Skip to content

CalGTProb not finishing #14

@thm52126

Description

@thm52126

Hello,
I am trying to calculate the log likelihood of a set of networks given a list of gene trees. The trees consist of 9 tips, all of which with no missing data. I collapsed all poorly supported branches (BS<50). I am trying to calculate log likelihood on networks with 0 to 5 reticulation events, and this analysis runs pretty quickly for networks with 0,1,2,3, and 5 reticulation events. However, I can never get the one with 4 to finish, even when using 64 CPUs, 4 GBs per CPU. My first run was with around 1950 gene trees, and then I decided that perhaps this was not computationally feasible, so I randomly selected 500, but my runs still go until they timeout. Is this truly not computationally feasible, or am I perhaps running into some bug that I cannot detect? I have attached these nexus files as text files below (NEXUS extension not supported). Thank you for your help.

500random_ret4_9_50col_getProb.txt
500random_ret3_9_50col_getProb.txt

Here is the run with 4 events with ~1950 gene trees:

ret0_9_50col_getProb.txt

Metadata

Metadata

Assignees

No one assigned

    Labels

    No labels
    No labels

    Type

    No type

    Projects

    No projects

    Milestone

    No milestone

    Relationships

    None yet

    Development

    No branches or pull requests

    Issue actions