DPOT: Auto-Regressive Denoising Operator Transformer for Large-Scale PDE Pre-Training

Code for pretraining neural operator transformers on multiple PDE datasets. We will update more details soon.

Usage

Dataset Protocol

All datasets are stored using hdf5 format, containing data field. Some datasets are stored with individual hdf5 files, others are stored within a single hdf5 file.

In data_generation/preprocess.py, we have the script for preprocessing the datasets from each source. Download the original file from these sources and preprocess them to /data folder.

Dataset	Link
FNO data	Here
PDEBench data	Here
PDEArena data	Here
CFDbench data	Here

In utils/make_master_file.py , we have all dataset configurations. When new datasets are merged, you should add a configuration dict. It stores all relative paths so that you could run on any places.

mkdir data

Single GPU Pre-training

Now we have a single GPU pretraining code script train_temporal.py, you could start it by

python train_temporal.py --model FNO --train_paths ns2d_fno_1e-5 --test_paths ns2d_fno_1e-5 --gpu 0 

to start a training process.

Or you could start it by writing a configuration file in configs/ns2d.yaml and start it by automatically using free GPUs with

python trainer.py --config_file ns2d.yaml

Multiple GPU Pre-training

python parallel_trainer.py --config_file ns2d_parallel.yaml

Configuration file

Now I use yaml as the configuration file. You could specify parameters for args. If you want to run multiple tasks, you could move parameters into the tasks ,

model: DPOT
width: 512
tasks:
 lr: [0.001,0.0001]
 batch_size: [256, 32] 

This means that you start 2 tasks if you submit this configuration to trainer.py.

Requirement

Install the following packages via conda-forge

conda install pytorch==2.0.0 torchvision==0.15.0 torchaudio==2.0.0 pytorch-cuda=11.7 -c pytorch -c nvidia
conda install matplotlib scikit-learn scipy pandas h5py -c conda-forge
conda install timm einops tensorboard -c conda-forge

Code Structure

• README.md
• train_temporal.py: main code of single GPU pre-training auto-regressive model
• trainer.py: framework of auto scheduling training tasks for parameter tuning
• utils/
  • criterion.py: loss functions of relative error
  • griddataset.py: dataset of mixture of temporal uniform grid dataset
  • make_master_file.py: datasets config file
  • normalizer: normalization methods (#TODO: implement instance reversible norm)
  • optimizer: Adam/AdamW/Lamb optimizer supporting complex numbers
  • utilities.py: other auxiliary functions
• configs/: configuration files for pre-training or fine-tuning
• models/
  • dpot.py: DPOT model
  • fno.py: FNO with group normalization
  • mlp.py
• data_generation/: Some code for preprocessing data (ask hzk if you want to use them)
  • darcy/
  • ns2d/