Comments (3)
Jeff1995
commented on June 14, 2024
Thanks for the report! I just tried several h5ad files on my own and they seem to work fine. Could you please provide a test h5ad file that produces the error (via a dropbox link etc.), so I may track down the problem?
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levinhein
commented on June 14, 2024
Sure, can you please check my files?
https://drive.google.com/drive/folders/1jiKcDgAdOYDFfolOZWDCBXiQ9sQuh_vv?usp=sharing
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Jeff1995
commented on June 14, 2024
Thanks! Just verified that the error was raised from within the anndata.read_h5ad function. It seems to be caused by incompatible anndata versions, as it only happens in v0.6.22 (version used on our web server), and everything works fine after upgrading to the latest v0.7.4.
Though this problem has been fixed, one additional problem is that the provided dataset exceeds the maximal cell number of 20,000 on our Web server. You may need to split it into several smaller chunks.
Let me know if any further issues.
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Related Issues (20)
- The website certificate of your Cell-Blast tutorial document has expired HOT 1
- reconcile_models() problems HOT 14
- how to read the dataset file HOT 2
- Error in "wasserstein_distance" function HOT 9
- How to use gpu to accelerate train? HOT 3
- KeyError: "Unable to open object (object 'obs' doesn't exist)" HOT 1
- how to use HOT 5
- how to build my own references HOT 1
- Interspecies integration HOT 4
- The demo dataset to re-run the example HOT 3
- KeyError: "Unable to open object (object 'obs' doesn't exist)"
- blast.save() TypeError: Object of type 'bytes' is not JSON serializable
- The tensorflow showing error with no session attribute HOT 6
- The function of find_variable_genes is lost HOT 2
- Possible wasserstein_distance solution HOT 1
- Tensorflow version 2.0.0 question HOT 1
- snakemake question help HOT 5
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