Benjamin Buchfink
Benjamin Buchfink
No sorry, this has not been added.
Hi Terry, I just added the latex sources to the repository under doc/, feel free to edit it and submit a pull request. Thanks for all your other feedback, I'll...
I have been wanting to move to Markdown for some time actually, may as well do it now. I have converted the latex to markdown using pandoc and put it...
Back to your questions about the SAM format, it was pretty much only included for importing into MEGAN, which required the format to be like that. Looks like you already...
I have seen the same effect on our EPYC systems but the reason is not clear to me. All cores seem to be running at max with no obvious bottlenecks...
Diamond does not use the MKL library so this will have no effect. It does use AVX2 also on EPYC systems. I will have to look into this more closely...
I have tested this on one of our 128-core EPYC servers using another tool (mmseqs2), searching 1 million proteins against the UniRef50 at sensitivity `-s3`. Timing for identical runs using...
Our server runs Ubuntu 18.04. No I don't see how this should be caused by the C++ language.
I did some more testing and I can confirm that there is suboptimal core utilization for short read alignment when using 256 threads. I will work on improving this. For...
No it's not possible at the moment.