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Important! Template update for nf-core/tools v3.0.2 #1344

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Important! Template update for nf-core/tools v3.0.2

Important! Template update for nf-core/tools v3.0.2 #1344

Run time

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Job Run time
Run pipeline with test data (24.04.2 | test | docker)
30m 14s
Run pipeline with test data (24.04.2 | test | docker)
30m 14s
Test parameters (24.04.2 | --consensus_caller ivar | docker)
3m 0s
Test parameters (24.04.2 | --consensus_caller ivar | docker)
29m 29s
Run pipeline with test data (latest-everything | test | docker)
29m 44s
Run pipeline with test data (latest-everything | test | docker)
29m 44s
Test parameters (24.04.2 | --variant_caller bcftools --consensus_caller ivar | docker)
3m 0s
Test parameters (24.04.2 | --variant_caller bcftools --consensus_caller ivar | docker)
28m 57s
Test parameters (24.04.2 | --skip_fastp --skip_pangolin | docker)
3m 0s
Test parameters (24.04.2 | --skip_fastp --skip_pangolin | docker)
30m 24s
Test nanopore (24.04.2 | --gff false --freyja_depthcutoff 1 | docker)
32m 16s
Test nanopore (24.04.2 | --gff false --freyja_depthcutoff 1 | docker)
34m 58s
Test parameters (24.04.2 | --skip_variants | docker)
2m 59s
Test parameters (24.04.2 | --skip_variants | docker)
13m 5s
Test SISPA (24.04.2 | --gff false | docker)
22m 28s
Test SISPA (24.04.2 | --gff false | docker)
22m 28s
Test nanopore (24.04.2 | --additional_annotation ./GCA_009858895.3_ASM985889v3_genomic.gtf.gz --freyja_depthcutoff 1 | docker)
32m 17s
Test nanopore (24.04.2 | --additional_annotation ./GCA_009858895.3_ASM985889v3_genomic.gtf.gz --freyja_depthcutoff 1 | docker)
37m 52s
Test SISPA (24.04.2 | --genome 'NC_045512.2' | docker)
21m 23s
Test SISPA (24.04.2 | --genome 'NC_045512.2' | docker)
21m 23s
Test parameters (24.04.2 | --skip_cutadapt --skip_snpeff | docker)
3m 0s
Test parameters (24.04.2 | --skip_cutadapt --skip_snpeff | docker)
27m 57s
Test nanopore (24.04.2 | --input false --freyja_depthcutoff 1 | docker)
32m 16s
Test nanopore (24.04.2 | --input false --freyja_depthcutoff 1 | docker)
36m 19s
Test SISPA (latest-everything | --gff false | docker)
20m 3s
Test SISPA (latest-everything | --gff false | docker)
20m 3s
Test parameters (24.04.2 | --skip_kraken2 | docker)
3m 0s
Test parameters (24.04.2 | --skip_kraken2 | docker)
29m 40s
Test nanopore (24.04.2 | --min_barcode_reads 10000 | docker)
3m 51s
Test nanopore (24.04.2 | --min_barcode_reads 10000 | docker)
3m 51s
Test parameters (24.04.2 | --skip_assembly | docker)
3m 0s
Test parameters (24.04.2 | --skip_assembly | docker)
25m 33s
Test SISPA (latest-everything | --genome 'NC_045512.2' | docker)
20m 52s
Test SISPA (latest-everything | --genome 'NC_045512.2' | docker)
20m 52s
Test nanopore (24.04.2 | --min_guppyplex_reads 10000 | docker)
6m 31s
Test nanopore (24.04.2 | --min_guppyplex_reads 10000 | docker)
6m 31s
Test parameters (24.04.2 | --spades_mode corona | docker)
3m 1s
Test parameters (24.04.2 | --spades_mode corona | docker)
29m 43s
Test nanopore (24.04.2 | --artic_minion_caller medaka --sequencing_summary false --fast5_dir false --freyja_depthcutoff 1 | docker)
32m 18s
Test nanopore (24.04.2 | --artic_minion_caller medaka --sequencing_summary false --fast5_dir false --freyja_depthcutoff 1 | docker)
52m 48s
Test parameters (24.04.2 | --spades_mode metaviral | docker)
3m 0s
Test parameters (24.04.2 | --spades_mode metaviral | docker)
29m 44s
Test nanopore (24.04.2 | --artic_minion_caller medaka --sequencing_summary false --fast5_dir false --artic_minion_medaka_model ./r941_min_high_g360_model.hdf5 --freyja_depthcutoff 1 | docker)
32m 18s
Test nanopore (24.04.2 | --artic_minion_caller medaka --sequencing_summary false --fast5_dir false --artic_minion_medaka_model ./r941_min_high_g360_model.hdf5 --freyja_depthcutoff 1 | docker)
52m 13s
Test parameters (24.04.2 | --skip_plasmidid false --skip_asciigenome | docker)
3m 1s
Test parameters (24.04.2 | --skip_plasmidid false --skip_asciigenome | docker)
31m 3s
Test nanopore (latest-everything | --gff false --freyja_depthcutoff 1 | docker)
32m 16s
Test nanopore (latest-everything | --gff false --freyja_depthcutoff 1 | docker)
1h 2m 45s
Test parameters (24.04.2 | --additional_annotation ./GCA_009858895.3_ASM985889v3_genomic.gtf.gz | docker)
2m 45s
Test parameters (24.04.2 | --additional_annotation ./GCA_009858895.3_ASM985889v3_genomic.gtf.gz | docker)
30m 18s
Test nanopore (latest-everything | --additional_annotation ./GCA_009858895.3_ASM985889v3_genomic.gtf.gz --freyja_depthcutoff 1 | docker)
32m 16s
Test nanopore (latest-everything | --additional_annotation ./GCA_009858895.3_ASM985889v3_genomic.gtf.gz --freyja_depthcutoff 1 | docker)
37m 18s
Test parameters (24.04.2 | --bowtie2_index ./GCA_009858895.3_ASM985889v3_genomic.200409.bt2.index.tar.gz | docker)
3m 1s
Test parameters (24.04.2 | --bowtie2_index ./GCA_009858895.3_ASM985889v3_genomic.200409.bt2.index.tar.gz | docker)
31m 25s
Test nanopore (latest-everything | --input false --freyja_depthcutoff 1 | docker)
32m 16s
Test nanopore (latest-everything | --input false --freyja_depthcutoff 1 | docker)
38m 19s
Test parameters (latest-everything | --consensus_caller ivar | docker)
2m 58s
Test parameters (latest-everything | --consensus_caller ivar | docker)
29m 18s
Test nanopore (latest-everything | --min_barcode_reads 10000 | docker)
3m 53s
Test nanopore (latest-everything | --min_barcode_reads 10000 | docker)
3m 53s
Test parameters (latest-everything | --variant_caller bcftools --consensus_caller ivar | docker)
2m 59s
Test parameters (latest-everything | --variant_caller bcftools --consensus_caller ivar | docker)
29m 10s
Test nanopore (latest-everything | --min_guppyplex_reads 10000 | docker)
8m 31s
Test nanopore (latest-everything | --min_guppyplex_reads 10000 | docker)
8m 31s
Test parameters (latest-everything | --skip_fastp --skip_pangolin | docker)
3m 2s
Test parameters (latest-everything | --skip_fastp --skip_pangolin | docker)
37m 19s
Test nanopore (latest-everything | --artic_minion_caller medaka --sequencing_summary false --fast5_dir false --freyja_depthcutoff 1 | docker)
32m 16s
Test nanopore (latest-everything | --artic_minion_caller medaka --sequencing_summary false --fast5_dir false --freyja_depthcutoff 1 | docker)
54m 58s
Test parameters (latest-everything | --skip_variants | docker)
2m 59s
Test parameters (latest-everything | --skip_variants | docker)
10m 42s
Test nanopore (latest-everything | --artic_minion_caller medaka --sequencing_summary false --fast5_dir false --artic_minion_medaka_model ./r941_min_high_g360_model.hdf5 --freyja_depthcutoff 1 | docker)
31m 59s
Test nanopore (latest-everything | --artic_minion_caller medaka --sequencing_summary false --fast5_dir false --artic_minion_medaka_model ./r941_min_high_g360_model.hdf5 --freyja_depthcutoff 1 | docker)
50m 57s
Test parameters (latest-everything | --skip_cutadapt --skip_snpeff | docker)
2m 59s
Test parameters (latest-everything | --skip_cutadapt --skip_snpeff | docker)
27m 37s
Test parameters (latest-everything | --skip_kraken2 | docker)
3m 0s
Test parameters (latest-everything | --skip_kraken2 | docker)
28m 49s
Test parameters (latest-everything | --skip_assembly | docker)
3m 0s
Test parameters (latest-everything | --skip_assembly | docker)
23m 47s
Test parameters (latest-everything | --spades_mode corona | docker)
2m 59s
Test parameters (latest-everything | --spades_mode corona | docker)
31m 14s
Test parameters (latest-everything | --spades_mode metaviral | docker)
3m 0s
Test parameters (latest-everything | --spades_mode metaviral | docker)
29m 40s
Test parameters (latest-everything | --skip_plasmidid false --skip_asciigenome | docker)
3m 0s
Test parameters (latest-everything | --skip_plasmidid false --skip_asciigenome | docker)
33m 7s
Test parameters (latest-everything | --additional_annotation ./GCA_009858895.3_ASM985889v3_genomic.gtf.gz | docker)
3m 6s
Test parameters (latest-everything | --additional_annotation ./GCA_009858895.3_ASM985889v3_genomic.gtf.gz | docker)
30m 40s
Test parameters (latest-everything | --bowtie2_index ./GCA_009858895.3_ASM985889v3_genomic.200409.bt2.index.tar.gz | docker)
3m 0s
Test parameters (latest-everything | --bowtie2_index ./GCA_009858895.3_ASM985889v3_genomic.200409.bt2.index.tar.gz | docker)
29m 36s
1d 7h 6m 1s