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@nextstrain-bot nextstrain-bot released this 21 Oct 23:19
3.9.0
a5e7200

Nextclade 3.9.0

Nextclade CLI: Obtain CA certificates from platform trust store; add NEXTCLADE_EXTRA_CA_CERTS / --extra-ca-certs

Nextclade CLI users have previously reported issues with CA certificates when fetching datasets from an organization's network (e.g. in a university or in a company).

Starting with this version, Nextclade CLI respects the OS-level trust store configurations. This includes private CAs and self-signed certificates. Ensures backward compatibility and functionality across different platforms, including those lacking a native trust store or with outdated ones.

We introduced a NEXTCLADE_EXTRA_CA_CERTS environment variable and --extra-ca-certs option which allow adding additional CA certificates to the trust store specifically for Nextclade, for when modifying the system's trust store isn't desirable/possible. See #1536 for more details.

Update Auspice tree visualization to 2.58.0

Auspice tree visualization package has been updated from 2.56.0 to 2.58.0. See Auspice changelog here.

Installation and usage

📚 Documentation: docs.nextstrain.org/projects/nextclade

🌍 Nextclade Web: clades.nextstrain.org

🖥️ Nextclade CLI:

  • 📥 Standalone native executables can be downloaded using the links in the "Assets" section just below. Mind the different operating systems and computer architectures.
  • 🐋 Docker images are available on DockerHub
  • 🐍 Conda package is available in bioconda channel.
Assets 9
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