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New ivar_variants_to_vcf.py #174

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New ivar_variants_to_vcf.py

New ivar_variants_to_vcf.py #174

Run time

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Job Run time
Run pipeline with test data (23.04.0)
22m 1s
Run pipeline with test data (23.04.0)
22m 1s
Test Nanopore workflow (--gff false)
21m 20s
Test Nanopore workflow (--gff false)
21m 20s
Run pipeline with test data (latest-everything)
22m 18s
Run pipeline with test data (latest-everything)
22m 18s
Test workflow parameters (--consensus_caller ivar)
16m 39s
Test workflow parameters (--consensus_caller ivar)
22m 42s
Test Nanopore workflow (--additional_annotation ./GCA_009858895.3_ASM985889v3_genomic.gtf.gz)
22m 41s
Test Nanopore workflow (--additional_annotation ./GCA_009858895.3_ASM985889v3_genomic.gtf.gz)
22m 41s
Test workflow parameters (--variant_caller bcftools --consensus_caller ivar)
16m 38s
Test workflow parameters (--variant_caller bcftools --consensus_caller ivar)
16m 38s
Test Nanopore workflow (--input false)
21m 40s
Test Nanopore workflow (--input false)
21m 40s
Test workflow parameters (--skip_fastp --skip_pangolin)
16m 40s
Test workflow parameters (--skip_fastp --skip_pangolin)
16m 40s
Test SISPA workflow (--gff false)
13m 57s
Test SISPA workflow (--gff false)
13m 57s
Test Nanopore workflow (--min_barcode_reads 10000)
2m 1s
Test Nanopore workflow (--min_barcode_reads 10000)
2m 1s
Test workflow parameters (--skip_variants)
9m 34s
Test workflow parameters (--skip_variants)
9m 34s
Test SISPA workflow (--genome 'NC_045512.2')
13m 28s
Test SISPA workflow (--genome 'NC_045512.2')
13m 28s
Test Nanopore workflow (--min_guppyplex_reads 10000)
3m 38s
Test Nanopore workflow (--min_guppyplex_reads 10000)
3m 38s
Test workflow parameters (--skip_cutadapt --skip_snpeff)
16m 41s
Test workflow parameters (--skip_cutadapt --skip_snpeff)
16m 41s
Test Nanopore workflow (--artic_minion_caller medaka --sequencing_summary false --fast5_dir false)
28m 9s
Test Nanopore workflow (--artic_minion_caller medaka --sequencing_summary false --fast5_dir false)
28m 9s
Test workflow parameters (--skip_kraken2)
16m 40s
Test workflow parameters (--skip_kraken2)
16m 40s
Test Nanopore workflow (--artic_minion_caller medaka --sequencing_summary false --fast5_dir false...
27m 3s
Test Nanopore workflow (--artic_minion_caller medaka --sequencing_summary false --fast5_dir false...
27m 3s
Test workflow parameters (--skip_assembly)
16m 23s
Test workflow parameters (--skip_assembly)
16m 23s
Test workflow parameters (--spades_mode corona)
16m 38s
Test workflow parameters (--spades_mode corona)
16m 38s
Test workflow parameters (--spades_mode metaviral)
16m 33s
Test workflow parameters (--spades_mode metaviral)
16m 33s
Test workflow parameters (--skip_plasmidid false --skip_asciigenome)
16m 38s
Test workflow parameters (--skip_plasmidid false --skip_asciigenome)
16m 38s
Test workflow parameters (--additional_annotation ./GCA_009858895.3_ASM985889v3_genomic.gtf.gz)
16m 41s
Test workflow parameters (--additional_annotation ./GCA_009858895.3_ASM985889v3_genomic.gtf.gz)
16m 41s
12h 34m 5s