update nextclade datasets #1378
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jfy133
requested changes
Nov 5, 2024
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Please forgive my editor config reformatting the md file. |
jfy133
approved these changes
Nov 5, 2024
| * `GCF_014621545.1_ASM1462154v1_genomic.<DOWNLOAD_DATE>.gff.gz`: Monkeypox genome GFF3 annotation file downloaded directly via [NCBI FTP](https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/621/545/GCF_014621545.1_ASM1462154v1/GCF_014621545.1_ASM1462154v1_genomic.gff.gz) | ||
| - `GCF_014621545.1_ASM1462154v1_genomic.<DOWNLOAD_DATE>.fna.gz`: Monkeypox genome fasta file downloaded directly via [NCBI FTP](https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/621/545/GCF_014621545.1_ASM1462154v1/GCF_014621545.1_ASM1462154v1_genomic.fna.gz) | ||
| - `GCF_014621545.1_ASM1462154v1_genomic.<DOWNLOAD_DATE>.gff.gz`: Monkeypox genome GFF3 annotation file downloaded directly via [NCBI FTP](https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/621/545/GCF_014621545.1_ASM1462154v1/GCF_014621545.1_ASM1462154v1_genomic.gff.gz) | ||
| - `nextclade_hMPXV_NC_063383.1_2024-08-27--21-28-04Z.tar.gz`: A set of input data files required for Nextclade to run an analysis on MPOX. Previous format did not require `pathogen.json` file but from v3+ it is required. File was created with `nextclade dataset get -n MPXV --tag 2024-08-27--21-28-04Z`. |
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Is the previous version lsited somewhere 🤔 ?
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Linked to nf-core/viralrecon#446 |
9 tasks
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The current version of viralrecon uses nextclade v2.12.0, which is incompatible with these v3 style references. If we update these configuration, won't this break the current viralrecon release? |
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Add nextclade test datasets to be compatible with v3+ of nextclade