ValueError: numpy.ndarray size changed

[galenseilis]

On Ubuntu (current LTS) the command pip install scikit-tda appeared to work without error. However running the import for ripser gives a value error.

>>> import ripser
Traceback (most recent call last):
  File "<stdin>", line 1, in <module>
  File "/home/galen/.local/lib/python3.8/site-packages/ripser/__init__.py", line 1, in <module>
    from .ripser import *
  File "/home/galen/.local/lib/python3.8/site-packages/ripser/ripser.py", line 34, in <module>
    from pyRipser import doRipsFiltrationDM as DRFDM
  File "ripser/pyRipser.pyx", line 1, in init pyRipser
ValueError: numpy.ndarray size changed, may indicate binary incompatibility. Expected 96 from C header, got 88 from PyObject

[ZWAdams]

I got the same error. Any updates on this?

[ctralie]

Try to run pip install --upgrade numpy

…

On Wed, Jun 22, 2022 at 7:48 PM ZWAdams ***@***.***> wrote: I got the same error. Any updates on this? — Reply to this email directly, view it on GitHub <#141 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AAJWDZR7UJ4LSLZVBAUFMN3VQOQ5DANCNFSM5Q5ZT3TQ> . You are receiving this because you are subscribed to this thread.Message ID: ***@***.***>

[ZWAdams]

Thanks for responding! I tried that, still not working. I'm running on an M1 chip, could that be part of the issue?

[ctralie]

What I'd do is create an entirely new environment in conda and make ripser.py the first thing you install there

https://docs.conda.io/projects/conda/en/latest/user-guide/tasks/manage-environments.html

[ctralie]

My gut says no, but I'm honestly not sure. I will look into this as soon as I can. Sorry for the trouble!

…

On Wed, Jun 22, 2022 at 9:50 PM ZWAdams ***@***.***> wrote: Thanks for responding! I tried that, still not working. I'm running on an M1 chip, could that be part of the issue? — Reply to this email directly, view it on GitHub <#141 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AAJWDZRXEGKESN2WMDZNNMLVQO7E7ANCNFSM5Q5ZT3TQ> . You are receiving this because you commented.Message ID: ***@***.***>

[catanzaromj]

It's unclear if this is still a bug or not. I can't reproduce it. Regardless, we'll compile ripser with numpy 2.0.0, so that should provide another fix for this problem.

[catanzaromj]

Closing as I can't reproduce. Re-open if it is still a problem.