Closed DcornishUCL closed 3 years ago
Hi Dean,
It looks like you haven't compiled the cython files. In the pcangsd folder, use the following command: python setup.py build_ext --inplace
Let me know if it works. :-)
Best, Jonas
Thanks, for your suggestion, this seems to get rid of the previous error and now I get:
Traceback (most recent call last):
File "/bin/pcangsd/pcangsd.py", line 139, in
Hmm, it seems to be related to an Intel compiler. Sorry I have not seen this before but this might be of help: https://stackoverflow.com/questions/37905210/how-to-override-pythons-distutils-gcc-linker-with-icc
Hi,
I was able to fix this with the simple solution in: https://stackoverflow.com/questions/42611515/undefined-symbol-intel-sse2-strcpy just do export CC=gcc
before compiling. Thank you for helping me with this :)
Hi! I had the same issue as Dean. I tried to reply all the solution posted here but still I have the same error. I would appreciate any suggestion to fix it.
PCAngsd v.1.10. Jonas Meisner and Anders Albrechtsen. Using 20 thread(s).
Traceback (most recent call last):
File "/cluster/home/s_lchueca/programs/pcangsd/pcangsd/pcangsd.py", line 455, in
Best, Luis
Hi Luis,
Could you try to follow these steps #61
Best, Jonas
Hi,
I'm trying to run PCAngsd on WSL: Ubuntu-22.04 in VS code but keep getting this error:
Traceback (most recent call last):
File "Bioinformatics/pcangsd/pcangsd/pcangsd.py", line 455, in
Any solution to this error would be much appreciated.
Best,
Harry
Hi,
I am trying to run PCAngsd however when I do so, I receive the error:
Traceback (most recent call last): File "/bin/pcangsd/pcangsd.py", line 138, in
import reader_cy
ModuleNotFoundError: No module named 'reader_cy'
I am running PCAngsd using python3/3.9, cython-0.29.24 and numpy-1.21.2 if this helps narrow down the issue. Any help to rectify or find the source of this error would be much appreciated.
Best,
Dean