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build snpeff database at installation not run time. #78
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I do it for the version we run at the Genome Center by adding that line at the end of the Dockerfile:
and removing rules |
The (1) Yes, if there is no internet access and the snpeff db has not been download before hand it will fail. (2) This would be correct assuming the container was not a copy that already had the snpeff db downloaded. (3) Does the other user have access to the It seems like you installed snpeff outside |
Question, Then for your question, it is installed in the conda environment since the |
Right now snpeff download its database at run time. And on top of that it installs it in the
CONDA_PREFIX
folderThere are at least three cases where this will crash the pipeline.
1- When the pipeline is ran on a system with no internet access.
2- When the pipeline is ran in a (read only) container
3- When conda is installed as one user and the pipeline in ran as another user.
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