seqeralabs/wave-cli

Command line tool for Wave containers provisioning service

Language: Java - Size: 354 KB - Last synced: about 23 hours ago - Pushed: 18 days ago - Stars: 10 - Forks: 3

glotzerlab/hoomd-blue

Molecular dynamics and Monte Carlo soft matter simulation on GPUs.

Language: C++ - Size: 69.4 MB - Last synced: about 24 hours ago - Pushed: 1 day ago - Stars: 313 - Forks: 122

singularityhub/install-singularity

Action to install Singlarity optimized for simplicity.

Size: 72.3 KB - Last synced: about 2 months ago - Pushed: 3 months ago - Stars: 2 - Forks: 2

mdpiper/csdms-containers

Docker and Singularity definition files for CSDMS software

Language: Dockerfile - Size: 2.93 KB - Last synced: 2 days ago - Pushed: 2 days ago - Stars: 0 - Forks: 0

apptainer/apptainer

Apptainer: Application containers for Linux

Language: Go - Size: 38.5 MB - Last synced: 2 days ago - Pushed: 2 days ago - Stars: 920 - Forks: 117

supercontainers/isc-tutorial

ISC 2023 -- Getting Started with Containers on HPC

Language: C++ - Size: 106 MB - Last synced: 2 days ago - Pushed: 2 days ago - Stars: 6 - Forks: 6

pscedu/singularity-graphviz

Graphviz is a package of open-source tools initiated by AT&T Labs Research for drawing graphs specified in DOT language scripts.

Language: Shell - Size: 64.5 KB - Last synced: 2 days ago - Pushed: 2 days ago - Stars: 0 - Forks: 0

OpenOmics/genome-seek

Clinical Whole Genome and Exome Sequencing Pipeline

Language: Python - Size: 919 KB - Last synced: 3 days ago - Pushed: 3 days ago - Stars: 16 - Forks: 7

mpieva/quicksand

A pipeline for the analysis of sedimentary ancient mtDNA

Language: Nextflow - Size: 131 MB - Last synced: 2 days ago - Pushed: 3 days ago - Stars: 4 - Forks: 0

ethanluoyc/lxm3

LXM3: XManager launch backend for HPC clusters

Language: Python - Size: 724 KB - Last synced: 2 days ago - Pushed: 3 days ago - Stars: 8 - Forks: 1

coderefinery/ttt4hpc_containers

Lesson about containers for HPC with focus on Apptainer.

Language: Python - Size: 3.57 MB - Last synced: 2 days ago - Pushed: 3 days ago - Stars: 1 - Forks: 0

unlhcc/singularity-dockerfiles

Read-only mirror of the HCC singularity dockerfiles repo.

Language: C++ - Size: 729 KB - Last synced: 3 days ago - Pushed: 3 days ago - Stars: 7 - Forks: 6

tomeichlersmith/denv

uniformly interact with containerized environments across runners

Language: Shell - Size: 345 KB - Last synced: 3 days ago - Pushed: 3 days ago - Stars: 8 - Forks: 1

ncar-xdev/repo2apptainer

Repo2apptainer: Wrapper around repo2docker producing Jupyter enabled Apptainer/Singularity images.

Language: Python - Size: 56.6 KB - Last synced: 4 days ago - Pushed: 4 days ago - Stars: 6 - Forks: 0

diehlpkpapers/dockerizeHPX

Supplementary materials for the paper: HPX with Spack and Singularity Containers: Evaluating Overheads for HPX/Kokkos using an astrophysics application

Language: Shell - Size: 153 KB - Last synced: 4 days ago - Pushed: 4 days ago - Stars: 0 - Forks: 0

Product-Live/Singularity

NodeJS framework for services

Language: JavaScript - Size: 6.3 MB - Last synced: 7 days ago - Pushed: over 5 years ago - Stars: 9 - Forks: 1

juliawiggeshoff/singularity-recipes

Recipes for Singularity

Size: 27.3 KB - Last synced: 7 days ago - Pushed: 7 days ago - Stars: 1 - Forks: 0

vmikk/PhyloNext

A pipeline for phylogenetic diversity analysis of GBIF-mediated data

Language: R - Size: 18.1 MB - Last synced: 8 days ago - Pushed: 8 days ago - Stars: 7 - Forks: 0

praksharma/Sunbird

My manuals on working with Sunbird HPC cluster

Language: Jupyter Notebook - Size: 9.97 MB - Last synced: 8 days ago - Pushed: 8 days ago - Stars: 3 - Forks: 2

YogiOnBioinformatics/Comp-Bio-Images

Containers that I use in my work.

Language: Dockerfile - Size: 21.5 KB - Last synced: 8 days ago - Pushed: about 1 year ago - Stars: 0 - Forks: 0

DrSnowbird/docker-singularity-base

Docker for Singularity Base image

Size: 3.91 KB - Last synced: 9 days ago - Pushed: about 6 years ago - Stars: 0 - Forks: 0

DrSnowbird/docker-hpc-micro-benchmark

Docker for HPC Singularity Micro benchmarks

Language: Shell - Size: 24.4 KB - Last synced: 9 days ago - Pushed: about 6 years ago - Stars: 0 - Forks: 0

singularityhub/shpc-registry

A remote registry for Singularity Registry HPC 🖊️

Language: Shell - Size: 1.59 GB - Last synced: 27 days ago - Pushed: 27 days ago - Stars: 10 - Forks: 16

vsoch/watchme-mnist

An example using the watchme terminal monitor to record resources used during mnist training

Language: Jupyter Notebook - Size: 603 KB - Last synced: 9 days ago - Pushed: almost 5 years ago - Stars: 0 - Forks: 0

vsoch/sview-docker

testing installation of sview via a docker (singularity on cluster) container

Language: Dockerfile - Size: 101 KB - Last synced: 9 days ago - Pushed: about 3 years ago - Stars: 1 - Forks: 1

vsoch/singularity-nbconvert

Singularity container with nbconvert for conversion of jupyter notebooks to other formats

Language: Jupyter Notebook - Size: 178 KB - Last synced: 9 days ago - Pushed: over 6 years ago - Stars: 0 - Forks: 0

vsoch/singularity-clair

testing running clair with a singularity image

Language: Shell - Size: 3.91 KB - Last synced: 9 days ago - Pushed: almost 7 years ago - Stars: 0 - Forks: 0

vsoch/simvascular

testing Docker (Singularity) container with SimVascular

Language: Dockerfile - Size: 67.4 KB - Last synced: 9 days ago - Pushed: about 4 years ago - Stars: 1 - Forks: 1

vsoch/sifweb

Testing loading a SIF into a browser using Web Assembly (under development)

Language: Go - Size: 3.31 MB - Last synced: 9 days ago - Pushed: over 4 years ago - Stars: 5 - Forks: 0

vsoch/helpme

command line daemon for helping you out

Language: Python - Size: 1010 KB - Last synced: 9 days ago - Pushed: almost 3 years ago - Stars: 9 - Forks: 1

vsoch/cs106b-builder

a Singularity container for build and run of QT-creator projects. Does not include any project content.

Language: Shell - Size: 15.6 KB - Last synced: 9 days ago - Pushed: over 5 years ago - Stars: 1 - Forks: 0

singularityhub/singularityhub-docs

improved documentation for Singularity Hub

Language: CSS - Size: 12.1 MB - Last synced: 9 days ago - Pushed: about 3 years ago - Stars: 0 - Forks: 3

singularityhub/singularity-compose-simple

One instance example with singularity-compose

Language: Python - Size: 122 KB - Last synced: 9 days ago - Pushed: over 3 years ago - Stars: 4 - Forks: 1

singularityhub/hello-registry

testing registry for singularity hub and singularity registry

Size: 30.3 KB - Last synced: 9 days ago - Pushed: almost 5 years ago - Stars: 0 - Forks: 0

singularityhub/library-api

a community specification for the library:// API for Singularity (and affiliated) containers

Size: 5.72 MB - Last synced: 9 days ago - Pushed: over 2 years ago - Stars: 1 - Forks: 2

researchapps/forward Fork of vsoch/forward

Sherlock Port Forwarding Utility

Language: Shell - Size: 59.6 KB - Last synced: 9 days ago - Pushed: almost 6 years ago - Stars: 0 - Forks: 0

jaantollander/julia-apptainer

Example of installing Julia package inside an Apptainer container and running it from the container.

Language: Julia - Size: 2.93 KB - Last synced: 9 days ago - Pushed: 6 months ago - Stars: 0 - Forks: 0

TJ-Solergibert/MN5-Distributed-PyTorch

Entry point for developing distributed applications with PyTorch, Slurm and Singularity on MareNostrum5 Supercomputer

Language: Shell - Size: 13.7 KB - Last synced: 11 days ago - Pushed: 12 days ago - Stars: 0 - Forks: 0

apptainer/singularity

Singularity has been renamed to Apptainer as part of us moving the project to the Linux Foundation. This repo has been persisted as a snapshot right before the changes.

Language: Go - Size: 34.8 MB - Last synced: 9 days ago - Pushed: over 1 year ago - Stars: 2,502 - Forks: 424

NVIDIA/hpc-container-maker

HPC Container Maker

Language: Python - Size: 1.9 MB - Last synced: 2 days ago - Pushed: 5 months ago - Stars: 436 - Forks: 86

cyborgway-org/cyborgway-org

Cyborg Way Technocracy Corporation - Creating Cybernetic Future for Cyborgs

Language: HTML - Size: 710 KB - Last synced: 12 days ago - Pushed: 12 days ago - Stars: 3 - Forks: 1

seanpm2001/Learn-Singularity

A repository for showcasing my knowledge of the Singularity programming language, and continuing to learn the language.

Language: Singularity - Size: 649 KB - Last synced: 12 days ago - Pushed: over 1 year ago - Stars: 3 - Forks: 1

seanpm2001/Bliss_Browser_Singularity

🌳️🌐️#️⃣️ The Bliss Browser Singularity language support module, allowing Singularity programs to be written in and ran within the browser.

Language: Singularity - Size: 776 KB - Last synced: 12 days ago - Pushed: about 1 year ago - Stars: 2 - Forks: 1

pharmai/plip

Protein-Ligand Interaction Profiler - Analyze and visualize non-covalent protein-ligand interactions in PDB files according to 📝 Adasme et al. (2021), https://doi.org/10.1093/nar/gkab294

Language: Python - Size: 8.91 MB - Last synced: 13 days ago - Pushed: about 1 month ago - Stars: 400 - Forks: 97

singularityhub/singularity-compose

orchestration for singularity containers (under development)

Language: Python - Size: 6.67 MB - Last synced: 11 days ago - Pushed: about 1 month ago - Stars: 68 - Forks: 15

UPHL-BioNGS/Grandeur

UPHL's Reference Free Pipeline

Language: Nextflow - Size: 512 MB - Last synced: 15 days ago - Pushed: 15 days ago - Stars: 21 - Forks: 6

netreconlab/ca-server

A Certificate Authority (CA) Server written in python using fastAPI

Language: ASP.NET - Size: 368 KB - Last synced: 4 days ago - Pushed: 4 days ago - Stars: 5 - Forks: 0

connectomicslab/connectomemapper3

Connectome Mapper 3 is a BIDS App that implements full anatomical, diffusion, resting/state functional MRI, and recently EEG processing pipelines, from raw T1 / DWI / BOLD , and preprocessed EEG data to multi-resolution brain parcellation with corresponding connection matrices.

Language: HTML - Size: 354 MB - Last synced: 15 days ago - Pushed: 15 days ago - Stars: 61 - Forks: 27

harveybc/don

Descentralized Optimization Network (DON) is a REST API that allows extending existing evolutionary algorithms to a decentralized architecture to provide collaboration, scalability, event log and fault-tolerance in an optimization process. It also allows external clients to make remote evaluations of data using the most optimized models.

Language: JavaScript - Size: 37.1 MB - Last synced: 15 days ago - Pushed: 16 days ago - Stars: 6 - Forks: 3

GaneshShivalingappa/Parametric-NN-Models

Physics-Informed Neural Network, Finite Element Method enhanced neural network, and FEM data-based neural network

Language: Python - Size: 174 KB - Last synced: 16 days ago - Pushed: 16 days ago - Stars: 3 - Forks: 0

vsoch/forward

Port Forwarding Utility

Language: Shell - Size: 140 KB - Last synced: 9 days ago - Pushed: 5 months ago - Stars: 47 - Forks: 29

singularityhub/singularity2docker

convert a singularity image back to Docker, full circle! #containerfriends

Language: Shell - Size: 28.3 KB - Last synced: 9 days ago - Pushed: almost 4 years ago - Stars: 19 - Forks: 9

dgruber/wfl

A Simple Way of Creating Job Workflows in Go running in Processes, Containers, Tasks, Pods, or Jobs

Language: Go - Size: 179 MB - Last synced: 21 days ago - Pushed: 21 days ago - Stars: 46 - Forks: 7

brain-image-library/singularity-eog

Eye of GNOME provides basic effects for improved viewing, such as zooming, full-screen, rotation, and transparent image background control.

Language: Shell - Size: 7.81 KB - Last synced: 20 days ago - Pushed: 22 days ago - Stars: 0 - Forks: 0

asadprodhan/blastn

How to automatically download blastn database, run blastn, and extract blastn hit sequences?

Language: Shell - Size: 296 KB - Last synced: 23 days ago - Pushed: 23 days ago - Stars: 0 - Forks: 0

U-BDS/training_guides

Compilation of training guides

Language: Shell - Size: 7.06 MB - Last synced: 23 days ago - Pushed: 24 days ago - Stars: 4 - Forks: 0

NinesStack/nmesos

CLI tool to deploy to Mesos using Singularity

Language: Scala - Size: 1.56 MB - Last synced: 24 days ago - Pushed: 6 months ago - Stars: 7 - Forks: 5

TACC/docker2singularity Fork of alaindomissy/docker2singularity

A docker image for converting docker images to singularity images.

Language: Shell - Size: 38.1 KB - Last synced: 25 days ago - Pushed: over 6 years ago - Stars: 3 - Forks: 0

StaPH-B/docker-builds

:package: :whale: Dockerfiles and documentation on tools for public health bioinformatics

Language: Dockerfile - Size: 93.7 MB - Last synced: 27 days ago - Pushed: 28 days ago - Stars: 168 - Forks: 114

seqeralabs/wave

On-demand containers provisioning service

Language: Groovy - Size: 28.5 MB - Last synced: 27 days ago - Pushed: 27 days ago - Stars: 25 - Forks: 3

inab/ipc_workflows

iPC Workflows for VRE

Language: Common Workflow Language - Size: 118 KB - Last synced: 25 days ago - Pushed: about 1 year ago - Stars: 0 - Forks: 0

singularityhub/singularity-catalog

The Singularity Community Catalog of Singularity* recipe files.

Language: Singularity - Size: 109 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 10 - Forks: 2

soichih/docker-tensorflow-bigred2

Tensorflow Container for IU BigRed 2

Language: Shell - Size: 2.93 KB - Last synced: 26 days ago - Pushed: about 7 years ago - Stars: 0 - Forks: 0

matthewfeickert/talk-IML-workshop-2019

Talk at the 2019 IML Workshop on Containers for Machine Learning for the HEP Community

Language: CSS - Size: 5.86 MB - Last synced: 26 days ago - Pushed: about 5 years ago - Stars: 0 - Forks: 2

nextflow-io/nextflow

A DSL for data-driven computational pipelines

Language: Groovy - Size: 53.8 MB - Last synced: 27 days ago - Pushed: 28 days ago - Stars: 2,536 - Forks: 584

OpenOmics/mpox-seek

A rapid pipeline for targeted ONT monkeypox sequencing

Language: Python - Size: 661 KB - Last synced: 28 days ago - Pushed: 29 days ago - Stars: 1 - Forks: 0

brighill/singularity-deepin

Singularity容器运行微信

Language: C - Size: 17.6 KB - Last synced: 23 days ago - Pushed: 23 days ago - Stars: 46 - Forks: 5

seanpm2001/SNU_2D_ProgrammingTools_IDE_Singularity

The Singularity Programming language IDE submodule for SNU Programming Tools (2D Mode)

Language: Singularity - Size: 680 KB - Last synced: 12 days ago - Pushed: over 1 year ago - Stars: 3 - Forks: 2

Azure/batch-shipyard 📦

Simplify HPC and Batch workloads on Azure

Language: Python - Size: 6.15 MB - Last synced: 12 days ago - Pushed: about 1 year ago - Stars: 276 - Forks: 123

bsc-wdc/compss

COMP Superscalar (COMPSs) is a framework which aims to ease the development and execution of applications for distributed infrastructures, such as Clusters, Grids and Clouds.

Language: Java - Size: 285 MB - Last synced: 23 days ago - Pushed: 23 days ago - Stars: 42 - Forks: 18

dirkpetersen/hpc-containers

You should offer both Podman and Apptainer with name spaces on your HPC systems

Language: Shell - Size: 88.9 KB - Last synced: 28 days ago - Pushed: 28 days ago - Stars: 41 - Forks: 1

PangzeCheung/SingDiffusion

[CVPR 2024] Tackling the Singularities at the Endpoints of Time Intervals in Diffusion Models

Language: Python - Size: 23.4 KB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 33 - Forks: 4

OpenOmics/nanite

A streamlined Oxford Nanopore Viral Metagenomics Pipeline

Language: Python - Size: 569 KB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 4 - Forks: 2

pmitev/Teoroo-singularity

Singularity images and recipes

Language: JavaScript - Size: 5.37 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 0 - Forks: 0

singularityhub/github-ci

An example GitHub Action (CI) to build a Singularity container

Language: Singularity - Size: 69.3 KB - Last synced: 9 days ago - Pushed: 11 months ago - Stars: 66 - Forks: 28

getpopper/popper

Container-native task automation engine.

Language: Python - Size: 1.43 MB - Last synced: about 7 hours ago - Pushed: about 2 years ago - Stars: 299 - Forks: 60

netreconlab/parse-hipaa

HIPAA & GDPR compliant ready parse-server with postgres/mongo, parse-hipaa-dashboard. Compatible with ParseCareKit

Language: JavaScript - Size: 13.7 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 90 - Forks: 39

pscedu/singularity

Just a list of Singularity definition files maintained by the Biomed Applications Group

Language: Python - Size: 178 KB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 0 - Forks: 0

cokelaer/damona

singularity environment manager (application to NGS and bioinformatics)

Language: Python - Size: 5.78 MB - Last synced: 4 days ago - Pushed: about 1 month ago - Stars: 5 - Forks: 2

pscedu/singularity-filtlong

Quality filtering tool for long reads

Language: Shell - Size: 8.79 KB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 0 - Forks: 0

pscedu/singularity-porechop

Adapter trimmer for Oxford Nanopore reads

Language: Shell - Size: 9.77 KB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 0 - Forks: 0

Nitro/singularity-broadcast

Singularity Webhooks broadcast to Slack and NewRelic

Language: Scala - Size: 438 KB - Last synced: about 1 month ago - Pushed: over 4 years ago - Stars: 3 - Forks: 1

LUMC/hutspot

Multisample DNAseq variant calling pipeline for use in diagnostics

Language: Python - Size: 5.98 MB - Last synced: about 1 month ago - Pushed: over 2 years ago - Stars: 3 - Forks: 2

LUMC/docker-singularity-snakemake

Docker image based on debian:buster that includes both singularity version 3 and snakemake 5.4

Language: Dockerfile - Size: 5.86 KB - Last synced: about 1 month ago - Pushed: about 4 years ago - Stars: 0 - Forks: 1

SciLifeLab/CAW-containers 📦

Containers for CAW

Size: 11.9 MB - Last synced: about 2 months ago - Pushed: over 6 years ago - Stars: 3 - Forks: 2

vmikk/biodiverse-docker

Docker and Singularity images to run Biodiverse software

Language: Perl - Size: 32.2 KB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 0 - Forks: 1

manuel-munoz-aguirre/singularity-pytorch-gpu

Singularity image for a deep learning (pytorch) environment + GPU support

Size: 7.81 KB - Last synced: about 2 months ago - Pushed: almost 3 years ago - Stars: 9 - Forks: 4

alan-turing-institute/AI-workflows

A collections of portable, real-world AI workflows for testing and benchmarking

Language: Shell - Size: 263 KB - Last synced: about 2 months ago - Pushed: almost 2 years ago - Stars: 8 - Forks: 1

CDCgov/tostadas

🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission

Language: Python - Size: 35.1 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 17 - Forks: 6

EI-CoreBioinformatics/reat

Robust Eukaryotic Annotation Toolkit

Language: Python - Size: 33.9 MB - Last synced: about 1 month ago - Pushed: 4 months ago - Stars: 12 - Forks: 3

PSU-ICDS/iask_onboarding

Code and tutorials to be used during the i-ASK onboarding sessions of Spring 2021

Language: Dockerfile - Size: 47.5 MB - Last synced: about 2 months ago - Pushed: almost 2 years ago - Stars: 0 - Forks: 0

NucciTheBoss/DS330_final_project 📦

Visualizing some Spotify data!

Language: Jupyter Notebook - Size: 28.3 KB - Last synced: about 2 months ago - Pushed: almost 2 years ago - Stars: 0 - Forks: 0

netreconlab/pmm-server

This repo provides a Singularity image version for Percona Monitoring and Management (PMM)

Language: Singularity - Size: 25.4 KB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 1 - Forks: 0

christopheredsall/singularity-hello-world

Language: Shell - Size: 1000 Bytes - Last synced: about 2 months ago - Pushed: almost 5 years ago - Stars: 0 - Forks: 0

cokelaer/graphviz4all

dot and other graphviz executable in a simple singularity container

Size: 5.86 KB - Last synced: about 2 months ago - Pushed: over 3 years ago - Stars: 0 - Forks: 0

go-outside-labs/singularity.sh 📦

👾 𝗼𝗹𝗱 𝗯𝗹𝗼𝗴 𝗼𝗻 𝘀𝗲𝗰𝘂𝗿𝗶𝘁𝘆, 𝗵𝗮𝗰𝗸𝗶𝗻𝗴, 𝗮𝗻𝗱 𝗺𝗮𝗰𝗵𝗶𝗻𝗲 𝗹𝗲𝗮𝗿𝗻𝗶𝗻𝗴

Language: HTML - Size: 307 MB - Last synced: 20 days ago - Pushed: about 2 months ago - Stars: 8 - Forks: 2

zavolanlab/zarp

The Zavolab Automated RNA-seq Pipeline

Language: Python - Size: 23.8 MB - Last synced: 22 days ago - Pushed: 2 months ago - Stars: 28 - Forks: 5

lemaslab/rump

A Reproducible Untargeted Metabolomics Data Processing Pipeline

Language: HTML - Size: 2.76 GB - Last synced: about 2 months ago - Pushed: about 3 years ago - Stars: 10 - Forks: 8

x11vnc/x11vnc-desktop

Docker/Singularity image for Ubuntu with X11 and VNC

Language: Python - Size: 4.94 MB - Last synced: about 2 months ago - Pushed: 6 months ago - Stars: 114 - Forks: 59

singularityhub/singularityhub-archive

Searchable archive for Singularity Hub (2016-2021)

Language: CSS - Size: 15.7 MB - Last synced: 9 days ago - Pushed: over 2 years ago - Stars: 3 - Forks: 0