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cannot import sfaira

See original GitHub issue

currently, import ing the sfaira package is broken (both on dev and anotation_csv):

---------------------------------------------------------------------------
NameError                                 Traceback (most recent call last)
<ipython-input-1-67a34ea818d4> in <module>
      7 import zipfile
      8 import scipy.io
----> 9 import sfaira #from sfaira.data.interactive import DatasetInteractive
     10 import scarches as sca
     11 

/storage/groups/ml01/code/leander.dony/sfaira/sfaira/__init__.py in <module>
      6 # import sfaira.models
      7 import sfaira.genomes
----> 8 import sfaira.data
      9 import sfaira.consts as consts
     10 import sfaira.versions

/storage/groups/ml01/code/leander.dony/sfaira/sfaira/data/__init__.py in <module>
----> 1 from .base import DatasetBase, DatasetBaseGroupLoadingOneFile, DatasetBaseGroupLoadingManyFiles, \
      2     DatasetGroup, DatasetGroupDirectoryOriented, \
      3     DatasetSuperGroup
      4 from . import dataloaders
      5 from .dataloaders import DatasetSuperGroupSfaira

/storage/groups/ml01/code/leander.dony/sfaira/sfaira/data/base.py in <module>
   2104 
   2105 
-> 2106 class DatasetSuperGroup:
   2107     """
   2108     Container for multiple DatasetGroup instances.

/storage/groups/ml01/code/leander.dony/sfaira/sfaira/data/base.py in DatasetSuperGroup()
   2113     adata: Union[None, anndata.AnnData]
   2114     fn_backed: Union[None, PathLike]
-> 2115     dataset_groups: Union[List[DatasetGroup], List[DatasetSuperGroup]]
   2116 
   2117     def __init__(self, dataset_groups: Union[None, List[DatasetGroup], List[DatasetSuperGroup]]):

NameError: name 'DatasetSuperGroup' is not defined

Can DatasetSuperGroup really take other DatasetSuperGroup as dataset_groups input?

Issue Analytics

State:
Created 3 years ago
Comments:9 (9 by maintainers)

Top GitHub Comments

1reaction

Zethsoncommented, Feb 18, 2021

Funfact: Our CI currently tests against 3.7 and 3.8 only anyways. They are by far the most used versions.

0reactions

le-andercommented, Feb 18, 2021

okay, I guess I’ll have to somehow upgrade my gpu container…strange that tensorflow publishes their official tf containers with such an old python version

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