Comments (2)
Hi @lskatz - Judging from the output you've shown, this is a small amount of sequence data for a Kraken database. You might want to try adjusting the minimizer length to something smaller than the default if you haven't already. There might be an issue within the sorting step that has trouble with empty minimizer bins (although I'm only guessing - it's been quite a while since I've tried a small DB with Kraken 1).
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Thank you! This seems to have fixed the build step! I tried a minimizer length of 9 as a start and it worked! https://github.com/lskatz/Kalamari/runs/3194952916?check_suite_focus=true#step:13:162
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Related Issues (20)
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