nf-test (hisat2/align, singularity)
2m 31s
nf-test (hisat2/align, conda)
4m 37s
nf-test (hisat2/build, docker)
2m 26s
nf-test (hisat2/build, singularity)
2m 7s
nf-test (hisat2/build, conda)
2m 52s
nf-test (hisat2/extractsplicesites, docker)
2m 6s
nf-test (hisat2/extractsplicesites, singularity)
2m 14s
nf-test (hisat2/extractsplicesites, conda)
2m 28s
nf-test (snakemake, docker)
2m 17s
nf-test (snakemake, singularity)
2m 7s
nf-test (snakemake, conda)
3m 57s
nf-test (picard/markduplicates, docker)
2m 21s
nf-test (picard/markduplicates, singularity)
2m 13s
nf-test (picard/markduplicates, conda)
3m 26s
nf-test (gunzip, docker)
1m 47s
nf-test (gunzip, singularity)
2m 23s
nf-test (gunzip, conda)
2m 6s
nf-test (sratools/prefetch, docker)
13m 26s
nf-test (sratools/prefetch, singularity)
3m 31s
nf-test (sratools/prefetch, conda)
5m 8s
nf-test (sratools/fasterqdump, docker)
2m 28s
nf-test (sratools/fasterqdump, singularity)
3m 43s
nf-test (sratools/fasterqdump, conda)
3m 49s
nf-test (custom/getchromsizes, docker)
1m 54s
nf-test (custom/getchromsizes, singularity)
1m 56s
nf-test (custom/getchromsizes, conda)
2m 27s
nf-test (custom/dumpsoftwareversions, docker)
2m 15s
nf-test (custom/dumpsoftwareversions, singularity)
1m 55s
nf-test (custom/sratoolsncbisettings, docker)
2m 25s
nf-test (custom/sratoolsncbisettings, singularity)
2m 55s
nf-test (custom/sratoolsncbisettings, conda)
4m 8s
nf-test (bwa/aln, docker)
1m 52s
nf-test (bwa/aln, singularity)
1m 50s
nf-test (bwa/aln, conda)
2m 28s
nf-test (bwa/sampe, docker)
1m 51s
nf-test (bwa/sampe, singularity)
2m 15s
nf-test (bwa/sampe, conda)
2m 13s
nf-test (bwa/samse, docker)
1m 47s
nf-test (bwa/samse, singularity)
2m 9s
nf-test (bwa/samse, conda)
3m 12s
nf-test (bwa/mem, docker)
2m 34s
nf-test (bwa/mem, singularity)
2m 57s
nf-test (bwa/mem, conda)
3m 11s
nf-test (bwa/index, docker)
1m 45s
nf-test (bwa/index, singularity)
2m 5s
nf-test (bwa/index, conda)
2m 38s
nf-test (fastqscan, docker)
1m 32s
nf-test (fastqscan, singularity)
2m 4s
nf-test (fastqscan, conda)
2m 52s
nf-test (trimgalore, docker)
1m 46s
nf-test (trimgalore, singularity)
2m 31s
nf-test (trimgalore, conda)
3m 22s
nf-test (mlst, docker)
2m 47s
nf-test (mlst, singularity)
2m 23s
nf-test (mlst, conda)
3m 46s
nf-test (cat/fastq, docker)
2m 21s
nf-test (cat/fastq, singularity)
1m 59s
nf-test (cat/fastq, conda)
3m 30s
nf-test (fq/lint, docker)
1m 39s
nf-test (fq/lint, singularity)
1m 52s
nf-test (fq/lint, conda)
2m 25s
nf-test (fq/subsample, docker)
2m 47s
nf-test (fq/subsample, singularity)
2m 8s
nf-test (fq/subsample, conda)
3m 17s
nf-test (fq/generate, docker)
2m 9s
nf-test (fq/generate, singularity)
1m 46s
nf-test (fq/generate, conda)
2m 12s
nf-test (samtools/stats, docker)
3m 6s
nf-test (samtools/stats, singularity)
3m 1s
nf-test (samtools/stats, conda)
3m 18s
nf-test (samtools/sort, docker)
2m 26s
nf-test (samtools/sort, singularity)
2m 31s
nf-test (samtools/sort, conda)
2m 55s
nf-test (abricate/run, docker)
1m 50s
nf-test (abricate/run, singularity)
2m 23s
nf-test (abricate/run, conda)
4m 5s
nf-test (abricate/summary, docker)
2m 2s
nf-test (abricate/summary, singularity)
2m 7s
nf-test (abricate/summary, conda)
5m 19s
nf-test (fastqc, docker)
1m 36s
nf-test (fastqc, singularity)
2m 19s
nf-test (fastqc, conda)
2m 59s
nf-test (assemblyscan, docker)
1m 43s
nf-test (assemblyscan, singularity)
2m 26s
nf-test (assemblyscan, conda)
2m 47s
nf-test (flye, docker)
52m 23s
nf-test (flye, singularity)
48m 49s
nf-test (flye, conda)
47m 6s
nf-test (sourmash/sketch, docker)
2m 10s
nf-test (sourmash/sketch, singularity)
1m 51s
nf-test (sourmash/sketch, conda)
2m 31s
nf-test (fastp, docker)
2m 31s
nf-test (fastp, singularity)
2m 37s
nf-test (fastp, conda)
4m 12s
nf-test (glimpse/chunk, docker)
2m 49s
nf-test (glimpse/chunk, singularity)
2m 25s
nf-test (glimpse/chunk, conda)
4m 10s
nf-test (glimpse/concordance, docker)
1m 56s
nf-test (glimpse/concordance, singularity)
2m 14s
nf-test (glimpse/concordance, conda)
2m 45s
nf-test (glimpse/sample, docker)
1m 40s
nf-test (glimpse/sample, singularity)
2m 0s
nf-test (glimpse/sample, conda)
3m 33s
nf-test (glimpse/ligate, docker)
2m 58s
nf-test (glimpse/ligate, singularity)
3m 23s
nf-test (glimpse/ligate, conda)
4m 20s
nf-test (fastani, docker)
2m 8s
nf-test (fastani, singularity)
2m 26s
nf-test (fastani, conda)
2m 37s
nf-test (gffread, docker)
1m 56s
nf-test (gffread, singularity)
2m 42s
nf-test (gffread, conda)
2m 14s
nf-test (medaka, docker)
3m 2s
nf-test (medaka, singularity)
3m 10s
nf-test (medaka, conda)
2m 39s
nf-test (trimmomatic, docker)
1m 50s
nf-test (trimmomatic, singularity)
2m 50s
nf-test (trimmomatic, conda)
3m 16s
nf-test (dragonflye, docker)
4m 52s
nf-test (dragonflye, singularity)
3m 38s
nf-test (dragonflye, conda)
6m 57s
nf-test (rasusa, docker)
2m 1s
nf-test (rasusa, singularity)
1m 47s
nf-test (rasusa, conda)
2m 36s
pytest
0s
nf-core-lint
0s
confirm-pass
1s
9h 47m 53s