tags 859111 pending thanks > bowtie2 2.3.1 introduced different default values for one of the > parameters [1], it might be likely that it's connected to that. I > have contacted upstream
Upstream have added support for Bowtie2 2.3.1 [1] and I can confirm that the tests -- and hence the build -- are fixed using this latest version. Updated Debian package currently in experimental, will upload to unstable once the freeze is over. Cheers Sascha [1] https://github.com/sanger-pathogens/ariba/issues/170
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