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ContentMine / phylotree

A repository for ami-phylotree development
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Serious design flaw in `cmine`+`ami-phylo` #50

Open petermr opened 9 years ago

petermr commented 9 years ago

See https://github.com/petermr/cmine/issues/2

The main loop over multiple CTrees should include all processing. Currently ami-phylo executes runAndOutput() over multiple CTrees and then runs the NexML analysis. This means that only the last CTree is analyzed.

Solution: (a) immediate. break processImage() in ami-phylo into per-CTree modules (driven by args.xml (b) medium separate argProcessor from per-CTree analyses.