Running sh run-TestSet.sh cause error

[OlegKotcar]

(panX) anna@Anna-PC:~/work/pan-genome-analysis$ sudo sh run-TestSet.sh Traceback (most recent call last): File "./panX.py", line 6, in from pangenome_computation import pangenome File "/home/anna/work/pan-genome-analysis/scripts/pangenome_computation.py", line 16, in from sf_gain_loss import process_gain_loss File "/home/anna/work/pan-genome-analysis/scripts/sf_gain_loss.py", line 5, in from treetime import TreeAnc File "build/bdist.linux-x86_64/egg/treetime/init.py", line 4, in ImportError: cannot import name item

Ubuntu 18.04 Treetime 2018-10

[rneher]

If you run from treetime import TreeAnc in your python interpreter, does it work? Try updating TreeTime from pypi.

[OlegKotcar]

No it didn't work.

(base) anna@Anna-PC:~/work$ pip3 install Treetime Collecting Treetime Cache entry deserialization failed, entry ignored Installing collected packages: Treetime Successfully installed Treetime-2018.10

(base) anna@Anna-PC:~/work$ cat ./test.py from Treetime import TreeAnc

(base) anna@Anna-PC:~/work$ python ./test.py Traceback (most recent call last): File "./test.py", line 1, in from Treetime import TreeAnc ModuleNotFoundError: No module named 'Treetime'

[rneher]

the treetime you want is phylo-treetime

pip install phylo-treetime