{"id":21685864,"url":"https://github.com/sodascience/kansenkaart_analysis","last_synced_at":"2025-04-12T08:13:25.314Z","repository":{"id":260448254,"uuid":"375383087","full_name":"sodascience/kansenkaart_analysis","owner":"sodascience","description":"Analysis code for the kansenkaart project","archived":false,"fork":false,"pushed_at":"2024-10-31T11:01:19.000Z","size":179,"stargazers_count":2,"open_issues_count":0,"forks_count":1,"subscribers_count":2,"default_branch":"main","last_synced_at":"2025-04-12T08:13:20.506Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":null,"language":"R","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/sodascience.png","metadata":{"files":{"readme":"readme.md","changelog":null,"contributing":null,"funding":null,"license":"LICENSE","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}},"created_at":"2021-06-09T14:25:02.000Z","updated_at":"2024-10-31T11:01:20.000Z","dependencies_parsed_at":"2024-10-31T12:27:50.214Z","dependency_job_id":null,"html_url":"https://github.com/sodascience/kansenkaart_analysis","commit_stats":null,"previous_names":["sodascience/kansenkaart_analysis"],"tags_count":0,"template":false,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/sodascience%2Fkansenkaart_analysis","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/sodascience%2Fkansenkaart_analysis/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/sodascience%2Fkansenkaart_analysis/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/sodascience%2Fkansenkaart_analysis/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/sodascience","download_url":"https://codeload.github.com/sodascience/kansenkaart_analysis/tar.gz/refs/heads/main","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":248537144,"owners_count":21120711,"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":"2024-11-25T16:23:26.382Z","updated_at":"2025-04-12T08:13:25.282Z","avatar_url":"https://github.com/sodascience.png","language":"R","funding_links":[],"categories":[],"sub_categories":[],"readme":"# Parallel estimation for the Kansenkaart on the OSSC\n\n![pipeline.png](pipeline.png)\n\nThis repository holds the code for parallel estimation of the Kansenkaart project estimates on the ODISSEI Secure Supercomputer.\n\nThis is a work in progress!\n\n\n## Steps to run the analysis\n\n### Repository preparation\n1. Add the cohort datasets resulting from the [`preprocessing pipeline`]() to the `data/` folder.\n2. Point to the right resources in lines 8-9 in `02_create_grid.R`.\n3. Ensure the right COROP code year (default: 2019) is being used in line 72 of `02_create_grid.R`.\n4. Check that the right datasets are loaded in lines 33-37 of `03_array_job.R`.\n\n\n### OSSC running\n1. Create and store the `data/model_grid.feather` file by running `02_create_grid.R`. \n1. Perform a test run by running `Rscript 03_array_job.R 1` in bash on the OSSC\n3. Check how many jobs are needed (`nrow(model_grid) / batch_size`)\n2. Create an array job using `array_job.sh`. \n\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fsodascience%2Fkansenkaart_analysis","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fsodascience%2Fkansenkaart_analysis","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fsodascience%2Fkansenkaart_analysis/lists"}