leeanapeters
commented
2 months ago Apparently i needed to specify sep="," and then it loaded!
Open leeanapeters opened 2 months ago
leeanapeters
commented
2 months ago Apparently i needed to specify sep="," and then it loaded!
Hi, thank you for the great tool!
I am experiencing some issues loading paired single cell data. I have csvs for each of my samples that have a barcode column and cdr3, v, and j (d coverage was low so I removed that column) genes for each chain. There are no NA values or empty values that I can see so I'm not sure why it is throwing an empty array error.
Any help would be appreciated!
DTCR_WF.Get_Data(directory='pln/',Load_Prev_Data=False,aggregate_by_aa=True, ... aa_column_beta=7,v_beta_column=5,j_beta_column=6, ... aa_column_alpha=4, v_alpha_column=2,j_alpha_column=3,count_column=8) Loading Data... Traceback (most recent call last): File "", line 3, in
File "/#/RIMA/miniconda3/envs/deeptcr3.7/lib/python3.7/site-packages/DeepTCR/DeepTCR.py", line 336, in Get_Data
Y = OH.fit_transform(Y.reshape(-1,1))
File "/#/RIMA/miniconda3/envs/deeptcr3.7/lib/python3.7/site-packages/sklearn/preprocessing/_encoders.py", line 488, in fit_transform
return super().fit_transform(X, y)
File "/#/RIMA/miniconda3/envs/deeptcr3.7/lib/python3.7/site-packages/sklearn/base.py", line 847, in fit_transform
return self.fit(X, **fit_params).transform(X)
File "/#/RIMA/miniconda3/envs/deeptcr3.7/lib/python3.7/site-packages/sklearn/preprocessing/_encoders.py", line 461, in fit
self._fit(X, handle_unknown=self.handle_unknown, force_all_finite="allow-nan")
File "/#/RIMA/miniconda3/envs/deeptcr3.7/lib/python3.7/site-packages/sklearn/preprocessing/_encoders.py", line 78, in _fit
X, force_all_finite=force_all_finite
File "/#/RIMA/miniconda3/envs/deeptcr3.7/lib/python3.7/site-packages/sklearn/preprocessing/_encoders.py", line 44, in _check_X
X_temp = check_array(X, dtype=None, force_all_finite=force_all_finite)
File "/#/RIMA/miniconda3/envs/deeptcr3.7/lib/python3.7/site-packages/sklearn/utils/validation.py", line 800, in check_array
% (n_samples, array.shape, ensure_min_samples, context)
ValueError: Found array with 0 sample(s) (shape=(0, 1)) while a minimum of 1 is required.