{"id":20200394,"url":"https://github.com/nickjer/singularity-r","last_synced_at":"2026-03-10T12:36:39.762Z","repository":{"id":29430377,"uuid":"117989413","full_name":"nickjer/singularity-r","owner":"nickjer","description":"R in a Singularity container","archived":false,"fork":false,"pushed_at":"2022-09-16T11:41:35.000Z","size":18,"stargazers_count":28,"open_issues_count":0,"forks_count":33,"subscribers_count":2,"default_branch":"master","last_synced_at":"2025-10-09T08:36:12.829Z","etag":null,"topics":["r","singularity-image"],"latest_commit_sha":null,"homepage":"https://cloud.sylabs.io/library/nickjer/default/singularity-r","language":null,"has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"mit","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/nickjer.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":"LICENSE.txt","code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null}},"created_at":"2018-01-18T13:54:16.000Z","updated_at":"2024-08-15T02:36:38.000Z","dependencies_parsed_at":"2023-01-14T14:54:53.193Z","dependency_job_id":null,"html_url":"https://github.com/nickjer/singularity-r","commit_stats":null,"previous_names":[],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/nickjer/singularity-r","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/nickjer%2Fsingularity-r","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/nickjer%2Fsingularity-r/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/nickjer%2Fsingularity-r/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/nickjer%2Fsingularity-r/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/nickjer","download_url":"https://codeload.github.com/nickjer/singularity-r/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/nickjer%2Fsingularity-r/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":279001053,"owners_count":26082991,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2022-07-04T15:15:14.044Z","status":"online","status_checked_at":"2025-10-09T02:00:07.460Z","response_time":59,"last_error":null,"robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":true,"can_crawl_api":true,"host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"keywords":["r","singularity-image"],"created_at":"2024-11-14T04:43:31.370Z","updated_at":"2025-10-09T08:36:15.046Z","avatar_url":"https://github.com/nickjer.png","language":null,"readme":"# Singularity R\n\n[![Continuous Integration Status](https://github.com/nickjer/singularity-r/workflows/Continuous%20Integration/badge.svg)](https://github.com/nickjer/singularity-r/actions)\n[![GitHub License](https://img.shields.io/badge/license-MIT-green.svg)](https://opensource.org/licenses/MIT)\n\nSingularity image for [R].\n\nThis is still a work in progress.\n\n## Build\n\nYou can build a local Singularity image named `singularity-r.sif` with:\n\n```sh\nsudo singularity build singularity-r.sif singularity-r.def\n```\n\n## Deploy\n\nInstead of building it yourself you can download the pre-built image from the\n[Cloud Library](https://cloud.sylabs.io/library) with:\n\n```sh\nsingularity pull singularity-r.sif library://nickjer/default/singularity-r:4.2.1\n```\n\n\u003e **WARNING:** This pre-built image comes with OpenBLAS installed using the\n\u003e Debian binary packages. Be sure to run any tests with libraries that leverage\n\u003e OpenBLAS in your enviroment. If you notice any odd results it may be best to\n\u003e build this image from scratch on the machine you intend to run it on. See\n\u003e instructions under the Build section above.\n\u003e\n\u003e Or alternatively you can mount the locally installed OpenBLAS library into\n\u003e the container using...\n\u003e\n\u003e ```sh\n\u003e singularity run \\\n\u003e   --bind \"/path/on/host/to/libopenblas.so:/usr/lib/R/lib/libblas.so.3\" \\\n\u003e   singularity-r.sif\n\u003e ```\n\n## Run\n\n### R\n\nThe `R` command is launched using the default run command:\n\n```sh\nsingularity run singularity-r.sif\n```\n\nor as an explicit app:\n\n```sh\nsingularity run --app R singularity-r.sif\n```\n\nExample:\n\n```console\n$ singularity run --app R singularity-r.sif --version\n...\n```\n\n### Rscript\n\nThe `Rscript` command is launched as an explicit app:\n\n```sh\nsingularity run --app Rscript singularity-r.sif\n```\n\nExample:\n\n```console\n$ singularity run --app Rscript singularity-r.sif --version\n...\n```\n\n## Contributing\n\nBug reports and pull requests are welcome on GitHub at\nhttps://github.com/nickjer/singularity-r.\n\n## License\n\nThe code is available as open source under the terms of the [MIT License].\n\n[R]: https://www.r-project.org/\n[MIT License]: http://opensource.org/licenses/MIT\n","funding_links":[],"categories":[],"sub_categories":[],"project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fnickjer%2Fsingularity-r","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fnickjer%2Fsingularity-r","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fnickjer%2Fsingularity-r/lists"}