EMMAWiki/AdministratorDocumentation/ProjectSetup

An EMMA 2.0 Project consists of a database and a corresponding user and group management, which is supplied by the GPMS-Project Management. The database uses the MAGE-OM object description scheme. After setting up a new project as it is described in the GPMS-Documentation, this database has to be "build up", attending the following steps:

1. If the project is created via GPMS the database will already be set up.
2. In the GPMS add the use emma - Emma Daemon to your project with role Daemon
3. Import the Quantitationstypes and QuantitationtypeDimensions (QuantitationTypes-COMPLETE.xml)

Command:

 test_import -p "Project" -i "[[IdentifierRefAction]]=Reference" XMLFILE 

1. Import the Ontology information (Ontology-COMPLETE.xml)

Command:

test_import -p "Project" XMLFILE 

1. Import all necessary functions (AllTools.xml)

Command:

 test_import -p "Project" -i "[[IdentifierRefAction]]=Reference" XMLFILE 

1. Add the "ALL" group, if this has not already been done during the GPMS-Setup

Command:

 emma_start add_group -g ALL  or use the EMMA 2.0 web interface

1. Create pipelines using the EMMA 2.0 web interface (Important: Don't forget the Import-Pipeline ArrayLayoutImport consisting of the ArrayLayout import function)
2. Now you are able to import arraylayouts (e.g. A-MEXP-85 from www.ebi.ac.uk) (Don't forget to assign the imported arraylayout to the group "ALL", if you wish that all users will afterwards be able to use it!)

The XML-files are currently only available in the CVS repository (Directory: CVSROOT/bioinfo/emma2/src/dbshema).