Keops Error

[Jessica Williams]

I've recently downloaded deformetrica to my Linux machine and when running a script with "keops" as the kernel type, I get an error which ends with the below:

  File "/home/jgw/anaconda3/envs/deformetrica/lib/python3.7/site-packages/support/kernels/keops_kernel.py", line 81, in convolve

    res = self.gaussian_convolve[d - 2](gamma, x.contiguous(), y.contiguous(), p.contiguous(), device_id=device_id)

  File "/home/jgw/anaconda3/envs/deformetrica/lib/python3.7/site-packages/pykeops/torch/generic/generic_red.py", line 313, in __call__

    out = GenredAutograd.apply(self.formula, self.aliases, backend, self.dtype, device_id, ranges, *args)

  File "/home/jgw/anaconda3/envs/deformetrica/lib/python3.7/site-packages/pykeops/torch/generic/generic_red.py", line 41, in forward

    result = myconv.genred_pytorch(nx, ny, tagCPUGPU, tag1D2D, tagHostDevice, device_id, ranges, *args)

RuntimeError: [KeOps] This KeOps shared object has been compiled without cuda support:

 1) to perform computations on CPU, simply set tagHostDevice to 0

 2) to perform computations on GPU, please recompile the formula with a working version of cuda.

(deformetrica) jgw@jgw-HP-Z800-Workstation:~/aorta-pca/deformetrica$ vim model.xml

Any thoughts on why this might be occurring? Many thanks in advance. 

[mauric...@inria.fr]

Hi,

We've updated some of the Deformetrica's dependencies (pykeops and Pytorch, among them) in the latest release (4.3.0).

The installation process is a little bit different: we propose to replace Conda packages by pip. In a short:

• Create a Conda environment:

conda create -n deformetrica_env python=3.8 numpy && source activate deformetrica_env

• Install Deformetrica:

pip install deformetrica

I hope that this will simplify the installation and solve your problem.

Best,

[wers...@gmail.com]

Hi

I just tried this, and it doesn't throw any errors but after there is no folder called deformetrica containing the examples etc. Any idea why?

Thanks

Esther

[Mauricio DÍAZ]

Hi Esther,

The examples folder is not distributed with the package. For testing purposes, it can be downloaded with one of the following commands:

• wget https://gitlab.com/icm-institute/aramislab/deformetrica/-/jobs/199117820/artifacts/file/examples.tar.gz

or

• curl https://gitlab.com/icm-institute/aramislab/deformetrica/-/jobs/199117820/artifacts/file/examples.tar.gz --output exammples.tar.gz
  

Then, you have to extract it  (tar -xvzf examples.tar.gz) and you can run the examples.

Best,

--

Mauricio

[Jessica Williams]

This has fixed the problem I was having - many thanks!

On Tuesday, August 25, 2020 at 11:03:28 AM UTC-4 mauric...@inria.fr wrote: