arXiv subjects

Prasanna Balaprakash

Publications and source records attributed to Prasanna Balaprakash.

At least 37 records · Page 2Linked to original sources

arXiv2025

Leveraging AI for Productive and Trustworthy HPC Software: Challenges and Research Directions

We discuss the challenges and propose research directions for using AI to revolutionize the development of high-performance computing (HPC) software. AI technologies, in particular large language models, have transformed every aspect of software development. For its part, HPC software is recognized as a highly specialized scientific field of its own. We discuss the challenges associated with leveraging state-of-the-art AI technologies to develop such a unique and niche class of software and outline our research directions in the two US Department of Energy--funded projects for advancing HPC Software via AI: Ellora and Durban.

cs.SE↗

arXiv2025

Scaling Laws of Graph Neural Networks for Atomistic Materials Modeling

Atomistic materials modeling is a critical task with wide-ranging applications, from drug discovery to materials science, where accurate predictions of the target material property can lead to significant advancements in scientific discovery. Graph Neural Networks (GNNs) represent the state-of-the-art approach for modeling atomistic material data thanks to their capacity to capture complex relational structures. While machine learning performance has historically improved with larger models and datasets, GNNs for atomistic materials modeling remain relatively small compared to large language models (LLMs), which leverage billions of parameters and terabyte-scale datasets to achieve remarkable performance in their respective domains. To address this gap, we explore the scaling limits of GNNs for atomistic materials modeling by developing a foundational model with billions of parameters, trained on extensive datasets in terabyte-scale. Our approach incorporates techniques from LLM libraries to efficiently manage large-scale data and models, enabling both effective training and deployment of these large-scale GNN models. This work addresses three fundamental questions in scaling GNNs: the potential for scaling GNN model architectures, the effect of dataset size on model accuracy, and the applicability of LLM-inspired techniques to GNN architectures. Specifically, the outcomes of this study include (1) insights into the scaling laws for GNNs, highlighting the relationship between model size, dataset volume, and accuracy, (2) a foundational GNN model optimized for atomistic materials modeling, and (3) a GNN codebase enhanced with advanced LLM-based training techniques. Our findings lay the groundwork for large-scale GNNs with billions of parameters and terabyte-scale datasets, establishing a scalable pathway for future advancements in atomistic materials modeling.

cs.LG↗

arXiv2024

Bayesian optimized deep ensemble for uncertainty quantification of deep neural networks: a system safety case study on sodium fast reactor thermal stratification modeling

Accurate predictions and uncertainty quantification (UQ) are essential for decision-making in risk-sensitive fields such as system safety modeling. Deep ensembles (DEs) are efficient and scalable methods for UQ in Deep Neural Networks (DNNs); however, their performance is limited when constructed by simply retraining the same DNN multiple times with randomly sampled initializations. To overcome this limitation, we propose a novel method that combines Bayesian optimization (BO) with DE, referred to as BODE, to enhance both predictive accuracy and UQ. We apply BODE to a case study involving a Densely connected Convolutional Neural Network (DCNN) trained on computational fluid dynamics (CFD) data to predict eddy viscosity in sodium fast reactor thermal stratification modeling. Compared to a manually tuned baseline ensemble, BODE estimates total uncertainty approximately four times lower in a noise-free environment, primarily due to the baseline's overestimation of aleatoric uncertainty. Specifically, BODE estimates aleatoric uncertainty close to zero, while aleatoric uncertainty dominates the total uncertainty in the baseline ensemble. We also observe a reduction of more than 30% in epistemic uncertainty. When Gaussian noise with standard deviations of 5% and 10% is introduced into the data, BODE accurately fits the data and estimates uncertainty that aligns with the data noise. These results demonstrate that BODE effectively reduces uncertainty and enhances predictions in data-driven models, making it a flexible approach for various applications requiring accurate predictions and robust UQ.

cs.LG↗

arXiv2024

Scalable Training of Trustworthy and Energy-Efficient Predictive Graph Foundation Models for Atomistic Materials Modeling: A Case Study with HydraGNN

We present our work on developing and training scalable, trustworthy, and energy-efficient predictive graph foundation models (GFMs) using HydraGNN, a multi-headed graph convolutional neural network architecture. HydraGNN expands the boundaries of graph neural network (GNN) computations in both training scale and data diversity. It abstracts over message passing algorithms, allowing both reproduction of and comparison across algorithmic innovations that define nearest-neighbor convolution in GNNs. This work discusses a series of optimizations that have allowed scaling up the GFMs training to tens of thousands of GPUs on datasets consisting of hundreds of millions of graphs. Our GFMs use multi-task learning (MTL) to simultaneously learn graph-level and node-level properties of atomistic structures, such as energy and atomic forces. Using over 154 million atomistic structures for training, we illustrate the performance of our approach along with the lessons learned on two state-of-the-art United States Department of Energy (US-DOE) supercomputers, namely the Perlmutter petascale system at the National Energy Research Scientific Computing Center and the Frontier exascale system at Oak Ridge Leadership Computing Facility. The HydraGNN architecture enables the GFM to achieve near-linear strong scaling performance using more than 2,000 GPUs on Perlmutter and 16,000 GPUs on Frontier.

cs.LG↗

arXiv2024

Generalizable Prediction Model of Molten Salt Mixture Density with Chemistry-Informed Transfer Learning

Optimally designing molten salt applications requires knowledge of their thermophysical properties, but existing databases are incomplete, and experiments are challenging. Ideal mixing and Redlich-Kister models are computationally cheap but lack either accuracy or generality. To address this, a transfer learning approach using deep neural networks (DNNs) is proposed, combining Redlich-Kister models, experimental data, and ab initio properties. The approach predicts molten salt density with high accuracy ($r^{2}$ > 0.99, MAPE < 1%), outperforming the alternatives.

cs.LG↗

arXiv2024

Integrating ytopt and libEnsemble to Autotune OpenMC

ytopt is a Python machine-learning-based autotuning software package developed within the ECP PROTEAS-TUNE project. The ytopt software adopts an asynchronous search framework that consists of sampling a small number of input parameter configurations and progressively fitting a surrogate model over the input-output space until exhausting the user-defined maximum number of evaluations or the wall-clock time. libEnsemble is a Python toolkit for coordinating workflows of asynchronous and dynamic ensembles of calculations across massively parallel resources developed within the ECP PETSc/TAO project. libEnsemble helps users take advantage of massively parallel resources to solve design, decision, and inference problems and expands the class of problems that can benefit from increased parallelism. In this paper we present our methodology and framework to integrate ytopt and libEnsemble to take advantage of massively parallel resources to accelerate the autotuning process. Specifically, we focus on using the proposed framework to autotune the ECP ExaSMR application OpenMC, an open source Monte Carlo particle transport code. OpenMC has seven tunable parameters some of which have large ranges such as the number of particles in-flight, which is in the range of 100,000 to 8 million, with its default setting of 1 million. Setting the proper combination of these parameter values to achieve the best performance is extremely time-consuming. Therefore, we apply the proposed framework to autotune the MPI/OpenMP offload version of OpenMC based on a user-defined metric such as the figure of merit (FoM) (particles/s) or energy efficiency energy-delay product (EDP) on Crusher at Oak Ridge Leadership Computing Facility. The experimental results show that we achieve improvement up to 29.49\% in FoM and up to 30.44\% in EDP.

cs.PF↗

arXiv2024

Sequential Bayesian Neural Subnetwork Ensembles

Deep ensembles have emerged as a powerful technique for improving predictive performance and enhancing model robustness across various applications by leveraging model diversity. However, traditional deep ensemble methods are often computationally expensive and rely on deterministic models, which may limit their flexibility. Additionally, while sparse subnetworks of dense models have shown promise in matching the performance of their dense counterparts and even enhancing robustness, existing methods for inducing sparsity typically incur training costs comparable to those of training a single dense model, as they either gradually prune the network during training or apply thresholding post-training. In light of these challenges, we propose an approach for sequential ensembling of dynamic Bayesian neural subnetworks that consistently maintains reduced model complexity throughout the training process while generating diverse ensembles in a single forward pass. Our approach involves an initial exploration phase to identify high-performing regions within the parameter space, followed by multiple exploitation phases that take advantage of the compactness of the sparse model. These exploitation phases quickly converge to different minima in the energy landscape, corresponding to high-performing subnetworks that together form a diverse and robust ensemble. We empirically demonstrate that our proposed approach outperforms traditional dense and sparse deterministic and Bayesian ensemble models in terms of prediction accuracy, uncertainty estimation, out-of-distribution detection, and adversarial robustness.

stat.ML↗

arXiv2024

ORBIT: Oak Ridge Base Foundation Model for Earth System Predictability

Earth system predictability is challenged by the complexity of environmental dynamics and the multitude of variables involved. Current AI foundation models, although advanced by leveraging large and heterogeneous data, are often constrained by their size and data integration, limiting their effectiveness in addressing the full range of Earth system prediction challenges. To overcome these limitations, we introduce the Oak Ridge Base Foundation Model for Earth System Predictability (ORBIT), an advanced vision transformer model that scales up to 113 billion parameters using a novel hybrid tensor-data orthogonal parallelism technique. As the largest model of its kind, ORBIT surpasses the current climate AI foundation model size by a thousandfold. Performance scaling tests conducted on the Frontier supercomputer have demonstrated that ORBIT achieves 684 petaFLOPS to 1.6 exaFLOPS sustained throughput, with scaling efficiency maintained at 41% to 85% across 49,152 AMD GPUs. These breakthroughs establish new advances in AI-driven climate modeling and demonstrate promise to significantly improve the Earth system predictability.

physics.ao-ph↗

arXiv2024

Large Language Models for Anomaly Detection in Computational Workflows: from Supervised Fine-Tuning to In-Context Learning

Anomaly detection in computational workflows is critical for ensuring system reliability and security. However, traditional rule-based methods struggle to detect novel anomalies. This paper leverages large language models (LLMs) for workflow anomaly detection by exploiting their ability to learn complex data patterns. Two approaches are investigated: 1) supervised fine-tuning (SFT), where pre-trained LLMs are fine-tuned on labeled data for sentence classification to identify anomalies, and 2) in-context learning (ICL) where prompts containing task descriptions and examples guide LLMs in few-shot anomaly detection without fine-tuning. The paper evaluates the performance, efficiency, generalization of SFT models, and explores zero-shot and few-shot ICL prompts and interpretability enhancement via chain-of-thought prompting. Experiments across multiple workflow datasets demonstrate the promising potential of LLMs for effective anomaly detection in complex executions.

cs.SE↗

arXiv2024

Uncertainty Quantification for Molecular Property Predictions with Graph Neural Architecture Search

Graph Neural Networks (GNNs) have emerged as a prominent class of data-driven methods for molecular property prediction. However, a key limitation of typical GNN models is their inability to quantify uncertainties in the predictions. This capability is crucial for ensuring the trustworthy use and deployment of models in downstream tasks. To that end, we introduce AutoGNNUQ, an automated uncertainty quantification (UQ) approach for molecular property prediction. AutoGNNUQ leverages architecture search to generate an ensemble of high-performing GNNs, enabling the estimation of predictive uncertainties. Our approach employs variance decomposition to separate data (aleatoric) and model (epistemic) uncertainties, providing valuable insights for reducing them. In our computational experiments, we demonstrate that AutoGNNUQ outperforms existing UQ methods in terms of both prediction accuracy and UQ performance on multiple benchmark datasets. Additionally, we utilize t-SNE visualization to explore correlations between molecular features and uncertainty, offering insight for dataset improvement. AutoGNNUQ has broad applicability in domains such as drug discovery and materials science, where accurate uncertainty quantification is crucial for decision-making.

cs.LG↗

arXiv2024

Flow-Bench: A Dataset for Computational Workflow Anomaly Detection

A computational workflow, also known as workflow, consists of tasks that must be executed in a specific order to attain a specific goal. Often, in fields such as biology, chemistry, physics, and data science, among others, these workflows are complex and are executed in large-scale, distributed, and heterogeneous computing environments prone to failures and performance degradation. Therefore, anomaly detection for workflows is an important paradigm that aims to identify unexpected behavior or errors in workflow execution. This crucial task to improve the reliability of workflow executions can be further assisted by machine learning-based techniques. However, such application is limited, in large part, due to the lack of open datasets and benchmarking. To address this gap, we make the following contributions in this paper: (1) we systematically inject anomalies and collect raw execution logs from workflows executing on distributed infrastructures; (2) we summarize the statistics of new datasets, and provide insightful analyses; (3) we convert workflows into tabular, graph and text data, and benchmark with supervised and unsupervised anomaly detection techniques correspondingly. The presented dataset and benchmarks allow examining the effectiveness and efficiency of scientific computational workflows and identifying potential research opportunities for improvement and generalization. The dataset and benchmark code are publicly available \url{https://poseidon-workflows.github.io/FlowBench/} under the MIT License.

cs.DC↗

arXiv2024

Physics-Informed Heterogeneous Graph Neural Networks for DC Blocker Placement

The threat of geomagnetic disturbances (GMDs) to the reliable operation of the bulk energy system has spurred the development of effective strategies for mitigating their impacts. One such approach involves placing transformer neutral blocking devices, which interrupt the path of geomagnetically induced currents (GICs) to limit their impact. The high cost of these devices and the sparsity of transformers that experience high GICs during GMD events, however, calls for a sparse placement strategy that involves high computational cost. To address this challenge, we developed a physics-informed heterogeneous graph neural network (PIHGNN) for solving the graph-based dc-blocker placement problem. Our approach combines a heterogeneous graph neural network (HGNN) with a physics-informed neural network (PINN) to capture the diverse types of nodes and edges in ac/dc networks and incorporates the physical laws of the power grid. We train the PIHGNN model using a surrogate power flow model and validate it using case studies. Results demonstrate that PIHGNN can effectively and efficiently support the deployment of GIC dc-current blockers, ensuring the continued supply of electricity to meet societal demands. Our approach has the potential to contribute to the development of more reliable and resilient power grids capable of withstanding the growing threat that GMDs pose.

eess.SY↗

arXiv2024

Advancing Anomaly Detection in Computational Workflows with Active Learning

A computational workflow, also known as workflow, consists of tasks that are executed in a certain order to attain a specific computational campaign. Computational workflows are commonly employed in science domains, such as physics, chemistry, genomics, to complete large-scale experiments in distributed and heterogeneous computing environments. However, running computations at such a large scale makes the workflow applications prone to failures and performance degradation, which can slowdown, stall, and ultimately lead to workflow failure. Learning how these workflows behave under normal and anomalous conditions can help us identify the causes of degraded performance and subsequently trigger appropriate actions to resolve them. However, learning in such circumstances is a challenging task because of the large volume of high-quality historical data needed to train accurate and reliable models. Generating such datasets not only takes a lot of time and effort but it also requires a lot of resources to be devoted to data generation for training purposes. Active learning is a promising approach to this problem. It is an approach where the data is generated as required by the machine learning model and thus it can potentially reduce the training data needed to derive accurate models. In this work, we present an active learning approach that is supported by an experimental framework, Poseidon-X, that utilizes a modern workflow management system and two cloud testbeds. We evaluate our approach using three computational workflows. For one workflow we run an end-to-end live active learning experiment, for the other two we evaluate our active learning algorithms using pre-captured data traces provided by the Flow-Bench benchmark. Our findings indicate that active learning not only saves resources, but it also improves the accuracy of the detection of anomalies.

cs.DC↗

arXiv2024

Sequence Length Scaling in Vision Transformers for Scientific Images on Frontier

Vision Transformers (ViTs) are pivotal for foundational models in scientific imagery, including Earth science applications, due to their capability to process large sequence lengths. While transformers for text has inspired scaling sequence lengths in ViTs, yet adapting these for ViTs introduces unique challenges. We develop distributed sequence parallelism for ViTs, enabling them to handle up to 1M tokens. Our approach, leveraging DeepSpeed-Ulysses and Long-Sequence-Segmentation with model sharding, is the first to apply sequence parallelism in ViT training, achieving a 94% batch scaling efficiency on 2,048 AMD-MI250X GPUs. Evaluating sequence parallelism in ViTs, particularly in models up to 10B parameters, highlighted substantial bottlenecks. We countered these with hybrid sequence, pipeline, tensor parallelism, and flash attention strategies, to scale beyond single GPU memory limits. Our method significantly enhances climate modeling accuracy by 20% in temperature predictions, marking the first training of a transformer model on a full-attention matrix over 188K sequence length.

cs.CV↗

arXiv2024

Network architecture search of X-ray based scientific applications

X-ray and electron diffraction-based microscopy use bragg peak detection and ptychography to perform 3-D imaging at an atomic resolution. Typically, these techniques are implemented using computationally complex tasks such as a Psuedo-Voigt function or solving a complex inverse problem. Recently, the use of deep neural networks has improved the existing state-of-the-art approaches. However, the design and development of the neural network models depends on time and labor intensive tuning of the model by application experts. To that end, we propose a hyperparameter (HPS) and neural architecture search (NAS) approach to automate the design and optimization of the neural network models for model size, energy consumption and throughput. We demonstrate the improved performance of the auto-tuned models when compared to the manually tuned BraggNN and PtychoNN benchmark. We study and demonstrate the importance of the exploring the search space of tunable hyperparameters in enhancing the performance of bragg peak detection and ptychographic reconstruction. Our NAS and HPS of (1) BraggNN achieves a 31.03\% improvement in bragg peak detection accuracy with a 87.57\% reduction in model size, and (2) PtychoNN achieves a 16.77\% improvement in model accuracy and a 12.82\% reduction in model size when compared to the baseline PtychoNN model. When inferred on the Orin-AGX platform, the optimized Braggnn and Ptychonn models demonstrate a 10.51\% and 9.47\% reduction in inference latency and a 44.18\% and 15.34\% reduction in energy consumption when compared to their respective baselines, when inferred in the Orin-AGX edge platform.

cs.LG↗

arXiv2024

AI Competitions and Benchmarks: Dataset Development

Machine learning is now used in many applications thanks to its ability to predict, generate, or discover patterns from large quantities of data. However, the process of collecting and transforming data for practical use is intricate. Even in today's digital era, where substantial data is generated daily, it is uncommon for it to be readily usable; most often, it necessitates meticulous manual data preparation. The haste in developing new models can frequently result in various shortcomings, potentially posing risks when deployed in real-world scenarios (eg social discrimination, critical failures), leading to the failure or substantial escalation of costs in AI-based projects. This chapter provides a comprehensive overview of established methodological tools, enriched by our practical experience, in the development of datasets for machine learning. Initially, we develop the tasks involved in dataset development and offer insights into their effective management (including requirements, design, implementation, evaluation, distribution, and maintenance). Then, we provide more details about the implementation process which includes data collection, transformation, and quality evaluation. Finally, we address practical considerations regarding dataset distribution and maintenance.

cs.LG↗

arXiv2024

Streamlining Ocean Dynamics Modeling with Fourier Neural Operators: A Multiobjective Hyperparameter and Architecture Optimization Approach

Training an effective deep learning model to learn ocean processes involves careful choices of various hyperparameters. We leverage the advanced search algorithms for multiobjective optimization in DeepHyper, a scalable hyperparameter optimization software, to streamline the development of neural networks tailored for ocean modeling. The focus is on optimizing Fourier neural operators (FNOs), a data-driven model capable of simulating complex ocean behaviors. Selecting the correct model and tuning the hyperparameters are challenging tasks, requiring much effort to ensure model accuracy. DeepHyper allows efficient exploration of hyperparameters associated with data preprocessing, FNO architecture-related hyperparameters, and various model training strategies. We aim to obtain an optimal set of hyperparameters leading to the most performant model. Moreover, on top of the commonly used mean squared error for model training, we propose adopting the negative anomaly correlation coefficient as the additional loss term to improve model performance and investigate the potential trade-off between the two terms. The experimental results show that the optimal set of hyperparameters enhanced model performance in single timestepping forecasting and greatly exceeded the baseline configuration in the autoregressive rollout for long-horizon forecasting up to 30 days. Utilizing DeepHyper, we demonstrate an approach to enhance the use of FNOs in ocean dynamics forecasting, offering a scalable solution with improved precision.

cs.LG↗

arXiv2024

The Unreasonable Effectiveness Of Early Discarding After One Epoch In Neural Network Hyperparameter Optimization

To reach high performance with deep learning, hyperparameter optimization (HPO) is essential. This process is usually time-consuming due to costly evaluations of neural networks. Early discarding techniques limit the resources granted to unpromising candidates by observing the empirical learning curves and canceling neural network training as soon as the lack of competitiveness of a candidate becomes evident. Despite two decades of research, little is understood about the trade-off between the aggressiveness of discarding and the loss of predictive performance. Our paper studies this trade-off for several commonly used discarding techniques such as successive halving and learning curve extrapolation. Our surprising finding is that these commonly used techniques offer minimal to no added value compared to the simple strategy of discarding after a constant number of epochs of training. The chosen number of epochs depends mostly on the available compute budget. We call this approach i-Epoch (i being the constant number of epochs with which neural networks are trained) and suggest to assess the quality of early discarding techniques by comparing how their Pareto-Front (in consumed training epochs and predictive performance) complement the Pareto-Front of i-Epoch.

cs.LG↗