name: singularity-container-manager description: Singularity container management skill for HPC-compatible containerized execution allowed-tools:
- Read
- Write
- Glob
- Grep
- Edit
- WebFetch
- WebSearch
- Bash
metadata:
version: "1.0"
category: bioinformatics
tags:
- infrastructure
- containers
- singularity
- hpc
Singularity Container Manager Skill
Purpose
Provide Singularity container management for HPC-compatible containerized execution.
Capabilities
- Container building from recipes
- Registry pull and caching
- Bind mount configuration
- GPU passthrough
- MPI integration
- Security compliance for HPC
Usage Guidelines
- Build containers from definition files
- Cache containers for repeated use
- Configure bind mounts appropriately
- Enable GPU for accelerated workloads
- Integrate with MPI for parallel computing
- Ensure HPC security compliance
Dependencies
- Singularity/Apptainer
- Docker
- BioContainers
Process Integration
- Reproducible Research Workflow (reproducible-research)
- All analysis pipelines