TypeError: SPECTRA_Model.train() got an unexpected keyword argument 'label_factors'

[bitcometz]

hello, thanks for this great tool !!! I run this tool with CPU successefully but failed with GPU:

#import packages
import numpy as np
import json
import scanpy as sc
from collections import OrderedDict
import scipy
import pandas as pd
import matplotlib.pyplot as plt

#spectra imports
import Spectra as spc
from Spectra import Spectra_util as spc_tl
from Spectra import K_est as kst
from Spectra import default_gene_sets

## GPU
from Spectra import Spectra_gpu as spc_gpu

#filter gene set annotation dict for genes contained in adata
my_annotations = spc_tl.check_gene_set_dictionary(
    adata,
    my_annotations,
    obs_key='Disease subtype2',
    global_key='global')

# fit the model (We will run this with only 2 epochs to decrease runtime in this tutorial)
model = spc_gpu.est_spectra(adata=adata,
    gene_set_dictionary=my_annotations,
    use_highly_variable=True,
    cell_type_key="Disease subtype2",
    use_weights=True,
    lam=0.1, # varies depending on data and gene sets, try between 0.5 and 0.001
    delta=0.001,
    kappa=None,
    rho=0.001,
    use_cell_types=True,
    n_top_vals=50,
    label_factors=True,
    overlap_threshold=0.2,
    clean_gs = True,
    min_gs_num = 3,
    num_epochs=500 #here running only 2 epochs for time reasons, we recommend 10,000 epochs for most datasets
)

and the running log:

CUDA Available:  True
Initializing model...
Building parameter set...
CUDA memory:  1.788089856
Beginning training...
---------------------------------------------------------------------------
TypeError                                 Traceback (most recent call last)
[<ipython-input-13-232fdfc3e7ab>](https://localhost:8080/#) in <cell line: 2>()
      1 # fit the model (We will run this with only 2 epochs to decrease runtime in this tutorial)
----> 2 model = spc_gpu.est_spectra(adata=adata,
      3     gene_set_dictionary=my_annotations,
      4     use_highly_variable=True,
      5     cell_type_key="Disease subtype2",

[/usr/local/lib/python3.10/dist-packages/Spectra/Spectra_gpu.py](https://localhost:8080/#) in est_spectra(adata, gene_set_dictionary, L, use_highly_variable, cell_type_key, use_weights, lam, delta, kappa, rho, use_cell_types, n_top_vals, filter_sets, **kwargs)
    886     spectra.initialize(gene_set_dictionary, word2id, X, init_scores)
    887     print("Beginning training...")
--> 888     spectra.train(X = X, labels = labels,**kwargs)
    889 
    890     adata.uns["SPECTRA_factors"] = spectra.factors

TypeError: SPECTRA_Model.train() got an unexpected keyword argument 'label_factors'

Could you help with this problem ? Thanks !!!

[bitcometz]

Besides, after I remove those parameters not in the spc_gpu, I got the results. However, there are no adata.uns['SPECTRA_overlap'], So I do not konw the exact meanings of the index for adata.obsm['SPECTRA_cell_scores'], I do not where to find the info of index: 0-X-global-X-all_pyrimidine_synthesis ... ...

and there are some stragen results from CPU:

Thanks !!!