AttributeError: 'CrispyGaussian' object has no attribute 'copy_x_train' about crispy HOT 3 OPEN

Ok, so as a bit of a follow-up, I just went and tried with my own data, and now the error is a little bit different:

AttributeError Traceback (most recent call last)
/home/antonio_gt/TFM/BAGEL/Intento_2/PatuT_control/day7/bagel_script_PatuT_control_day7.ipynb Cell 20 line 1
----> 1 bed_df_ex = crispy_ex.correct(n_sgrna=10)
2 print(bed_df_ex.head())

File ~/anaconda3/envs/mamba/envs/crispy/lib/python3.9/site-packages/crispy/CopyNumberCorrection.py:94, in Crispy.correct(self, x_features, y_feature, n_sgrna)
92 # - Fit Gaussian Process on segment fold-changes
93 self.gpr = CrispyGaussian(bed_df, n_sgrna=n_sgrna)
---> 94 self.gpr = self.gpr.fit(x=x_features, y=y_feature)
96 bed_df["gp_mean"] = self.gpr.predict(bed_df[x_features])
98 # - Correct fold-change by subtracting the estimated mean

File ~/anaconda3/envs/mamba/envs/crispy/lib/python3.9/site-packages/crispy/CopyNumberCorrection.py:270, in CrispyGaussian.fit(self, x, y, train_idx)
267 x = self.bed_seg.query(f"sgRNA_ID >= {self.n_sgrna}")[x]
268 y = self.bed_seg.query(f"sgRNA_ID >= {self.n_sgrna}")[y]
--> 270 return super().fit(x, y)

File ~/anaconda3/envs/mamba/envs/crispy/lib/python3.9/site-packages/sklearn/base.py:1145, in _fit_context..decorator..wrapper(estimator, *args, **kwargs)
1140 partial_fit_and_fitted = (
1141 fit_method.name == "partial_fit" and _is_fitted(estimator)
1142 )
1144 if not global_skip_validation and not partial_fit_and_fitted:
-> 1145 estimator._validate_params()
1147 with config_context(
...
--> 195 value = getattr(self, key)
196 if deep and hasattr(value, "get_params") and not isinstance(value, type):
197 deep_items = value.get_params().items()

AttributeError: 'CrispyGaussian' object has no attribute 'bed_df'

from crispy.

Can you check if bedtools are running fine for you?

from crispy.

Yeah, bedtools seems to be working fine

from crispy.