18 papers · ranked by Valyu relevance
Patrick Finnerty, Yoshiki Kawanishi, Tomio Kamada, Chikara Ohta
In this article we present our relocatable distributed collections library. Building on top of the AGPAS for Java library, we provide a number of useful intra-node parallel patterns as well as the features necessary to support the distributed nature of the computation through clearly identified methods. In particular…
Alessandro Margara, Gianpaolo Cugola, Nicolò Felicioni, Stefano Cilloni
'Stefano Cilloni'] Data is a precious resource in today's society, and is generated at an unprecedented and constantly growing pace. The need to store, analyze, and make data promptly available to a multitude of users introduces formidable challenges in modern software platforms. These challenges radically impacted the…
Ton Smeele, Sung-Shik Jongmans
Implementing distributed systems is hard; choreographic programming aims to make it easier. In this paper, we present the design of a new choreographic programming language that supports isolated transactions among overlapping sets of processes. The first idea is to track for every variable which processes are…
Jason Mars
We introduce extensions to Data Spatial Programming (DSP) that enable scale-agnostic programming for application development. Building on DSP's paradigm shift from "data-to-compute" to "compute-to-data," we formalize additional intrinsic language constructs that abstract persistent state, multi-user contexts, multiple…
Vladimir E. Zyubin, Natalia O. Garanina, Igor S. Anureev, Sergey M. Staroletov + 3 more
'Sergey M. Staroletov' 'Andreas Komninos' 'Panagiotis Katsaros' 'Kleanthis Thramboulidis'] The paper proposes a topology-free specification of distributed control systems by means of a process-oriented programming paradigm. The proposed approach was characterized, on the one hand, by a topologically independent…
Jose L Figueroa, Richard Allen White
We now exist in the era of massive datasets from genomics, large language models, and all the known knowledge of humanity right at our fingertips. Much of this data is becoming more accessible; however, processing such data remains an ongoing issue across systems including high performance computing (HPC)…
Aneesh Khole, Atharva Thakar, Avadhoot Kulkarni, Hrithik Jadhav + 2 more
'Shreyas Shende' 'Varad Karajkhede'] Abstract— Computer systems have evolved over the years starting from sizable, single-user, slow, and expensive machines to multi-user, fast, cheaper, and small-sized machines. The use of multi-user computer networks has given rise to a new paradigm of computing known as Distributed…
Abdullah M. Algashami, Ali Safaa Sadiq
This research dealt with the problem of scheduling applied to the supercomputer’s execution. The goal is to develop an appreciated algorithm that schedules a group of several programs characterized by their time consuming very high on different supercomputers searching for an efficient assignment of the total running…
Lorenzo Di Rocco, Umberto Ferraro Petrillo, Simona E. Rombo
Background Huge amounts of molecular interaction data are continuously produced and stored in public databases. Although many bioinformatics tools have been proposed in the literature for their analysis, based on their modeling through different types of biological networks, several problems still remain unsolved when…
Toon Albers, Elena Lazovik, Mostafa Hadadian Nejad Yousefi, Alexander Lazovik
Distributed data processing systems have become the standard means for big data analytics. These systems are based on processing pipelines where operations on data are performed in a chain of consecutive steps. Normally, the operations performed by these pipelines are set at design time, and any changes to their…
Maxim Lippeveld, Daniel Peralta, Andrew Filby, Yvan Saeys
Due to high resolution and throughput of modern image cytometry platforms, morphologically profiling generated datasets poses a significant computational challenge. Here, we present Scalable Cytometry Image Processing (SCIP), an image processing software aimed at running on distributed high performance computing…
Andrei Olaru, Monica Pricope, Roberto Teti
Current multi-agent frameworks usually use centralized, fixed communication infrastructures for the entities that are deployed using them. This decreases the robustness of the system but is less challenging when having to deal with mobile agents that can migrate between nodes. We introduce, in the context of the…
Wilfried Agbeto, Camille Coti, Vladimir Reinharz
Advances in graph algorithmics have allowed in-depth study of many natural objects from molecular biology or chemistry to social networks. Particularly in molecular biology and cheminformatics, understanding complex structures by identifying conserved sub-structures is a key milestone towards the artificial design of…
Mei Chen
One of the most effective approaches to improve resource usage efficiency and degree of resource collecting is to integrate resources. Many studies on the integration of information resources are also available. The search engines are the most well-known. At the same time, this article intends to optimize the…
Oliver Lee, Malte Gather, Eli Zysman-Colman
We describe a new tool for the efficient management of computational chemistry. Digichem is a program that automates and simplifies nearly the entire computational pipeline, including large-scale batch submission of calculations, analysis and results parsing, the generation of 3D density plots and 2D graphs of…
Authors not listed
Machine learning models are transforming data-driven research across scientific disciplines, yet their deployment as accessible and reliable web services remains a significant challenge. We introduce the NERDD framework, a scalable, maintainable, and secure microservices platform designed to support the sustainable…
David S. Cerutti, Rafal Wiewiora, Simon Boothroyd, Woody Sherman
The Structure and TOpology Replica Molecular Mechanics (STORMM) code is a next-generation molecular simulation engine and associated libraries optimized for performance on fast, multicore central processor units (CPUs) and graphics processing units (GPUs) with independent memory and tens of thousands of threads. STORMM…
Authors not listed
We present an open source collection of scripts and programs for the setup, management and evaluation of calculations with the Vienna ab-initio simulation package (VASP), called utils4VASP. It contains 20 independent Python scripts and Fortran programs, all with a unified and intuitive handling concept based on command…