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Build a container from Conda packages

The Wave CLI supports building a container from a list of Conda packages.

Conda builds support the following arguments:

  • --conda-base-image: A base image for installing Conda packages. The default value is mambaorg/micromamba:1.5.1.
  • --conda-channels: One or more comma separated channels. The default value is seqera,bioconda,conda-forge,defaults.
  • --conda-file: A Conda lock file. Can be a local file or a URL to a remote file.
  • --conda-package: A Conda package to install. Can be specified multiple times. Expression are supported, such as bioconda::samtools=1.17 or samtools>=1.0,<1.17.
  • --conda-run-command: A Docker RUN command used when the container is built. Can be specified multiple times.

Example usage​

In the following example, a container with the samtools and bamtools packages is built:

wave \
  --conda-package bamtools=2.5.2 \
  --conda-package samtools=1.17