There are four configuration files, all of them are written in YAML format:
configuration.yml: general and common configuration for different OpenCGA components
catalog-configuration.yml: contains the specific configuration for OpenCGA Catalog such as metadata database
storage-configuration.yml: contains the storage-related configuration variables to index and query data
client-configuration.yml: this the only configuration required for user CLI (opencga.sh) and RESTful web services clients (Java, Python, R and JavaScript)
In the next section you will find all the variables together with the Maven Property (written using italics in parenthesis) used during the building to set the default value, remember that you can set these properties using a profile in the settings.xml file or in the mvn install command line itself.
General configuration
This is general file, you find it at https://github.com/opencb/opencga/blob/develop/opencga-core/src/main/resources/configuration.yml, its configuration is used by different components, the variables are:
Option 1 rest: these determine the REST server properties port (OPENCGA.SERVER.REST.PORT): * defaultLimit:
Option 2
Variable | Maven property | Description
rest | - | these determine the REST server properties rest > port | OPENCGA.SERVER.REST.PORT | set the REST server port
Option 3 ###### Rest section This determine the REST server properties port (OPENCGA.SERVER.REST.PORT): defaultLimit:
Catalog configuration
This file is called catalog-configuration.yml, the variables are:
