Guide to Customising BlueGenes

Content

Certain features of the BlueGenes app are controlled by parameters set in the web.properties file. These properties are also used in the current webapp user interface.

purpose	parameters	example
default examples for the ID resolver	bag.example.identifiers	bag.example.identifiers.protein=Q8T3M3,FBpp0081318,FTZ_DROME and bag.example.identifiers=CG9151, FBgn0000099 (one per type)
default separators	list.upload.delimiters	\n\t,
default regionsearch	genomicRegionSearch.*	H. sapiens (note: please do not use long format, e.g. Homo sapiens)
default query builder query	services.defaults.query	"{ \"from\": \"Gene\", \"select\": [ \"secondaryIdentifier\", \"symbol\", \"primaryIdentifier\", \"organism.name\" ], \"orderBy\": [ { \"path\": \"secondaryIdentifier\", \"direction\": \"ASC\" } ], \"where\": [ { \"path\": \"organism.name\", \"op\": \"=\", \"value\": \"Drosophila melanogaster\", \"code\": \"A\" } ] }"
default keyword search	quickSearch.identifiers	e.g. PPARG, Insulin, rs876498

Please see Features for details on these parameters.

Environment

BlueGenes uses the following parameters defined in the ~/.intermine/$MINE.properties file.

purpose	parameters	example
location of JavaScript tools	bluegenes.toolLocation	/intermine/tools/node_modules/
base URL for requests to the InterMine instance	webapp.baseurl	http://www.flymine.org
path appended to the base URL	webapp.path	flymine
name of your InterMine instance as it will be displayed in BlueGenes	project.title	BioTestMine

Please see Database and Web application for details on this property file.