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scvi.hub.HubMetadata

scvi.hub.HubMetadata#

class scvi.hub.HubMetadata(scvi_version, anndata_version, model_cls_name, training_data_url=None, model_parent_module='scvi.model')[source]#

Encapsulates the required metadata for scvi-tools hub models.

Parameters:

  • scvi_version (str) – The version of scvi-tools that the model was trained with.

  • anndata_version (str) – The version of anndata used during model training.

  • model_cls_name (str) – The name of the model class.

  • training_data_url (str | None (default: None)) – Link to the training data used to train the model, if it is too large to be uploaded to the hub. This can be a cellxgene explorer session url. However it cannot be a self-hosted session – it must be from the cellxgene portal (https://cellxgene.cziscience.com/).

  • model_parent_module (str (default: 'scvi.model')) – The parent module of the model class. Defaults to scvi.model. Change this if you are using a model class that is not in the scvi.model module, for example, if you are using a model class from a custom module.

Attributes table#

model_parent_module

training_data_url

scvi_version

anndata_version

model_cls_name

Methods table#

from_dir(local_dir, anndata_version[, ...])

Create a HubMetadata object from a local directory.

save(save_path[, overwrite])

Save the metadata to a JSON file.

Attributes#

HubMetadata.model_parent_module: str = 'scvi.model'#
HubMetadata.training_data_url: str | None = None#
HubMetadata.scvi_version: str#
HubMetadata.anndata_version: str#
HubMetadata.model_cls_name: str#

Methods#

classmethod HubMetadata.from_dir(local_dir, anndata_version, map_location='cpu', **kwargs)[source]#

Create a HubMetadata object from a local directory.

Parameters:

  • local_dir (str) – The local directory containing the model files.

  • anndata_version (str) – The version of anndata used during model training.

  • map_location (device | str | dict | None (default: 'cpu')) – The device to map model tensors to, passed into load().

  • kwargs – Additional keyword arguments to pass to the HubMetadata initializer.

HubMetadata.save(save_path, overwrite=False)[source]#

Save the metadata to a JSON file.

Parameters:

  • save_path (str) – The path to which to save the metadata as a JSON file.

  • overwrite (bool (default: False)) – Whether to overwrite the file if it already exists.

Return type:

None

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