{"id":29492517,"url":"https://github.com/stuartmac/jalview-in-docker","last_synced_at":"2026-02-05T23:31:36.739Z","repository":{"id":288612926,"uuid":"968645779","full_name":"stuartmac/Jalview-in-Docker","owner":"stuartmac","description":"Run Jalview GUI in Docker","archived":false,"fork":false,"pushed_at":"2025-04-18T14:13:35.000Z","size":4,"stargazers_count":0,"open_issues_count":1,"forks_count":0,"subscribers_count":1,"default_branch":"main","last_synced_at":"2025-04-19T03:39:05.984Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":"","language":"Dockerfile","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":null,"status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/stuartmac.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":null,"code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null,"zenodo":null}},"created_at":"2025-04-18T13:14:01.000Z","updated_at":"2025-04-18T14:17:47.000Z","dependencies_parsed_at":"2025-04-19T03:39:41.892Z","dependency_job_id":"3920ad5f-fc83-4c5a-8d5f-d28529215fb8","html_url":"https://github.com/stuartmac/Jalview-in-Docker","commit_stats":null,"previous_names":["stuartmac/jalview-in-docker"],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/stuartmac/Jalview-in-Docker","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/stuartmac%2FJalview-in-Docker","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/stuartmac%2FJalview-in-Docker/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/stuartmac%2FJalview-in-Docker/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/stuartmac%2FJalview-in-Docker/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/stuartmac","download_url":"https://codeload.github.com/stuartmac/Jalview-in-Docker/tar.gz/refs/heads/main","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/stuartmac%2FJalview-in-Docker/sbom","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":265441050,"owners_count":23765892,"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","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":[],"created_at":"2025-07-15T15:05:58.860Z","updated_at":"2026-02-05T23:31:36.705Z","avatar_url":"https://github.com/stuartmac.png","language":"Dockerfile","funding_links":[],"categories":[],"sub_categories":[],"readme":"# Jalview Docker (GUI for macOS via XQuartz)\n\nRun Jalview in a clean Linux environment via Docker with X11 forwarding to macOS.\n\n## Prerequisites\n\n- macOS with [XQuartz](https://www.xquartz.org/) installed\n- Docker Desktop for Mac\n- Run `xhost + 127.0.0.1` in Terminal after starting XQuartz (you may also need to run `export DISPLAY=:0` before `xhost`)\n\n## Additional XQuartz Settings\n\nXQuartz should be configured with the following settings:\n\n1. Open XQuartz and go to `Preferences` (Command + ,).\n2. Under the `Security` tab, ensure the following options are checked:\n   - `Allow connections from network clients`\n3. It's good to restart XQuartz.\n\n## Build\n\n```bash\ndocker build -t jalview-gui .\n```\n\n## Run\n```bash\ndocker run -e DISPLAY=host.docker.internal:0 \\\n  -v $PWD:/data \\\n  --rm jalview-gui\n```\n\n## Integrating Jalview with a Slivka Stack\n\nThis Docker setup is especially useful for integrating Jalview with a containerized Slivka service. By pre-configuring Jalview to connect to your running Slivka instance, you can:\n\n- Use Slivka-exposed tools directly within Jalview\n- Customise Jalview’s analysis capabilities by adding compatible tools to your Slivka container\n- Rapidly prototype and deploy new bioinformatics tools that are immediately accessible via Jalview’s GUI\n\nThis integration is ideal for development environments where you want to test or share new Jalview-compatible services with minimal setup.\n\n## Add Jalview to XQuartz Applications\n\nFor easier access, you can add Jalview to the Applications menu in XQuartz:\n\n1. Open XQuartz and go to `Applications \u003e Customize...`.\n2. Click the `+` button to add a new application.\n3. Set the following:\n   - **Name**: Jalview\n   - **Command**: `docker run -e DISPLAY=:0 -v ~:/data --rm jalview-gui`\n4. Click `Done` to save the changes.\n\nYou can now launch Jalview directly from the XQuartz Applications menu.\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fstuartmac%2Fjalview-in-docker","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fstuartmac%2Fjalview-in-docker","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fstuartmac%2Fjalview-in-docker/lists"}