3.0.1
CLI
Bug fixes
-
Fixed a bug introduced in v3.0.0 which caused the default path for translations to be incorrect. This affected only users who used
--output-all
without passing a custom path template via--output-translations
. The new default path isnextclade.cds_translation.{cds}.fasta
where{cds}
gets replaced with the name of the CDS, e.g.nextclade.cds_translation.S.fasta
for SARS-CoV-2's spike protein. -
Fixed a bug where
nextclade dataset get
command fails to download a dataset if a dataset has more than one version released.
Documentation
- Added a section to the v3 migration guide about the renamed default path for translations, a breaking change. The new default output path for translations is
nextclade.cds_translation.{cds}.fasta
. Before v3, the default path wasnextclade_gene_{gene}.translation.fasta
. You can emulate the old (default) behavior by passing--output-translations="nextclade_gene_{cds}.translation.fasta"
tonextclade3
.
Instructions
📥 Nextclade CLI can be downloaded from the links in the "Assets" section just below. Note the difference in operating systems and computer architectures.
🌐 Nextclade Web is available at https://clades.nextstrain.org
🐋 Docker images are available at DockerHub
📚 To understand how it all works, make sure to read the Documentation