stevemussmann / faststructure3 Goto Github PK

Hi,

I've had some issues with fastStructure3. fastStructure only seemed to work with python3.6 or lower. I found out that it is an issue with the setup.py scripts. In the newer versions the command 'include_dirs' is supposed to be in the Extension and not in the setup function. Can this be changed so that it's usable for the newer Python versions? When I changed this and ran the script with PYTHONPATH=vars python3 structure.py everything worked.

I would like to hear if it's updated :)

When I run fastSTRUCTURE3 I get a ModuleNotFoundError. What is the cause and how can I fix this? The error is as follows:

Traceback (most recent call last):
File "~/fastStructure3/structure.py", line 4, in
import fastStructure
File "fastStructure.pyx", line 2, in init fastStructure
import numpy as np
File "admixprop.pyx", line 1, in init admixprop
ModuleNotFoundError: No module named 'allelefreq'

Hi,

I'm trying to use a .str file as input voor fastStructure with Python3 , but I keep getting a TypeError. When I run the .str file in fastStructure with Python2 it seems te work fine and I get results. However, I need it to work in Python 3.
Because I don't get the error when I run it with the original fastStructure (in Python2) I'm suspecting that the problem is with the code in parse_str.pyx. I don't get this error when i run fastStructure (Python 3) with a bed-file.

Update- I fixed it!