Chris Wright

Hi @cjchen5, I apologise for the lack of response here. I can give some insight into what may be happening here if it is still useful. I suspect that this...

Hi @jessydit, Apologies for the lack of response here. I agree with you observations and possible rationale for the difficulties you are having. Deciding which reads it is meaningful to...

Use of medaka on ARM is only experimentally supported. We have been able to make it work in the past with some modifications to the build process. From my notes...

@SemiQuant Have you had any luck here, I tried yesterday and got stuck when Python's build system was failing to compile h5py 2.10 from source. It wasn't giving any helpful...

Hi @EinarBaldvin, Thank you for filling in the issue template, it really helps to diagnose issues. Can you confirm how you have calculated your accuracy and completeness statistics? The completeness...

@EinarBaldvin your heterozygosity numbers aren't far off numbers for human genomes, which can be assembled fairly straight-forwardly with flye to obtain higher accuracies without further polishing work. Again I don't...

Apologies I neglected a response here. Have you managed to improve your assemblies in the mean time? I think the central issue here is similar to that I just expressed...

Hi @ccoulombe Thanks for this report. I wasn't aware that the htslib build will automatically try to use libdeflate if its present, only that there was an option to enable...

Before accepting this it would be preferable that the behaviour (libhts options) were more explicit. With all the automatic checks going on in the libhts autoconf build its perfectly possible...

@ccoulombe I'm cleaning up medaka issues and PRs. Our build process now compiles libdeflate, the only reason a system libdeflate wasn't being linked was because one wasn't available inside the...