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theislab / scgen

Single cell perturbation prediction
https://scgen.readthedocs.io
GNU General Public License v3.0
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AttributeError: module 'scgen' has no attribute 'VAEArith' #65

Closed pcifist closed 2 years ago

pcifist commented 2 years ago

I tried scgen-reproducibility (e.g. https://nbviewer.org/github/M0hammadL/scGen_reproducibility/blob/master/Jupyter%20Notebooks/Fig2.ipynb), but the error:

AttributeError Traceback (most recent call last)

in ----> 1 network = scgen.VAEArith(z_dimension=100, 2 x_dimension=pbmc.shape[1], 3 model_path="../models/scGen/pbmc/CD4T/scgen") 4 network.restore_model() AttributeError: module 'scgen' has no attribute 'VAEArith' --------------------------------------------------------------------------- has been occured. However, 'scgen' module import has been successful, could you help with this problem?
CocoGzh commented 2 years ago

I tried scgen-reproducibility (e.g. https://nbviewer.org/github/M0hammadL/scGen_reproducibility/blob/master/Jupyter%20Notebooks/Fig2.ipynb), but the error:

AttributeError Traceback (most recent call last) in ----> 1 network = scgen.VAEArith(z_dimension=100, 2 x_dimension=pbmc.shape[1], 3 model_path="../models/scGen/pbmc/CD4T/scgen") 4 network.restore_model()

AttributeError: module 'scgen' has no attribute 'VAEArith'

has been occured. However, 'scgen' module import has been successful, could you help with this problem?

I have the same question

adamgayoso commented 2 years ago

Please see the latest workflow here:

https://scgen.readthedocs.io/en/latest/

The API has changed recently.

mzhang012130 commented 2 years ago

Please see the latest workflow here:

https://scgen.readthedocs.io/en/latest/

The API has changed recently.

Thanks! I have read the workflow, but still confused on new API. So at this time, I should run scgen.SCGENVAE instead of scgen.VAEArith? But new error occurs while running the following line as AttributeError: 'SCGENVAE' object has no attribute 'predict_cross'. Could you shed more light on that?

Maojie6509 commented 10 months ago

Please see the latest workflow here: https://scgen.readthedocs.io/en/latest/ The API has changed recently.

Thanks! I have read the workflow, but still confused on new API. So at this time, I should run scgen.SCGENVAE instead of scgen.VAEArith? But new error occurs while running the following line as AttributeError: 'SCGENVAE' object has no attribute 'predict_cross'. Could you shed more light on that?

Hello, I have encountered the same problem. Could you tell me how to use SCGENVAE to build the model and how to predict it? Thanks