nickjcroucher

Thanks for the question, sorry for the slow response to the original issue - there are three different types of branch length in the output files, so this is certainly...

Updated manual in 1777808af1dc9e7fe82402bd3ca45928ca82814b.

What version of Gubbins are you using?

Thanks - what operating system?

The function is here: https://github.com/nickjcroucher/gubbins/blob/a9d5dcddc2907c87f695eae86805d12959090f12/python/gubbins/utils.py#L97 Is AVX2 listed in the output of `grep flags /proc/cpuinfo`?

Thanks - I see the bug, I'll try to fix ASAP - in the mean time, if you can delete raxmlHPC-PTHREADS-AVX2 and leave raxmlHPC-PTHREADS-AVX, that should work - else IQTREE2...

Sorry if I was unclear - rather than correcting for false positive matches, it would be a correction for multiple substitutions occurring at the same site - this should not...

Happy to take on removal of mash/partial functions, moving visualisation code and test updates - they seem to need your expertise least?

@daler Thanks for your response - it's not my software, but I would like to use it as a dependency for a conda-installable package. I understand your misgivings about modifying...

Thanks @daler - I've now modified the activate script such that it never directly modified the home directory.