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Repository for Pipe API wrappers for bioinformatics tools #1314
Thinking about #1313, and also some experiments with the Pipe API https://github.com/heuermh/adam-snpeff and https://github.com/heuermh/adam-dishevelled-bio, I wonder if we should create a new Maven module or new repository for Pipe API wrappers for bioinformatics tools. Such could be popular with external collaborators. A flag for using local binaries vs. call via docker would be useful.
To extend the example to a real tool, imagine Args4J options matching all the tool command line options, those would then populate the string command before calling
I think though that the cannoli API should be more narrow than