view test-data/hivclustering-out2.json @ 0:ef842bb94d1f draft default tip

planemo upload for repository https://github.com/veg/hivclustering/ commit 7d666f963da2c5e3b17c313526cc6169f3242c3c
author iuc
date Thu, 14 Jun 2018 07:04:38 -0400
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