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Run MarcoPolo in local machine with Jupyter Notebook #5
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Hi @SHADJIA, Thank you for using our software. The error occurred because the
Please let me know if you have any other questions. Best, |
Hello @chanwkimlab , Thanks for your reply. I don't have GPU in my computer. I execute the code by using CPU as device. It's still working since 2 hours. LIke in colab, I can't see the progression bar with jupyter. And since the code is running for regression, "size factor was calculated" is not printed. I just have : The numbers of clusters to test: [1, 2] Thanks once again. |
Hi @SHADJIA, As you use CPU instead of GPU and your input data is very large, it is very normal that the regression takes longer than 2 hours. Also, It's possible that you don't see "size factor was calculated" if your input data already contains "size_factor" column. However, it is interesting that you don't see a progress bar. When I changed the device parameter from "cuda:0" to "cpu" in the colab environment, I was still able to see the progress bar. For debugging purposes, you can manually edit the for iter_idx, exp_data_idx in enumerate(pbar):
+ if iter_idx%10==0:
+ print(iter_idx)
cell_dataset = CellDataset(Y_select[:, iter_idx:iter_idx + 1], X, s) Best, |
Hello @chanwkimlab ,
I'm a beginner for Python world. I would like to test your tool for my dataset and from my local machine with Jupyter Notebook. Can you help me with your code? Actually when I try your vignette, I get this error :
Do you have any idea to resolve this issue?
Thanks a lot in advance.
Regards,
Sha
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