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Lightstream

Lightstream is a Pytorch library to train CNN's with large input images. Parsing large inputs is achieved through a combination of gradient checkpointing and tiling the input image. For a full overview of the streaming algorithm, please read the article:

[1] H. Pinckaers, B. van Ginneken and G. Litjens, "Streaming convolutional neural networks for end-to-end learning with multi-megapixel images," in IEEE Transactions on Pattern Analysis and Machine Intelligence, doi: 10.1109/TPAMI.2020.3019563

Installation

The lightstream repository can be installed using pip, or you can alternatively clone the git repository and build the wheel.

pip install lightstream

We also recommend to install the albumentationsxl package, which is an albumentations fork with a pyvips backend to preprocess large images

pip install albumentationsxl

Requirements

The lightstream package requires PyTorch version 2.0 or greater to be installed, along with Pytorch lightning version 2.0.0 or greater.

  • PyTorch 2.0.0 or greater
  • Pytorch Lightning 2.0.0 or greater
  • Albumentationsxl (recommended) Furthermore, we recommend a GPU with at least 10 GB of VRAM, and a system with at least 32 GB of RAM.

Using lightstream with pre-trained networks

lightstream offers several out-of-the-box streaming equivalents of ImageNet classifiers. Currently ResNet and ConvNext architectures are supported

import torch.nn
from lightstream.models.resnet.resnet import StreamingResNet

model = StreamingResNet(model_name="resnet18", tile_size=2880, loss_fn=torch.nn.CrossEntropyLoss(), train_streaming_layers=True)

Documentation

The documentation can be found at https://diagnijmegen.github.io/lightstream/

Alternatively the documentation can be generated locally using

make docs