I’m trying LightGBMRegressor parameter tuning with Sklearn RandomizedSearchCV. I got an error with message below.
error:
LightGBMError: b'Check failed: num_data > 0 at /src/LightGBM/src/io/dataset.cpp, line 27 .n'
I cannot tell why and the specific parameters caused this error. Any of params_dist below was not suitable for train_x.shape:(1630, 1565)?
Please tell me any hints or solutions. Thank you.
LightGBM version: ‘2.0.12’
function caused this error:
def get_lgbm(train_x, train_y, val_x, val_y): lgbm = lgb.LGBMRegressor( objective='regression', device='gpu', n_jobs=1, ) param_dist = {'boosting_type': ['gbdt', 'dart', 'rf'], 'num_leaves': sp.stats.randint(2, 1001), 'subsample_for_bin': sp.stats.randint(10, 1001), 'min_split_gain': sp.stats.uniform(0, 5.0), 'min_child_weight': sp.stats.uniform(1e-6, 1e-2), 'reg_alpha': sp.stats.uniform(0, 1e-2), 'reg_lambda': sp.stats.uniform(0, 1e-2), 'tree_learner': ['data', 'feature', 'serial', 'voting' ], 'application': ['regression_l1', 'regression_l2', 'regression'], 'bagging_freq': sp.stats.randint(1, 11), 'bagging_fraction': sp.stats.uniform(1e-3, 0.99), 'feature_fraction': sp.stats.uniform(1e-3, 0.99), 'learning_rate': sp.stats.uniform(1e-6, 0.99), 'max_depth': sp.stats.randint(1, 501), 'n_estimators': sp.stats.randint(100, 20001), 'gpu_use_dp': [True, False], } rscv = RandomizedSearchCV( estimator=lgbm, param_distributions=param_dist, cv=3, n_iter=3000, n_jobs=4, verbose=1, refit=True, fit_params={'eval_set':(val_x, val_y.ravel()), 'early_stopping_rounds':1, 'eval_metric':['l2', 'l1'], 'verbose': False, }, ) # This line throws error rscv = rscv.fit(train_x, train_y.ravel(), ) return rscv.best_estimator_
Too long to put full stack trace, here is on the lightgbm src.
........................................................................... /opt/conda/lib/python3.6/site-packages/lightgbm/sklearn.py in fit(self=LGBMRegressor(application='regression_l1', ..., subsample_freq=1, tree_learner='voting'), X=memmap([[-0.80256822, 1.63302752, -0.55377441, ...12.251635 , 12.27866017, 1. ]]), y=array([-1.81712472, 0. , -1.7366136 , 0... , 0.36258158, -0.13661202, 0.2919708 ]), sample_weight=None, init_score=None, eval_set=(memmap([[-1.16531701, -0.97454256, -1.36807818, ...11.55465037, 11.55160629, 2. ]]), array([ 0.58517555, -1.01419878, -0.05787037, -0...64139942, 1.04166667, 0. , -0.11668611])), eval_names=None, eval_sample_weight=None, eval_init_score=None, eval_metric=['l2', 'l1'], early_stopping_rounds=1, verbose=False, feature_name='auto', categorical_feature='auto', callbacks=None) 613 eval_init_score=eval_init_score, 614 eval_metric=eval_metric, 615 early_stopping_rounds=early_stopping_rounds, 616 verbose=verbose, feature_name=feature_name, 617 categorical_feature=categorical_feature, --> 618 callbacks=callbacks) callbacks = None 619 return self 620 621 base_doc = LGBMModel.fit.__doc__ 622 fit.__doc__ = (base_doc[:base_doc.find('eval_class_weight :')] + ........................................................................... /opt/conda/lib/python3.6/site-packages/lightgbm/sklearn.py in fit(self=LGBMRegressor(application='regression_l1', ..., subsample_freq=1, tree_learner='voting'), X=array([[-0.80256822, 1.63302752, -0.55377441, .... 12.251635 , 12.27866017, 1. ]]), y=array([-1.81712472, 0. , -1.7366136 , 0... , 0.36258158, -0.13661202, 0.2919708 ]), sample_weight=None, init_score=None, group=None, eval_set=[(memmap([[-1.16531701, -0.97454256, -1.36807818, ...11.55465037, 11.55160629, 2. ]]), array([ 0.58517555, -1.01419878, -0.05787037, -0...64139942, 1.04166667, 0. , -0.11668611]))], eval_names=None, eval_sample_weight=None, eval_class_weight=None, eval_init_score=None, eval_group=None, eval_metric=['l2', 'l1'], early_stopping_rounds=1, verbose=False, feature_name='auto', categorical_feature='auto', callbacks=None) 468 self.n_estimators, valid_sets=valid_sets, valid_names=eval_names, 469 early_stopping_rounds=early_stopping_rounds, 470 evals_result=evals_result, fobj=self._fobj, feval=feval, 471 verbose_eval=verbose, feature_name=feature_name, 472 categorical_feature=categorical_feature, --> 473 callbacks=callbacks) callbacks = None 474 475 if evals_result: 476 self._evals_result = evals_result 477 ........................................................................... /opt/conda/lib/python3.6/site-packages/lightgbm/engine.py in train(params={'application': 'regression_l1', 'bagging_fraction': 0.0013516565394267757, 'bagging_freq': 8, 'boosting_type': 'dart', 'colsample_bytree': 1.0, 'device': 'gpu', 'feature_fraction': 0.18574060093496944, 'gpu_use_dp': True, 'learning_rate': 0.06354739024799887, 'max_depth': 267, ...}, train_set=<lightgbm.basic.Dataset object>, num_boost_round=11610, valid_sets=[<lightgbm.basic.Dataset object>], valid_names=None, fobj=None, feval=None, init_model=None, feature_name='auto', categorical_feature='auto', early_stopping_rounds=1, evals_result={}, verbose_eval=False, learning_rates=None, keep_training_booster=False, callbacks={<function print_evaluation.<locals>.callback>, <function early_stopping.<locals>.callback>, <function record_evaluation.<locals>.callback>}) 175 callbacks_before_iter = sorted(callbacks_before_iter, key=attrgetter('order')) 176 callbacks_after_iter = sorted(callbacks_after_iter, key=attrgetter('order')) 177 178 # construct booster 179 try: --> 180 booster = Booster(params=params, train_set=train_set) booster = undefined params = {'application': 'regression_l1', 'bagging_fraction': 0.0013516565394267757, 'bagging_freq': 8, 'boosting_type': 'dart', 'colsample_bytree': 1.0, 'device': 'gpu', 'feature_fraction': 0.18574060093496944, 'gpu_use_dp': True, 'learning_rate': 0.06354739024799887, 'max_depth': 267, ...} train_set = <lightgbm.basic.Dataset object> 181 if is_valid_contain_train: 182 booster.set_train_data_name(train_data_name) 183 for valid_set, name_valid_set in zip(reduced_valid_sets, name_valid_sets): 184 booster.add_valid(valid_set, name_valid_set) ........................................................................... /opt/conda/lib/python3.6/site-packages/lightgbm/basic.py in __init__(self=<lightgbm.basic.Booster object>, params={'application': 'regression_l1', 'bagging_fraction': 0.0013516565394267757, 'bagging_freq': 8, 'boosting_type': 'dart', 'colsample_bytree': 1.0, 'device': 'gpu', 'feature_fraction': 0.18574060093496944, 'gpu_use_dp': True, 'learning_rate': 0.06354739024799887, 'max_depth': 267, ...}, train_set=<lightgbm.basic.Dataset object>, model_file=None, silent=False) 1290 # construct booster object 1291 self.handle = ctypes.c_void_p() 1292 _safe_call(_LIB.LGBM_BoosterCreate( 1293 train_set.construct().handle, 1294 c_str(params_str), -> 1295 ctypes.byref(self.handle))) self.handle = c_void_p(None) 1296 # save reference to data 1297 self.train_set = train_set 1298 self.valid_sets = [] 1299 self.name_valid_sets = [] ........................................................................... /opt/conda/lib/python3.6/site-packages/lightgbm/basic.py in _safe_call(ret=-1) 43 ---------- 44 ret : int 45 return value from API calls 46 """ 47 if ret != 0: ---> 48 raise LightGBMError(_LIB.LGBM_GetLastError()) 49 50 51 def is_numeric(obj): 52 """Check is a number or not, include numpy number etc.""" LightGBMError: b'Check failed: num_data > 0 at /usr/local/src/lightgbm/LightGBM/src/io/dataset.cpp, line 27 .n'
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Answer
Minimum value of bagging_fraction and feature_fraction could be too small. I changed the distribution to “sp.stats.uniform(loc=0.1, scale=0.9)” and it works.