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New ivar_variants_to_vcf.py #173

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New ivar_variants_to_vcf.py

New ivar_variants_to_vcf.py #173

Run time

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Job Run time
Run pipeline with test data (23.04.0)
21m 9s
Run pipeline with test data (23.04.0)
21m 9s
Test workflow parameters (--consensus_caller ivar)
2m 56s
Test workflow parameters (--consensus_caller ivar)
25m 1s
Run pipeline with test data (latest-everything)
20m 53s
Run pipeline with test data (latest-everything)
20m 53s
Test workflow parameters (--variant_caller bcftools --consensus_caller ivar)
2m 55s
Test workflow parameters (--variant_caller bcftools --consensus_caller ivar)
2m 55s
Test SISPA workflow (--gff false)
13m 48s
Test SISPA workflow (--gff false)
13m 48s
Test Nanopore workflow (--gff false)
21m 51s
Test Nanopore workflow (--gff false)
21m 51s
Test workflow parameters (--skip_fastp --skip_pangolin)
2m 55s
Test workflow parameters (--skip_fastp --skip_pangolin)
2m 55s
Test Nanopore workflow (--additional_annotation ./GCA_009858895.3_ASM985889v3_genomic.gtf.gz)
22m 18s
Test Nanopore workflow (--additional_annotation ./GCA_009858895.3_ASM985889v3_genomic.gtf.gz)
22m 18s
Test workflow parameters (--skip_variants)
2m 56s
Test workflow parameters (--skip_variants)
2m 56s
Test Nanopore workflow (--input false)
21m 27s
Test Nanopore workflow (--input false)
21m 27s
Test workflow parameters (--skip_cutadapt --skip_snpeff)
2m 55s
Test workflow parameters (--skip_cutadapt --skip_snpeff)
2m 55s
Test Nanopore workflow (--min_barcode_reads 10000)
1m 37s
Test Nanopore workflow (--min_barcode_reads 10000)
1m 37s
Test SISPA workflow (--genome 'NC_045512.2')
13m 39s
Test SISPA workflow (--genome 'NC_045512.2')
13m 39s
Test workflow parameters (--skip_kraken2)
2m 54s
Test workflow parameters (--skip_kraken2)
2m 54s
Test Nanopore workflow (--min_guppyplex_reads 10000)
3m 29s
Test Nanopore workflow (--min_guppyplex_reads 10000)
3m 29s
Test workflow parameters (--skip_assembly)
2m 55s
Test workflow parameters (--skip_assembly)
2m 55s
Test Nanopore workflow (--artic_minion_caller medaka --sequencing_summary false --fast5_dir false)
27m 38s
Test Nanopore workflow (--artic_minion_caller medaka --sequencing_summary false --fast5_dir false)
27m 38s
Test workflow parameters (--spades_mode corona)
2m 47s
Test workflow parameters (--spades_mode corona)
2m 47s
Test Nanopore workflow (--artic_minion_caller medaka --sequencing_summary false --fast5_dir false...
27m 31s
Test Nanopore workflow (--artic_minion_caller medaka --sequencing_summary false --fast5_dir false...
27m 31s
Test workflow parameters (--spades_mode metaviral)
2m 55s
Test workflow parameters (--spades_mode metaviral)
2m 55s
Test workflow parameters (--skip_plasmidid false --skip_asciigenome)
2m 36s
Test workflow parameters (--skip_plasmidid false --skip_asciigenome)
2m 36s
Test workflow parameters (--additional_annotation ./GCA_009858895.3_ASM985889v3_genomic.gtf.gz)
2m 56s
Test workflow parameters (--additional_annotation ./GCA_009858895.3_ASM985889v3_genomic.gtf.gz)
2m 56s
7h 56m 5s