Could not find function "scvi.model.SCVI.setup_anndata"

Help scvi-tools
, ,
1

I want to integrate datasets with scVI in R，and fllowed the tutorial (Scanpy in R). But, when I setup AnnData for training by typing the following code, it’s error.
I don’t sure how to solve it.

> library(reticulate)
> library(sceasy)
> library(anndata)
> sc <- import("scanpy", convert = FALSE)
> scvi <- import("scvi", convert = FALSE)
> adata <- convertFormat(WM82_Mock, from="seurat", to="anndata", main_layer="counts", drop_single_values=FALSE)
> print(adata) # Note generally in Python, dataset conventions are obs x var
AnnData object with n_obs × n_vars = 8724 × 5000
    obs: 'orig.ident', 'nCount_RNA', 'nFeature_RNA'
    var: 'vst.mean', 'vst.variance', 'vst.variance.expected', 'vst.variance.standardized', 'vst.variable'
> #Setup our AnnData for training
> # run setup_anndata
> scvi$model$SCVI$setup_anndata(adata)
Error in py_get_attr_impl(x, name, silent) : 
  AttributeError: module 'scvi' has no attribute 'model'
Run `reticulate::py_last_error()` for details.
> scvi.model.SCVI.setup_anndata(adata)
Error in scvi.model.SCVI.setup_anndata(adata) : 
  could not find function "scvi.model.SCVI.setup_anndata"
> reticulate::py_last_error()

── Python Exception Message ─────────────────────────────────────────────────────────────────────────────────────────────
AttributeError: module 'scvi' has no attribute 'model'

── R Traceback ──────────────────────────────────────────────────────────────────────────────────────────────────────────
     ▆
  1. ├─base::suppressWarnings(base::try(scvi$model$SCVI, silent = TRUE))
  2. │ └─base::withCallingHandlers(...)
  3. ├─base::try(scvi$model$SCVI, silent = TRUE)
  4. │ └─base::tryCatch(...)
  5. │   └─base (local) tryCatchList(expr, classes, parentenv, handlers)
  6. │     └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
  7. │       └─base (local) doTryCatch(return(expr), name, parentenv, handler)
  8. ├─scvi$model
  9. └─reticulate:::`$.python.builtin.module`(scvi, model)
 10.   └─reticulate:::`$.python.builtin.object`(x, name)
 11.     └─reticulate:::py_get_attr_or_item(x, name, TRUE)
 12.       └─reticulate::py_get_attr(x, name)
 13.         └─reticulate:::py_get_attr_impl(x, name, silent)