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Merge pull request #452 from Joon-Klaps/fix-blast-cardinality #1361

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Merge pull request #452 from Joon-Klaps/fix-blast-cardinality

Merge pull request #452 from Joon-Klaps/fix-blast-cardinality #1361

Run time

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Job Run time
Run pipeline with test data (24.04.2 | test | docker)
33m 35s
Test nanopore (24.04.2 | --gff false --freyja_depthcutoff 1 | docker)
23m 39s
Run pipeline with test data (latest-everything | test | docker)
33m 2s
Test parameters (24.04.2 | --consensus_caller ivar | docker)
32m 58s
Test nanopore (24.04.2 | --additional_annotation ./GCA_009858895.3_ASM985889v3_genomic.gtf.gz --freyja_depthcutoff 1 | docker)
26m 12s
Test parameters (24.04.2 | --variant_caller bcftools --consensus_caller ivar | docker)
30m 31s
Test nanopore (24.04.2 | --input false --freyja_depthcutoff 1 | docker)
24m 15s
Test SISPA (24.04.2 | --gff false | docker)
21m 48s
Test parameters (24.04.2 | --skip_fastp --skip_pangolin | docker)
30m 46s
Test nanopore (24.04.2 | --min_barcode_reads 10000 | docker)
6m 41s
Test SISPA (24.04.2 | --genome 'NC_045512.2' | docker)
23m 37s
Test parameters (24.04.2 | --skip_variants | docker)
11m 28s
Test nanopore (24.04.2 | --min_guppyplex_reads 10000 | docker)
7m 33s
Test SISPA (latest-everything | --gff false | docker)
21m 20s
Test parameters (24.04.2 | --skip_cutadapt --skip_snpeff | docker)
30m 1s
Test nanopore (24.04.2 | --artic_minion_caller medaka --sequencing_summary false --fast5_dir false --freyja_depthcutoff 1 | docker)
37m 24s
Test SISPA (latest-everything | --genome 'NC_045512.2' | docker)
24m 5s
Test parameters (24.04.2 | --skip_kraken2 | docker)
32m 36s
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)
40m 30s
Test parameters (24.04.2 | --skip_assembly | docker)
24m 25s
Test nanopore (latest-everything | --gff false --freyja_depthcutoff 1 | docker)
22m 49s
Test parameters (24.04.2 | --spades_mode corona | docker)
33m 17s
Test nanopore (latest-everything | --additional_annotation ./GCA_009858895.3_ASM985889v3_genomic.gtf.gz --freyja_depthcutoff 1 | docker)
25m 57s
Test parameters (24.04.2 | --spades_mode metaviral | docker)
34m 5s
Test nanopore (latest-everything | --input false --freyja_depthcutoff 1 | docker)
27m 10s
Test parameters (24.04.2 | --skip_plasmidid false --skip_asciigenome | docker)
33m 38s
Test nanopore (latest-everything | --min_barcode_reads 10000 | docker)
4m 31s
Test parameters (24.04.2 | --additional_annotation ./GCA_009858895.3_ASM985889v3_genomic.gtf.gz | docker)
34m 43s
Test nanopore (latest-everything | --min_guppyplex_reads 10000 | docker)
7m 48s
Test parameters (24.04.2 | --bowtie2_index ./GCA_009858895.3_ASM985889v3_genomic.200409.bt2.index.tar.gz | docker)
31m 0s
Test nanopore (latest-everything | --artic_minion_caller medaka --sequencing_summary false --fast5_dir false --freyja_depthcutoff 1 | docker)
39m 58s
Test parameters (24.04.2 | --skip_noninternal_primers --threeprime_adapters | docker)
30m 24s
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)
38m 29s
Test parameters (latest-everything | --consensus_caller ivar | docker)
30m 50s
Test parameters (latest-everything | --variant_caller bcftools --consensus_caller ivar | docker)
32m 18s
Test parameters (latest-everything | --skip_fastp --skip_pangolin | docker)
37m 24s
Test parameters (latest-everything | --skip_variants | docker)
13m 37s
Test parameters (latest-everything | --skip_cutadapt --skip_snpeff | docker)
29m 24s
Test parameters (latest-everything | --skip_kraken2 | docker)
34m 40s
Test parameters (latest-everything | --skip_assembly | docker)
25m 15s
Test parameters (latest-everything | --spades_mode corona | docker)
32m 51s
Test parameters (latest-everything | --spades_mode metaviral | docker)
31m 21s
Test parameters (latest-everything | --skip_plasmidid false --skip_asciigenome | docker)
34m 11s
Test parameters (latest-everything | --additional_annotation ./GCA_009858895.3_ASM985889v3_genomic.gtf.gz | docker)
31m 24s
Test parameters (latest-everything | --bowtie2_index ./GCA_009858895.3_ASM985889v3_genomic.200409.bt2.index.tar.gz | docker)
31m 26s
Test parameters (latest-everything | --skip_noninternal_primers --threeprime_adapters | docker)
29m 53s
21h 14m 49s