{"id":19031459,"url":"https://github.com/plandes/mimicdbsqlite","last_synced_at":"2026-05-16T15:34:53.195Z","repository":{"id":186154624,"uuid":"674715814","full_name":"plandes/mimicdbsqlite","owner":"plandes","description":"MIMIC-III SQLite Database Creation","archived":false,"fork":false,"pushed_at":"2025-07-06T17:35:37.000Z","size":6,"stargazers_count":0,"open_issues_count":0,"forks_count":0,"subscribers_count":2,"default_branch":"master","last_synced_at":"2025-07-06T18:38:43.683Z","etag":null,"topics":["medical","mimic-iii","sqlite","sqlite3"],"latest_commit_sha":null,"homepage":"","language":"Shell","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/plandes.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}},"created_at":"2023-08-04T15:35:17.000Z","updated_at":"2025-07-06T17:35:40.000Z","dependencies_parsed_at":null,"dependency_job_id":"a54450b3-ab23-4e18-a171-a2f526269329","html_url":"https://github.com/plandes/mimicdbsqlite","commit_stats":null,"previous_names":["plandes/mimicdbsqlite"],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/plandes/mimicdbsqlite","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/plandes%2Fmimicdbsqlite","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/plandes%2Fmimicdbsqlite/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/plandes%2Fmimicdbsqlite/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/plandes%2Fmimicdbsqlite/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/plandes","download_url":"https://codeload.github.com/plandes/mimicdbsqlite/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/plandes%2Fmimicdbsqlite/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":286080680,"owners_count":33108193,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2026-05-16T04:41:52.686Z","status":"ssl_error","status_checked_at":"2026-05-16T04:41:52.009Z","response_time":115,"last_error":"SSL_connect returned=1 errno=0 peeraddr=140.82.121.5:443 state=error: unexpected eof while reading","robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":false,"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":["medical","mimic-iii","sqlite","sqlite3"],"created_at":"2024-11-08T21:23:31.966Z","updated_at":"2026-05-16T15:34:53.181Z","avatar_url":"https://github.com/plandes.png","language":"Shell","funding_links":[],"categories":[],"sub_categories":[],"readme":"# MIMIC-III SQLite Database Creation\n\n[MIMIC-III] is a corpus has 58,976 hospital admission and 2,083,180 had written\nnotes by medical professionals.  This repo contains an automated build process\nthat creates an SQLite database (file) populated with the [MIMIC-III] corpus\nusing scripts from the [MIMIC Code Repository].\n\n\n## Installation\n\n1. Download the source [MIMIC-III] data files as the file\n   `mimic-iii-clinical-database-1.4.zip` to this directory.\n1. Install [git], and [GNU make].\n1. Run the automation process: `make all`.  This does the following:\n   1. Uncompress the `mimic-iii-clinical-database-1.4.zip` of the compressed\n      CSV MIMIC-III data files.\n   1. Clones the [MIMIC-III code repository], which has the SQLite DB load\n      scripts.\n   1. Loads the database using the [MIMIC-III code repository] scripts.\n   1. Creates some indexes on some tables such as `NOTEEVENTS`, `ADMISSIONS`\n      and `PATEINTS`.\n1. Create additional indexes to suit your needs.  Use the [post configuration\n   script] as an example.\n1. Check for errors and the existence of the `mimic3.sqlite3` SQLite database\n   file.\n1. Optionally clear up disk usage: `make cleanall`.\n1. Optionally reduce the SQLite database file by editing and rerunning the\n   [post configuration script].\n\n\n\u003c!-- links --\u003e\n[MIMIC-III]: https://mimic.mit.edu/docs/iii/\n[SQLite]: https://www.sqlite.org/index.html\n[git]: https://git-scm.com\n[GNU make]: https://www.gnu.org/software/make/\n[MIMIC-III code repository]: https://github.com/MIT-LCP/mimic-code.git\n[post configuration script]: ./src/bin/postconfig.sh\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fplandes%2Fmimicdbsqlite","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fplandes%2Fmimicdbsqlite","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fplandes%2Fmimicdbsqlite/lists"}