/home/tanu/git/LSHTM_analysis/scripts/ml/ml_data_7030.py:464: SettingWithCopyWarning: 
A value is trying to be set on a copy of a slice from a DataFrame

See the caveats in the documentation: https://pandas.pydata.org/pandas-docs/stable/user_guide/indexing.html#returning-a-view-versus-a-copy
  mask_check.sort_values(by = ['ligand_distance'], ascending = True, inplace = True)
1.22.4
1.4.1

aaindex_df contains non-numerical data

Total no. of non-numerial columns: 2

Selecting numerical data only

PASS: successfully selected numerical columns only for aaindex_df

Now checking for NA in the remaining aaindex_cols

Counting aaindex_df cols with NA 
ncols with NA: 4 columns 
Dropping these... 
Original ncols: 127

Revised df ncols: 123

Checking NA in revised df...

PASS: cols with NA successfully dropped from aaindex_df 
Proceeding with combining aa_df with other features_df

PASS: ncols match 
Expected ncols: 123 
Got: 123

Total no. of columns in clean aa_df: 123

Proceeding to merge, expected nrows in merged_df: 271

PASS: my_features_df and aa_df successfully combined 
nrows: 271 
ncols: 269
count of NULL values before imputation

or_mychisq          256
log10_or_mychisq    256
dtype: int64
count of NULL values AFTER imputation

mutationinformation    0
or_rawI                0
logorI                 0
dtype: int64

PASS: OR values imputed, data ready for ML

Total no. of features for aaindex: 123

PASS: x_features has no target variable

No. of columns for x_features: 174
Traceback (most recent call last):
  File "/home/tanu/git/LSHTM_analysis/scripts/ml/./run_7030.py", line 35, in <module>
    setvars(gene,drug)
  File "/home/tanu/git/LSHTM_analysis/scripts/ml/ml_data_7030.py", line 636, in setvars
    X, X_bts, y, y_bts = train_test_split(x_features, y_target
  File "/home/tanu/anaconda3/envs/UQ/lib/python3.9/site-packages/sklearn/model_selection/_split.py", line 2454, in train_test_split
    train, test = next(cv.split(X=arrays[0], y=stratify))
  File "/home/tanu/anaconda3/envs/UQ/lib/python3.9/site-packages/sklearn/model_selection/_split.py", line 1613, in split
    for train, test in self._iter_indices(X, y, groups):
  File "/home/tanu/anaconda3/envs/UQ/lib/python3.9/site-packages/sklearn/model_selection/_split.py", line 1953, in _iter_indices
    raise ValueError(
ValueError: The least populated class in y has only 1 member, which is too few. The minimum number of groups for any class cannot be less than 2.