DT4H AI Dashboard front-end Demo

This repository contains the front-end of an openVRE-based analysis platform customized for DT4H. It corresponds to a PHP-based web application enabling a cloud-based analysis environment offering

• a user-friendly web-based interface that integrates a number of pluggable resources:
  • analysis tools or pipelines,
  • interfaces to external data repositories,
  • visualizaters
• an scalable backend for cloud computing compatible with OCCI middlewares like OpenNebula or OpenStack.

NOTE: Currently, the AI Dashboard is only for demonstration purposes.

Related repositories

• Dashboard Demo full compute platform deployment: https://github.com/DataTools4Heart/AI-dashboard-platform-demo/
• Dashboard Runner for FEM tasks: https://gitlab.bsc.es/inb/dt4h/FEM-runner

Requirements

• Web Server (e.g. Apache2)
• Mongo Client: mongodb-org-shell, mongodb-org-tools, php-mongo
• Oracle Grid Engine cluster queue client (formerly Sun Grin Engine): gridengine-client gridengine-common
• OpenID Connect/OAuth 2.0 client of an Identity Provider

openVRE installation

This repository contains all the code to build a functional openVRE-based analysis platform, prior installation and configuration. The final product is an online application with the virtual research environment integrating for demonstration purposes:

• one analysis tool: tool-skeleton
• one visualizer: NGL viewer)

See the installation guide for more detailed instructions.

Dependencies

• PHP (>=7.3)
• Composer : https://getcomposer.org/doc/00-intro.md

openVRE core

openVRE cores is a server-side web application mainly written in PHP modules, as well as some Java Script based libraries. Following, a short description of the content of this repository.

• composer.json: 3rd party software requirements
• config : configuration files
  • settings sample for the global application settings
  • bootstrap bootstrap VRE application
• install : installation instructions and data
  • install instructions
  • database skeleton with structural collections
  • data datasets and sample schemas
• public : web application elements under the web server root directory
  • web pages
  • home pages for 'Homepage' section
  • workspace pages for 'User Workspace' section
  • getdata pages for 'Get Data' section
  • launch pages for 'Run Tool / Visualizers' section
  • help pages for 'Help' section
  • helpdesk pages for 'Helpdesk' section
  • admin pages for 'Admin' section
  • user pages for 'User Profile' section
  • cookies notification
  • libraries
  • applib : pages' backend
  • assets : pages' client scripts
  • phplib : VRE libraries and classes
  • htmlib : html templates
  • content
  • tools : web form, assets and summart page for integrated tools
  • visualizers : visualizers code
• scripts : maintainance scripts