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SIMPLE, SECURE SINGULARITY CONTAINERS IN THE SDSC BOOTH AT SC18

Last month in Dallas, in excess of 13,000 conference delegates were inspired by HPC at the industry’s main event, namely SC18. In our ongoing…

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SYLABS SELECTED TOP 10 HOTTEST CONTAINER STARTUP BY CRN

Sylabs is one of “The 10 Hottest Container Startups Of 2018.” In making this selection, CRN states: These 10 container startups are driving innovation…

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TOWARDS NATIVE INTEGRATION BETWEEN SINGULARITY CONTAINERS AND KUBERNETES: ANNOUNCING AN OPEN SOURCE PROJECT

Our work in progress towards native integration of Singularity with Kubernetes is now available on GitHub. We are releasing this code while it remains…

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TECHNICAL WHITE PAPER RELEASE: CONTAINERIZED GENOMIC WORKFLOWS WITH SINGULARITY

Late last week in Barcelona, Spain, the Centre for Genomic Regulation (CRG) hosted a workshop entitled Nextflow: Reproducible In silico Genomics. From introductory to…

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OUR HASHICONF 2018 PRESENTATION: SINGULARITY CONTAINERS FOR ENTERPRISE PERFORMANCE COMPUTING (EPC)

In less than 20 minutes, our own Eduardo Arango introduces you to Singularity, and closes out his recent HashiConf 2018 presentation with a Singularity…

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SINGULARITY WINS 3 HPCWIRE AWARDS AT SC18!!!

Singularity won three HPCwire Awards last week in Dallas at SC18. The first and second awards combined for a sweep of the “Best HPC…

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SINGULARITY CONTAINS A SUPERNOVA AT SC18

NVIDIA CEO Jensen Huang is known for showcasing spectacular demos in any presentation he delivers. At SC18, he did just that - again! This…

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SINGULARITY CONTAINERS FOR COMPUTE-DRIVEN WORKLOADS IN 2018: RESULTS FOR THE COMMUNITY AND COMMUNITY-MOTIVATED ROADMAP

2018 has proven to be a remarkable year for Singularity. First, we take a look back at what has been accomplished by Sylabs and…

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Whitepaper: Containerized Genomic Workflows with Singularity – Part 3

Author: Paolo Di Tommaso Deploy containers at scale with Nextflow Containers are exceptionally useful in scientific workflows. They allow for the encapsulation of software dependencies…

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Update to examples – November 9

Sylabs continues to provide example Singularity containers. Our latest installment of updates is as follows: ContikiOS Contiki is an open source operating system that…

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SINGULARITY AT SC18: HPC-INSPIRED CONTAINERS FOR COMPUTE-DRIVEN WORKLOADS

HPC inspires. That’s the tagline for SC18. HPC inspired, it turns out, aptly applies to Singularity - the solution for containerization inspired by requirements…

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Whitepaper: Containerized Genomic Workflows with Singularity – Part 2

Authors: Gwendolyn Kurtzer, Keith Cunningham, Eduardo Arango Singularity Containers As mentioned in the first post “The quick uptake of nf-core amongst the bioinformatics community is…

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Update to examples – October 26

Here are a few more Singularity containers, that we at Sylabs have put together: Caffe Caffe is a Deep Learning framework. https://github.com/sylabs/examples/tree/master/machinelearning/caffe Singularity Definition…

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Whitepaper: Containerized Genomic Workflows with Singularity – Part 1

Authors: Phil Ewels, Sven Fillinger, Alex Peltzer, Paolo Di Tommaso Current Challenges with Genomic Pipelines Genomic workflows are becoming increasingly important in biomedical research, and also in everyday…

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Now Live: Singularity 3.0!

We are excited to announce the release of the newest version of our innovative container runtime platform: Singularity 3.0! This release further differentiates Singularity…

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Sylabs Announces New Release of Singularity to Expand Current Ecosystem of Resources that Tackles Today’s Most Demanding Workloads

Sylabs Announces New Release of Singularity to Expand Current Ecosystem of Resources that Tackles Today’s Most Demanding Workloads Singularity 3.0 features modern container runtime…

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Spark on Singularity

Apache Spark is a fast, in-memory data processing engine applicable to large-scale data processing, for both batch and streaming machine learning that requires fast…

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RStudio – IDE and Server powered by Singularity

RStudio is an Integrated Development Environment (IDE) for the R language. By containerizing RStudio, a scientist can leverage the reproducibility and portability of the…

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Jupyter Notebook containerized with Singularity

Jupyter Notebook containerized with Singularity Jupyter Notebook is an open source web application environment used to create and share documents containing code, equations, visualizations and…

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Facebook Research – Detectron and Singularity Containers

Detectron is an object detection system written in Python and powered by Caffe2. Detectron is a Facebook Research project created to solve real world…

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Singularity Hacktoberfest 2018

At Sylabs, our mission is to help guide development of the open source container system known as Singularity. With October around the corner, it’s…

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Containerizing Arnold Renderer with Singularity 3.0

Arnold is an advanced Monte Carlo ray tracing renderer built for the demands of feature-length animation and visual effects rendering, largely used to create…

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NodeJS on Singularity

We knode you would want NodeJS on Singularity so we you made a recipe. Setup: On your host, create a folder called “node” where we…

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Weka Data Mining with Singularity

Weka is a commonly used Machine Learning suite of algorithms for Data Mining with Java.  We’ve developed a Singularity container so that your Weka…

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New Containers – Apache, MariaDB, Blender

For 3.0, we’re developing containers for common use cases and expanding the size of our cloud library.  These containers and their recipe files will…

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San Diego Supercomputer Center

San Diego Supercomputer Center https://www.sdsc.edu/support/user_guides/tutorials/running_singularity_on_comet.html

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Update from Gregory Kurtzer on Singularity’s Push into FS and the Enterprise

HPC and what we call EPC (Enterprise Performance Compute) focused applications require direct integration with the host operating system and underlying hardware. In contrast,…

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Building Reproducible Science with Singularity Containers

One of the biggest problems in scientific HPC is ensuring that results are reproducible. That is, the code a scientist runs locally must be…

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Containers for Enterprise Performance Computing, on Wall Street

Sylabs Heads to Wall Street to Discuss Containers for Enterprise Performance Computing Next month we will be sending  a team to New York City…

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A glimpse into Singularity 3.0

At Sylabs, our mission is to help guide the development of the open source container system know as Singularity. Today, we’d like to bring…

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Docker Compatibility with Singularity for HPC

A misconception exists that Docker images can only run with Docker runtime and hence can’t be used in HPC. The Singularity runtime addresses the…

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Sylabs Collaborates with Univa on Expanded Support for Singularity

Sylabs announces partnership with Univa®, a leading innovator in workload management and optimization solutions for high-performance computing (HPC) and enterprise customers, to offer enhanced…

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Sylabs Collaborates with Univa on Expanded Support for Singularity

Chicago, IL – July 31, 2018 – Univa®, a leading innovator in workload management and optimization solutions for high-performance computing (HPC) and enterprise customers,…

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Securing Quick Wins with AI

Securing Quick Wins with AI Sylabs CEO, Greg Kurtzer will be moderating a panel of AI experts at Orange Silicon Valley’s upcoming conference, “Artificial…

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Sarek, the portable and reproducible WGS Germline and Somatic analysis workflow powered by Singularity and NextFlow

• Docker-like container engine • Specific for HPC environnment • Without the root user security problem • Supported by Nextflow • Can pull containers…

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DevOps. Stacking up to be a Common Theme at ISC18

Yesterday was a good day to be in Frankfurt. All of the majors in the supercomputing universe descended upon the Messe Frankfurt to begin…

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What’s Hot and What’s Not at ISC 2018?

While Docker has the hearts and minds of the ML/DL researchers, because they typically work on single tenanted, or at least single use, GPU…

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Sylabs Launches Global Partner Program

Sylabs Launches Global Partner Program   Program provides partners with a commercially supported portfolio of services for organizations with AI, machine learning and deep…

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Done with Singularity: White matter free water content at different stages of Alzheimer’s disease

We processed MRI data from the ADNIGO and ADNI2 databases with a state-of-the-art processing pipeline that uses T1 weighted (T1w), diffusion weighted (DW), and…

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DESY Deutsches Elektronen-Synchrotron

Singularity allows instantiating an alternative operating system environment on our Linux systems. In other words: If you need to develop software in a Scientific…

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Singularity: “Docker” for HPC environments

Companies nowadays are under pressure to digitally transform their applications but are constrained by existing applications and infrastructure while rationalizing in a diverse portfolio…

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Sylabs Security Vulnerability Protocol

Sylabs Security Vulnerability Protocol A lot rides on Singularity.   Some of the biggest HPC centers on the planet depend on Singularity containers every…

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Making Containers Easier with HPC Container Maker

Containers simplify application deployments in the data centers by wrapping applications into an isolated virtual environment. By including all application dependencies like binaries and…

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SLURM Spank Singularity plugin

Provide a simple interface to allow Slurm users to run executables inside a Singularity container using srun. Slurm provides host machine resource/workload management. –…

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Princeton University Department of Computer Science Computing

Singularity is a container platform which allows users to have full control of the environment in which their application runs. It is a safe…

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Max Planck Computing & Data Facility

The Max Planck Computing and Data Facility (MPCDF, formerly known as RZG) is a cross-institutional competence centre of the Max Planck Society to support…

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HPC Container Security: Fact, Myth, Rumor, And Kernels

The obvious need now for many to have to reimage their systems with newer kernel operating code to support any contained workloads that many…

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Profiling a Java Application in a Singularity Container with Intel VTune

From the Intel VTune Amplifier Performance Analysis Cookbook: Intel® VTune™ Amplifier is a performance profiling tool that helps you analyze your code, identify ineffective…

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[FR] Singularity: les bonnes pratiques

En dehors de la fabrication de recettes, il n’y a pas encore de bonnes pratiques documentées sur le site de Singularity. Ce qui suit…

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Seminar: Is Singularity-based Container Technology Ready for Running MPI Application on HPC Clouds?

Singularity shows near-native performance even when running MPI (HPC) applications • Container-Technology is ready for HPC field! Why do we have to do the…

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Containers Using Singularity on HPC

In this talk, we will introduce Singularity, discuss how users of Indiana University are using it and share our experience supporting it. This talk…

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Pegasus HPC at Information Sciences Institute – USC

This section contains an example of a real workflow running inside Singularity containers. The application is Montage using the montage-v2 workflow. Be aware that…

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Cloud-Readiness and Looking Beyond Application Scaling

Containerised workflows are increasingly popular in HPC with Singularity leading the charge towards making reproducible user-defined environments the norm. Running in a container makes…

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Sylabs Remote Build Service

Sylabs Remote Build Service At Sylabs, our mission is to drive development of the open source Singularity project and expand the surrounding ecosystem positioning…

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Fraunhofer Institute for industrial mathematics

The core competence of ITWM is mathematics: the language used by scientists and engineers to formulate models for technical systems. In our time it…

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Indiana University Research Computing Systems

At Indiana University, Singularity is available on Big Red II, Karst, and Carbonate. To get starting using Singularity, add it to your user environment…

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PDC Center for High Performance Computing at the KTH.se

PDC now supports Singularity on Tegner Singularity software is now available on Tegner. Singularity enables users to have full control of their environment. Singularity…

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FermiLab

Recently, a number of sites on the Open Science Grid (OSG), including Fermilab, have discussed or implemented support for one such container solution, Singularity. Singularity,…

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WestGrid.ca

One of the strengths of Singularity is the ease of access to network and parallel filesystems without compromising security. The home directory, /home/$USER is…

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Argonne National Laboratory – anl.gov

The HepSim repository was started at ANL during the US long-term planning study of the American Physical Society’s Division of Particles and Fields (Snowmass…

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Kamiak, Washington State University

Singularity is a utility which enables the use of containers in HPC environments such as Kamiak. You don’t use docker’s commands but instead use…

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Initial Experiences with Deploying Singularity on a Cray XC Supercomputer

Download presentation: Initial Experiences with Deploying Singularity on a Cray XC Supercomputer Why Singularity? Singularity is a simple container solution created by LBNL Based…

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Cineca.it

Cineca is a non profit Consortium, made up of 67 Italian universities, 9 Italian Research Institutions, 1 Polyclinic, and the Italian Ministry of Education.…

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HPC Containers in Use Jonathan Sparks – Cray Inc. – Cray User Group

Implementing existing enterprise container solutions in HPC systems will require modifications to the software stack. HPC systems traditionally already have resource management and job…

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Università di Milano

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Singularity Compatibility with Docker Containers

Many users first come to Singularity because they want to run an existing Docker container on a system where they can't run Docker natively.…

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University of IOWA

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FOSDEM 2017: The Inner Workings of Securely Running User Containers on HPC Systems

This presentation will provide an in-depth look at how Singularity is able to securely run user containers on HPC systems. After a brief introduction…

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Running an MPI application using Singularity by NSC

The overhead of using Singularity should be almost zero. We have tested a very communication-intensive MPI application and seen no performance impact from using…

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Vanderbilt Advanced Computing Center for Research and Education

Docker containers themselves cannot be run in a shared environment like the ACCRE cluster for security reasons. However, Singularity enables a user to convert…

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Singularity for High Performance Computing at NIH

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Containerizing jobs on the ACCRE cluster with Singularity

Singularity is a tool that allows containers (including those converted from Docker) to be run within a shared high-performance computing environment. This enables users…

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Containerizing HPC Applications with Singularity

We will give an introduction to Singularity containers and how they should be used to containerize HPC applications. We run different deep learning frameworks…

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HPC ITS Research group at Queen Mary University of London

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Pittsburgh Supercomputing Center

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FSU Research Computing Center

We believe that containerized software is the way forward for scientific computing on HPCs, and we will continue to develop our support for containers.…

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Triton Supercomputing Center of Aalto, Finland

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IT4Innovations National Supercomputing Center Czech Republic

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RCCI System at Case Western Reserve University

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Niflheim HPC at Institute of Physics, Denmark

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Savio HPC at University of California, Berkeley

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Open Science Grid

For jobs on OSG, it does not matter whether you provide a Docker or Singularity image. Either is compatible with our system and can…

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National Supercomputer Centre, Sweden

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Maryland Advanced Research Computing Center

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Compute Canada System

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Multidisciplinary Center for Advanced Computational Science at Uppsala University

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University of Tübingen

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CHPC University of Utah

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Ohio SuperComputer Center

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Melbourne BioInformatics

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University of Oslo

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Odyssey cluster at Harvard Research Computing

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Stanford Research Computing Center

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BioHPC, Department of Bioinformatics at Southwestern Medical Center

https://portal.biohpc.swmed.edu/content/guides/singularity-containers-biohpc/

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Singularity: Scientific containers for mobility of compute

Here we present Singularity, software developed to bring containers and reproducibility to scientific computing. Using Singularity containers, developers can work in reproducible environments of…

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Managing Singularity Branches

Greetings Singularity community! Based on a lengthy discussion about code organization during February’s hackathon, Singularity’s repository branches at https://github.com/singularityware/singularity will soon be reorganized. There…

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SIF — Containing Your Containers

SIF -- Containing Your Containers One of Singularity’s design concepts in architecting a container solution is to  store a container as a single run-time…

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The Scientific Filesystem (SCIF)

We use SCIF to evaluate container software, provide metrics, serve scientific workflows, and execute a primary function under different contexts. To encourage collaboration and…

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Singularity + OCI = “Cloud Native” Enterprise Performance Computing

Singularity is witnessing heavy adoption from a classification of users interested in AI, Deep Learning, compute-driven-analytics, and even IoT. Characterized as “Enterprise Performance Computing” (EPC), these containerized…

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Singularity Plugin Support

As development efforts continue, we also want to provide updates on the progress of the 3.0 release. One of the concepts mentioned in our…

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Singularity Containers for Reproducible Research

This webinar was presented by Paul Preney (SHARCNET) on February 14th 2018 as a part of a series of regular biweekly webinars ran by…

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Singularity 3.0

As the hackathon approaches, we've set our sights firmly on Singularity 3.0 - slated for release in summer 2018. We're looking forward to working…

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Singularity + Golang

As any developer or community contributor can tell you, some parts of the Singularity codebase can be confusing and frustrating to decipher. Particularly the…

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Sylabs Emerges from Stealth…

Read the details here: SyLabs Press Release

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Hello, World!

The last few years have been an amazing whirlwind within the high performance computing (HPC) community thanks to a buzzword that has finally moved…

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Sylabs Emerges from Stealth to Bring Singularity Container Technology to Enterprise Performance Computing

Introducing Singularity Pro, an Enterprise Version of Open Source Software Originally Designed for HPC Environments Albany, CA -- February 8, 2018 -- Sylabs today…

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Singularity Containers Containers for HPC, analytics, machine learning, reproducible and trusted computing

Presented by David Godlove at MAGIC meeting on February 7, 2018 HPC COMPATIBLE SECURITY MODEL • Base security assumption: Untrusted users running untrusted containers…

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Building Reproducible Science with Singularity Containers

One of the biggest problems in scientific HPC is ensuring that results are reproducible. That is, the code a scientist runs locally must be…

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A Tale of Two Systems: Using Containers to Deploy HPC Applications on Supercomputers and Clouds by Sandia National Laboratories

Andrew J. Younge, Kevin Pedretti, Ryan E. Grant, Ron Brightwell Center for Computing Research Sandia National Laboratories Our results indicate that Singularity containers operate…

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A Review of MongoDB and Singularity Container Security in regards to HIPAA Regulations

Nowadays Linux Containers which have operating system level virtualization, are very popular over virtual machines (VMs) which have hypervisor or kernel level virtualization in…

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Singularity: Containers for High-Performance Computing by Grigory Shamov

HPC usage model / architecture • Bare-metal performance, fast interconnect • Clusters, under control of Resource Manager/ Scheduler • Scalable, Parallel POSIX FileSystems (Lustre, GPFS, etc.) • Centralized…

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HPC containers with Azure Batch

We're excited to announce support for Singularity containers in the latest Batch Shipyard release. Singularity is a container solution amenable to both administrators and…

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SC 2017 in Denver: Singularity HPC container for Supercomputing

The Singularity software can import your Docker images without having Docker installed or being a superuser. Need to share your code? Put it in…

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Reproducibility and Containers, the Perfect Sandwich

Vanessa Sochat, Stanford Research Computing 7/11/2017

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Singularity Registry: Open Source Registry for Singularity Images

Singularity Registry (sregistry) (Sochat, n.d.) was developed to empower an institution or individual to build at scale, and push images that can be private…

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HPC Containers with Singularity

The new container technology Singularity focuses on the compute portability, this work covers the creation of portable containers using multiple resources, and showing how…

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Performance Evaluation of Container-based Virtualization for High Performance Computing Environments

Virtualization technologies have evolved along with the development of computational environments since virtualization offered needed features at that time such as isolation, accountability, resource…

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Singularity: A Container System for HPC Applications (from “Cloud Computing for Science Engineering”)

From Chapter 6 of “Cloud Computing for Science and Engineering”, MIT Press 2017 Singularity containers differ from Docker containers in several important ways, including…

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Introduction to High-Performance Computing (HPC) Containers and Singularity*

Introduction to High-Performance Computing (HPC) Containers and Singularity at Intel HPC Developer Conference

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Proceedings of PEARC2017 in New Orleans, LA, USA: Performance Analysis of Applications using Singularity Container on SDSC Comet

Multiple nodes of the Comet supercomputer at the San Diego Supercomputer Center were used to analyse and compare (between Singularity and non-Singularity) performance of…

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Comparison of Different Linux Containers

The new generation of virtualization is containerization. In this paper we measured the most common container techniques to determinate the performance of these techniques…

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Guidelines for pipeline interoperability using containers

Download Guidelines for pipeline interoperability using containers In this project, we used Singularity, which is an HPC friendly container technology . Singularity also has…

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An introduction to Singularity by Michael Bauer

Michael Bauer provides an introduction into the HPC container runtime Singularity.Michael Bauer provides an introduction into the HPC container runtime Singularity.

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Singularity on the OSG

The adoption of Singularity across the OSG sites is still in the first stages, but there is considerable interest and momentum in that direction.…

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Guest post: Windows Apps under Linux using Singularity

Recently I've found several reasons why Windows containers fit in nicely in our Linux-dominated environments: You actually do have a scientific application which is…

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Howto use Host libraries: GPU drivers and OpenMPI BTLs

Note: Much of the GPU portion of this tutorial is deprecated by the --nv option that automatically binds host system driver libraries into your…

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HPC workflows using containers

the use of specialized hardware like Cray Aries interconnect and NVIDIA Tesla P100 GPU accelerators   https://www.youtube.com/watch?v=PwI0tJHJOlo

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GPU-accelerated HPC Containers with Singularity

Fighting with application installations is frustrating and time consuming. It’s not what domain experts should be spending their time on. And yet, every time…

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Singularity Containers for HPC, Reproducibility, and Mobility

At the recent Intel HPC Developer Conference, Gregory Kurtzer (Singularity project lead and LBNL staff member) and Krishna Muriki (Computer Systems Engineer at LBNL)…

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Singularity in CMS “Over a million containers served” at CERN

  Over 2 million OSG VO jobs have been run in containers! Young rollout: up to 350k containers / day. Started at 1k containers…

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[FR] Singularity, un conteneur pour le Calcul Haute Performance

Le calcul haute performance ou HPC pour High-Performance Computing (en anglais) utilise des « grappes de serveurs » pour désigner des techniques consistant à…

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Singularity and HPC on SUSE

Singularity uses namespaces differently from other containers because its goal is application portability and not host virtualization, which is ideal for HPC.

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Singularity on POD by Penguin Computing

To use Singularity on POD one needs to either create a Singularity container or use one provided by someone else.  To build a container,…

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R and Singularity

I believe the idiosyncrasies of most HPC technologies represent the major road block to their adoption (in any language or system). HPC technologies are…

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Singularity: Containers in HPC

https://insidehpc.com/2018/03/singularity-inner-workings-securely-running-user-containers-hpc-systems/ This presentation will provide an in-depth look at how Singularity is able to securely run user containers on HPC systems. After a brief…

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Containers for Science, Reproducibility and Mobility

Intel HPC Developer Conference Containers for Science, Reproducibility and Mobility Video: https://www.youtube.com/watch?v=DA87Ba2dpNM Slides: https://www.intel.com/content/dam/www/public/us/en/documents/presentation/hpc-containers-singularity-advanced.pdf

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Singularity on SGC4 at Stanford

Science is founded on reproducibility of work Different environments require mobility of compute Running a thing many times -> scalability Please, let's not go…

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Singularity on OpenMind at MIT

We want containers VMs are too heavy Docker is not allowed Enter Singularity Singularity was built for HPC, to support containerized environments, and to…

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Open Science Grid User Guide: Singularity Containers

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Singularity on the Open Science Grid

Singularity is a container platform designed for use on computational resources. Several sites have deployed Singularity for their users and the OSG. In this…

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New Site Compares Docker, Singularity, Shifter, and Univa Grid Engine Container Edition

A new site developed by Tin H compares the HPC virtualization capabilities of Docker, Singularity, Shifter, and Univa Grid Engine Container Edition. https://insidehpc.com/2017/01/hpc-virtualization-2/

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Getting Started with Singularity and Singularity Hub

So you want to put your scientific analysis in a nice package and run it on a cluster? You’ve probably heard of the container…

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More fun with containers in HPC at NextFlow.io

In our evaluation Singularity proved to be an easy to install, stable and performant container engine. The only minor drawback, we found when compared…

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Howto build CentOS image using Singularity 2.2

NOTE: this tutorial is intended for Singularity release 2.2, and reflects standards for that version. The Problem In theory, an Ubuntu host can create/bootstrap…

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Docker vs Singularity vs Shifter in an HPC environment

Here is a comparison of HPCS Singularity vs NeRSC Shifter. They both bring the benefits of container to the HPC world. As such, both…

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Howto build Singularity on Debian

This tutorial is generated courtesy of Karl Kornel from Stanford Research Computing. The ascii art is amazing, if you don't care to build Singularity…

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Singularity Featured on RCE Podcast

The RCE podcast does a special on Singularity Brock Palen and Jeff Squyres speak with Gregory Kurtzer about Singularity a container solution for HPC…

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Howto build an Ubuntu image using Singularity on a RHEL compatible host

This recipe describes how to build an Ubuntu image using Singularity on a RHEL compatible host. NOTE: this tutorial is intended for Singularity release…

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Running an MPI application using Singularity

On the Singularity website you can find some notes on using OpenMPI to run MPI applications. However, there's very little information available on using…

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A Container for HPC

Working with containers in high-performance computing can be difficult; a new container named Singularity comes to the rescue by Jess Layton https://www.admin-magazine.com/HPC/Articles/Singularity-A-Container-for-HPC

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R Systems Adds Support for Singularity Application Containers

Containers allow for service and application portability to external or internal resources that would otherwise have to tailor the environment to the application, or…

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ISC 2016: Linux Container Workshop, Singularity Q&A

This was a Q&A hosted at the International Super Computing conference after a Linux Container Workshop hosted by Christian Kniep. https://youtu.be/YGBm_cx2pI0

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Custom App Container Targets HPC Needs

The Energy Department lab that is also part of the University of California system developed the open source Singularity approach to address HPC requirements…

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