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PAPERS

Advanced Research Computing Software 
Applications

 

A Science Gateway for Atomic and Molecular Physics

Armin Scrinzi

Barry Schneider

Fernando Martin

Igor Bray

Jimena Garfinkiel

 

Advanced Research Computing Containers for AI Workloads

Kyle J. Smathers

Mark E. DeYoung

Marvin W. Newlin

 

Automatic Modulefile Generation in Environment Modules and Lmod Systems with mkmod

Kent F. Milfeld

 

Building A Scalable Forward Flux Sampling Framework using Big Data and HPC

Amy W. Apon

Jon  Kilganon

Linh B. Ngo

 

Combining OpenCL and MPI to Support Heterogeneous Computing on a Cluster

John Hale

Ming Li

Peter Hawrylak

 

Community Collections: A Framework for Openly Sharing Software Stacks Across Research Computing Centers Using Singularity and Lmod

Kevin  Manalo

Levi  Baber

Nuyun  Zhang

 

Connecting Diffusion MRI to Skeletal Muscle Microstructure: Leveraging Meta-Models and GPU-acceleration

John G. Georgiadis

Noel M. Naughton

 

Enabling Real-time User Interaction For Decision Support: Experiences Extending A Local Agave Platform Metadata Service

Gwen A. Jacobs

Jared  McLean

Kolja  Rotzoll

 

Expanding the Computational Anatomy Gateway from clinical imaging to basic neuroscience research

Anthony  Kolasny

Daniel J. Tward

Fatima  Kahn

 

 Exploring Untrusted Distributed Storage for 
High Performance Computing 

Austin  Smith

Justin  Riley

Milan  Kupcevic

 

Extensible Framework for Analysis of Farm Practices and Programs

Christopher M. Navarro

Gary D. Schnitkey

Gowtham Naraharisetty

Hanseok Jeong

Jonathan Coppess

Jong S. Lee

Lisa  Gatzke

 

GenApp, Containers andAbaco

Emre H. Brookes

Joe  Stubbs

 

Greyfish: An Out-of-the-Box, Reusable, Portable Cloud Storage Service

Carlos Redondo

Ritu Arora

 

HUBzero®: Novel Concepts Applied to Established Computing Infrastructures to Address Communities’ Needs

Ben  Haley

Claire  Stirm

Michael  Zentner

 

Implementing a Flexible, Fault Tolerant Job Management System for Science Gateways

Ajinkya  Dhamnaskar

Dimuthu  Wannipurage

Eroma  Abeysinghe

Gourav  Shenoy

Lahiru  Jayathilaka

 

In-situ Analysis and Visualization of Earthquake Simulation

Dawei  Mu

Hui  Zhou

Jon  Moran

Mahidhar  Tatineni

 

Integrity Protection for Scientific Workflow Data: Motivation and Initial Experiences

Anirban  Mandal

Ewa  Deelman

F. Alex  Feltus

Ilya  Baldin

Karan  Vahi

Mats  Rynge

 

Introducing the Open Science Chain -- Protecting Integrity and Provenance of Research Data

Subhashini  Sivagnanam

Viswanath  Nandigam

 

Leveraging Elasticsearch to Improve Data Discoverability in Science Gateways

Jake  Rosenberg

Joseph  Meiring

Josue B. Coronel

 

openDIEL: A Parallel Workflow Engine and Data Analytics Framework

Daniel  Nichols

Efosa  Asemota

Frank H. Betancourt

Reproducible Hydrological Modeling with CyberGIS-Jupyter:
A Case Study on SUMMA

Anand  Padmanabhan

Anthony  Castronova

Dandong  Yin

David  Tarboton

 

Scalable Parallel Programming in Python with Parsl

Anna  Woodard

Daniel S. Katz

Ian  Foster

Kyle  Chard

 

Shuffler: A Large Scale Data Management Tool for Machine Learning in Computer Vision

Evgeny  Toropov

José  Moura

Paola A. Buitrago

 

Singularity: simple, secure containers for computer-driven workloads

David C. Godlove

 

The PreSync Project: Synchronization Automation in the Cactus Framework

Roland  Haas

Samuel D. Cupp

Steven R. Brandt

 

Web of Trust Tool for Gateway User Vetting

Amitava  Majumdar

Kenneth K. Yoshimoto

Mark A. Miller

 

Web-based Visualization and Querying of Food and Beverage Endorsements by Celebrities

Faiz  Abidi

Srijith  Rajamohan

 

Facilitation of Advanced Research Computing

 

A Continuous Integration-Based Framework for Software Management

Eric  Franz

Heechang  Na

Judith  Gardiner

Karen  Tomko

 

A Multi-Environment HPC-Scale Puppet Infrastructure for Compliance and Systems Automation

Edward  Munsell

Evan F. Bollig

Jeffrey  McDonald

 

A Resource Utilization Analytics Platform Using Grafana and Telegraffor the Savio Supercluster

Nicolas A. Chan

 

Arbiter: Dynamically Limiting Resource Consumption on Login Nodes

Brian  Haymore

Dylan  Gardner

Robben  Migacz

 

Assessment of Return on Investment and impact of cyberinfrastructure facilities: a survey of current methods

Alan  Sill

Amy  Apon

Craig  Stewart

David Lifka

 

Deploying a Top-100 Supercomputer for Large Parallel Workloads: the Niagara Supercomputer

Alexey  Fedoseev

Bruno  Mundim

Ching-Hsing  Yu

Daniel  Gruner

Erik  Spence

Fatih  Ertinaz

Fei  Mao

Jaime  Pinto

Joseph  Chen

 

Developing and Operating Edge Services on Federated Infrastructure Using MiniSLATE

Benjamin  Kulbertis

Christopher K. Weaver

Joe  Breen

 

Expressing and Managing Network Policies for Emerging HPC Systems

James  Griffioen

Jane  Hayes

 

Good Enough Project Management Practices for Researcher Support Projects

Christina  Maimone

 

Harmony: A Harness Monitoring System for the Oak Ridge Leadership Computing Facility

Cameron  Kuchta

Reuben  Budiardja

Verónica G. Vergara Larrea

 

IceCube’s Long Term Archive Software

Benedikt  Riedel

David  Schultz

Patrick  Meade

 

Making it More Secure: The Technical and Social Challenges of Expanding the Functionality of an Existing HPC Cluster to Meet University and Federal Data Security Requirements

Christopher  Doane

Gary  Jung

Jason  Christopher

 

Managing a Heterogeneous Cluster

Adam  Tygart

Dan  Andresen

 

Managing Privilege and Access on Federated Edge Platforms

Christopher N. Weaver

Joe  Breen

 

Mii: An Automated Search Engine for Environment Modules

Justin  Stanley

 

ORCID Integration Into Science Gateways

Carrie  Arnold

Dave  Hart

 

Performant Container Support for HPC Applications

Lei  Huang

R. Todd  Evans

Yinzhi  Wang

 

Petrel: A Programmatically Accessible Research Data Service

Ben  Blaiszik

Benjamin S. Allen

Ian  Foster

Kyle  Chard

Lukasz  Lacinski

 

Providing a Unified Software Environment for Canada’s National Advanced Computing Centers

Bart  Oldeman

Maxime  Boissonneault

Ryan P. Taylor

 

Provisioning ZFS Pools On Lustre

Adam  Howard

Rick  Mohr

 

PULSAR:Deploying Network Monitoring and Intrusion Detection for the Science DMZ

Brian  Werts

Callum  Gundlach

Erik  Gough

Jacob  Sharp

Lauren  Featherstun

Lev  Gorenstein

 

Research Computing Desktops: Demystifying research computing for non-Linux users

Abhinav  Thota

Alexander  Younts

Ben Fulton

Christopher Phillips

Daniel T. Dietz

H.E. Cicada B. Dennis

 

Serverless Science Gateway Development for Ca2+ binding site prediction on Amazon Web Services: Case Study

Melchizedek G. Mashiku

NeranjanS. Edirisinghe

 

StashCache: A Distributed Caching Federation for the Open Science Grid

Brian Bockelman

Brian Lin

Derek Weitzel

Edgar Fajardo Hernandez

Ilija Vukotic

 

The biggest failure of my career: what happened, what we did about it, and how we won’t do it again.

Jonathon  Anderson

 

Trusted CI Experiences in Cybecurity and Service to Open Science

Andrew  Adams

Barton P. Miller

Craig  Jackson

Dana  Brunson

Elisa  Heymann

Florence  Hudson

Jeannette  Dopheide

Jim  Basney

Jim  Marsteller

John  Zage

 

Wrangling Rogues: A Case Study on Managing Experimental Post-Moore Architectures

Jason  Riedy

Jeffrey S. Young

Thomas M. Conte

Will  Powell

 

 

 

Machine Learning and Artificial Intelligence

 

A Framework for Identifying Designs from Incomplete, Fragmented Cultural Heritage Objects using Curve Patterns

Ben  Torkian

Colin  Wilder

Jun  Zhou

Karen  Smith

Paul  Sagona

Song  Wang

Yuhang  Lu

 

A Novel Pruning Method for Convolutional Neural Networks Based off Identifying Critical Filters

Mihaela  Dimovska

Travis  Johnston

 

Automated Deep Learning Analysis of Purple Martin Videos Depicting Incubation and Provisioning

Heather M. Williams

L. Shawn  Matott

Robert L. DeLeon

 

Characterizing the Execution of Deep Neural Networks on Collaborative Robots and Edge Devices

Abhijeet  Saraha

Arthur  Siqueira

Bingyao  Wang

Chunjun  Jia

Dongsuk  Lim

Hyesoon  Kim

Jiashen  Cao

Lixing  Liu

Matthew L. Merck

Qiusen  Huang

Ramyad  Hadidi

 

Developing a Meta Framework for Key-Value Memory Networks on HPC Clusters

Arghya K. Das

Choonhan  Youn

Joohyun  Kim

Seungwon  Yang

 

Extracting Domain Information using Deep Learning

Amit  Gupta

Crispin  Taylor

Jennifer  Regala

Pankaj  Jaiswal

Weijia  Xu

 

Facial Expression Recognition: Utilizing Digital Image Processing, Deep Learning, and High-Performance Computing

Francisco  Reveriano

 

Improving HPC System Performance by Predicting Job Resources via Supervised Machine Learning

Adedolapo  Okanlawon

Brandon  Dunn

Dan  Andresen

Mohammed  Tanash

William  Hsu

Yang  Huichen

 

In and out of the nucleus - CNN-based segmentation of cell nuclei from images of a translocating biosensor

Jeremy E. Purvis

Katarzyna M. Kedziora

Michael R. Kosorok

Tarek M. Zikry

 

MagmaDNN: Accelerated Deep Learning Using MAGMA

Alex  Gessinger

Daniel L. Nichols

Kwai  Wong

Lucien  Ng

Sihan  Chen

Stanimire  Tomov

 

Open Compass: Accelerating the Adoption of AI in Open Research

Nicholas A. Nystrom

Paola A. Buitrago

 

Publishing and Serving Machine Learning Models with DLHub

Anna  Woodard

Ben  Blaiszik

Ian  Foster

Kyle  Chard

Logan  Ward

Ryan  Chard

Steven  Tuecke

Yadu  Babuji

Zhuozhao  lI

 

Towards a Framework for Validating Machine Learning Results in Medical Imaging

Frank M. Skidmore

Murat M. Tanik

Thomas  Anthony

William S. Monroe

 

Traps, Pitfalls and Misconceptions of Machine Learning applied to Scientific Disciplines

Alessandro  Fanfarillo

Davide  Del Vento

 

VAStream: A Visual Analytics System for Fast Data Streams

Raju  Gottumukkala

Satya  Katragadda

Siva  Venna

Workforce Development and Diversity

 

An Expansion of the User Support Services for the Research Computing Group at the University of Colorado Boulder

Aaron  Holt

Andrew J. Monaghan

Daniel  Trahan

Joel  Frahm

Patrick  Burns

Shelley L. Knuth

Thomas  Hauser

Timothy  Dunn

Zebula  Sampedro

 

Campus Champions: Building and sustaining a thriving community of practice around research computing and data

Aaron  Culich

Dana  Brunson

Douglas  Jennewein

Henry  Neeman

Jack  Smith

Julie  Wernert

Lizanne  DeStefano

Lorna  Rivera

Marisa  Brazil

Tiffany  Jolley

Timothy  Middelkoop

 

Cultivating the Cyberinfrastructure Workforce via an Intermediate/Advanced Virtual Residency Workshop

Christopher S. Simmons

Dana  Brunson

Daniel  Voss

Dirk  Colbry

Henry  Neeman

Hussein M. Al-Azzawi

James W. Ferguson

Jason  Wells

Jason L. Simms

Jeff T. Falgout

Joshua  Gyllinsky

Mohammed  Tanash

Sandra  Gesing

Scott  Yockel

William  Burke

 

Cyber Infrastructure: Training and Mentoring - A way to engage students in their technology future

D. Brian  Ormand

Diana V. Dugas

 

DeapSECURE: Empowering Students for Data- and Compute-Intensive Research in Cybersecurity through Training

Hongyi  Wu

Karina  Arcaute

Masha  Sosonkina

Wirawan  Purwanto

 

Holistic Summer Undergraduate Research Program in High PerformanceComputing Research

Jung-Han  Kimn

Stephen P. Gent

Tyler M. Miller

 

Integrating scientific programming in communities of practice for students in life science

Alexa M. Salsbury

Anne M. Brown

Justin A. Lemkul

 

Mining Online Training Log Data

Christopher R. Myers

Jennifer  Houchins

Lorna  Rivera

Susan  Mehringer

 

The Blue Waters Petascale Institute: Longitudinal Impact and Assessment-Driven Development of an Intensive, Hands-on Curriculum for Teaching Applications in HPC

Aaron  Weeden

Cameron  Foss

Colleen  Heinemann

Jennifer  Houchins

Mobeen  Ludin

Skylar  Thompson

 

The CyberAmbassador Training Program

Astri  Briliyanti

Dirk J. Colbry

Julie  Wilson Rojewski

Kathleen  Colbry

TJ  Nguyen

 

The Professionalization of Cyberinfrastructure Personnel?

Dana  Brunson

Henry  Neeman

James  Bottum

James  Howison

Joel  Cutcher-Gershenfeld

John  Towns

John L. King

Nancy  Wilkins-Diehr

nicholas  berente

Stanley  Ahalt

Susan  Winter

 

Undergraduate Data Science and Diversity at Purdue University

Alex  Younts

Elizabett  Hillery

Eric  Adams

Jenna  Rickus

Mark D. Ward

Preston  Smith

Jonathan Tennyson

Klaus Bartschat

Markus Klinker

Oleg Zatsarinny

Sudhakar Pamidighantam

Ryan S. DeFever

Sapna Sarupria

Walter Hanger

Muneeba  Syed

Paul  Edmon

Scott  Yockel

Michal Ondrejcek

Rabin Bhattarai

Rishabh Gupta

Sandeep Puthanveetil Satheesan

Shannon Bradley

Yan Zhao

Marcus  Christie

Marlon  Pierce

Sudhakar  Pamidighantam

Suresh  Marru

Ronald  Hawkins

Steve  Campbell

Yifeng  Cui

Omkar  Bhide

Randy  Heiland

Raquel  Hill

Von  Welch

William L. Poehlman

Kwai  Wong

Quindell  Marshall

Stan  Tomov

Fangzheng  Lu

Jon  Goodall

Shaowen  Wang

Young Don  Choi

Ryan  Bradley

Zhi-Qiang  You

Sandra  Gesing

Steve  Clark

Sarah  Gray

Tracy  Brown

Michael  Wilde

Yadu N. Babuji

Zhuozhao  lI

Nicholas T. Carnevale

Subhashini  Sivagnanam

Samuel  Khuvis

Scott  Brozell

Trey  Dockendorf

Zhi-Qiang  You

Michael  Baynton

Nicholas  Bertrand

Raychel M. Benson

David Y. Hancock

Nicholas Berente

Robert  Henschel

Thomas  Furlani

Leslie  Groer

Marcelo  Ponce

Marco  Saldarriaga

Michael  Nolta

Ramses  Van Zon

Richard W. Peltier

Scott  Northrup

Vladimir  Slavnic

Robert  Gardner

Shawn  McKee

Sergio A. Rivera

Zongming  Fei

Dave  Turner

Kyle  Hutson

Robert  Gardner

Shawn  McKee

Ester  Soriano

Maytal  Dahan

Michael  Papka

Rachana  Ananthakrishnan

Rick  Wagner

Ryan  Chard

William E. Allcock

Lipu  Wu

Nathan  DeMien

Sagar  Narayan

Shivam  Trivedi

Xiao  Zhu

Laura  Huber

Le Mai  Weakley

Scott  Michael

Stephen L. Harrell

Winona  Snapp-Childs

Xiao  Zhu

 
 
 
 

Scot K. Izuka

Sean B. Cleveland

Juan  Troncoso

Michael I. Miller

Kay  Avila

Mark  Krenz

Robert  Cowles

Ryan  Kiser

Scott  Russell

Sean  Peisert

Susan  Sons

Terry  Fleury

Von  Welch

Marian  Zvada

Mats  Rynge

Matyas  Selmeci

Rob  Gardner