def test_set_random_seed(tiny_ic_data_path):
# check two data batches are the same after seeding
set_random_seed(1)
first_data = (ImageList.from_folder(tiny_ic_data_path).split_by_rand_pct().
label_from_folder().transform().databunch(bs=5).normalize())
first_batch = first_data.one_batch()
set_random_seed(1)
second_data = (ImageList.from_folder(tiny_ic_data_path).split_by_rand_pct(
).label_from_folder().transform().databunch(bs=5).normalize())
second_batch = second_data.one_batch()
assert first_batch[1].tolist() == second_batch[1].tolist()
def test_model_to_learner(tmp):
model = models.resnet18
# Test if the function loads an ImageNet model (ResNet) trainer
learn = model_to_learner(model(pretrained=True))
assert len(learn.data.classes) == 1000 # Check Image net classes
assert isinstance(learn.model, models.ResNet)
# Test if model can predict very simple image
IM_URL = "https://cvbp.blob.core.windows.net/public/images/cvbp_cup.jpg"
imagefile = os.path.join(tmp, "cvbp_cup.jpg")
urllib.request.urlretrieve(IM_URL, imagefile)
category, ind, predict_output = learn.predict(
open_image(imagefile, convert_mode="RGB"))
assert learn.data.classes[ind] == str(category) == "coffee_mug"
# Test if .predict() yield the same output when use .get_preds()
one_data = (
ImageList.from_folder(tmp).split_none().label_const(
) # cannot use label_empty because of fastai bug: # https://github.com/fastai/fastai/issues/1908
.transform(
tfms=None,
size=IMAGENET_IM_SIZE).databunch(bs=1).normalize(imagenet_stats))
learn.data.train_dl = one_data.train_dl
get_preds_output = learn.get_preds(ds_type=DatasetType.Train)
assert np.all(
np.isclose(
np.array(get_preds_output[0].tolist()
[0]), # Note, get_preds() produces a batch (list) output
np.array(predict_output.tolist()),
rtol=1e-05,
atol=1e-08,
))
def prediction(self, directorio, num_batch=8):
data = ImageList.from_folder(
directorio) # build the ImageList from the folder
learn.data.add_test(data) # add data to the test set of learn
learn.to_fp32() # pass the model and data to FP16
if self.arquitecture == 'resnet18':
sf = SaveFeatures(learn.model[1][4])
elif self.arquitecture == 'effB4':
sf = SaveFeatures(learn.model._avg_pooling)
# get the probabilities of images
preds, _ = learn.get_preds(ds_type=DatasetType.Test, n_batch=num_batch)
# Get the predictions (intenger indexes)
y_pred = preds.argmax(
dim=1).tolist() # using the arguments of the max probabilities
self.predictions_dict = {
n.name: learn.data.classes[y]
for n, y in zip(data.items, y_pred)
}
self.features = sf.features.squeeze()
self.labels = list(set(self.predictions_dict.values()))
def get_data_from_folder(path: Union[Path, str],
bs: int,
img_size: int,
tfms: Transform = None,
extensions: List[str] = [".jpg"]) -> ImageDataBunch:
"""Takes Imagenet style folder structure of test/train/valid and returns DataBunch with different
batch and image sizes to train with PyTorch.
Args:
path : path to folder with data in train/valid/test folder structure
bs : batch size
img_size : resize to img_size for training
tfms : transformations to do
extensions : extensions to grab from the folder path
Returns:
data : Train/Test data organized in Fastai DataBunch
"""
if tfms is None:
tfms = get_transforms()
data = (ImageList.from_folder(
path,
extensions=extensions).split_by_folder().label_from_folder().transform(
tfms,
size=img_size).databunch(bs=bs,
num_workers=0).normalize(imagenet_stats))
return data
def get_data(train_sampler=None):
data = (ImageList.from_folder(chip_dir).split_by_folder(
train='train', valid='val').label_from_folder().transform(
tfms, size=size).databunch(bs=self.train_opts.batch_sz,
num_workers=num_workers,
train_sampler=train_sampler))
return data
def main(ensemble, tta, output):
# Read in test data images from the 'data/test' folder
print("Loading test data.")
test_imgs = ImageList.from_folder(path=os.path.join(DATA_DIR,
TEST_FOLDER), )
# Get predictions
if ensemble:
# Load ensemble of learners
learners = []
learner_names = ['dpn92', 'inceptionv4', 'se_resnext101']
for name in learner_names:
print(f"Loading {name}")
learn = load_learner(SAVED_DIR, f'{name}.pkl', test=test_imgs)
learners.append(learn)
# Init ensemble
print("Initializing ensemble.")
ensemble = Ensemble(learners)
# Get predictions
print("Performing inference...")
preds = ensemble.predict(tta)
print("Predictions done.")
# Get classes list
classes = learners[0].data.classes
# Get image names list
img_names = [i.name for i in learners[0].data.test_ds.items]
else:
learner_name = 'se_resnext101'
# Initialize Learner
print(f"Loading {learner_name}")
learn = load_learner(SAVED_DIR, f'{learner_name}.pkl', test=test_imgs)
# Get predictions
print("Performing inference...")
if tta:
preds, _ = learn.TTA(ds_type=DatasetType.Test)
else:
preds, _ = learn.get_preds(ds_type=DatasetType.Test)
print("Predictions done.")
# Get classes list
classes = learn.data.classes
# Get image names list
img_names = [i.name for i in learn.data.test_ds.items]
# Initialize DataFrame with the predictions
df = pd.DataFrame(np.array(preds), columns=classes)
# Insert image names to DataFrame
df.insert(0, 'img_name', img_names)
# Save predictions as csv file
df.to_csv(output, index=False)
print(f"Predictions saved to {output}")
def get_data(data_path: PathOrStr,
bs: int = 16,
img_size: int = 160,
pct_partial: float = 1.0,
num_workers: int = 0,
seed: int = 42) -> ImageDataBunch:
"""
Create data object from Imagenet-style directory structure.
This is a wrapper around fastai's Data Block API. The purpose is to automate and package together datasets and
dataloaders, transforms, splitting the data, etc.
:param data_path: path to data in Imagenet-style folder structure.
:param bs: batch size
:param img_size: target image size
:param pct_partial: proportion of all data to use
:param num_workers: number of workers used to parallelize data transformations when feeding into the model
:param seed:
:return: data object containing data set and data loader (in PyTorch sense)
.. note:: more on Data Block API here: https://docs.fast.ai/data_block.html
.. note:: Imagenet-style directory structure: https://docs.fast.ai/vision.data.html#ImageDataBunch.from_folder
.. note:: `num_workers` anything from 0 crashes on my laptop, ideally, should equal the number of cores of your CPU
.. note:: all of the data will be used as training set, even images in `valid` folder
"""
label_lists: LabelLists = (
ImageList.from_folder(data_path) # -> ImageList
.use_partial_data(pct_partial, seed=seed) # -> ImageList
.split_none() # -> ItemLists: train and valid ItemList
.label_from_folder() # -> LabelLists: train and valid LabelList
.transform(size=img_size))
# handle the case when number of images is too small - fastai gives warning and throws error when showing batch
n_images = len(label_lists.train)
if n_images < bs:
print(
f"Too few images. Decreasing batch size from {bs} to {n_images}.")
bs = n_images
data: ImageDataBunch = (
label_lists.databunch(bs=bs,
num_workers=num_workers) # -> ImageDataBunch
.normalize(imagenet_stats)) # -> ImageDataBunch
# we want the order of images to not be shuffled to be able to find the right images easily
data.train_dl = data.train_dl.new(shuffle=False)
data.img_size = img_size # data object needs to know its image size
return data
def upload_file():
if request.method == 'POST':
image = request.files['file']
filename = secure_filename(image.filename)
#saving file in upload path
image.save(Path(app.config["IMAGE_UPLOADS"]+"/"+ filename))
my_dict = {}
#loading images from upload path
img_list_loader = ImageList.from_folder(upload_path)
#Checking if valid images are uploaded
if len(img_list_loader.items)>0:
#loading model
load_model = load_learner(model,
test=img_list_loader)
#running inference
preds,y = load_model.get_preds(ds_type=DatasetType.Test)
index =0
#Processing results for UI
for preds,img_src in zip(preds,img_list_loader.items):
top3_return_msg,top_pred = print_top_3_pred(preds)
if(np.round(preds[top_pred].numpy()*100,2)<threshold):
custom_msg = "NA"
Prediction_percent = "NA"
else:
custom_msg= str(get_label(int(top_pred)))
Prediction_percent = str("{:.2f}%".format(np.round(preds[top_pred].numpy()*100,2)))
temp_val=[]
temp_val.append(img_src)
temp_val.append(custom_msg)
temp_val.append(Prediction_percent)
temp_val.append(top3_return_msg)
my_dict[index]=temp_val
index+=1
return render_template('result.html', mydict=my_dict)
elif len(img_list_loader.items)== 0:
return "ERROR: Invalid image. Go back to upload new image"
def _get_data_bunch(path: Union[Path, str], transform: bool, im_size: int,
bs: int) -> ImageDataBunch:
"""
Create ImageDataBunch and return it. TODO in future version is to allow
users to pass in their own image bunch or their own Transformation
objects (instead of using fastai's <get_transforms>)
Args:
path (Union[Path, str]): path to data to create databunch with
transform (bool): a flag to set fastai default transformations (get_transforms())
im_size (int): image size of databunch
bs (int): batch size of databunch
Returns:
ImageDataBunch
"""
path = path if type(path) is Path else Path(path)
tfms = get_transforms() if transform else None
return (ImageList.from_folder(path).split_by_rand_pct(
valid_pct=0.33).label_from_folder().transform(
tfms=tfms,
size=im_size).databunch(bs=bs).normalize(imagenet_stats))
from model_utils import get_data, create_gen_learner
# Loading Paths for Model Load
path = Path('') # Path to data folder to load your model
path_lr = path / '' # Path to model weights
# Loading Paths to Inference
path_t = Path('') # Path to undamaged files
dmgpath = Path('') # Path to damage templates
inf_path = Path('') # Directory for files to be inferenced
# Creating gen and Loading saved Weights
src = ImageImageList.from_folder(path_lr).split_by_rand_pct(0.1, seed=42)
data_gen = get_data(1, 500, src, path_lr)
learn_gen = create_gen_learner(data_gen).load('') # LOAD MODEL HERE
test_list = ImageList.from_folder(inf_path)
# Starting Streamlit App
st.markdown('# **ML for Photo Repair**')
st.markdown('### Choose an Image and Damage Template:')
st.markdown('Click **Generate** to Create a damaged photo')
names = []
for filename in (os.listdir(path_t)):
if '.png' in filename:
names.append(filename)
elif '.jpg' in filename:
names.append(filename)
dmgnames = []
for filename in (os.listdir(dmgpath)):
if '.png' in filename:
dmgnames.append(filename)
from fastai.callbacks import SaveModelCallback
#from fastai.vision import *
from fastai.train import ClassificationInterpretation, DatasetType, load_learner
from fastai.vision import get_transforms, ImageList, cnn_learner, accuracy, jitter, open_image, learner
from torchvision import models as tv_models
from matplotlib import pyplot as plt
from pathlib import Path
base_path = Path('data', 'dataset-15')
dataset_path = base_path
img_size = 224
bs = 128
arch = tv_models.resnext50_32x4d
tfms = get_transforms(do_flip=True, flip_vert=True, max_warp=0.0, max_zoom=1.0)
data = (ImageList.from_folder(dataset_path).split_by_folder(
train='images',
valid='testset-15-cropped').label_from_folder().transform(tfms).databunch(
bs=bs).normalize())
data.valid_dl = data.valid_dl.new(shuffle=True)
# plot one image with transformations
# example_img = open_image('/home/hoth/Desktop/lego-brick-recognition/data/datasets/train-15/images/3008/3008_0.jpg')
# example_img.apply_tfms(tfms[0], size=224).show(figsize=(10, 10))
# plt.show()
Path.mkdir(base_path / 'classification', exist_ok=True)
# view data
data.show_batch(rows=10, ds_type=DatasetType.Train)
plt.savefig(base_path / 'classification' / 'batch_example_train.svg')
data.show_batch(rows=10, ds_type=DatasetType.Valid)
plt.savefig(base_path / 'classification' / 'batch_example_valid.svg')
# local modules
print(f"Fast.ai version = {fastai.__version__}")
which_processor()
EPOCHS = 10
LEARNING_RATE = 1e-4
IM_SIZE = 300
BATCH_SIZE = 16
ARCHITECTURE = models.resnet18
path = Path('/app/classifier_data/')
data = (ImageList.from_folder(path).split_by_rand_pct(
valid_pct=0.2,
seed=10).label_from_folder().transform(size=IM_SIZE).databunch(
bs=BATCH_SIZE, num_workers=db_num_workers()).normalize(imagenet_stats))
print(f'number of classes: {data.c}')
print(data.classes)
learn = cnn_learner(
data,
ARCHITECTURE,
metrics=[accuracy],
callback_fns=[partial(TrainMetricsRecorder, show_graph=True)])
learn.unfreeze()
learn.fit(EPOCHS, LEARNING_RATE)
learn.export(file=Path("/app/classifier_model.pkl"))
_, validation_accuracy = learn.validate(learn.data.valid_dl,
metrics=[accuracy])
HEAD_LEARNING_RATE = 0.01
BODY_LEARNING_RATE = 0.0001
BATCH_SIZE = 32
IM_SIZE = 224
DROPOUT = 0
ARCHITECTURE = models.resnet50
# Desired embedding dimension. Higher dimensions slow down retrieval but often provide better accuracy.
EMBEDDING_DIM = 4096
assert EMBEDDING_DIM == 4096 or EMBEDDING_DIM <= 2048
# Load images into fast.ai's ImageDataBunch object
random.seed(642)
data_finetune = (ImageList.from_folder(DATA_FINETUNE_PATH).split_by_rand_pct(
valid_pct=0.05, seed=20).label_from_folder().transform(
tfms=fastai.vision.transform.get_transforms(), size=IM_SIZE).databunch(
bs=BATCH_SIZE,
num_workers=db_num_workers()).normalize(imagenet_stats))
print(
f"Data for fine-tuning: {len(data_finetune.train_ds.x)} training images and {len(data_finetune.valid_ds.x)} validation images."
)
learn = cnn_learner(data_finetune, ARCHITECTURE, metrics=[], ps=DROPOUT)
print(learn.model[1])
# By default uses the 2048 dimensional pooling layer as implemented in the paper.
# Optionally can instead keep the 4096-dimensional pooling layer from the ResNet-50 model.
if EMBEDDING_DIM != 4096:
modules = []
def test_wrong_order():
this_tests('na')
path = untar_data(URLs.MNIST_TINY)
with pytest.raises(Exception, match="Your data isn't split*"):
ImageList.from_folder(path).label_from_folder().split_by_folder()
def test_wrong_order():
this_tests('na')
path = untar_data(URLs.MNIST_TINY)
with pytest.raises(Exception, match="Your data isn't split*"):
ImageList.from_folder(path).label_from_folder().split_by_folder()
## helpful way to initially get folders
# import split_folders
# split_folders.ratio('<path>', output='<path>/split', seed=1337, ratio=(.8, .2)) # uses default values
# sys.exit()
path = Path("data/CNN/-released/split")
################################################################################
# fastai uses databunches
################################################################################
data = (
ImageList.from_folder(path / "train").split_by_rand_pct(
0.1, seed=33).label_from_folder()
# .add_test_folder('..'/path/'test')
.transform(
get_transforms(do_flip=True, flip_vert=True),
size=150,
resize_method=ResizeMethod.SQUISH,
padding_mode="zeros",
).databunch(bs=64).normalize(imagenet_stats))
# ## turn this on for regular testing
# option_name = 'CNN__original'
# data_test = (ImageList.from_folder(path)
# .split_by_folder(train='train', valid='test')
# .label_from_folder()
# .transform(get_transforms(do_flip=True,flip_vert=True),size=150,resize_method=ResizeMethod.SQUISH,padding_mode='zeros')
# .databunch(bs=64)
# .normalize(imagenet_stats))
## turn this on for test_suite
import fastai
from fastai.vision import ImageList, ImageImageList
from pathlib import Path
from model_utils import get_data
from model_utils import create_gen_learner
path = Path('../data/')
path_hr = path / 'preprocessed'
path_lr = path / 'processed'
path_test = path / 'test_imgs'
# Gather and select Data / Output size
bs, size = 1, 500
src = ImageImageList.from_folder(path_lr).split_by_rand_pct(0.1, seed=42)
data_gen = get_data(bs, size, src, path_hr)
# Load model to inference from
learn_gen = create_gen_learner(data_gen).load('') # Input model to load
# Open file to be inferenced
test_list = ImageList.from_folder(path_test)
test_list.open(test_list.items[0])
# Inference and display output
test_list[0].show(figsize=(7, 7),y=learn_gen.predict(test_list[0])[0])
# Save File if desired
#y = learn_gen.predict(test_list[8])[0]
#y.save(path_test/'inf1.png')
from fastai.core import Path
from fastai.vision import load_learner, defaults, ImageList,DatasetType
import torch as torch
import os
import yaml
pic_name = 'GK_RDR_PG3_2'
mp = Path('/Users/nicholasbangs/Notebooks/personal/greek_reader_master')
im_path = mp/'lgi_data'/'gk_letter_imgs'/'ω'
defaults.device = torch.device('cpu')
model_path = mp/'models'
model_name = 'rn_34.pkl'
model = load_learner(model_path, model_name, test=ImageList.from_folder(im_path))
preds,y = model.get_preds(ds_type=DatasetType.Test)
classes = model.data.classes
zipped = list([zip(classes, p) for p in preds])
sorted_preds = [sorted(z, key=lambda x: x[1], reverse=True)[0] for z in zipped]
print(sorted_preds)
def train(self, tmp_dir):
"""Train a model.
This downloads any previous output saved to the train_uri,
starts training (or resumes from a checkpoint), periodically
syncs contents of train_dir to train_uri and after training finishes.
Args:
tmp_dir: (str) path to temp directory
"""
self.log_options()
# Sync output of previous training run from cloud.
train_uri = self.backend_opts.train_uri
train_dir = get_local_path(train_uri, tmp_dir)
make_dir(train_dir)
sync_from_dir(train_uri, train_dir)
# Get zip file for each group, and unzip them into chip_dir.
chip_dir = join(tmp_dir, 'chips')
make_dir(chip_dir)
for zip_uri in list_paths(self.backend_opts.chip_uri, 'zip'):
zip_path = download_if_needed(zip_uri, tmp_dir)
with zipfile.ZipFile(zip_path, 'r') as zipf:
zipf.extractall(chip_dir)
# Setup data loader.
size = self.task_config.chip_size
class_map = self.task_config.class_map
classes = class_map.get_class_names()
num_workers = 0 if self.train_opts.debug else 4
tfms = get_transforms(flip_vert=self.train_opts.flip_vert)
data = (ImageList.from_folder(chip_dir).split_by_folder(train='train',
valid='val'))
train_count = None
if self.train_opts.train_count is not None:
train_count = min(len(data.train), self.train_opts.train_count)
elif self.train_opts.train_prop != 1.0:
train_count = int(
round(self.train_opts.train_prop * len(data.train)))
train_items = data.train.items
if train_count is not None:
train_inds = np.random.permutation(np.arange(len(
data.train)))[0:train_count]
train_items = train_items[train_inds]
items = np.concatenate([train_items, data.valid.items])
data = ImageList(items, chip_dir) \
.split_by_folder(train='train', valid='val') \
.label_from_folder(classes=classes) \
.transform(tfms, size=size) \
.databunch(bs=self.train_opts.batch_size, num_workers=num_workers)
log.info(str(data))
if self.train_opts.debug:
make_debug_chips(data, class_map, tmp_dir, train_uri)
# Setup learner.
ignore_idx = -1
metrics = [
Precision(average='weighted', clas_idx=1, ignore_idx=ignore_idx),
Recall(average='weighted', clas_idx=1, ignore_idx=ignore_idx),
FBeta(average='weighted',
clas_idx=1,
beta=1,
ignore_idx=ignore_idx)
]
model_arch = getattr(models, self.train_opts.model_arch)
learn = cnn_learner(data,
model_arch,
metrics=metrics,
wd=self.train_opts.weight_decay,
path=train_dir)
learn.unfreeze()
if self.train_opts.mixed_prec and torch.cuda.is_available():
# This loss_scale works for Resnet 34 and 50. You might need to
# adjust this for other models.
learn = learn.to_fp16(loss_scale=256)
# Setup callbacks and train model.
model_path = get_local_path(self.backend_opts.model_uri, tmp_dir)
pretrained_uri = self.backend_opts.pretrained_uri
if pretrained_uri:
log.info('Loading weights from pretrained_uri: {}'.format(
pretrained_uri))
pretrained_path = download_if_needed(pretrained_uri, tmp_dir)
learn.model = torch.load(pretrained_path,
map_location=learn.data.device)['model']
# Save every epoch so that resume functionality provided by
# TrackEpochCallback will work.
callbacks = [
TrackEpochCallback(learn),
MySaveModelCallback(learn, every='epoch'),
MyCSVLogger(learn, filename='log'),
ExportCallback(learn, model_path, monitor='f_beta'),
SyncCallback(train_dir, self.backend_opts.train_uri,
self.train_opts.sync_interval)
]
if self.train_opts.log_tensorboard:
callbacks.append(TensorboardLogger(learn, 'run'))
if self.train_opts.run_tensorboard:
log.info('Starting tensorboard process')
log_dir = join(train_dir, 'logs', 'run')
tensorboard_process = Popen(
['tensorboard', '--logdir={}'.format(log_dir)])
terminate_at_exit(tensorboard_process)
lr = self.train_opts.lr
num_epochs = self.train_opts.num_epochs
if self.train_opts.one_cycle:
if lr is None:
learn.lr_find()
learn.recorder.plot(suggestion=True, return_fig=True)
lr = learn.recorder.min_grad_lr
log.info('lr_find() found lr: {}'.format(lr))
learn.fit_one_cycle(num_epochs, lr, callbacks=callbacks)
else:
learn.fit(num_epochs, lr, callbacks=callbacks)
if self.train_opts.run_tensorboard:
tensorboard_process.terminate()
# Since model is exported every epoch, we need some other way to
# show that training is finished.
str_to_file('done!', self.backend_opts.train_done_uri)
# Sync output to cloud.
sync_to_dir(train_dir, self.backend_opts.train_uri)
from fastprogress.fastprogress import force_console_behavior
import fastprogress
fastprogress.fastprogress.NO_BAR = True
master_bar, progress_bar = force_console_behavior()
fastai.basic_train.master_bar, fastai.basic_train.progress_bar = master_bar, progress_bar
def get_file(aString):
return str(aString.split('/')[-1])
image_folder = 'images/'
path = untar_data(URLs.DOGS)
learn = load_learner(path, test=ImageList.from_folder(image_folder), bs = 1)
preds,y = learn.get_preds(ds_type=DatasetType.Test, )
predList = list(preds.numpy()[:,0])
f_names = listdir(image_folder)
pred_df = pd.DataFrame(list(zip(f_names,predList)), columns = ['f_name','prob_dog'])
registry = 'registry/downloaded_files.csv'
regDF = pd.read_csv(registry)
regDF['f_name'] = regDF.file.apply(get_file)
out_df = pd.merge(regDF,pred_df, on = ['f_name'])
