Open pollicipes opened 2 years ago
Hi Juan - Thank you so much for your effort. This is super cool. Would you mind if we include your conda installation tutorial in the README of Phylo-HMRF and acknowledge that you made this available? Thank you again for your generous help. We hope the method is useful for your work.
Best, Jian Ma
Dear Jian Ma,
Of course, please go ahead! And feel free to modify the recipe to your convenience, or if you think something can be improved.
And thank you for your positive response, glad you liked it!! :) Best, Juan
Dear Yang Yang,
This may be a bit random of an issue, but I thought I would like to simply share the following with the
Phylo-HMRF
community.First of all, I honestly believe that
Phylo-HMRF
is a very nice tool, with a great potential. Congrats on the work and the idea!I've spent a couple of days struggling to install the package and trying to make it work, thus I thought that it could be worth sharing this modest tutorial install guide... Not sure if it will be a universal solution, but it worked in our Linux cluster and could also serve as an inspiration. ;)
I thought that the easiest would be to put it into a
conda
environment. Note that some package versions are not exactly the same as the ones Yang Yang used because they were not available throughconda
and I wanted to stick to it as much as possible, but the test run with theexample_input
provided by the authors worked perfectly (~30 minutes on an 8 CPU, 24Gb machine).Hope someone finds it useful! I am also attaching the yaml file, obtained from my work environment (seems like *.yaml extension files can't be uploaded in here, so just change the extension to that.) phyloHMRF.txt
Thank you so much, Yang!
Cheers, Juan