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genome-nexus / genome-nexus-annotation-pipeline

Library and tool for annotating MAF files using Genome Nexus Webserver API
MIT License
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Add command parameter groups #266

Open leexgh opened 9 months ago

leexgh commented 9 months ago

We have more and more parameters now that are a bit hard to track, the idea is to create a few groups for command parameters: for example:

--minimal activate minimal set of annotation columns
--full add all available annotation columns
--debug add all available annotation columns, and need to specify the log file and error report file, can also extend to different levels of logging (https://github.com/genome-nexus/genome-nexus-annotation-pipeline/issues/247)