New ivar_variants_to_vcf.py #178

Job	Run time
Run pipeline with test data (23.04.0)	11m 45s
Run pipeline with test data (latest-everything)	11m 45s
Test workflow parameters (--consensus_caller ivar)	11m 44s
Test Nanopore workflow (--gff false)	11m 43s
Test workflow parameters (--variant_caller bcftools --consensus_caller ivar)	9m 47s
Test SISPA workflow (--gff false)	11m 45s
Test Nanopore workflow (--additional_annotation ./GCA_009858895.3_ASM985889v3_genomic.gtf.gz)	11m 45s
Test workflow parameters (--skip_fastp --skip_pangolin)	11m 46s
Test SISPA workflow (--genome 'NC_045512.2')	11m 45s
Test Nanopore workflow (--input false)	11m 49s
Test workflow parameters (--skip_variants)	9m 14s
Test Nanopore workflow (--min_barcode_reads 10000)	1m 45s
Test workflow parameters (--skip_cutadapt --skip_snpeff)	11m 42s
Test Nanopore workflow (--min_guppyplex_reads 10000)	3m 46s
Test workflow parameters (--skip_kraken2)	11m 43s
Test Nanopore workflow (--artic_minion_caller medaka --sequencing_summary false --fast5_dir false)	11m 47s
Test workflow parameters (--skip_assembly)	11m 43s
Test Nanopore workflow (--artic_minion_caller medaka --sequencing_summary false --fast5_dir false...	11m 47s
Test workflow parameters (--spades_mode corona)	9m 49s
Test workflow parameters (--spades_mode metaviral)	29s
Test workflow parameters (--skip_plasmidid false --skip_asciigenome)	11m 45s
Test workflow parameters (--additional_annotation ./GCA_009858895.3_ASM985889v3_genomic.gtf.gz)	11m 42s
	3h 42m 46s

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