ERROR

[Karla Vargas]

Hello, 

I keep getting the error that the program couldn’t find GLIBC_2.14. I was able to install glib 2.14, but Pf2 still found the same error. 

Any suggestions would be appreciated!!!

Thank you!!!!!

Karla

INFO     | 2021-03-07 10:39:20,954 | ------------------------ BEGINNING NEW RUN -----------------------

INFO     | 2021-03-07 10:39:20,954 | Looking for alignment file './test.phy'...

INFO     | 2021-03-07 10:39:20,954 | Using 28 cpus

INFO     | 2021-03-07 10:39:20,955 | Beginning Analysis

INFO     | 2021-03-07 10:39:21,009 | Reading alignment file './test.phy'

INFO     | 2021-03-07 10:39:21,024 | Starting tree will be estimated from the data.

INFO     | 2021-03-07 10:39:21,027 | Estimating Maximum Likelihood tree with RAxML fast experimental tree search for ./analysis/start_tree/filtered_source.phy

INFO     | 2021-03-07 10:39:21,031 | Using a separate GTR+G model for each data block

ERROR    | 2021-03-07 10:39:21,065 | A program that Partitionfinder uses failed. Output follows, in case it's helpful for finding the problem

ERROR    | 2021-03-07 10:39:21,065 | /xdisk/pf2/partitionfinder-2.1.1/programs/raxml_pthreads.linux: /lib64/libc.so.6: version `GLIBC_2.14' not found (required by /xdisk/pf2/partitionfinder-2.1.1/programs/raxml_pthreads.linux)

ERROR    | 2021-03-07 10:39:21,066 |

[Rob Lanfear]

Hi Karla,

This is happening because the version of RAxML that's included in PF2 doesn't work on all systems (including yours, sorry). In this case you need to download and compile RAxML yourself.

Instructions for doing that are here:

https://github.com/brettc/partitionfinder/tree/master/programs

Rob 

[Karla Vargas]

Hello Rob, 

Thank you so much for the reply. I checked the Notes on phyml and raxml in the link you provided and it says to download the version of RAxML from the commit linked that is provided  (https://github.com/stamatak/standard-RAxML/commit/5d9558ac18ddb2c69dd75a9dc971bcf541bbfeb2). However, when I checked that link it doesn't show anything to download. I could be missing something here but I think the link might be outdated.  If not, would you be so kind as to indicate where I find the files to download from that commit??? 

Thank you so much for your help!

Karla

[Rob Lanfear]

Hi Karla,

Instructions for using Git & GitHub to do this are here: https://stackoverflow.com/questions/7832770/how-to-get-certain-commit-from-github-project

Cheers,

Rob

[Karla Vargas]

Great! Thank you so much!!!!!!!!
Karla