Enhancement
ImageBuilding
Issues which touch the Image Building subsystem of Singularity
good first issue
Good for newcomers
#
singularity
Here are 483 public repositories matching this topic...
A DSL for data-driven computational pipelines
docker
groovy
hello
aws
cloud
bioinformatics
pipeline
nextflow
hpc
reproducible-research
workflow-engine
slurm
pipeline-framework
sge
singularity
reproducible-science
dataflow
singularity-containers
-
Updated
Apr 10, 2022 - Groovy
Simplify HPC and Batch workloads on Azure
docker
serverless
hpc
azure
containers
gpu
mpi
slurm
nfs
singularity
azure-batch
azure-functions
glusterfs
rdma
infiniband
batch-processing
windows-containers
-
Updated
Oct 18, 2021 - Python
ivotron
commented
Jun 19, 2020
Add an example workflow in the examples/gradle/ folder that exemplifies how to make use of Popper to create a CI pipeline for java projects that use gradle as their build system. The image used by the workflow can be the official one.
1
Open
cli: colorize output
9
Molecular dynamics and Monte Carlo soft matter simulation on GPUs.
python
docker
simulation
gpu
cuda
molecular-dynamics
singularity
monte-carlo-simulation
particle-system
conda-forge
hard-particle
hoomd-blue
-
Updated
Apr 11, 2022 - C++
A docker image for converting docker images to singularity images.
-
Updated
Apr 8, 2022 - Shell
Apptainer: Application containers for Linux
-
Updated
Apr 8, 2022 - Go
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
docker
bioinformatics
pdb
protein-structure
singularity
python-bindings
scientific-computing
openbabel
plip
-
Updated
Apr 5, 2022 - Python
Detect germline or somatic variants from normal or tumour/normal whole-genome or targeted sequencing
docker
workflow
bioinformatics
pipeline
genomics
nextflow
cancer
somatic-variants
reproducible-research
containers
next-generation-sequencing
singularity
badge
reproducible-science
travis-link
somatic
germline
scilifelab
gitter-badge
germline-variants
gitter-link
scilifelab-link
nextflow-link
nbis-link
ngi-link
-
Updated
Jan 27, 2020 - Nextflow
The Singularity implementation of the Kubernetes Container Runtime Interface
-
Updated
Dec 29, 2020 - Go
-
Updated
Apr 8, 2022 - Dockerfile
server for storage and management of singularity images
-
Updated
Feb 10, 2022 - JavaScript
Singularity implementation of k8s operator for interacting with SLURM.
-
Updated
Dec 29, 2020 - Go
Snakemake pipelines for nanopore sequencing data archiving and processing
-
Updated
Feb 2, 2022 - Python
Create container images for using Julia packages (especially useful in environments without Internet access)
docker
offline
containers
julia-language
singularity
julia-packages
julia-package-compiler
static-compilation
-
Updated
Dec 25, 2021 - Julia
Nextflow pipeline for analysis of direct RNA Nanopore reads
-
Updated
Jan 12, 2022 - HTML
Tutorial for using Singularity containers
-
Updated
Oct 1, 2020
A extremely fast ioc container for high performance applications
ioc
csharp
dotnet
dependency-injection
singularity
netcore
di-container
inversion-of-control
ioc-container
net
netstandard
duality
di
dependency-injection-container
ioc-framework
inversionofcontrol
-
Updated
Sep 14, 2020 - C#
vsoch
commented
Mar 17, 2022
Singularity HPC newly added support for wrappers:
But we didn't properly (thoroughly) test them. This addition should add a new test_wrappers.py script under shpc/tests that goes through the process of:
- installing without a wrapper (confirming no wrapper directory is gene
good first issue
Good for newcomers
orchestration for singularity containers (under development)
-
Updated
Mar 29, 2022 - Python
An example GitHub Action (CI) to build a Singularity container
-
Updated
Feb 22, 2022 - Singularity
A novel composable rootless container system
docker
docker-image
singularity
fakeroot
unionfs
container-linux
fakechroot
rootless
rootless-container
-
Updated
Apr 5, 2022 - Go
streamlined singularity python client (spython) for singularity
-
Updated
Mar 29, 2022 - Python
A Simple Way of Creating Job Workflows in Go running in Processes, Containers, Tasks, Pods, or Jobs
go
macos
linux
docker
kubernetes
golang
workflow
hpc
containers
workflow-engine
singularity
processes
k8s
high-throughput
-
Updated
Apr 2, 2022 - Go
Hex-mesh simplification and optimization
-
Updated
Jun 10, 2018 - C++
Close assembly gaps using long-reads at high accuracy.
docker
bioinformatics
snakemake
cluster
singularity
dub
pacbio
dentist
genome-assembly
daligner
long-reads
gap-filling
gaps
low-complexity-regions
snakemake-workflow
close-assembly-gaps
damapper
snakemake-cluster
-
Updated
Mar 1, 2022 - D
Port Forwarding Utility
-
Updated
Mar 25, 2022 - Shell
scientific filesystem: a filesystem organization for scientific software and metadata
-
Updated
Feb 24, 2020 - Python
Generic germline variant annotation pipeline
docker
workflow
gene
database
singularity
vcf
variants
snv
vep
disease-gene-association
indels
annotation-tool
vcfanno
germline
variant-annotations
annotation-framework
snvs
germline-variants
-
Updated
Dec 21, 2021 - Python
Improve this page
Add a description, image, and links to the singularity topic page so that developers can more easily learn about it.
Add this topic to your repo
To associate your repository with the singularity topic, visit your repo's landing page and select "manage topics."
Version of Singularity:
3.0.3
Expected behavior
Some progress or update information during the creation of the SIF file.
Actual behavior
During "Creating SIF file..." step, the console does not produce any visible output for the user - but does create the resulting file eventually.
Steps to reproduce behavior
I was executing a few “larger” builds through the bui