{"id":20566175,"url":"https://github.com/aces/cbrain-plugins-fmri-psom","last_synced_at":"2025-08-11T00:36:26.434Z","repository":{"id":25769374,"uuid":"29207611","full_name":"aces/cbrain-plugins-fmri-psom","owner":"aces","description":"PSOM fMRI models and tasks for CBRAIN","archived":false,"fork":false,"pushed_at":"2018-03-09T17:00:32.000Z","size":866,"stargazers_count":2,"open_issues_count":0,"forks_count":2,"subscribers_count":12,"default_branch":"master","last_synced_at":"2025-03-06T08:57:41.757Z","etag":null,"topics":["cbrain-plugin"],"latest_commit_sha":null,"homepage":null,"language":"Ruby","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/aces.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}},"created_at":"2015-01-13T19:44:49.000Z","updated_at":"2018-12-03T20:43:37.000Z","dependencies_parsed_at":"2022-09-09T15:02:44.862Z","dependency_job_id":null,"html_url":"https://github.com/aces/cbrain-plugins-fmri-psom","commit_stats":null,"previous_names":[],"tags_count":3,"template":false,"template_full_name":null,"purl":"pkg:github/aces/cbrain-plugins-fmri-psom","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/aces%2Fcbrain-plugins-fmri-psom","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/aces%2Fcbrain-plugins-fmri-psom/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/aces%2Fcbrain-plugins-fmri-psom/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/aces%2Fcbrain-plugins-fmri-psom/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/aces","download_url":"https://codeload.github.com/aces/cbrain-plugins-fmri-psom/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/aces%2Fcbrain-plugins-fmri-psom/sbom","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":269813997,"owners_count":24479342,"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":"2025-08-10T02:00:08.965Z","response_time":71,"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":["cbrain-plugin"],"created_at":"2024-11-16T04:40:18.676Z","updated_at":"2025-08-11T00:36:26.405Z","avatar_url":"https://github.com/aces.png","language":"Ruby","funding_links":[],"categories":[],"sub_categories":[],"readme":"\n## Introduction\n\nThis repository is a package containing a set of plugins for the\n[CBRAIN](https://github.com/aces/cbrain) platform.\n\n## Contents of this package\n\nThis package provides some tasks and models supporting\nparts of [PSOM](http://www.ncbi.nlm.nih.gov/pubmed/22493575).\n\n#### 1. Userfile models\n\n| Name             | Description                                                                                                                    |\n|------------------|--------------------------------------------------------------------------------------------------------------------------------|\n| FmriStudy        | Superclass of all fMRI study models                                                                                              |\n| Adhd200FmriStudy | Model for fMRI studies structured according to the conventions used by [ADHD](http://fcon_1000.projects.nitrc.org/indi/adhd200/) |\n| GobsFmriStudy    | Model for fMRI studies structured according to the conventions GOBS                                                              |\n| NiakFmriStudy    | Model for fMRI studies structured according to the conventions used by [NIAK](https://www.nitrc.org/projects/niak/)              |\n| OpenFmriOrgStudy | Model for fMRI studies structured according to the conventions described by [OpenfMRI](https://openfmri.org/)                    |\n| XnatFmriStudy    | Model for fMRI studies structured according to the conventions described by [XNAT](http://www.xnat.org/)                         |\n\n#### 2. CbrainTasks\n\n| Name                       | Description                                                                                    |\n|----------------------------|------------------------------------------------------------------------------------------------|\n| NiakPipelineFmriPreprocess | A subclass of PsomPipelineLauncher to run NiakPipelineFmriPreprocess                           |\n| PsomPipelineLauncher       | Generic [PSOM pipeline](http://www.ncbi.nlm.nih.gov/pubmed/22493575) launcher task             |\n| PsomSubtask                | Executes a single task inside a PSOM pipeline                                                  |\n\n\n## How to install this package\n\nAn existing CBRAIN installation is assumed to be operational before\nproceeding.\n\nThis package must be installed once on the BrainPortal side of a\nCBRAIN installation, and once more on each Bourreau side.\n\n#### 1. Installation on the BrainPortal side:\n\n  * Go to the `cbrain_plugins` directory under BrainPortal:\n\n```bash\ncd /path/to/BrainPortal/cbrain_plugins\n```\n\n  * Clone this repository. This will create a subdirectory called\n  `cbrain-plugins-fmri-psom` with the content of this repository:\n\n```bash\ngit clone git@github.com:aces/cbrain-plugins-fmri-psom.git\n```\n\n  * Run the following rake task:\n\n```bash\nrake cbrain:plugins:install:all\n```\n\n  * Restart all the instances of your BrainPortal Rails application.\n\n#### 2. Installation on the Bourreau side:\n\n**Note**: If you are using the Bourreau that is installed just\nbesides your BrainPortal application, you do not need to make\nany other installation steps, as they share the content of\nthe directory `cbrain_plugins` through a symbolic link; you\nonly need to *restart your Bourreau server*.\n\n  * Go to the `cbrain_plugins` directory under BrainPortal\n  (yes, *BrainPortal*, because that's where files are installed; on\n  the Bourreau side `cbrain_plugins` is a symbolic link):\n\n```bash\ncd /path/to/BrainPortal/cbrain_plugins\n```\n\n  * Clone this repository:\n\n```bash\ngit clone git@github.com:aces/cbrain-plugins-fmri-psom.git\n```\n  * Run the following rake task (which is not the same as for\n  the BrainPortal side):\n\n``` bash\nrake cbrain:plugins:install:plugins\n```\n\n  * Restart your execution server (with the interface, click stop, then start).\n\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Faces%2Fcbrain-plugins-fmri-psom","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Faces%2Fcbrain-plugins-fmri-psom","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Faces%2Fcbrain-plugins-fmri-psom/lists"}