Kaggle competition: ASHRAE - Great Energy Predictor III
<SOS> metric: RMSLE Kaggle data source: ashrae-great-energy-predictor-iii<feature_engineering>
folds = 5
debug = False
num_rounds=1000
use_ucf = True
use_sort = True
del_2016 = False
ucf_year = [2017, 2018]
sub['FVC1'] = 0.996*pe[:, 1]
sub['Confidence1'] = pe[:, 2] - pe[:, 0]<prepare_output>
py.init_notebook_mode(connected=True)
subm = sub[['Patient_Week','FVC','Confidence','FVC1','Confidence1']].copy()<feature_engineering>
def reduce_mem_usage(df, use_float16=False):

 start_mem = df.memory_usage().sum() / 1024**2
print('Memory usage of dataframe is {:.2f} MB'.format(start_mem))
for col in df.columns:
if is_datetime(df[col])or is_categorical_dtype(df[col]):
continue
col_type = df[col].dtype
if col_type != object:
c_min = df[col].min()
c_max = df[col].max()
if str(col_type)[:3] == 'int':
if c_min > np.iinfo(np.int8 ).min and c_max < np.iinfo(np.int8 ).max:
df[col] = df[col].astype(np.int8)
 elif c_min > np.iinfo(np.int16 ).min and c_max < np.iinfo(np.int16 ).max:
df[col] = df[col].astype(np.int16)
 elif c_min > np.iinfo(np.int32 ).min and c_max < np.iinfo(np.int32 ).max:
df[col] = df[col].astype(np.int32)
 elif c_min > np.iinfo(np.int64 ).min and c_max < np.iinfo(np.int64 ).max:
df[col] = df[col].astype(np.int64)
 else:
if use_float16 and c_min > np.finfo(np.float16 ).min and c_max < np.finfo(np.float16 ).max:
df[col] = df[col].astype(np.float16)
 elif c_min > np.finfo(np.float32 ).min and c_max < np.finfo(np.float32 ).max:
df[col] = df[col].astype(np.float32)
 else:
df[col] = df[col].astype(np.float64)
 else:
df[col] = df[col].astype('category')
 end_mem = df.memory_usage().sum() / 1024**2
print('Memory usage after optimization is: {:.2f} MB'.format(end_mem))
print('Decreased by {:.1f}%'.format(100 *(start_mem - end_mem)/ start_mem))
return df
subm.loc[~subm.FVC1.isnull() ,'FVC'] = subm.loc[~subm.FVC1.isnull() ,'FVC1']
if sigma_mean<70:
subm['Confidence'] = sigma_opt
else:
subm.loc[~subm.FVC1.isnull() ,'Confidence'] = subm.loc[~subm.FVC1.isnull() ,'Confidence1']<load_from_csv>
%%time
root = Path('.. /input/ashrae-feather-format-for-fast-loading')
 train_df = pd.read_feather(root/'train.feather')
 weather_train_df = pd.read_feather(root/'weather_train.feather')
 weather_test_df = pd.read_feather(root/'weather_test.feather')
 building_meta_df = pd.read_feather(root/'building_metadata.feather' )
otest = pd.read_csv('.. /input/osic-pulmonary-fibrosis-progression/test.csv')
 for i in range(len(otest)) :
subm.loc[subm['Patient_Week']==otest.Patient[i]+'_'+str(otest.Weeks[i]), 'FVC'] = otest.FVC[i]
subm.loc[subm['Patient_Week']==otest.Patient[i]+'_'+str(otest.Weeks[i]), 'Confidence'] = 0.1<save_to_csv>
ucf_root = Path('.. /input/ashrae-ucf-spider-and-eda-full-test-labels')
 leak0_df = pd.read_pickle(ucf_root/'site0.pkl')
 leak0_df['meter_reading'] = leak0_df.meter_reading_scraped
leak0_df.drop(['meter_reading_original','meter_reading_scraped'], axis=1, inplace=True)
 leak0_df.fillna(0, inplace=True)
 leak0_df.loc[leak0_df.meter_reading < 0, 'meter_reading'] = 0
leak0_df = leak0_df[leak0_df.timestamp.dt.year > 2016]
print(len(leak0_df))
subm[["Patient_Week","FVC","Confidence"]].to_csv("submission.csv", index=False )<install_modules>
ucl_root = Path('.. /usr/lib/ucl_data_leakage_episode_2')
 leak1_df = pd.read_pickle(ucl_root/'site1.pkl')
 leak1_df['meter_reading'] = leak1_df.meter_reading_scraped
leak1_df.drop(['meter_reading_scraped'], axis=1, inplace=True)
 leak1_df.fillna(0, inplace=True)
 leak1_df.loc[leak1_df.meter_reading < 0, 'meter_reading'] = 0
leak1_df = leak1_df[leak1_df.timestamp.dt.year > 2016]
print(len(leak1_df))
!pip install.. /input/kerasapplications/keras-team-keras-applications-3b180cb -f./ --no-index
!pip install.. /input/efficientnet/efficientnet-1.1.0/ -f./ --no-index<import_modules>
if use_ucf:
if del_2016:
print('delete all buildings site0 in 2016')
 bids = leak_df.building_id.unique()
train_df = train_df[train_df.building_id.isin(bids)== False]
leak0_df = leak0_df[leak0_df.timestamp.dt.year.isin(ucf_year)]
leak1_df = leak1_df[leak1_df.timestamp.dt.year.isin(ucf_year)]
train_df = pd.concat([train_df, leak0_df, leak1_df])
 train_df.reset_index(inplace=True)
 weather_train_df = pd.concat([weather_train_df, weather_test_df])
 weather_train_df.reset_index(inplace=True )
import os
import cv2
import pydicom
import pandas as pd
import numpy as np
import tensorflow as tf
import matplotlib.pyplot as plt
import random
from tqdm.notebook import tqdm
from sklearn.model_selection import train_test_split, KFold
from sklearn.metrics import mean_absolute_error
from tensorflow_addons.optimizers import RectifiedAdam
from tensorflow.keras import Model
import tensorflow.keras.backend as K
import tensorflow.keras.layers as L
import tensorflow.keras.models as M
from tensorflow.keras.optimizers import Nadam
import seaborn as sns
import plotly.express as px
import plotly.graph_objects as go
from PIL import Image<define_variables>
del weather_test_df, leak0_df, leak1_df
gc.collect()
def seed_everything(seed=2020):
random.seed(seed)
 os.environ['PYTHONHASHSEED'] = str(seed)
 np.random.seed(seed)
 tf.random.set_seed(seed )<define_variables>
train_df['date'] = train_df['timestamp'].dt.date
train_df['meter_reading_log1p'] = np.log1p(train_df['meter_reading'] )
seed_everything(42 )<set_options>
building_meta_df[building_meta_df.site_id == 0]
config = tf.compat.v1.ConfigProto()
config.gpu_options.allow_growth = True
session = tf.compat.v1.Session(config=config )<init_hyperparams>
train_df = train_df.query('not(building_id <= 104 & meter == 0 & timestamp <= "2016-05-20")' )
Dropout_model = 0.3865
FVC_weight = 0.2
Confidence_weight = 0.2 
<create_dataframe>
zone_dict={0:4,1:0,2:7,3:4,4:7,5:0,6:4,7:4,8:4,9:5,10:7,11:4,12:0,13:5,14:4,15:4}
def set_localtime(df):
for sid, zone in zone_dict.items() :
sids = df.site_id == sid
df.loc[sids, 'timestamp'] = df[sids].timestamp - pd.offsets.Hour(zone )
commits_df = pd.DataFrame(columns = ['commit_num', 'FVC_weight', 'Dropout_model', 'LB_score', 'seed'] )<feature_engineering>
def preprocess(df):
df["hour"] = df["timestamp"].dt.hour
df["weekend"] = df["timestamp"].dt.weekday
df["month"] = df["timestamp"].dt.month
df["dayofweek"] = df["timestamp"].dt.dayofweek
n=0
commits_df.loc[n,'commit_num'] = 1
commits_df.loc[n,'Dropout_model'] = 0.4
commits_df.loc[n,'FVC_weight'] = 0.25
commits_df.loc[n,'LB_score'] = -6.8111<feature_engineering>
preprocess(train_df )
n=1
commits_df.loc[n,'commit_num'] = 4
commits_df.loc[n,'Dropout_model'] = 0.36
commits_df.loc[n,'FVC_weight'] = 0.25
commits_df.loc[n,'LB_score'] = -6.8105<feature_engineering>
if use_ucf and use_sort:
train_df = train_df.sort_values('month')
 train_df = train_df.reset_index()
n=2
commits_df.loc[n,'commit_num'] = 6
commits_df.loc[n,'Dropout_model'] = 0.36
commits_df.loc[n,'FVC_weight'] = 0.35
commits_df.loc[n,'LB_score'] = -6.8158<feature_engineering>
df_group = train_df.groupby('building_id')['meter_reading_log1p']
building_median = df_group.median().astype(np.float16)
 train_df['building_median'] = train_df['building_id'].map(building_median)
 del df_group
n=3
commits_df.loc[n,'commit_num'] = 8
commits_df.loc[n,'Dropout_model'] = 0.35
commits_df.loc[n,'FVC_weight'] = 0.25
commits_df.loc[n,'LB_score'] = -6.8107<feature_engineering>
weather_train_df.isna().sum()
n=4
commits_df.loc[n,'commit_num'] = 9
commits_df.loc[n,'Dropout_model'] = 0.35
commits_df.loc[n,'FVC_weight'] = 0.3
commits_df.loc[n,'LB_score'] = -6.8125<feature_engineering>
weather_train_df.groupby('site_id' ).apply(lambda group: group.isna().sum() )
n=5
commits_df.loc[n,'commit_num'] = 10
commits_df.loc[n,'Dropout_model'] = 0.36
commits_df.loc[n,'FVC_weight'] = 0.2
commits_df.loc[n,'LB_score'] = -6.8089<feature_engineering>
weather_train_df = weather_train_df.groupby('site_id' ).apply(lambda group: group.interpolate(limit_direction='both'))
n=6
commits_df.loc[n,'commit_num'] = 11
commits_df.loc[n,'Dropout_model'] = 0.36
commits_df.loc[n,'FVC_weight'] = 0.15
commits_df.loc[n,'LB_score'] = -6.8100<feature_engineering>
weather_train_df.groupby('site_id' ).apply(lambda group: group.isna().sum() )
n=7
commits_df.loc[n,'commit_num'] = 13
commits_df.loc[n,'Dropout_model'] = 0.36
commits_df.loc[n,'FVC_weight'] = 0.175
commits_df.loc[n,'LB_score'] = -6.8096<feature_engineering>
def add_lag_feature(weather_df, window=3):
group_df = weather_df.groupby('site_id')
 cols = ['air_temperature', 'cloud_coverage', 'dew_temperature', 'precip_depth_1_hr', 'sea_level_pressure', 'wind_direction', 'wind_speed']
rolled = group_df[cols].rolling(window=window, min_periods=0)
 lag_mean = rolled.mean().reset_index().astype(np.float16)
 lag_max = rolled.max().reset_index().astype(np.float16)
 lag_min = rolled.min().reset_index().astype(np.float16)
 lag_std = rolled.std().reset_index().astype(np.float16)
 for col in cols:
weather_df[f'{col}_mean_lag{window}'] = lag_mean[col]
weather_df[f'{col}_max_lag{window}'] = lag_max[col]
weather_df[f'{col}_min_lag{window}'] = lag_min[col]
weather_df[f'{col}_std_lag{window}'] = lag_std[col]
n=8
commits_df.loc[n,'commit_num'] = 14
commits_df.loc[n,'Dropout_model'] = 0.36
commits_df.loc[n,'FVC_weight'] = 0.225
commits_df.loc[n,'LB_score'] = -6.8100<feature_engineering>
set_localtime(weather_train_df )
n=9
commits_df.loc[n,'commit_num'] = 15
commits_df.loc[n,'Dropout_model'] = 0.32
commits_df.loc[n,'FVC_weight'] = 0.2
commits_df.loc[n,'LB_score'] = -6.8092<feature_engineering>
primary_use_list = building_meta_df['primary_use'].unique()
primary_use_dict = {key: value for value, key in enumerate(primary_use_list)}
print('primary_use_dict: ', primary_use_dict)
 building_meta_df['primary_use'] = building_meta_df['primary_use'].map(primary_use_dict)
 gc.collect()
n=10
commits_df.loc[n,'commit_num'] = 16
commits_df.loc[n,'Dropout_model'] = 0.25
commits_df.loc[n,'FVC_weight'] = 0.2
commits_df.loc[n,'LB_score'] = -6.8093<feature_engineering>
train_df = reduce_mem_usage(train_df, use_float16=True)
 building_meta_df = reduce_mem_usage(building_meta_df, use_float16=True)
 weather_train_df = reduce_mem_usage(weather_train_df, use_float16=True )
n=11
commits_df.loc[n,'commit_num'] = 17
commits_df.loc[n,'Dropout_model'] = 0.25
commits_df.loc[n,'FVC_weight'] = 0.5
commits_df.loc[n,'LB_score'] = -6.8283<feature_engineering>
category_cols = ['building_id', 'site_id', 'primary_use']
feature_cols = ['square_feet', 'year_built'] + [
'hour', 'weekend',
'building_median'] + [
'air_temperature', 'cloud_coverage',
'dew_temperature', 'precip_depth_1_hr', 'sea_level_pressure',
'wind_direction', 'wind_speed', ]
n=12
commits_df.loc[n,'commit_num'] = 18
commits_df.loc[n,'Dropout_model'] = 0.38
commits_df.loc[n,'FVC_weight'] = 0.2
commits_df.loc[n,'LB_score'] = -6.8087<feature_engineering>
def create_X_y(train_df, target_meter):
target_train_df = train_df[train_df['meter'] == target_meter]
target_train_df = target_train_df.merge(building_meta_df, on='building_id', how='left')
 target_train_df = target_train_df.merge(weather_train_df, on=['site_id', 'timestamp'], how='left')
 X_train = target_train_df[feature_cols + category_cols]
y_train = target_train_df['meter_reading_log1p'].values
del target_train_df
return X_train, y_train
n=13
commits_df.loc[n,'commit_num'] = 19
commits_df.loc[n,'Dropout_model'] = 0.39
commits_df.loc[n,'FVC_weight'] = 0.2
commits_df.loc[n,'LB_score'] = -6.8090<feature_engineering>
def fit_lgbm(train, val, devices=(-1,), seed=None, cat_features=None, num_rounds=1500, lr=0.1, bf=0.1):

 X_train, y_train = train
X_valid, y_valid = val
metric = 'l2'
params = {'num_leaves': 31,
'objective': 'regression',
'learning_rate': lr,
"boosting": "gbdt",
"bagging_freq": 5,
"bagging_fraction": bf,
"feature_fraction": 0.9,
"metric": metric,
}
device = devices[0]
if device == -1:
pass
else:
print(f'using gpu device_id {device}...')
 params.update({'device': 'gpu', 'gpu_device_id': device})
 params['seed'] = seed
early_stop = 20
verbose_eval = 20
d_train = lgb.Dataset(X_train, label=y_train, categorical_feature=cat_features)
 d_valid = lgb.Dataset(X_valid, label=y_valid, categorical_feature=cat_features)
 watchlist = [d_train, d_valid]
print('training LGB:')
 model = lgb.train(params,
train_set=d_train,
num_boost_round=num_rounds,
valid_sets=watchlist,
verbose_eval=verbose_eval,
early_stopping_rounds=early_stop)
 y_pred_valid = model.predict(X_valid, num_iteration=model.best_iteration)
 print('best_score', model.best_score)
 log = {'train/mae': model.best_score['training']['l2'],
'valid/mae': model.best_score['valid_1']['l2']}
return model, y_pred_valid, log
n=14
commits_df.loc[n,'commit_num'] = 20
commits_df.loc[n,'Dropout_model'] = 0.37
commits_df.loc[n,'FVC_weight'] = 0.2
commits_df.loc[n,'LB_score'] = -6.8092<feature_engineering>
seed = 666
shuffle = False
kf = KFold(n_splits=folds, shuffle=shuffle, random_state=seed)
 oof_total = 0
n=15
commits_df.loc[n,'commit_num'] = 21
commits_df.loc[n,'Dropout_model'] = 0.38
commits_df.loc[n,'FVC_weight'] = 0.19
commits_df.loc[n,'LB_score'] = -6.8093<feature_engineering>
target_meter = 0
X_train, y_train = create_X_y(train_df, target_meter=target_meter)
 y_valid_pred_total = np.zeros(X_train.shape[0])
 gc.collect()
print('target_meter', target_meter, X_train.shape)
 cat_features = [X_train.columns.get_loc(cat_col)for cat_col in category_cols]
print('cat_features', cat_features)
 models0 = []
for train_idx, valid_idx in kf.split(X_train, y_train):
train_data = X_train.iloc[train_idx,:], y_train[train_idx]
valid_data = X_train.iloc[valid_idx,:], y_train[valid_idx]
print('train', len(train_idx), 'valid', len(valid_idx))
model, y_pred_valid, log = fit_lgbm(train_data, valid_data, cat_features=category_cols,
num_rounds=num_rounds, lr=0.05, bf=0.7)
 y_valid_pred_total[valid_idx] = y_pred_valid
models0.append(model)
 gc.collect()
if debug:
break
sns.distplot(y_train)
 sns.distplot(y_valid_pred_total)
 oof0 = mean_squared_error(y_train, y_valid_pred_total)
 oof_total += oof0 * len(y_train)
 del X_train, y_train
gc.collect()
n=16
commits_df.loc[n,'commit_num'] = 23
commits_df.loc[n,'Dropout_model'] = 0.38
commits_df.loc[n,'FVC_weight'] = 0.2
commits_df.loc[n,'LB_score'] = -6.8402<feature_engineering>
target_meter = 1
X_train, y_train = create_X_y(train_df, target_meter=target_meter)
 y_valid_pred_total = np.zeros(X_train.shape[0])
 gc.collect()
print('target_meter', target_meter, X_train.shape)
 cat_features = [X_train.columns.get_loc(cat_col)for cat_col in category_cols]
print('cat_features', cat_features)
 models1 = []
for train_idx, valid_idx in kf.split(X_train, y_train):
train_data = X_train.iloc[train_idx,:], y_train[train_idx]
valid_data = X_train.iloc[valid_idx,:], y_train[valid_idx]
print('train', len(train_idx), 'valid', len(valid_idx))
model, y_pred_valid, log = fit_lgbm(train_data, valid_data, cat_features=category_cols, num_rounds=num_rounds,
lr=0.05, bf=0.5)
 y_valid_pred_total[valid_idx] = y_pred_valid
models1.append(model)
 gc.collect()
if debug:
break
sns.distplot(y_train)
 sns.distplot(y_valid_pred_total)
 oof1 = mean_squared_error(y_train, y_valid_pred_total)
 oof_total += oof1 * len(y_train)
 del X_train, y_train
gc.collect()
commits_df['LB_score'] = pd.to_numeric(commits_df['LB_score'])
 commits_df['max'] = 0
commits_df.loc[commits_df['LB_score'].idxmax() , 'max'] = 1<feature_engineering>
target_meter = 2
X_train, y_train = create_X_y(train_df, target_meter=target_meter)
 y_valid_pred_total = np.zeros(X_train.shape[0])
 gc.collect()
print('target_meter', target_meter, X_train.shape)
 cat_features = [X_train.columns.get_loc(cat_col)for cat_col in category_cols]
print('cat_features', cat_features)
 models2 = []
for train_idx, valid_idx in kf.split(X_train, y_train):
train_data = X_train.iloc[train_idx,:], y_train[train_idx]
valid_data = X_train.iloc[valid_idx,:], y_train[valid_idx]
print('train', len(train_idx), 'valid', len(valid_idx))
model, y_pred_valid, log = fit_lgbm(train_data, valid_data, cat_features=category_cols,
num_rounds=num_rounds, lr=0.05, bf=0.8)
 y_valid_pred_total[valid_idx] = y_pred_valid
models2.append(model)
 gc.collect()
if debug:
break
sns.distplot(y_train)
 sns.distplot(y_valid_pred_total)
 oof2 = mean_squared_error(y_train, y_valid_pred_total)
 oof_total += oof2 * len(y_train)
 del X_train, y_train
gc.collect()
commits_df['seed'] = 42
commits_df.loc[commits_df['commit_num'] == 23, 'seed'] = 0<load_from_csv>
target_meter = 3
X_train, y_train = create_X_y(train_df, target_meter=target_meter)
 y_valid_pred_total = np.zeros(X_train.shape[0])
 gc.collect()
print('target_meter', target_meter, X_train.shape)
 cat_features = [X_train.columns.get_loc(cat_col)for cat_col in category_cols]
print('cat_features', cat_features)
 models3 = []
for train_idx, valid_idx in kf.split(X_train, y_train):
train_data = X_train.iloc[train_idx,:], y_train[train_idx]
valid_data = X_train.iloc[valid_idx,:], y_train[valid_idx]
print('train', len(train_idx), 'valid', len(valid_idx))
model, y_pred_valid, log = fit_lgbm(train_data, valid_data, cat_features=category_cols, num_rounds=num_rounds,
lr=0.03, bf=0.9)
 y_valid_pred_total[valid_idx] = y_pred_valid
models3.append(model)
 gc.collect()
if debug:
break
sns.distplot(y_train)
 sns.distplot(y_valid_pred_total)
 oof3 = mean_squared_error(y_train, y_valid_pred_total)
 oof_total += oof3 * len(y_train)
 del X_train, y_train
gc.collect()
train = pd.read_csv('.. /input/osic-pulmonary-fibrosis-progression/train.csv' )<concatenate>
print('oof score meter0 =', np.sqrt(oof0))
print('oof score meter1 =', np.sqrt(oof1))
print('oof score meter2 =', np.sqrt(oof2))
print('oof score meter3 =', np.sqrt(oof3))
print('oof score total =', np.sqrt(oof_total / len(train_df)) )
def get_tab(df):
vector = [(df.Age.values[0] - 30)/ 30]
if df.Sex.values[0] == 'male':
vector.append(0)
 else:
vector.append(1)
 if df.SmokingStatus.values[0] == 'Never smoked':
vector.extend([0,0])
 elif df.SmokingStatus.values[0] == 'Ex-smoker':
vector.extend([1,1])
 elif df.SmokingStatus.values[0] == 'Currently smokes':
vector.extend([0,1])
 else:
vector.extend([1,0])
 return np.array(vector )<feature_engineering>
del train_df, weather_train_df, building_meta_df
gc.collect()
A = {}
TAB = {}
P = []
for i, p in tqdm(enumerate(train.Patient.unique())) :
sub = train.loc[train.Patient == p, :]
fvc = sub.FVC.values
weeks = sub.Weeks.values
c = np.vstack([weeks, np.ones(len(weeks)) ] ).T
a, b = np.linalg.lstsq(c, fvc)[0]
A[p] = a
TAB[p] = get_tab(sub)
 P.append(p )<feature_engineering>
print('loading...')
 test_df = pd.read_feather(root/'test.feather')
 weather_test_df = pd.read_feather(root/'weather_test.feather')
 building_meta_df = pd.read_feather(root/'building_metadata.feather')
 set_localtime(weather_test_df)
 print('preprocessing building...')
 test_df['date'] = test_df['timestamp'].dt.date
preprocess(test_df)
 test_df['building_median'] = test_df['building_id'].map(building_median)
 print('preprocessing weather...')
 weather_test_df = weather_test_df.groupby('site_id' ).apply(lambda group: group.interpolate(limit_direction='both'))
weather_test_df.groupby('site_id' ).apply(lambda group: group.isna().sum())
 print('reduce mem usage...')
 reduce_mem_usage(test_df, use_float16=True)
 reduce_mem_usage(weather_test_df, use_float16=True)
 gc.collect()
class IGenerator(Sequence):
BAD_ID = ['ID00011637202177653955184', 'ID00052637202186188008618']
def __init__(self, keys, a, tab, batch_size=32):
self.keys = [k for k in keys if k not in self.BAD_ID]
self.a = a
self.tab = tab
self.batch_size = batch_size
self.train_data = {}
for p in train.Patient.values:
self.train_data[p] = os.listdir(f'.. /input/osic-pulmonary-fibrosis-progression/train/{p}/')
 def __len__(self):
return 1000
def __getitem__(self, idx):
x = []
a, tab = [], []
keys = np.random.choice(self.keys, size = self.batch_size)
 for k in keys:
try:
i = np.random.choice(self.train_data[k], size=1)[0]
img = get_img(f'.. /input/osic-pulmonary-fibrosis-progression/train/{k}/{i}')
 x.append(img)
 a.append(self.a[k])
 tab.append(self.tab[k])
 except:
print(k, i)
 x,a,tab = np.array(x), np.array(a), np.array(tab)
 x = np.expand_dims(x, axis=-1)
 return [x, tab] , a<choose_model_class>
sample_submission = pd.read_feather(os.path.join(root, 'sample_submission.feather'))
reduce_mem_usage(sample_submission )
Dense, Dropout, Activation, Flatten, Input, BatchNormalization, GlobalAveragePooling2D, Add, Conv2D, AveragePooling2D,
LeakyReLU, Concatenate 
)
 def get_efficientnet(model, shape):
models_dict = {
'b0': efn.EfficientNetB0(input_shape=shape,weights=None,include_top=False),
'b1': efn.EfficientNetB1(input_shape=shape,weights=None,include_top=False),
'b2': efn.EfficientNetB2(input_shape=shape,weights=None,include_top=False),
'b3': efn.EfficientNetB3(input_shape=shape,weights=None,include_top=False),
'b4': efn.EfficientNetB4(input_shape=shape,weights=None,include_top=False),
'b5': efn.EfficientNetB5(input_shape=shape,weights=None,include_top=False),
'b6': efn.EfficientNetB6(input_shape=shape,weights=None,include_top=False),
'b7': efn.EfficientNetB7(input_shape=shape,weights=None,include_top=False)
 }
return models_dict[model]
def build_model(shape=(512, 512, 1), model_class=None):
inp = Input(shape=shape)
 base = get_efficientnet(model_class, shape)
 x = base(inp)
 x = GlobalAveragePooling2D()(x)
 inp2 = Input(shape=(4,))
x2 = tf.keras.layers.GaussianNoise(0.2 )(inp2)
 x = Concatenate()([x, x2])
 x = Dropout(Dropout_model )(x)
 x = Dense(1 )(x)
 model = Model([inp, inp2] , x)
 weights = [w for w in os.listdir('.. /input/osic-model-weights')if model_class in w][0]
model.load_weights('.. /input/osic-model-weights/' + weights)
 return model
model_classes = ['b5']
models = [build_model(shape=(512, 512, 1), model_class=m)for m in model_classes]
print('Number of models: ' + str(len(models)) )<split>
def create_X(test_df, target_meter):
target_test_df = test_df[test_df['meter'] == target_meter]
target_test_df = target_test_df.merge(building_meta_df, on='building_id', how='left')
 target_test_df = target_test_df.merge(weather_test_df, on=['site_id', 'timestamp'], how='left')
 X_test = target_test_df[feature_cols + category_cols]
return X_test
tr_p, vl_p = train_test_split(P, shuffle=True, train_size = 0.8 )<compute_test_metric>
def pred(X_test, models, batch_size=1000000):
iterations =(X_test.shape[0] + batch_size -1)// batch_size
print('iterations', iterations)
 y_test_pred_total = np.zeros(X_test.shape[0])
 for i, model in enumerate(models):
print(f'predicting {i}-th model')
 for k in tqdm(range(iterations)) :
y_pred_test = model.predict(X_test[k*batch_size:(k+1)*batch_size], num_iteration=model.best_iteration)
 y_test_pred_total[k*batch_size:(k+1)*batch_size] += y_pred_test
y_test_pred_total /= len(models)
 return y_test_pred_total
def score(fvc_true, fvc_pred, sigma):
sigma_clip = np.maximum(sigma, 70)
 delta = np.abs(fvc_true - fvc_pred)
 delta = np.minimum(delta, 1000)
 sq2 = np.sqrt(2)
 metric =(delta / sigma_clip)*sq2 + np.log(sigma_clip* sq2)
 return np.mean(metric )<define_variables>
sample_submission.loc[test_df['meter'] == 0, 'meter_reading'] = np.expm1(y_test0)
 sample_submission.loc[test_df['meter'] == 1, 'meter_reading'] = np.expm1(y_test1)
 sample_submission.loc[test_df['meter'] == 2, 'meter_reading'] = np.expm1(y_test2)
 sample_submission.loc[test_df['meter'] == 3, 'meter_reading'] = np.expm1(y_test3 )
subs = []
for model in models:
metric = []
for q in tqdm(range(1, 10)) :
m = []
for p in vl_p:
x = []
tab = []
if p in ['ID00011637202177653955184', 'ID00052637202186188008618']:
continue
ldir = os.listdir(f'.. /input/osic-pulmonary-fibrosis-progression/train/{p}/')
 for i in ldir:
if int(i[:-4])/ len(ldir)< 0.8 and int(i[:-4])/ len(ldir)> 0.15:
x.append(get_img(f'.. /input/osic-pulmonary-fibrosis-progression/train/{p}/{i}'))
tab.append(get_tab(train.loc[train.Patient == p, :]))
if len(x)< 1:
continue
tab = np.array(tab)
 x = np.expand_dims(x, axis=-1)
 _a = model.predict([x, tab])
 a = np.quantile(_a, q / 10)
 percent_true = train.Percent.values[train.Patient == p]
fvc_true = train.FVC.values[train.Patient == p]
weeks_true = train.Weeks.values[train.Patient == p]
fvc = a *(weeks_true - weeks_true[0])+ fvc_true[0]
percent = percent_true[0] - a * abs(weeks_true - weeks_true[0])
 m.append(score(fvc_true, fvc, percent))
print(np.mean(m))
metric.append(np.mean(m))
q =(np.argmin(metric)+ 1)/ 10
sub = pd.read_csv('.. /input/osic-pulmonary-fibrosis-progression/sample_submission.csv')
 test = pd.read_csv('.. /input/osic-pulmonary-fibrosis-progression/test.csv')
 A_test, B_test, P_test,W, FVC= {}, {}, {},{},{}
STD, WEEK = {}, {}
for p in test.Patient.unique() :
x = []
tab = []
ldir = os.listdir(f'.. /input/osic-pulmonary-fibrosis-progression/test/{p}/')
 for i in ldir:
if int(i[:-4])/ len(ldir)< 0.8 and int(i[:-4])/ len(ldir)> 0.15:
x.append(get_img(f'.. /input/osic-pulmonary-fibrosis-progression/test/{p}/{i}'))
tab.append(get_tab(test.loc[test.Patient == p, :]))
if len(x)<= 1:
continue
tab = np.array(tab)
 x = np.expand_dims(x, axis=-1)
 _a = model.predict([x, tab])
 a = np.quantile(_a, q)
 A_test[p] = a
B_test[p] = test.FVC.values[test.Patient == p] - a*test.Weeks.values[test.Patient == p]
P_test[p] = test.Percent.values[test.Patient == p]
WEEK[p] = test.Weeks.values[test.Patient == p]
for k in sub.Patient_Week.values:
p, w = k.split('_')
 w = int(w)
 fvc = A_test[p] * w + B_test[p]
sub.loc[sub.Patient_Week == k, 'FVC'] = fvc
sub.loc[sub.Patient_Week == k, 'Confidence'] =(
 P_test[p] - A_test[p] * abs(WEEK[p] - w)
)
 _sub = sub[["Patient_Week","FVC","Confidence"]].copy()
subs.append(_sub )<prepare_output>
if not debug:
sample_submission.to_csv('submission.csv', index=False, float_format='%.4f' )
N = len(subs)
 sub = subs[0].copy()
sub["FVC"] = 0
sub["Confidence"] = 0
for i in range(N):
sub["FVC"] += subs[0]["FVC"] *(1/N)
 sub["Confidence"] += subs[0]["Confidence"] *(1/N )<save_to_csv>
leak_score0 = 0
leak_df = pd.read_pickle(ucf_root/'site0.pkl')
 leak_df['meter_reading'] = leak_df.meter_reading_scraped
leak_df.drop(['meter_reading_original','meter_reading_scraped'], axis=1, inplace=True)
 leak_df.fillna(0, inplace=True)
 leak_df = leak_df[leak_df.timestamp.dt.year > 2016]
leak_df.loc[leak_df.meter_reading < 0, 'meter_reading'] = 0
sample_submission.loc[sample_submission.meter_reading < 0, 'meter_reading'] = 0
for bid in leak_df.building_id.unique() :
temp_df = leak_df[(leak_df.building_id == bid)]
for m in temp_df.meter.unique() :
v0 = sample_submission.loc[(test_df.building_id == bid)&(test_df.meter==m), 'meter_reading'].values
v1 = temp_df[temp_df.meter==m].meter_reading.values
leak_score0 += mean_squared_error(np.log1p(v0), np.log1p(v1)) * len(v0)
 sample_submission.loc[(test_df.building_id == bid)&(test_df.meter==m), 'meter_reading'] = temp_df[temp_df.meter==m].meter_reading.values
leak_score0 /= len(leak_df )
sub[["Patient_Week","FVC","Confidence"]].to_csv("submission_img.csv", index=False )<prepare_output>
leak_score1 = 0
leak_df = pd.read_pickle(ucl_root/'site1.pkl')
 leak_df['meter_reading'] = leak_df.meter_reading_scraped
leak_df.drop(['meter_reading_scraped'], axis=1, inplace=True)
 leak_df.fillna(0, inplace=True)
 leak_df = leak_df[leak_df.timestamp.dt.year > 2016]
leak_df.loc[leak_df.meter_reading < 0, 'meter_reading'] = 0
for bid in leak_df.building_id.unique() :
temp_df = leak_df[(leak_df.building_id == bid)]
for m in temp_df.meter.unique() :
v0 = sample_submission.loc[(test_df.building_id == bid)&(test_df.meter==m), 'meter_reading'].values
v1 = temp_df[temp_df.meter==m].meter_reading.values
leak_score1 += mean_squared_error(np.log1p(v0), np.log1p(v1)) * len(v0)
 sample_submission.loc[(test_df.building_id == bid)&(test_df.meter==m), 'meter_reading'] = temp_df[temp_df.meter==m].meter_reading.values
leak_score1 /= len(leak_df )
img_sub = sub[["Patient_Week","FVC","Confidence"]].copy()<load_from_csv>
if not debug:
sample_submission.to_csv('submission_ucf_replaced.csv', index=False, float_format='%.4f' )
ROOT = ".. /input/osic-pulmonary-fibrosis-progression"
BATCH_SIZE=128
tr = pd.read_csv(f"{ROOT}/train.csv")
 tr.drop_duplicates(keep=False, inplace=True, subset=['Patient','Weeks'])
 chunk = pd.read_csv(f"{ROOT}/test.csv")
 print("add infos")
 sub = pd.read_csv(f"{ROOT}/sample_submission.csv")
 sub['Patient'] = sub['Patient_Week'].apply(lambda x:x.split('_')[0])
 sub['Weeks'] = sub['Patient_Week'].apply(lambda x: int(x.split('_')[-1]))
sub = sub[['Patient','Weeks','Confidence','Patient_Week']]
sub = sub.merge(chunk.drop('Weeks', axis=1), on="Patient" )<concatenate>
print('UCF score = ', np.sqrt(leak_score0))
print('UCL score = ', np.sqrt(leak_score1))