botorch: A Python repository from qingfeng10

BoTorch is a library for Bayesian Optimization built on PyTorch.

BoTorch is currently in beta and under active development!

Why BoTorch ?

BoTorch

Provides a modular and easily extensible interface for composing Bayesian optimization primitives, including probabilistic models, acquisition functions, and optimizers.
Harnesses the power of PyTorch, including auto-differentiation, native support for highly parallelized modern hardware (e.g. GPUs) using device-agnostic code, and a dynamic computation graph.
Supports Monte Carlo-based acquisition functions via the reparameterization trick, which makes it straightforward to implement new ideas without having to impose restrictive assumptions about the underlying model.
Enables seamless integration with deep and/or convolutional architectures in PyTorch.
Has first-class support for state-of-the art probabilistic models in GPyTorch, including support for multi-task Gaussian Processes (GPs) deep kernel learning, deep GPs, and approximate inference.

Target Audience

The primary audience for hands-on use of BoTorch are researchers and sophisticated practitioners in Bayesian Optimization and AI. We recommend using BoTorch as a low-level API for implementing new algorithms for Ax. Ax has been designed to be an easy-to-use platform for end-users, which at the same time is flexible enough for Bayesian Optimization researchers to plug into for handling of feature transformations, (meta-)data management, storage, etc. We recommend that end-users who are not actively doing research on Bayesian Optimization simply use Ax.

Installation

Installation Requirements

Python >= 3.7
PyTorch >= 1.6
gpytorch >= 1.2
scipy

Installing the latest release

The latest release of BoTorch is easily installed either via Anaconda (recommended):

conda install botorch -c pytorch -c gpytorch

or via pip:

pip install botorch

You can customize your PyTorch installation (i.e. CUDA version, CPU only option) by following the PyTorch installation instructions.

Important note for MacOS users:

Make sure your PyTorch build is linked against MKL (the non-optimized version of BoTorch can be up to an order of magnitude slower in some settings). Setting this up manually on MacOS can be tricky - to ensure this works properly, please follow the PyTorch installation instructions.
If you need CUDA on MacOS, you will need to build PyTorch from source. Please consult the PyTorch installation instructions above.

Installing from latest master

If you would like to try our bleeding edge features (and don't mind potentially running into the occasional bug here or there), you can install the latest master directly from GitHub (this will also require installing the current GPyTorch master):

pip install --upgrade git+https://github.com/cornellius-gp/gpytorch.git
pip install --upgrade git+https://github.com/pytorch/botorch.git

Manual / Dev install

Alternatively, you can do a manual install. For a basic install, run:

git clone https://github.com/pytorch/botorch.git
cd botorch
pip install -e .

To customize the installation, you can also run the following variants of the above:

pip install -e .[dev]: Also installs all tools necessary for development (testing, linting, docs building; see Contributing below).
pip install -e .[tutorials]: Also installs all packages necessary for running the tutorial notebooks.

Getting Started

Here's a quick run down of the main components of a Bayesian optimization loop. For more details see our Documentation and the Tutorials.

Fit a Gaussian Process model to data

import torch
from botorch.models import SingleTaskGP
from botorch.fit import fit_gpytorch_model
from gpytorch.mlls import ExactMarginalLogLikelihood

train_X = torch.rand(10, 2)
Y = 1 - (train_X - 0.5).norm(dim=-1, keepdim=True)  # explicit output dimension
Y += 0.1 * torch.rand_like(Y)
train_Y = (Y - Y.mean()) / Y.std()

gp = SingleTaskGP(train_X, train_Y)
mll = ExactMarginalLogLikelihood(gp.likelihood, gp)
fit_gpytorch_model(mll)

Construct an acquisition function

from botorch.acquisition import UpperConfidenceBound

UCB = UpperConfidenceBound(gp, beta=0.1)

Optimize the acquisition function

from botorch.optim import optimize_acqf

bounds = torch.stack([torch.zeros(2), torch.ones(2)])
candidate, acq_value = optimize_acqf(
    UCB, bounds=bounds, q=1, num_restarts=5, raw_samples=20,
)

Citing BoTorch

If you use BoTorch, please cite the following paper:

M. Balandat, B. Karrer, D. R. Jiang, S. Daulton, B. Letham, A. G. Wilson, and E. Bakshy. BoTorch: Programmable Bayesian Optimization in PyTorch. ArXiv e-prints, 2019.

@article{balandat2019botorch,
  Author = {Balandat, Maximilian and Karrer, Brian and Jiang, Daniel R. and Daulton, Samuel and Letham, Benjamin and Wilson, Andrew Gordon and Bakshy, Eytan},
  Journal = {arxiv e-prints},
  Title = {{BoTorch: Programmable Bayesian Optimization in PyTorch}},
  Year = {2019},
  url = {http://arxiv.org/abs/1910.06403}
}

If you use q-Expected Hypervolume Improvement, q-ParEGO, or analytic Expected Hypervolume Improvement with auto-differentiation, please also cite the following paper:

S. Daulton, M. Balandat, E. Bakshy. Differentiable Expected Hypervolume Improvement for Parallel Multi-Objective Bayesian Optimization. ArXiv e-prints, 2020.

@article{daulton2020differentiable,
  Author = {Samuel Daulton and Maximilian Balandat and Eytan Bakshy},
  Journal = {Arxiv e-prints},
  Title = {Differentiable Expected Hypervolume Improvement for Parallel Multi-Objective Bayesian Optimization},
  Year = {2020},
  url = {https://arxiv.org/abs/2006.05078}
}

Contributing

See the CONTRIBUTING file for how to help out.

License

BoTorch is MIT licensed, as found in the LICENSE file.

qingfeng10/botorch