Phenotype Database Configuration¶
The configuration file for a single phenotype database follows the general
INI format. Its filename can be freely chosen, however, it must contain a
phenoDB section - this will indicate that it is a phenotype database
configuration file. This configuration file must properly describe a single
phenotype database. Its properties, which must belong to the
section, are explained below.
[phenoDB] name = phenotypeDatabaseName dbfile = %(wd)s/pheno.db browser_dbfile = %(wd)s/browser/pheno_browser.db browser_images_dir = %(wd)s/browser/images/ browser_images_url = /static/phenotypeDatabaseName/browser/images/
name = <pheno db name>
This is the unique name of the phenotype database. It can be used in the configuration files of studies and datasets to attach the phenotype database to them.
dbfile = <sqlite3 pheno db path>
The path to the SQLite3 phenotype database file, relative to the configuration file.
browser_dbfile = <sqlite3 pheno browser db path>
The path to the SQLite3 phenotype browser database file, relative to the configuration file.
browser_images_dir = <images directory path>
The path to the directory containing the measure images for the browser, relative to the configuration file.
browser_images_url = /static/<images directory path>/
The path to the directory containing the measure images for the browser, relative to the static root directory. The trailing slash is required.