Python package for building, comparing, annotating, manipulating and visualising trees. It provides a comprehensive API and a collection of command line tools, including utilities to work with the NCBI taxonomy tree.
When I try to use the run_model function I get the following error.
Traceback (most recent call last):
File "/home/users/rrpinto/anaconda3/envs/ete3/lib/python3.8/multiprocessing/pool.py", line 125, in worker
result = (True, func(*args, **kwds))
File "/home/users/rrpinto/anaconda3/envs/ete3/lib/python3.8/multiprocessing/pool.py", line 48, in mapstar
return list(map(*args))
File "ete3_custom_pipeline.py", line 56, in run_model
tree.run_model(model_name)
File "/home/users/rrpinto/anaconda3/envs/ete3/lib/python3.8/site-packages/ete3-3.1.2-py3.7.egg/ete3/evol/evoltree.py", line 269, in run_model
self.link_to_evol_model(os.path.join(fullpath,'out'), model_obj)
File "/home/users/rrpinto/anaconda3/envs/ete3/lib/python3.8/site-packages/ete3-3.1.2-py3.7.egg/ete3/evol/evoltree.py", line 436, in link_to_evol_model
model._load(path)
File "/home/users/rrpinto/anaconda3/envs/ete3/lib/python3.8/site-packages/ete3-3.1.2-py3.7.egg/ete3/evol/model.py", line 163, in _load
parse_paml(path, self)
File "/home/users/rrpinto/anaconda3/envs/ete3/lib/python3.8/site-packages/ete3-3.1.2-py3.7.egg/ete3/evol/parser/codemlparser.py", line 253, in parse_paml
_check_paml_labels (model._tree, labels, pamout, model)
File "/home/users/rrpinto/anaconda3/envs/ete3/lib/python3.8/site-packages/ete3-3.1.2-py3.7.egg/ete3/evol/parser/codemlparser.py", line 303, in _check_paml_labels
if int (node.up.node_id) != int (rel[0]):
AttributeError: 'NoneType' object has no attribute 'up'
I have checked the tree and it seems to be fine.
What could be the problem?
When I try to use the run_model function I get the following error.
I have checked the tree and it seems to be fine. What could be the problem?