Attribute error about treetime HOT 8 CLOSED

Your alignment didn't load. see the second line of the output. But thanks for pointing it out -- I have to improve error handling.

from treetime.

Do you have any idea why the alignment did not load? I tried phylip and aln file formats so I don't understand why it wont read any of them.
I also tried using python by importing TreeAnc from treetime but here is the error that came up:

>>> from treetime import TreeAnc
Traceback (most recent call last):
  File "<pyshell#0>", line 1, in <module>
    from treetime import TreeAnc
ImportError: cannot import name 'TreeAnc'

from treetime.

1. it checks whether it can read them as fasta, phylib-relaxed or nexus.
   https://github.com/neherlab/treetime/blob/master/treetime/treeanc.py#L271
   Try loading your alignment with Bio.AlignIO.read first.
2. are you sure you are using the right python distribution? The previous script evidently loaded TreeAnc

from treetime.

Bio.AlignIO.read was able to load the alignment file just fine.

from treetime.

sorry. I only ever tested fasta format. there was an obvious problem reading other formats than fasta. I just pushed a fix in a0ca5b5. You can either reinstall HEAD, or use fasta format.

from treetime.

Alright, thank you.

from treetime.

thanks, my bad! very useful to get these reports.

from treetime.

Thanks for helping out too. Will try using a fasta format

from treetime.