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train_data.isnull().sum()<rename_columns>
df_annotations = pd.read_csv(os.path.join(DIR, "train_annotations.csv"))
RANZCR CLiP - Catheter and Line Position Challenge
13,871,913
train_data = train_data.rename(columns = {"Province/State":"State" , "Country/Region":"Country" } )<count_missing_values>
row = df_annotations.iloc[8] image_path = os.path.join(DIR, "train", row["StudyInstanceUID"] + ".jpg") chosen_image = cv2.imread(image_path )
RANZCR CLiP - Catheter and Line Position Challenge
13,871,913
train_data = train_data.fillna("Not Available") train_data.isnull().sum()<filter>
def NeedleAugmentation(image, n_needles=2, dark_needles=False, p=0.5, needle_folder='.. /input/xray-needle-augmentation'): aug_prob = random.random() if aug_prob < p: height, width, _ = image.shape needle_images = [im for im in os.listdir(needle_folder)if 'png' in im] for _ in range(1, n_needles): needle = cv2.cvtColor...
RANZCR CLiP - Catheter and Line Position Challenge
13,871,913
train_data[train_data['ConfirmedCases']<0]<filter>
chosen_image = cv2.imread(image_path) aug_image = NeedleAugmentation(chosen_image, n_needles=3, dark_needles=False, p=1.0) plt.imshow(aug_image )
RANZCR CLiP - Catheter and Line Position Challenge
13,871,913
train_data[train_data['Fatalities']<0]<data_type_conversions>
chosen_image = cv2.imread(image_path) aug_image = NeedleAugmentation(chosen_image, n_needles=3, dark_needles=True, p=1.0) plt.imshow(aug_image )
RANZCR CLiP - Catheter and Line Position Challenge
13,871,913
train_data['Date'] = pd.to_datetime(train_data['Date'] )<filter>
torch_trans_list = [transforms.CenterCrop(( 178, 178)) , transforms.Resize(128), transforms.RandomRotation(45), transforms.RandomAffine(35), transforms.RandomCrop(128), transforms.RandomHorizontalFlip(p=1), transforms.RandomPerspective(p=1), transforms.RandomVerticalFlip(p=1)]
RANZCR CLiP - Catheter and Line Position Challenge
13,871,913
train_data[train_data['ConfirmedCases'] == train_data['ConfirmedCases'].max() ]<groupby>
INFER_MODE = 'TF'
RANZCR CLiP - Catheter and Line Position Challenge
13,871,913
date_country_total = train_data.groupby(['Date'] ).sum() <groupby>
!pip install.. /input/timm-package/timm-0.1.26-py3-none-any.whl
RANZCR CLiP - Catheter and Line Position Challenge
13,871,913
date_country_total['Total Cases'] = date_country_total['ConfirmedCases'].cumsum()<groupby>
if INFER_MODE == 'TORCH': sys.path.append('.. /input/pytorch-image-models/pytorch-image-models-master') MODEL_DIR = '.. /input/ranzcr-pytorch-weights/' OUTPUT_DIR = './' if not os.path.exists(OUTPUT_DIR): os.makedirs(OUTPUT_DIR) TEST_PATH = '.. /input/ranzcr-clip-catheter-line-classification/test'
RANZCR CLiP - Catheter and Line Position Challenge
13,871,913
country_cases = train_data.groupby(['Country' , 'Lat' , 'Long'] ).sum() country_cases.reset_index(inplace=True) country_cases<data_type_conversions>
class CFG: debug=False num_workers=4 model_name='resnext50_32x4d' size=600 batch_size=64 seed=42 target_size=11 target_cols=['ETT - Abnormal', 'ETT - Borderline', 'ETT - Normal', 'NGT - Abnormal', 'NGT - Borderline', 'NGT - Incompletely Imaged', 'NGT - Normal', 'CVC - Abnormal', 'CVC - Borderline', 'CVC - Normal', 'Swa...
RANZCR CLiP - Catheter and Line Position Challenge
13,871,913
columns = train_data.columns.tolist() columns train_data['Date'] = pd.to_numeric(train_data['Date'] )<prepare_x_and_y>
if INFER_MODE == 'TORCH': Compose, OneOf, Normalize, Resize, RandomResizedCrop, RandomCrop, HorizontalFlip, VerticalFlip, RandomBrightness, RandomContrast, RandomBrightnessContrast, Rotate, ShiftScaleRotate, Cutout, IAAAdditiveGaussianNoise, Transpose ) warnings.filterwarnings('ignore') device = torch.device('cuda' ...
RANZCR CLiP - Catheter and Line Position Challenge
13,871,913
columns = [c for c in columns if c not in['Id','ConfirmedCases','Fatalities','State','Country']] X_train = train_data[columns] Y1_train = train_data['ConfirmedCases'] Y2_train = train_data['Fatalities'] print(X_train.shape) print(Y1_train.shape) print(Y2_train.shape )<train_model>
if INFER_MODE == 'TORCH': model = CustomResNext(CFG.model_name, pretrained=False) states = [torch.load(MODEL_DIR+f'needle_more_augs_10folds_pretrained_{CFG.model_name}_fold{fold}_best.pth')for fold in CFG.trn_fold] test_dataset = TestDataset(test, transform=get_transforms(data='valid')) test_loader = DataLoader(test_d...
RANZCR CLiP - Catheter and Line Position Challenge
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regressor = RandomForestRegressor(n_estimators = 100 ,random_state=0) regressor.fit(X_train,Y1_train) <load_from_csv>
!pip install /kaggle/input/kerasapplications -q !pip install /kaggle/input/efficientnet-keras-source-code/ -q --no-deps
RANZCR CLiP - Catheter and Line Position Challenge
13,871,913
<data_type_conversions><EOS>
if INFER_MODE == 'TF': def auto_select_accelerator() : try: tpu = tf.distribute.cluster_resolver.TPUClusterResolver() tf.config.experimental_connect_to_cluster(tpu) tf.tpu.experimental.initialize_tpu_system(tpu) strategy = tf.distribute.experimental.TPUStrategy(tpu) print("Running on TPU:", tpu.master()) except Val...
RANZCR CLiP - Catheter and Line Position Challenge
13,828,403
<SOS> metric: MCAUC Kaggle data source: ranzcr-clip-catheter-and-line-position-challenge<data_type_conversions>
tez_path = '.. /input/tez-lib/' effnet_path = '.. /input/efficientnet-pytorch/' sys.path.append(tez_path) sys.path.append(effnet_path )
RANZCR CLiP - Catheter and Line Position Challenge
13,828,403
test_data['Date'] = pd.to_numeric(test_data['Date'] )<define_variables>
import os import albumentations import pandas as pd import numpy as np import tez from tez.datasets import ImageDataset import torch import torch.nn as nn from torch.nn import functional as F from efficientnet_pytorch import EfficientNet
RANZCR CLiP - Catheter and Line Position Challenge
13,828,403
columnst = [c for c in columnst if c not in ['ForecastId', 'Province/State', 'Country/Region']] columnst<predict_on_test>
INPUT_PATH = ".. /input/ranzcr-clip-catheter-line-classification/" IMAGE_PATH = ".. /input/ranzcr-clip-catheter-line-classification/test/" MODEL_PATH = ".. /input/ranzcr-effnet5/" IMAGE_SIZE = 512
RANZCR CLiP - Catheter and Line Position Challenge
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y1_pred = regressor.predict(test_data[columnst] )<train_model>
df = pd.read_csv(os.path.join(INPUT_PATH, "sample_submission.csv"))
RANZCR CLiP - Catheter and Line Position Challenge
13,828,403
regressor.fit(X_train,Y2_train) <predict_on_test>
class RanzcrModel(tez.Model): def __init__(self): super().__init__() self.effnet = EfficientNet.from_name("efficientnet-b5") self.effnet._conv_stem.in_channels = 1 weight = self.effnet._conv_stem.weight.mean(1, keepdim=True) self.effnet._conv_stem.weight = torch.nn.Parameter(weight) self.dropout = nn.Dropout(0.1) s...
RANZCR CLiP - Catheter and Line Position Challenge
13,828,403
y2_pred = regressor.predict(test_data[columnst] )<load_from_csv>
test_aug = albumentations.Compose( [ albumentations.Resize(IMAGE_SIZE, IMAGE_SIZE, p=1.0), albumentations.HorizontalFlip(p=0.5), albumentations.Normalize( mean=[0.485], std=[0.229], max_pixel_value=255.0, p=1.0, ), ], p=1.0, )
RANZCR CLiP - Catheter and Line Position Challenge
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pred1 = pd.DataFrame(y1_pred) pred2 = pd.DataFrame(y2_pred) sub_df = pd.read_csv('.. /input/covid19-global-forecasting-week-1/submission.csv') sub_df.head()<save_to_csv>
test_image_paths = [ os.path.join(IMAGE_PATH, x + ".jpg") for x in df.StudyInstanceUID.values ]
RANZCR CLiP - Catheter and Line Position Challenge
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datasets = pd.concat([sub_df['ForecastId'],pred1,pred2],axis=1) datasets.columns = ['ForecastId','ConfirmedCases','Fatalities'] datasets.to_csv('submission.csv',index=False )<load_from_csv>
model = RanzcrModel() model.load(os.path.join(MODEL_PATH, "effnet5_fold_0.bin"))
RANZCR CLiP - Catheter and Line Position Challenge
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train_data = pd.read_csv("/kaggle/input/titanic/train.csv") train_data.head(n=10) <load_from_csv>
final_preds = None for j in range(2): test_dataset = ImageDataset( image_paths=test_image_paths, targets=[0]*len(test_image_paths), augmentations=test_aug, grayscale=True, ) preds = model.predict(test_dataset, batch_size=32, n_jobs=-1, device="cuda") temp_preds = None for p in preds: if temp_preds is None: temp_pre...
RANZCR CLiP - Catheter and Line Position Challenge
13,828,403
test_data = pd.read_csv("/kaggle/input/titanic/test.csv") test_data.describe()<filter>
target_cols = df.columns[1:] for i in range(final_preds.shape[1]): df.loc[:, target_cols[i]] = final_preds[:, i]
RANZCR CLiP - Catheter and Line Position Challenge
13,828,403
<create_dataframe><EOS>
df.to_csv('submission.csv', index=False) df.head()
RANZCR CLiP - Catheter and Line Position Challenge
17,151,036
best_degree = pd.DataFrame() for place in result.place.unique() : a = result[result['place']==place] best_degree = best_degree.append(a[a['RMSLE'] == a['RMSLE'].min() ]) print(best_degree.groupby('degree')['place'].nunique()) print('Zero polynomial(no fit): ',best_degree[best_degree['RMSLE']<0.00001]['place'].unique(...
class CassavaDataset(Dataset): def __init__(self, data, targets, dataset, transform=None): self.files = data self.targets = targets self.classes = list(set(targets)) self.transform = transform self.dataset = dataset def __len__(self): return len(self.files) def __getitem__(self, idx): if torch.is_tensor(idx): idx ...
Cassava Leaf Disease Classification
17,151,036
fit_best_degree = best_degree[best_degree['RMSLE']>0.00001] twodeg_places = fit_best_degree[fit_best_degree['degree']==2]['place'].unique() threedeg_places = fit_best_degree[fit_best_degree['degree']==3]['place'].unique() fourdeg_places = fit_best_degree[fit_best_degree['degree']==4]['place'].unique() fivedeg_places = ...
dfx = pd.read_csv('.. /input/cassava-leaf-disease-classification/train.csv') df_train, df_valid = model_selection.train_test_split(dfx, test_size=0.1, random_state=42, stratify=dfx.label.values) _train = df_train.reset_index(drop=True) df_valid = df_valid.reset_index(drop=True) image_path = ".. /input/cassava-lea...
Cassava Leaf Disease Classification
17,151,036
XYtest = XYtest.reset_index(drop=True) XYtest['intercept'] = -1<choose_model_class>
cassava_train = CassavaDataset(train_image_paths, train_targets, 'train') cassava_test = CassavaDataset(valid_image_paths, valid_targets, 'test') batch_size = 16 train_loader = DataLoader(cassava_train, batch_size=batch_size, shuffle=False, num_workers=2) test_loader = DataLoader(cassava_test, batch_size=batch_siz...
Cassava Leaf Disease Classification
17,151,036
poly_predicted_confirmedcases = pd.DataFrame() for place in twodeg_places: features = XYtrain[XYtrain['place']==place][['label','intercept']] target = XYtrain[XYtrain['place']==place]['ConfirmedCases'] Xtest = XYtest[XYtest['place']==place][['label','intercept']] model = make_pipeline(PolynomialFeatures(2), Ridge()) m...
class AverageMeter: def __init__(self): self.reset() def reset(self): self.val = 0 self.avg = 0 self.sum = 0 self.count = 0 def update(self, val, n=1): self.val = val self.sum += val * n self.count += n self.avg = self.sum / self.count def accuracy(output, target, topk=(1,)) : maxk = max(topk) batch_size = targe...
Cassava Leaf Disease Classification
17,151,036
fatalities_result=pd.DataFrame() for place in poly_data.place.unique() : for degree in [2,3,4,5]: features = XYtrain[XYtrain['place']==place][['label','intercept']] target = XYtrain[XYtrain['place']==place]['Fatalities'] model = make_pipeline(PolynomialFeatures(degree), Ridge()) model.fit(np.array(features), target) ...
def train_epoch(model, loader, device, loss_func, optimizer, scheduler): model.train() summary_loss = AverageMeter() summary_acc = AverageMeter() start = time.time() n = len(loader) for batch in tqdm(loader): images, labels = batch images = images.to(device) labels = labels.to(device) out = model(images) loss = l...
Cassava Leaf Disease Classification
17,151,036
fat_best_degree = pd.DataFrame() for place in fatalities_result.place.unique() : a = fatalities_result[fatalities_result['place']==place] fat_best_degree = fat_best_degree.append(a[a['RMSLE'] == a['RMSLE'].min() ]) print(fat_best_degree.groupby('degree')['place'].nunique()) print('Zero polynomial(no fit): ', fat_best...
resnet = timm.create_model('resnext50_32x4d', pretrained=True) num_ftrs = resnet.fc.in_features resnet.fc = nn.Linear(num_ftrs, 5) device = torch.device("cuda:0" if torch.cuda.is_available() else "cpu") resnet.to(device )
Cassava Leaf Disease Classification
17,151,036
fit_best_degree = fat_best_degree[fat_best_degree['RMSLE']>0.000001] twodeg_places = fit_best_degree[fit_best_degree['degree']==2]['place'].unique() threedeg_places = fit_best_degree[fit_best_degree['degree']==3]['place'].unique() fourdeg_places = fit_best_degree[fit_best_degree['degree']==4]['place'].unique() fivedeg_...
num_epochs = 1 best_acc = 0 best_epoch = 0 criterion = nn.CrossEntropyLoss() optimizer = optim.SGD(resnet.parameters() , lr=0.01, momentum=0.9) scheduler = ReduceLROnPlateau(optimizer, mode='min', factor=0.2, patience=2, verbose=True, eps=1e-6) for epoch in range(num_epochs): print('Epoch {}/{}'.format(epoch + 1, n...
Cassava Leaf Disease Classification
17,151,036
poly_predicted_fatalities = pd.DataFrame() for place in twodeg_places: features = XYtrain[XYtrain['place']==place][['label','intercept']] target = XYtrain[XYtrain['place']==place]['Fatalities'] Xtest = XYtest[XYtest['place']==place][['label','intercept']] model = make_pipeline(PolynomialFeatures(2), Ridge()) model.fit...
num_epochs = 10 best_acc = 0 best_epoch = 0 criterion = nn.CrossEntropyLoss() optimizer = optim.SGD(xception.parameters() , lr=0.01, momentum=0.9) scheduler = ReduceLROnPlateau(optimizer, mode='min', factor=0.2, patience=2, verbose=True, eps=1e-6) for epoch in range(num_epochs): print('Epoch {}/{}'.format(epoch + 1...
Cassava Leaf Disease Classification
17,151,036
for place in nofit_places1: e = poly_data[(poly_data['place']==place)&(poly_data['date']>'2020-03-11')] f = e['ConfirmedCases'].fillna(method = 'ffill') g = pd.DataFrame(zip(e['place'], f),columns=['place','ConfirmedCases']) poly_predicted_confirmedcases = poly_predicted_confirmedcases.append(g) for place in nofit_p...
PATH = './timm_resnext_epoch10_384.pth' resnet = timm.create_model('resnext50_32x4d', pretrained=False) num_ftrs = resnet.fc.in_features resnet.fc = nn.Linear(num_ftrs, 5) device = torch.device("cuda:0" if torch.cuda.is_available() else "cpu") resnet.to(device) resnet.load_state_dict(torch.load(PATH)) resnet.eval...
Cassava Leaf Disease Classification
17,151,036
poly_predicted_confirmedcases2= pd.DataFrame({'date':XYtest.date, 'place':poly_predicted_confirmedcases['place'].tolist() , 'ConfirmedCases':poly_predicted_confirmedcases['ConfirmedCases'].tolist() }) poly_predicted_confirmedcases2.head()<prepare_output>
submission_df = pd.read_csv('.. /input/cassava-leaf-disease-classification/sample_submission.csv') submission_df.head()
Cassava Leaf Disease Classification
17,151,036
poly_predicted_fatalities2= pd.DataFrame({'date':XYtest.date, 'place':poly_predicted_fatalities['place'].tolist() , 'Fatalities':poly_predicted_fatalities['Fatalities'].tolist() }) poly_predicted_fatalities2.head()<merge>
input_size = 384 stats =([0.4914, 0.4822, 0.4465], [0.247, 0.243, 0.261]) trans1 = transforms.Compose([transforms.Resize(( input_size, input_size)) , transforms.Pad(8, padding_mode='reflect'), transforms.ToTensor() , transforms.Normalize(*stats)]) trans2 = transforms.Compose([transforms.Resize(( input_size, input_s...
Cassava Leaf Disease Classification
17,151,036
poly_compiled = poly_predicted_confirmedcases2.merge(poly_predicted_fatalities2, how='inner', on=['place','date'] )<merge>
test_path = '/kaggle/input/cassava-leaf-disease-classification/test_images/' test_images = os.listdir(test_path) train_image_paths = [os.path.join(test_path, x)for x in test_images] y_preds = [] y2_preds = [] p = 0 for i in test_images: res = [] image = Image.open(f'/kaggle/input/cassava-leaf-disease-classification/...
Cassava Leaf Disease Classification
17,151,036
test_poly_compiled= test.merge(poly_compiled, how='inner', on=['place','date']) test_poly_compiled<load_from_csv>
df_sub = pd.DataFrame({'image_id': test_images, 'label': y_preds}) display(df_sub )
Cassava Leaf Disease Classification
17,151,036
<merge><EOS>
df_sub.to_csv('submission.csv', index=False )
Cassava Leaf Disease Classification
13,592,835
<SOS> metric: CategorizationAccuracy Kaggle data source: cassava-leaf-disease-classification<feature_engineering>
!pip install --quiet /kaggle/input/kerasapplications !pip install --quiet /kaggle/input/efficientnet-git
Cassava Leaf Disease Classification
13,592,835
sub2['ConfirmedCases'] = sub2['ConfirmedCases'].round(0) sub2['Fatalities'] = sub2['Fatalities'].round(0 ).abs()<save_to_csv>
def seed_everything(seed=0): random.seed(seed) np.random.seed(seed) tf.random.set_seed(seed) os.environ['PYTHONHASHSEED'] = str(seed) os.environ['TF_DETERMINISTIC_OPS'] = '1' seed = 0 seed_everything(seed) warnings.filterwarnings('ignore' )
Cassava Leaf Disease Classification
13,592,835
sub2.to_csv('submission.csv', index=False )<define_variables>
BATCH_SIZE = 16 * REPLICAS HEIGHT = 512 WIDTH = 512 CHANNELS = 3 N_CLASSES = 5 TTA_STEPS = 5
Cassava Leaf Disease Classification
13,592,835
<count_unique_values>
def data_augment(image, label): p_spatial = tf.random.uniform([], 0, 1.0, dtype=tf.float32) p_rotate = tf.random.uniform([], 0, 1.0, dtype=tf.float32) p_pixel_1 = tf.random.uniform([], 0, 1.0, dtype=tf.float32) p_pixel_2 = tf.random.uniform([], 0, 1.0, dtype=tf.float32) p_crop = tf.random.uniform([], 0, 1.0, dtype=...
Cassava Leaf Disease Classification
13,592,835
<sort_values>
def transform_rotation(image, height, rotation): DIM = height XDIM = DIM%2 rotation = rotation * tf.random.uniform([1],dtype='float32') rotation = math.pi * rotation / 180. c1 = tf.math.cos(rotation) s1 = tf.math.sin(rotation) one = tf.constant([1],dtype='float32') zero = tf.constant([0],dtype='float32') rotation...
Cassava Leaf Disease Classification
13,592,835
<drop_column>
def model_fn(input_shape, N_CLASSES): inputs = L.Input(shape=input_shape, name='input_image') base_model = efn.EfficientNetB4(input_tensor=inputs, include_top=False, weights=None, pooling='avg') x = L.Dropout (.5 )(base_model.output) output = L.Dense(N_CLASSES, activation='softmax', name='output' )(x) model = Model...
Cassava Leaf Disease Classification
13,592,835
<define_variables>
files_path = f'{database_base_path}test_images/' test_size = len(os.listdir(files_path)) test_preds = np.zeros(( test_size, N_CLASSES)) for model_path in model_path_list: print(model_path) K.clear_session() model.load_weights(model_path) if TTA_STEPS > 0: test_ds = get_dataset(files_path, tta=True ).repeat() ct_steps...
Cassava Leaf Disease Classification
13,592,835
<load_from_csv><EOS>
submission = pd.DataFrame({'image_id': image_names, 'label': test_preds}) submission.to_csv('submission.csv', index=False) display(submission.head() )
Cassava Leaf Disease Classification
13,936,057
<SOS> metric: CategorizationAccuracy Kaggle data source: cassava-leaf-disease-classification<create_dataframe>
tez_path = '.. /input/tez-lib/' effnet_path = '.. /input/efficientnet-pytorch/' sys.path.append(tez_path) sys.path.append(effnet_path)
Cassava Leaf Disease Classification
13,936,057
client = bigquery.Client() dataset_ref = client.dataset("noaa_gsod", project="bigquery-public-data") dataset = client.get_dataset(dataset_ref) tables = list(client.list_tables(dataset)) table_ref = dataset_ref.table("stations") table = client.get_table(table_ref) stations_df = client.list_rows(table ).to_dataframe(...
class LeafModel(tez.Model): def __init__(self, num_classes): super().__init__() self.effnet = EfficientNet.from_name("efficientnet-b4") self.dropout = nn.Dropout(0.1) self.out = nn.Linear(1792, num_classes) self.step_scheduler_after = "epoch" def forward(self, image, targets=None): batch_size, _, _, _ = image.shape ...
Cassava Leaf Disease Classification
13,936,057
weather_df['day_from_jan_first'] =(weather_df['da'].apply(int) + 31*(weather_df['mo']=='02') + 60*(weather_df['mo']=='03') + 91*(weather_df['mo']=='04') ) mo = train['Date'].apply(lambda x: x[5:7]) da = train['Date'].apply(lambda x: x[8:10]) train['day_from_jan_first'] =(da.apply(int) + 31*(mo=='02') + 60*(mo==...
test_aug = albumentations.Compose([ albumentations.RandomResizedCrop(256, 256), albumentations.Transpose(p=0.5), albumentations.HorizontalFlip(p=0.5), albumentations.VerticalFlip(p=0.5), albumentations.HueSaturationValue( hue_shift_limit=0.2, sat_shift_limit=0.2, val_shift_limit=0.2, p=0.5 ), albumentations.RandomBri...
Cassava Leaf Disease Classification
13,936,057
test = pd.read_csv("/kaggle/input/covid19-global-forecasting-week-1/test.csv" )<feature_engineering>
dfx = pd.read_csv(".. /input/cassava-leaf-disease-classification/sample_submission.csv") image_path = ".. /input/cassava-leaf-disease-classification/test_images/" test_image_paths = [os.path.join(image_path, x)for x in dfx.image_id.values] test_targets = dfx.label.values test_dataset = ImageDataset( image_paths=test_...
Cassava Leaf Disease Classification
13,936,057
weather_df['day_from_jan_first'] =(weather_df['da'].apply(int) + 31*(weather_df['mo']=='02') + 60*(weather_df['mo']=='03') + 91*(weather_df['mo']=='04') ) mo = test['Date'].apply(lambda x: x[5:7]) da = test['Date'].apply(lambda x: x[8:10]) test['day_from_jan_first'] =(da.apply(int) + 31*(mo=='02') + 60*(mo=='03...
train_dfx = pd.read_csv(".. /input/cassava-leaf-disease-classification/train.csv") model = LeafModel(num_classes=train_dfx.label.nunique()) model.load(".. /input/leafmodel/model.bin")
Cassava Leaf Disease Classification
13,936,057
train["wdsp"] = pd.to_numeric(train["wdsp"]) test["wdsp"] = pd.to_numeric(test["wdsp"]) train["fog"] = pd.to_numeric(train["fog"]) test["fog"] = pd.to_numeric(test["fog"] )<drop_column>
final_preds = None for j in range(20): preds = model.predict(test_dataset, batch_size=32, n_jobs=-1, device="cuda") temp_preds = None for p in preds: if temp_preds is None: temp_preds = p else: temp_preds = np.vstack(( temp_preds, p)) if final_preds is None: final_preds = temp_preds else: final_preds += temp_preds fin...
Cassava Leaf Disease Classification
13,936,057
<data_type_conversions><EOS>
final_preds = final_preds.argmax(axis=1) dfx.label = final_preds dfx.to_csv("submission.csv", index=False )
Cassava Leaf Disease Classification
14,771,514
<SOS> metric: CategorizationAccuracy Kaggle data source: cassava-leaf-disease-classification<rename_columns>
! pip install.. /input/mlcollection/ml_collections-0.1.0-py3-none-any.whl
Cassava Leaf Disease Classification
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X_train = X_train.set_index(['Date']) X_test = X_test.set_index(['Date'] )<feature_engineering>
from glob import glob from sklearn.model_selection import GroupKFold, StratifiedKFold import cv2 from skimage import io import torch from torch import nn import os from datetime import datetime import time import random import cv2 import torchvision from torchvision import transforms import pandas as pd import numpy as...
Cassava Leaf Disease Classification
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def create_time_features(df): df['date'] = df.index df['hour'] = df['date'].dt.hour df['dayofweek'] = df['date'].dt.dayofweek df['quarter'] = df['date'].dt.quarter df['month'] = df['date'].dt.month df['year'] = df['date'].dt.year df['dayofyear'] = df['date'].dt.dayofyear df['dayofmonth'] = df['date'].dt.day df['weeko...
CFG = { 'fold_num': 5, 'seed': 719, 'model_arch': 'resnext101_ibn_a', 'model_arch_eff':'tf_efficientnet_b4_ns', 'img_size': 512, 'epochs': 10, 'train_bs': 32, 'valid_bs': 32, 'lr': 1e-4, 'num_workers': 4, 'accum_iter': 1, 'verbose_step': 1, 'device': 'cuda' if torch.cuda.is_available() else 'cpu', 'tta': 4, } ckpt_path...
Cassava Leaf Disease Classification
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create_time_features(X_train) create_time_features(X_test )<drop_column>
train = pd.read_csv('.. /input/cassava-leaf-disease-classification/train.csv') train.head()
Cassava Leaf Disease Classification
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X_train.drop("date", axis=1, inplace=True) X_test.drop("date", axis=1, inplace=True )<categorify>
train.label.value_counts()
Cassava Leaf Disease Classification
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X_train = pd.concat([X_train,pd.get_dummies(X_train['Province/State'], prefix='ps')],axis=1) X_train.drop(['Province/State'],axis=1, inplace=True) X_test = pd.concat([X_test,pd.get_dummies(X_test['Province/State'], prefix='ps')],axis=1) X_test.drop(['Province/State'],axis=1, inplace=True) X_train = pd.concat([X_tra...
submission = pd.read_csv('.. /input/cassava-leaf-disease-classification/sample_submission.csv') submission.head()
Cassava Leaf Disease Classification
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Y1= train["ConfirmedCases"]<prepare_x_and_y>
class CassavaDataset(Dataset): def __init__( self, df, data_root, transforms=None, output_label=True ): super().__init__() self.df = df.reset_index(drop=True ).copy() self.transforms = transforms self.data_root = data_root self.output_label = output_label def __len__(self): return self.df.shape[0] def __getitem__(sel...
Cassava Leaf Disease Classification
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Y2 = train["Fatalities"]<train_model>
HorizontalFlip, VerticalFlip, IAAPerspective, ShiftScaleRotate, CLAHE, RandomRotate90, Transpose, ShiftScaleRotate, Blur, OpticalDistortion, GridDistortion, HueSaturationValue, IAAAdditiveGaussianNoise, GaussNoise, MotionBlur, MedianBlur, IAAPiecewiseAffine, RandomResizedCrop, IAASharpen, IAAEmboss, RandomBrightnessCon...
Cassava Leaf Disease Classification
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model = RandomForestClassifier(bootstrap=True,max_depth=None, max_features='auto', max_leaf_nodes=None, n_estimators=150, random_state=None, n_jobs=1, verbose=0) model.fit(X_train,Y1) pred1 = model.predict(X_test) pred1 = pd.DataFrame(pred1) pred1.columns = ["ConfirmedCases_prediction"]<train_model>
class CassvaImgClassifier(nn.Module): def __init__(self, model_arch, n_class, pretrained=False): super().__init__() self.model = timm.create_model(model_arch, pretrained=pretrained) n_features = self.model.classifier.in_features self.model.classifier = nn.Linear(n_features, n_class) def forward(self, x): x = self.mod...
Cassava Leaf Disease Classification
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model = RandomForestClassifier(bootstrap=True,max_depth=None, max_features='auto', max_leaf_nodes=None, n_estimators=150, random_state=None, n_jobs=1, verbose=0) model.fit(X_train,Y2) pred2 = model.predict(X_test) pred2 = pd.DataFrame(pred2) pred2.columns = ["Death_prediction"]<load_from_csv>
class IBNResnextCassava(nn.Module): def __init__(self, arch='resnext101_ibn_a', n_class=5, pre=False): super().__init__() m = resnext101_ibn_a() self.enc = nn.Sequential(*list(m.children())[:-2]) nc = list(m.children())[-1].in_features self.head = nn.Sequential( nn.AdaptiveAvgPool2d(1), nn.Flatten() , nn.Linear(2048,...
Cassava Leaf Disease Classification
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data_submission = pd.read_csv("/kaggle/input/covid19-global-forecasting-week-1/submission.csv") data_submission.columns sub_new = data_submission[["ForecastId"]]<concatenate>
class MishFunction(torch.autograd.Function): @staticmethod def forward(ctx, x): ctx.save_for_backward(x) return x * torch.tanh(F.softplus(x)) @staticmethod def backward(ctx, grad_output): x = ctx.saved_variables[0] sigmoid = torch.sigmoid(x) tanh_sp = torch.tanh(F.softplus(x)) return grad_output *(tanh_sp + x * sigmo...
Cassava Leaf Disease Classification
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concat = pd.concat([pred1,pred2,sub_new],axis=1) concat.head() concat.columns = ['ConfirmedCases', 'Fatalities', 'ForecastId'] concat = concat[['ForecastId','ConfirmedCases', 'Fatalities']]<data_type_conversions>
semi_weakly_supervised_model_urls = { 'resnet18': 'https://dl.fbaipublicfiles.com/semiweaksupervision/model_files/semi_weakly_supervised_resnet18-118f1556.pth', 'resnet50': 'https://dl.fbaipublicfiles.com/semiweaksupervision/model_files/semi_weakly_supervised_resnet50-16a12f1b.pth', 'resnext50_32x4d': 'https://dl.fbaip...
Cassava Leaf Disease Classification
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concat["ConfirmedCases"] = concat["ConfirmedCases"].astype(int) concat["Fatalities"] = concat["Fatalities"].astype(int )<save_to_csv>
class CassvaImgClassifier(nn.Module): def __init__(self, model_arch, n_class, pretrained=False): super().__init__() self.model = create_model(model_arch, pretrained=pretrained) n_features = self.model.classifier.in_features self.model.classifier = nn.Linear(n_features, n_class) def forward(self, x): x = self.model(x)...
Cassava Leaf Disease Classification
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concat.to_csv("submission.csv",index=False )<load_from_csv>
! pip install.. /input/mlcollection/ml_collections-0.1.0-py3-none-any.whl
Cassava Leaf Disease Classification
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train_df = pd.read_csv("/kaggle/input/covid19-global-forecasting-week-1/train.csv") submission_df = pd.read_csv("/kaggle/input/covid19-global-forecasting-week-1/submission.csv") test_df = pd.read_csv('/kaggle/input/covid19-global-forecasting-week-1/test.csv' )<data_type_conversions>
class AdaptiveConcatPool2d(nn.Module): "Layer that concats `AdaptiveAvgPool2d` and `AdaptiveMaxPool2d`" def __init__(self, size=None): super().__init__() self.size = size or 1 self.ap = nn.AdaptiveAvgPool2d(self.size) self.mp = nn.AdaptiveMaxPool2d(self.size) def forward(self, x): return torch.cat([self.mp(x), self.a...
Cassava Leaf Disease Classification
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train_df["Date"] = train_df["Date"].apply(lambda x: datetime.strptime(x,'%Y-%m-%d')) train_df["Date"] = train_df["Date"].apply(lambda x: x.timestamp()) train_df["Date"] = train_df["Date"].astype(int )<count_missing_values>
if __name__ == '__main__': VALID = False test_num = len(os.listdir('.. /input/cassava-leaf-disease-classification/test_images')) print('test_num:', test_num) seed_everything(CFG['seed']) folds = StratifiedKFold(n_splits=CFG['fold_num'], shuffle=True, random_state=CFG['seed'] ).split(np.arange(train.shape[0]), train.l...
Cassava Leaf Disease Classification
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train_df.isnull().sum()<drop_column>
test['label'] = np.argmax(tst_preds, axis=1) test.head()
Cassava Leaf Disease Classification
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<count_missing_values><EOS>
test.to_csv('submission.csv', index=False )
Cassava Leaf Disease Classification
14,754,145
<SOS> metric: CategorizationAccuracy Kaggle data source: cassava-leaf-disease-classification<data_type_conversions>
!pip install -q '/kaggle/input/birdcall-identification-submission-custom/Keras_Applications-1.0.8-py3-none-any.whl' !pip install -q '/kaggle/input/birdcall-identification-submission-custom/efficientnet-1.1.0-py3-none-any.whl'
Cassava Leaf Disease Classification
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test_df["Date"] = test_df["Date"].apply(lambda x: datetime.strptime(x,'%Y-%m-%d')) test_df["Date"] = test_df["Date"].apply(lambda x: x.timestamp()) test_df["Date"] = test_df["Date"].astype(int) test_df = test_df.drop(['Province/State'],axis=1) test_df = test_df.dropna() test_df.head()<prepare_x_and_y>
import numpy as np import pandas as pd import tensorflow as tf import efficientnet.tfkeras as efn import matplotlib.pyplot as plt from tqdm.notebook import tqdm
Cassava Leaf Disease Classification
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X = train_df[['Lat', 'Long', 'Date']] Y1 = train_df[['ConfirmedCases']] X_test = test_df[['Lat', 'Long', 'Date']] Y2 = train_df[['Fatalities']]<prepare_output>
IMG_HEIGHT = 600 IMG_WIDTH = 800 IMG_SIZE = 600 IMG_TARGET_SIZE = 512 N_CHANNELS = 3 N_LABELS = 5 N_FOLDS = 5 BATCH_SIZE = 16 AUTO = tf.data.experimental.AUTOTUNE IMAGENET_MEAN = tf.constant([0.485, 0.456, 0.406], dtype=tf.float32) IMAGENET_STD = tf.constant([0.229, 0.224, 0.225], dtype=tf.float32 )
Cassava Leaf Disease Classification
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rf = RandomForestRegressor(n_estimators=100) rf.fit(X,Y1) pred1 = rf.predict(X_test) pred1 = pd.DataFrame(pred1) pred1.columns = ["ConfirmedCases_prediction"] <prepare_output>
def get_model(fold): tf.keras.backend.clear_session() net = efn.EfficientNetB4( include_top=False, weights=None, input_shape=(IMG_TARGET_SIZE, IMG_TARGET_SIZE, N_CHANNELS), ) for layer in reversed(net.layers): if isinstance(layer, tf.keras.layers.BatchNormalization): layer.trainable = False else: layer.trainable = T...
Cassava Leaf Disease Classification
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rf_fatalities_model = RandomForestRegressor(n_estimators=100) rf_fatalities_model.fit(X,Y2) pred2 = rf_fatalities_model.predict(X_test) pred2 = pd.DataFrame(pred2) pred2.columns = ["Death_prediction"]<load_from_csv>
@tf.function def decode_tfrecord_test(file_path): image = tf.io.read_file(file_path) image = tf.io.decode_jpeg(image) image = tf.reshape(image, [IMG_HEIGHT, IMG_WIDTH, N_CHANNELS]) image = tf.cast(image, tf.float32) image_id = tf.strings.split(file_path, '/')[-1] return image, image_id
Cassava Leaf Disease Classification
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submission = pd.read_csv("/kaggle/input/covid19-global-forecasting-week-1/submission.csv") submission.columns sub = submission[["ForecastId"]]<concatenate>
def get_test_dataset() : ignore_order = tf.data.Options() ignore_order.experimental_deterministic = False test_dataset = tf.data.Dataset.list_files('/kaggle/input/cassava-leaf-disease-classification/test_images/*.jpg') test_dataset = test_dataset.with_options(ignore_order) test_dataset = test_dataset.map(decode_tfrec...
Cassava Leaf Disease Classification
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combined_preds = pd.concat([pred1,pred2,sub],axis=1) combined_preds.head() combined_preds.columns = ['ConfirmedCases', 'Fatalities', 'ForecastId'] combined_preds = combined_preds[['ForecastId','ConfirmedCases', 'Fatalities']]<data_type_conversions>
def show_first_test_batch() : imgs, imgs_ids = next(iter(get_test_dataset())) img = imgs[0].numpy().astype(np.float32) print(f'imgs.shape: {imgs.shape}, imgs.dtype: {imgs.dtype}, imgs_ids.shape: {imgs_ids.shape}, imgs_ids.dtype: {imgs_ids.dtype}') print('img mean: {:.3f}, img std {:.3f}, img min: {:.3f}, img max: {:....
Cassava Leaf Disease Classification
14,754,145
<save_to_csv><EOS>
submission = pd.DataFrame(columns=['image_id', 'label']) preds_dict = dict() for fold in range(N_FOLDS): model = get_model(fold) for idx,(imgs, image_ids)in tqdm(enumerate(get_test_dataset())) : for img, image_id in zip(imgs, image_ids.numpy().astype(str)) : pred = predict_tta(model, img) if image_id in preds_dict: ...
Cassava Leaf Disease Classification
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<SOS> metric: CategorizationAccuracy Kaggle data source: cassava-leaf-disease-classification<import_modules>
import numpy as np import pandas as pd import os
Cassava Leaf Disease Classification
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from sklearn.model_selection import train_test_split import random from sklearn.impute import SimpleImputer from sklearn.pipeline import Pipeline from sklearn.preprocessing import OneHotEncoder from sklearn.compose import ColumnTransformer from sklearn.ensemble import RandomForestRegressor from sklearn.model_selection ...
!pip install timm --no-index --find-links=file:///kaggle/input/timm-package/
Cassava Leaf Disease Classification
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import datetime<choose_model_class>
!pip install albumentations --no-index --find-links=file:///kaggle/input/albumentationspackage/
Cassava Leaf Disease Classification
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def model() : rf = RandomForestRegressor(random_state = 42,bootstrap = False, max_depth= 80, max_features = 2, min_samples_leaf = 5, min_samples_split = 8, n_estimators = 100) return rf<train_model>
import sys import torch import torch.nn.functional as F import torch.nn as nn from torch.nn import Parameter import os import cv2 import timm
Cassava Leaf Disease Classification
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def train_and_predict(X, y, X_test): rf_classifier = model() rf_classifier_model = Pipeline(steps=[ ('model', rf_classifier) ]) rf_classifier_model.fit(X, y) y_pred = rf_classifier_model.predict(X_test) y_pred = np.around(y_pred) y_pred = y_pred.astype(int) return y_pred<load_from_csv>
import albumentations as A
Cassava Leaf Disease Classification
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if __name__ == '__main__': seed = 123 random.seed(seed) print('Loading Training Data') covid_train = pd.read_csv("/kaggle/input/covid19-global-forecasting-week-1/train.csv", parse_dates=['Date']) covid_train = covid_train.drop(['Province/State'], axis=1) covid_train = covid_train.drop(['Country/Region'], axis=1) c...
def gem(x, p=3, eps=1e-5): return F.avg_pool2d(x.clamp(min=eps ).pow(p),(x.size(-2), x.size(-1)) ).pow(1./p) class GeM(nn.Module): def __init__(self, p=3, eps=1e-5): super(GeM, self ).__init__() self.p = Parameter(torch.ones(1)* p) self.eps = eps def forward(self, x): return gem(x, p=self.p, eps=self.eps) def __repr...
Cassava Leaf Disease Classification
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covid_train['Date'] =(pd.to_datetime(covid_train['Date'], unit='s' ).astype(int)/10**9 ).astype(int )<feature_engineering>
class Net(nn.Module): def __init__(self, num_classes=5): super().__init__() self.model = timm.create_model('seresnext50_32x4d', pretrained=False) self._avg_pooling = nn.AdaptiveAvgPool2d(1) self.dropout=nn.Dropout(0.5) self._fc = nn.Linear(2048 , num_classes, bias=True) def forward(self, inputs): input_iid = inputs...
Cassava Leaf Disease Classification
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for i in range(len(covid_train['Date'])) : covid_train['Date'][i] = covid_train['Date'][i].strftime("%d %B, %Y" )<feature_engineering>
class DatasetTest() : def __init__(self, test_data_dir): self.ds = self.get_list(test_data_dir) self.root_dir = test_data_dir self.val_trans=A.Compose([A.HorizontalFlip(p=0.5), A.VerticalFlip(p=0.5), A.ColorJitter(brightness=0.1, contrast=0.2, saturation=0.2, hue=0.00, always_apply=False, p=1.0), A.RandomCrop(height= ...
Cassava Leaf Disease Classification
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covid_train['Date'] = str(covid_train['Date'] )<load_from_csv>
device = torch.device("cuda" if torch.cuda.is_available() else "cpu") kaggle_root = '/kaggle/input' model_dir = os.path.join(kaggle_root, 'cassva-models-se50-640') weights = [os.path.join(model_dir, f)for f in os.listdir(model_dir)] test_datadir= os.path.join(kaggle_root, 'cassava-leaf-disease-classification/test_ima...
Cassava Leaf Disease Classification
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covid_train = pd.read_csv("/kaggle/input/covid19-global-forecasting-week-1/train.csv", parse_dates=['Date'] )<data_type_conversions>
package_path = '.. /input/pytorch-image-models/pytorch-image-models-master' sys.path.append(package_path )
Cassava Leaf Disease Classification
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covid_train['Date'].astype(int)/ 10**15<install_modules>
warnings.filterwarnings("ignore")
Cassava Leaf Disease Classification
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!pip install seaborn==0.11.0<import_modules>
CFG = { 'fold_num': 5, 'seed': 719, 'model_arch': 'tf_efficientnet_b4_ns', 'img_size': 512, 'epochs': 10, 'train_bs': 32, 'valid_bs': 32, 'lr': 1e-4, 'num_workers': 4, 'accum_iter': 1, 'verbose_step': 1, 'device': 'cuda:0', 'tta': 3, 'used_epochs': [6,7,8,9], 'weights': [1,1,1,1] }
Cassava Leaf Disease Classification
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pd.options.display.max_rows=200 pd.set_option('mode.chained_assignment', None) simplefilter("ignore", category=ConvergenceWarning) simplefilter("ignore", category=RuntimeWarning) sns.__version__<load_from_csv>
train = pd.read_csv('.. /input/cassava-leaf-disease-classification/train.csv') train.head(10 )
Cassava Leaf Disease Classification
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train = pd.read_csv('/kaggle/input/titanic/train.csv', index_col='PassengerId') test = pd.read_csv('/kaggle/input/titanic/test.csv', index_col='PassengerId' )<count_missing_values>
train.label.value_counts()
Cassava Leaf Disease Classification
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train.isna().sum()<count_missing_values>
submission = pd.read_csv('.. /input/cassava-leaf-disease-classification/sample_submission.csv') submission.head()
Cassava Leaf Disease Classification
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test.isna().sum()<categorify>
def seeder(seed): random.seed(seed) os.environ['PYTHONHASHSEED'] = str(seed) np.random.seed(seed) torch.manual_seed(seed) torch.cuda.manual_seed(seed) torch.backends.cudnn.deterministic = True torch.backends.cudnn.benchmark = True def get_img(path): im_bgr = cv2.imread(path) im_rgb = im_bgr[:, :, ::-1] return im_...
Cassava Leaf Disease Classification
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def imputer(df): age_impute_series = df.groupby(['Pclass', 'Sex'] ).Age.transform('mean') df.Age.fillna(age_impute_series, inplace=True) df.Cabin = df.Cabin.str.extract(pat='([A-Z])') df.Cabin.fillna('M', inplace=True) df['Deck'] = df.Cabin.replace({'A':'ABC', 'B':'ABC', 'C':'ABC', 'D':'DE', 'E':'DE', 'F':'FG', 'G'...
img = get_img('.. /input/cassava-leaf-disease-classification/train_images/1000015157.jpg') plt.figure(figsize=(15,15)) plt.imshow(img) plt.show()
Cassava Leaf Disease Classification
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train_imputed = imputer(train.copy()) test_imputed = imputer(test.copy() )<categorify>
class CassavaDataset(Dataset): def __init__(self,df,data_root,transforms=None,output_label=True): super(CassavaDataset ).__init__() self.df=df.reset_index().copy() self.data_root=data_root self.transforms=transforms self.output_label=output_label def __len__(self): return self.df.shape[0] def __getitem__(self,index:int...
Cassava Leaf Disease Classification
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def ticket_extractor(ticket): alpha = re.sub('\d', '', ticket) if alpha: return alpha else: num = re.search('\d{1,9}', ticket) return ticket temp = train_imputed.copy() temp['Ticket_extracted'] = temp.Ticket.apply(ticket_extractor) for i in range(len(temp.Ticket)) : try: int(temp.Ticket_extracted.iloc[i]) temp.Tick...
HorizontalFlip, VerticalFlip, IAAPerspective, ShiftScaleRotate, CLAHE, RandomRotate90, Transpose, ShiftScaleRotate, Blur, OpticalDistortion, GridDistortion, HueSaturationValue, IAAAdditiveGaussianNoise, GaussNoise, MotionBlur, MedianBlur, IAAPiecewiseAffine, RandomResizedCrop, IAASharpen, IAAEmboss, RandomBrightnessCon...
Cassava Leaf Disease Classification
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temp = train_imputed.copy() temp['Title'] = temp.Name.str.extract(pat='([a-zA-Z]+\.) ') temp.Title[~temp.Title.isin(['Mr.', 'Miss.', 'Mrs.', 'Master.'])] = 'rare'<categorify>
class CassvaImgClassifier(nn.Module): def __init__(self, model_arch, n_class, pretrained=False): super().__init__() self.model = timm.create_model(model_arch, pretrained=pretrained) n_features = self.model.classifier.in_features self.model.classifier = nn.Linear(n_features, n_class) def forward(self, x): x = self.mod...
Cassava Leaf Disease Classification