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Toward Automated Detection of Portability Bugs in Kokkos Parallel Programs

Performance-portable programming frameworks provide abstractions for parallel execution to allow easily porting an application to multiple backend programming models, such as CUDA, HIP, and OpenMP. However, programs may still have portability bugs that manifest only on specific backends. Traditional testing is ineffective in discovering these bugs, as it would require concrete execution on all supported hardware configurations for a potentially infinite set of inputs. To mitigate this issue, we focused on a specific programming framework, Kokkos, and identified several categories of common portability bugs. We then developed Klokkos, a static analysis approach based on symbolic execution that can run on commodity hardware, before execution on supercomputers. As a proof-of-concept, we ran Klokkos on examples encoding the identified bugs. Our results show that Klokkos is effective, efficient, and precise: it detected all the considered bugs, quickly, and without any false positives. Although preliminary, our results motivate further research and development in this direction.

Kale, Vivek↗

Speeding-up fuzzing through directional seeds

Abstract Fuzzing is an automated process for discovering inputs in a program that may trigger unexpected behavior. Today, fuzzing has become a standard practice for the discovery of bugs and security vulnerabilities. However, the main issue with such practices is that the exploration of the input space of programs can often be prohibitively expensive. Therefore, several alternative fuzzing strategies have been introduced during the last few years. Some fuzzing techniques rely on human expertise to provide a plausible set of initial input examples, namely, seeds. However, the process of handcrafting seeds for fuzzing purposes often becomes strenuous for humans as it requires a deeper understanding of the Program-Under-Test (PUT). Also, the use of known inputs to programs often does not trigger vulnerable program behavior or may not reach potentially vulnerable code locations. To address those issues, we propose a seed generation framework that enables Human-In-The-Loop (HITL) directed fuzzing where the human assumes a more active role in the creation of seeds that can penetrate and assess desired locations of the PUT. Our proposed framework uses Symbolic Execution (SE) to generate seeds that exercise paths to target program locations. Moreover, our framework enables the visualization of the explored execution paths in the binary of the PUT for the generated seeds. We evaluated our approach on a set of 12 carefully designed C programs with diverse characteristics that mimic real-world programs. The experimental results show the effectiveness of the proposed approach in improving the performance of standard fuzzing tools such as the American Fuzzy Lop ("Image missing" <#comment/> ). Specifically, our solution can generate seeds that substantially enhance the performance of the fuzzer, achieving speedups ranging from $$1.46\times $$ 1.46 × to $$68.53\times $$ 68.53 × for branch conditions, $$1.39\times $$ 1.39 × to $$254.62\times $$ 254.62 × for branch depths, $$14,879.59\times $$ 14 , 879.59 × to $$30,295.88\times $$ 30 , 295.88 × for branch widths over traditional seeds. Additionally, the speedup increases with the number of target function ranging from $$12,260\times $$ 12 , 260 × to $$22,856.07\times $$ 22 , 856.07 × over traditional seeds while only requiring less than 15 seconds on average for the seed generation step.

97 MATHEMATICS AND COMPUTING↗

Towards Automated Reasoning Chains for Verification of LLM-Generated Scientific Code

With the rise of Large Language Model (LLM) generated code, including in domains like scientific computing, ensuring not only syntactical, but also mathematical correctness, has become a critical task. Traditional formal methods approaches often struggle with the ambiguity of floating-point code, and full symbolic execution is extremely costly and limited. We propose a chain-of-reasoning approach that iteratively lifts basic semantics from code into the SPIRAL system and then establishes numerical equivalency to the desired mathematical operation. Here, we leverage the ample mathematical knowledge already formalized in SPIRAL to enable the system to recognize not just different implementations of the same algorithm but fully separate approaches to solving the given problem. The chain establishes tight error bounds on the output of given code with respect to the true continuous solution it approximates, quantifying all sources of error. We demonstrate this approach by establishing the correctness of a pseudospectral solver for a simple 1-dimensional Poisson problem.

Oschatz, Quentin [Carnegie Mellon University,Pitts↗

Shorter function summaries for finite state machine-based high consequence systems using logic synthesis and tautologies (Final Report LDRD 24-1302)

Computer programs are often viewed as collections of functions – each function has parameters (inputs) and computes a return value, and each has potential side effects that modify program state (outputs). In this research, a Sandia symbolic execution tool designed to support “human-in-the-loop” analysis was modified to automatically create “function summaries,” and a new tool, “diaboolical,” was created to support enhancing readability of the summary using a novel approach to bit-vector simplification that leverages logic synthesis and tautologies. For this effort, students at Auburn University created several finite state machines (FSMs) to serve as exemplars for high-consequence systems. Function summaries for each of the machines were obtained, and then portions of the summaries were simplified using both diaboolical and the simplification procedure of a popular SMT solver. A comparison of the results shows that diaboolical can often produce smaller function summaries, with expression length improvements over the unsimplified function summaries ranging from 0% to 90% for diaboolical and 0% to 65% for the SMT solver, though diaboolical had a significantly greater cost in time. Diaboolical was evaluated against a collection of “arbitrary” C-code as well as FSM exemplars, and for both datasets it achieved an approximately 10% improvement in expression length compared to simplifications that could be obtained using existing techniques. Function summaries can assist assurance efforts that evaluate existing systems and their executable code. A smaller function summary is likely easier for humans to understand and could thus increase the ability and efficacy of assurance practices centered around the analysis of executable artifacts.

97 MATHEMATICS AND COMPUTING↗

Program Verification for Extreme-Scale Applications (Final Scientific/Technical Report)

The project seeks to develop tools and techniques to help software developers verify the correctness and accuracy of their code. The target domain is scientific software of the kind widely used and developed in the Department of Energy research community, with a particular focus on "extreme scale" programs - those that are expected to involve possibly millions of parallel threads of execution. The report covers the University of Delaware contribution to the collaborative project. The project had a number of successful outcomes, especially regarding the development and extension of the CIVL software verification framework. CIVL is a verification tool for C or Fortran programs that use MPI, OpenMP, CUDA, and/or Pthreads for parallelization. CIVL went through vast improvements and extensions, and was successfully applied to a number of challenging codes. It found a subtle bug in the Devito PDE framework. It was able to verify the functional correctness of a conjugate gradient solver using a novel probabilistic technique with vanishingly small chance of error. CIVL was used very successfully in verification competitions, and the CIVL solutions to the competition challenges were presented and published. CIVL was also used successfully by other researchers on a computational chemistry kernel.

97 MATHEMATICS AND COMPUTING↗

Agentic Diagrammatica: Towards Autonomous Symbolic Computation in High Energy Physics

We present Diagrammatica, a symbolic computation extension to the HEPTAPOD agentic framework, which enables LLM agents to plan and execute multi-step theoretical calculations. Symbolic computation poses a distinctive reliability challenge for LLM agents, as correctness is governed by implicit mathematical conventions that are not encoded in a form that can be easily checked in the computational backend. We identify two complementary remedies, tool-constrained computation and targeted knowledge grounding, and pursue the first as the primary architecture. Concretely, we concentrate the agent's action distribution onto tool calls with convention-fixing semantics, in which the agent specifies a compact, human-auditable diagram specification and a trusted backend performs the symbolic or numerical manipulations exactly. The toolkit provides two complementary calculation paths consuming a shared diagram specification: Naive Dimensional Analysis (NDA) for order-of-magnitude rate estimates and Exact Diagrammatic Analysis (EDA) for tree-level symbolic calculations via automatic FeynCalc code generation, both supplemented by automatic Feynman diagram enumeration and a navigable theory knowledge base. The architecture is validated on two benchmarks: (1) an exhaustive catalog of all tree-level, single-vertex $1\to 2$ partial decay widths across scalar, fermion, and vector parents, with complete massless and threshold limits and Standard Model validation; and (2) an NDA sensitivity study of the muon decay multiplicity $μ^+ \to ν_μ\barν_e + n(e^+e^-) + e^-$, determining the maximum observable $n$ at current and planned muon experiments.

Menzo, Tony [Alabama U.; Fermilab] (ORCID:00000002↗

PDQ Users Manual Version 1 for PDQ Code Version 1.12

PDQ is a tool for the management of the input and execution of batch jobs for simulation codes that use a text based input system. It accomplishes this goal by operating at two levels. First, it takes input file templates (commonly known at LANL as input deck templates) and creates multiple instantiations by performing substitutions of data from table files into symbols (variables) found in the template. Second, it provides commands to submit the created files to the SLURM batch system for execution. These two activities taken together produce a whole that is greater than the sum of its parts and provides an elegant way of executing studies across multiple similar simulations while minimizing the risk of typographical errors in the input files.

97 MATHEMATICS AND COMPUTING↗

PDQ Users Manual. Manual Version 2, for PDQ Code Version 1.20

PDQ is a tool for the management of the input and execution of batch jobs for simulation codes that use a text based input system. It accomplishes this goal by operating at two levels. First, it takes input file templates (commonly known at LANL as input deck templates) and creates multiple instantiations by performing substitutions of data from table files into symbols (variables) found in the template. Second, it provides commands to submit the created files to the SLURM batch system for execution. These two activities taken together produce a whole that is greater than the sum of its parts and provides an elegant way of executing studies across multiple similar simulations while minimizing the risk of typographical errors in the input files. PDQ was originally developed as a job management system called XVS by Jeff McAninch while he was at LANL. Besides the capabilities described here, XVS had many other features specific for interactions with particular simulation codes. After Jeff’s departure, maintenance of XVS was taken over by Rendell Carver; he added some new features as well as kept it functioning as the batch system at LANL was changed from LSF to MOAB to SLURM. In 2017, Rob Pelak decided to develop a different version that removed the additional features (many of which were rendered obsolete with the retirement of the simulation code or batch system that they supported) and produced a cleaner “bare bones” version of XVS. A few other behaviors of XVS that Rob found irksome were altered. Rob gave the resulting code a new name: PDQ. In 2022 Danielle McDermott developed a version that runs under Python 3.X. As suggested by Rob, she used the python2to3 utility to identify most changes. Given that PDQ continues to operate with Python version 2.7 we have advanced the version number to 1.20.

97 MATHEMATICS AND COMPUTING↗

Integrated Methane Monitoring Platform Extension, Volume I: Final Technical Report

The IMMPE project, DE-FE0032284, was to enhance methane monitoring technologies and their applications across various natural gas asset classes. The scope included deploying advanced methane detection and monitoring technologies to identify and mitigate fugitive methane emissions, measuring emission rates, and assessing impacts. The findings included the successful mitigation of identified emissions and quantification of emission rates. A key outcome was the development of a comprehensive template and summary of recommendations for methane emissions monitoring, which is replicable for both upstream and downstream applications. Furthermore, the project emphasized the importance of education by providing training opportunities for technicians and regulators, thereby fostering awareness and promoting the adoption of cost-effective methane emissions monitoring and management techniques.

02 PETROLEUM↗

Revisiting Huffman Coding: Toward Extreme Performance on Modern GPU Architectures

Today's high-performance computing (HPC) applications are producing vast volumes of data, which are challenging to store and transfer efficiently during the execution, such that data compression is becoming a critical technique to mitigate the storage burden and data movement cost. Huffman coding is arguably the most efficient Entropy coding algorithm in information theory, such that it could be found as a fundamental step in many modern compression algorithms such as DEFLATE. On the other hand, today's HPC applications are more and more relying on the accelerators such as GPU on supercomputers, while Huffman encoding suffers from low throughput on GPUs, resulting in a significant bottleneck in the entire data processing. In this paper, we propose and implement an efficient Huffman encoding approach based on modern GPU architectures, which addresses two key challenges: (1) how to parallelize the entire Huffman encoding algorithm, including codebook construction, and (2) how to fully utilize the high memory-bandwidth feature of modern GPU architectures. The detailed contribution is fourfold. (1) We develop an efficient parallel codebook construction on GPUs that scales effectively with the number of input symbols. (2) We propose a novel reduction based encoding scheme that can efficiently merge the codewords on GPUs. (3) We optimize the overall GPU performance by leveraging the state-of-the-art CUDA APIs such as Cooperative Groups. (4) We evaluate our Huffman encoder thoroughly using six real-world application datasets on two advanced GPUs and compare with our implemented multi-threaded Huffman encoder. Experiments show that our solution can improve the encoding throughput by up to 5.0x and 6.8x on NVIDIA RTX 5000 and V100, respectively, over the state-of-the-art GPU Huffman encoder, and by up to 3.3x over the multi-thread encoder on two 28-core Xeon Platinum 8280 CPUs.

Tian, Jiannan↗

Revisiting Huffman Coding: Toward Extreme Performance on Modern GPU Architectures

Today's high-performance computing (HPC) applications are producing vast volumes of data, which are challenging to store and transfer efficiently during the execution, such that data compression is becoming a critical technique to mitigate the storage burden and data movement cost. Huffman coding is arguably the most efficient Entropy coding algorithm in information theory, such that it could be found as a fundamental step in many modern compression algorithms such as DEFLATE. On the other hand, today's HPC applications are more and more relying on the accelerators such as GPU on supercomputers, while Huffman encoding suffers from low throughput on GPUs, resulting in a significant bottleneck in the entire data processing. In this paper, we propose and implement an efficient Huffman encoding approach based on modern GPU architectures, which addresses two key challenges: (1) how to parallelize the entire Huffman encoding algorithm, including codebook construction, and (2) how to fully utilize the high memory-bandwidth feature of modern GPU architectures. The detailed contribution is fourfold. (1) We develop an efficient parallel codebook construction on GPUs that scales effectively with the number of input symbols. (2) We propose a novel reduction based encoding scheme that can efficiently merge the codewords on GPUs. (3) We optimize the overall GPU performance by leveraging the state-of-the-art CUDA APIs such as Cooperative Groups. (4) We evaluate our Huffman encoder thoroughly using six real-world application datasets on two advanced GPUs and compare with our implemented multithreaded Huffman encoder. Experiments show that our solution can improve the encoding throughput by up to 5.0× and 6.8× on NVIDIA RTX 5000 and V100, respectively, over the state-of-the-art GPU Huffman encoder, and by up to 3.3× over the multithread encoder on two 28-core Xeon Platinum 8280 CPUs.

Tian, Jiannan↗