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Merge pull request #396 from drpatelh/nextclade

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Update default Nextclade dataset to 2022-06-14T12:00:00Z
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Alexander Peltzer 2022-07-12 10:19:15 +02:00 committed by GitHub
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8
conf/pipeline/viralrecon/genomes.config
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@ -13,18 +13,18 @@ params {
// Please use 'MN908947.3' if possible because all primer sets are available / have been pre-prepared relative to that assembly // Please use 'MN908947.3' if possible because all primer sets are available / have been pre-prepared relative to that assembly
fasta = 'https://github.com/nf-core/test-datasets/raw/viralrecon/genome/NC_045512.2/GCF_009858895.2_ASM985889v3_genomic.200409.fna.gz' fasta = 'https://github.com/nf-core/test-datasets/raw/viralrecon/genome/NC_045512.2/GCF_009858895.2_ASM985889v3_genomic.200409.fna.gz'
gff = 'https://github.com/nf-core/test-datasets/raw/viralrecon/genome/NC_045512.2/GCF_009858895.2_ASM985889v3_genomic.200409.gff.gz' gff = 'https://github.com/nf-core/test-datasets/raw/viralrecon/genome/NC_045512.2/GCF_009858895.2_ASM985889v3_genomic.200409.gff.gz'
nextclade_dataset = 'https://github.com/nf-core/test-datasets/raw/viralrecon/genome/MN908947.3/nextclade_sars-cov-2_MN908947_2022-01-18T12_00_00Z.tar.gz' nextclade_dataset = 'https://github.com/nf-core/test-datasets/raw/viralrecon/genome/MN908947.3/nextclade_sars-cov-2_MN908947_2022-06-14T12_00_00Z.tar.gz'
nextclade_dataset_name = 'sars-cov-2' nextclade_dataset_name = 'sars-cov-2'
nextclade_dataset_reference = 'MN908947' nextclade_dataset_reference = 'MN908947'
nextclade_dataset_tag = '2022-01-18T12:00:00Z' nextclade_dataset_tag = '2022-06-14T12:00:00Z'
} }
'MN908947.3' { 'MN908947.3' {
fasta = 'https://github.com/nf-core/test-datasets/raw/viralrecon/genome/MN908947.3/GCA_009858895.3_ASM985889v3_genomic.200409.fna.gz' fasta = 'https://github.com/nf-core/test-datasets/raw/viralrecon/genome/MN908947.3/GCA_009858895.3_ASM985889v3_genomic.200409.fna.gz'
gff = 'https://github.com/nf-core/test-datasets/raw/viralrecon/genome/MN908947.3/GCA_009858895.3_ASM985889v3_genomic.200409.gff.gz' gff = 'https://github.com/nf-core/test-datasets/raw/viralrecon/genome/MN908947.3/GCA_009858895.3_ASM985889v3_genomic.200409.gff.gz'
nextclade_dataset = 'https://github.com/nf-core/test-datasets/raw/viralrecon/genome/MN908947.3/nextclade_sars-cov-2_MN908947_2022-01-18T12_00_00Z.tar.gz' nextclade_dataset = 'https://github.com/nf-core/test-datasets/raw/viralrecon/genome/MN908947.3/nextclade_sars-cov-2_MN908947_2022-06-14T12_00_00Z.tar.gz'
nextclade_dataset_name = 'sars-cov-2' nextclade_dataset_name = 'sars-cov-2'
nextclade_dataset_reference = 'MN908947' nextclade_dataset_reference = 'MN908947'
nextclade_dataset_tag = '2022-01-18T12:00:00Z' nextclade_dataset_tag = '2022-06-14T12:00:00Z'
primer_sets { primer_sets {
artic { artic {
'1' { '1' {