requirements.txt or environment.yml

cagatayyildiz / ODE2VAE

ODE2VAE: Deep generative second order ODEs with Bayesian neural networks

MIT License

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requirements.txt or environment.yml #2

Closed jordan-schneider closed 3 years ago

jordan-schneider commented 3 years ago

Could I get some form of documentation of what the dependencies are here (including versions)?

https://pip.pypa.io/en/stable/reference/pip_freeze/ or https://docs.conda.io/projects/conda/en/latest/user-guide/tasks/manage-environments.html#sharing-an-environment would be nice.

jordan-schneider commented 3 years ago

For the next person

python==3.7
tensorflow==1.15 # or tensorflow-gpu==1.15
matplotlib
scipy
hickle==3.4
torch
tensorflow_probability
torchdiffeq

jordan-schneider commented 3 years ago

It looks like maybe you need an older version of hickle, as I can't open any data due to AttributeError: HDF5-file attribute 'CLASS' does not have value 'hickle'!. I'm investigating. Did you use python 2 for this?

jordan-schneider commented 3 years ago

Ah, sorry I see that "The code is developed and tested on python3.7 and TensorFlow 1.13" from the README. I'm now very confused why hickle isn't behaving.

jordan-schneider commented 3 years ago

Yeah, hickle 4.1 was the problem. Downgrading to 3.4.0 fixes the problem.

cagatayyildiz commented 3 years ago

I believe the problem is solved?

jordan-schneider commented 3 years ago

I would really appreciate the specific versions of everything used. I keep having weird problems where I can't write and read from the same hickle version. I also discovered e.g. that tensorflow-probability needs to be before version 0.9.

cagatayyildiz commented 3 years ago

My disk is wiped out, so I'm not super sure about the versions. I guess tensorflow_probability=0.6 and hickle=3.4.1 will do it. You could also refer to the torch code if you're not trying to replicate the results, it's far more readable.