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nextstrain / conda-base

Conda package build for nextstrain-base
https://anaconda.org/Nextstrain/nextstrain-base
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fix: pin pulp<2.8, required by snakemake #53

Closed corneliusroemer closed 8 months ago

corneliusroemer commented 8 months ago

Pulp 2.8.0 breaks snakemake. We need to pin until we upgrade snakemake to a version that is compatible with recent versions of pulp again. See https://github.com/snakemake/snakemake/issues/2607 We might need to make a similar change to docker-base

victorlin commented 8 months ago

Without this fix, CI errors during Nextstrain CLI setup in each test-pathogen-repo-ci job:

Checking setup…
✔ yes: operating system is supported
✔ yes: runtime data dir doesn't have spaces
✔ yes: runtime appears set up
✘ no: snakemake is installed and runnable
✔ yes: augur is installed and runnable
✔ yes: auspice is installed and runnable

Checks failed!  Setup is unlikely to be fully functional.