millironx/nf-configs
1
0
Fork 0
mirror of https://github.com/MillironX/nf-configs.git synced 2024-11-22 00:26:03 +00:00
Code Issues Releases Packages Activity

Merge pull request #316 from drpatelh/nextclade

Browse source 
Add --nextclade_dataset params
This commit is contained in:
Harshil Patel 2022-01-17 17:35:31 +00:00 committed by GitHub
commit c49abc2e61
No known key found for this signature in database
GPG key ID: 4AEE18F83AFDEB23
1 changed files with 2 additions and 0 deletions
Show stats Download patch file Download diff file Expand all files Collapse all files

2
conf/pipeline/viralrecon/genomes.config
View file

@ -13,6 +13,7 @@ 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_2022-01-05T19_54_31Z.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 = '2022-01-05T19:54:31Z' nextclade_dataset_tag = '2022-01-05T19:54:31Z'
@ -20,6 +21,7 @@ params {
'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_2022-01-05T19_54_31Z.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 = '2022-01-05T19:54:31Z' nextclade_dataset_tag = '2022-01-05T19:54:31Z'