variance output is NA

[Erythroxylum]

Thanks for the useful scripts! The var output for my newick trees has 'NA' for the variance column; tree length prints properly. I have played with different rooted and unrooted versions of the newick trees and always have the same problem.

I can run get_var_length.py with the example/genestrees/*.tre.rr and the script works normally.
I can run pxlstr -v and the variance prints normally. So I will proceed via this route.
Python 3.7.12

[hmqmuyang]

Hi Erythroxylum！

I also encountered the same problem.
Did you solve this problem?

[Erythroxylum]

Hello. I think I ended up just running the phyx scripts independently to build the table. The sortadate scripts did not work.

…

On Tue, Sep 20, 2022 at 6:02 AM hmqmuyang ***@***.***> wrote: Hi Erythroxylum！ I also encountered the same problem. Did you solve this problem? — Reply to this email directly, view it on GitHub <#7 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ABLR5LRLETE7PLTZOYZNMJDV7GDRXANCNFSM52NOK3JQ> . You are receiving this because you authored the thread.Message ID: ***@***.***>

[hmqmuyang]

Thanks！
Could you please share with me your script to run phyx？
I will thank you very much，

Hello. I think I ended up just running the phyx scripts independently to build the table. The sortadate scripts did not work.
…
On Tue, Sep 20, 2022 at 6:02 AM hmqmuyang @.> wrote: Hi Erythroxylum！ I also encountered the same problem. Did you solve this problem? — Reply to this email directly, view it on GitHub <#7 (comment)>, or unsubscribe https://github.com/notifications/unsubscribe-auth/ABLR5LRLETE7PLTZOYZNMJDV7GDRXANCNFSM52NOK3JQ . You are receiving this because you authored the thread.Message ID: @.>

[jeniferclopes]

Hi hmqmuyang and everyone!

I had this problem too. I rooted the gene trees on R, but apparently SortaDate doesn't recognize it. You have to do it with one of the programs of phyx using this code:

pxrr -t Filename.tre.rr -g Outgroup -o Filename_rooted.tre.rr

Cheers,