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eQuilibrator (equilibrator.weizmann.ac.il) is a calculator for biochemical equilibrium constants and Gibbs free energies, originally designed as a web-based interface. While the website now counts ${\sim}1000$ distinct monthly users, its…
Applications in science and engineering often require huge computational resources for solving problems within a reasonable time frame. Parallel supercomputers provide the computational infrastructure for solving such problems. A…
VPIC is a general purpose Particle-in-Cell simulation code for modeling plasma phenomena such as magnetic reconnection, fusion, solar weather, and laser-plasma interaction in three dimensions using large numbers of particles. VPIC's…
Efficient consistency maintenance of incomplete and dynamic real-life databases is a quality label for further data analysis. In prior work, we tackled the generic problem of database updating in the presence of tuple generating constraints…
Over the past decade, the fourth paradigm of data-intensive science rapidly became a major driving concept of multiple application domains encompassing and generating large-scale devices such as light sources and cutting edge telescopes.…
The simulation of tactile sensation using haptic devices is increasingly investigated in conjunction with simulation and training. In this paper we explore the most popular haptic frameworks and APIs. We provide a comprehensive review and…
Cyber-physical systems (CPSs) for real-time advanced process control (RT-APC) are a class of control systems using network communication to control industrial processes. In this paper, we use simple examples to describe the software…
Modeling plasma accelerators is a computationally challenging task and the quasi-static particle-in-cell algorithm is a method of choice in a wide range of situations. In this work, we present the first performance-portable, quasi-static,…
Nowadays, it has become a basic need to reuse existing Application Programming Interface (API), Class Libraries, and frameworks for rapid software development. Software developers often reuse this by calling the respective APIs or…
As computational challenges in optimization and statistical inference grow ever harder, algorithms that utilize derivatives are becoming increasingly more important. The implementation of the derivatives that make these algorithms so…
This paper presents a new dynamic power management architecture of a System on Chip. The Power State Machine describing the status of the core follows the recommendations of the ACPI standard. The algorithm controls the power states of each…
Real-time access to accurate and reliable timing information is necessary to profile scientific applications, and crucial as simulations become increasingly complex, adaptive, and large-scale. The Cactus Framework provides flexible and…
We present the public release of EXP, a basis function expansion C++ library and Python package for running N-body galactic simulations and dynamical discovery. EXP grew out of the need for methodology that seamlessly connects theoretical…
The apsis toolkit presented in this paper provides a flexible framework for hyperparameter optimization and includes both random search and a bayesian optimizer. It is implemented in Python and its architecture features adaptability to any…
Heterogeneous distributed systems, including the Internet of Things (IoT) or distributed cyber-physical systems (CPS), often suffer a lack of interoperability and security, which hinders the wider deployment of such systems. Specifically,…
Modern embedded systems are evolving toward complex, heterogeneous architectures to accommodate increasingly demanding applications. Driven by SWAP-C constraints, this shift has led to consolidating multiple systems onto single hardware…
This paper investigates the problem of data-driven stabilization for linear discrete-time switched systems with unknown switching dynamics. In the absence of noise, a data-based state feedback stabilizing controller can be obtained by…
Scientific computing libraries, either being in-house or open-source, have experienced enormous progress in both engineering and scientific research. It is therefore essential to ensure that the modifications in the source code aroused by…
PyPose is an open-source library for robot learning. It combines a learning-based approach with physics-based optimization, which enables seamless end-to-end robot learning. It has been used in many tasks due to its meticulously designed…
MPI derived datatypes are an abstraction that simplifies handling of non-contiguous data in MPI applications. These datatypes are recursively constructed at runtime from primitive Named Types defined in the MPI standard. More recently, the…