3D重构slice对齐步骤报错

[seqyuan]

aligned_slices, pis = st.align.paste_align(
    models=[slice1.to_memory() for slice1 in slices],
    spatial_key="spatial",
    key_added="align_spatial",
    device="cpu" 
)

---------------------------------------------------------------------------
KeyError                                  Traceback (most recent call last)
Cell In[8], line 1
----> 1 aligned_slices, pis = st.align.paste_align(
      2     models=[slice1.to_memory() for slice1 in slices],
      3     spatial_key="spatial",
      4     key_added="align_spatial",
      5     device="cpu" 
      6 )

File /annogene/data2/share/software/SCV/SC_tools/anaconda3/lib/python3.11/site-packages/spateo_release-1.1.0-py3.11.egg/spateo/configuration.py:186, in SpateoAdataKeyManager.check_adata_is_type.<locals>.decorator.<locals>.wrapper(*args, **kwargs)
    183 call_args = inspect.getcallargs(unwrapped, *args, **kwargs)
    184 adata = call_args[argname]
    185 passing = (
--> 186     all(SpateoAdataKeyManager.adata_is_type(_adata, t) for _adata in adata)
    187     if isinstance(adata, (list, tuple))
    188     else SpateoAdataKeyManager.adata_is_type(adata, t)
    189     if type(adata) == AnnData
    190     else False
    191 )
    192 if (not optional or adata is not None) and not passing:
    193     if isinstance(adata, (list, tuple)):

File /annogene/data2/share/software/SCV/SC_tools/anaconda3/lib/python3.11/site-packages/spateo_release-1.1.0-py3.11.egg/spateo/configuration.py:186, in <genexpr>(.0)
    183 call_args = inspect.getcallargs(unwrapped, *args, **kwargs)
    184 adata = call_args[argname]
    185 passing = (
--> 186     all(SpateoAdataKeyManager.adata_is_type(_adata, t) for _adata in adata)
    187     if isinstance(adata, (list, tuple))
    188     else SpateoAdataKeyManager.adata_is_type(adata, t)
    189     if type(adata) == AnnData
    190     else False
    191 )
    192 if (not optional or adata is not None) and not passing:
    193     if isinstance(adata, (list, tuple)):

File /annogene/data2/share/software/SCV/SC_tools/anaconda3/lib/python3.11/site-packages/spateo_release-1.1.0-py3.11.egg/spateo/configuration.py:173, in SpateoAdataKeyManager.adata_is_type(adata, t)
    172 def adata_is_type(adata: AnnData, t: str) -> bool:
--> 173     return SpateoAdataKeyManager.get_adata_type(adata) == t

File /annogene/data2/share/software/SCV/SC_tools/anaconda3/lib/python3.11/site-packages/spateo_release-1.1.0-py3.11.egg/spateo/configuration.py:170, in SpateoAdataKeyManager.get_adata_type(adata)
    169 def get_adata_type(adata: AnnData) -> str:
--> 170     return adata.uns[SpateoAdataKeyManager.ADATA_TYPE_KEY]

File /annogene/data2/share/software/SCV/SC_tools/anaconda3/lib/python3.11/site-packages/anndata/compat/_overloaded_dict.py:100, in OverloadedDict.__getitem__(self, key)
     98     return self.overloaded[key].get()
     99 else:
--> 100     return self.data[key]

KeyError: '__type'

[Harrison-Q-Ma]

You can add this line before running alignment that will resolve the error:
adata.uns["__type"] = "UMI"

[github-actions]

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