Uses of Interface
phenote.dataadapter.DataAdapterI

Packages that use DataAdapterI

phenote.config
phenote.dataadapter	Generalized methods for creating customized Data Adapters
phenote.dataadapter.annotation
phenote.dataadapter.delimited
phenote.dataadapter.fly
phenote.dataadapter.nexus
phenote.dataadapter.phenosyntax
phenote.dataadapter.phenoxml
phenote.main

Uses of DataAdapterI in phenote.config

Methods in phenote.config that return DataAdapterI

DataAdapterI	Config.getDefaultFileAdapter() LoadSaveMangr uses if no extension works.
(package private) DataAdapterI	DataAdapterConfig.getFileAdapter() check if enabled/constructed?

Methods in phenote.config that return types with arguments of type DataAdapterI

java.util.List<DataAdapterI>

Config.getDataAdapters() Returns enabled data adapters - empty list if none enabled

Uses of DataAdapterI in phenote.dataadapter

Classes in phenote.dataadapter that implement DataAdapterI

class

AbstractFileAdapter

Methods in phenote.dataadapter with parameters of type DataAdapterI

void	LoadSaveManager.loadData(java.io.File f, DataAdapterI adapter) Loads a new document of characters from the given file using the given data adapter.

Uses of DataAdapterI in phenote.dataadapter.annotation

Classes in phenote.dataadapter.annotation that implement DataAdapterI

class	AnnotationOBOFileAdapter I think chris wrote this? reads & writes obo files with annotations, I believe this currently writes out the whole obo session terms and all, which need to be filtered out
class	AnnotationOWLFileAdapter
class	GOAssociationFileAdapter Originated with PhenoSyntaxFileAdapter and modified.

Uses of DataAdapterI in phenote.dataadapter.delimited

Classes in phenote.dataadapter.delimited that implement DataAdapterI

class

DelimitedFileAdapter Originated with PhenoSyntaxFileAdapter and modified.

Uses of DataAdapterI in phenote.dataadapter.fly

Classes in phenote.dataadapter.fly that implement DataAdapterI

class

FlybaseDataAdapter Just pastes characters to clipboard for proforma 6/30/06 - changing this to use new Pheno-Syntax - should this be renamed Pheno-Syntax data adapter? Pheno Syntax need to be able to write to a file as well as also write to flybases proforma app - i think those are 2 different data adapters sharing Syntax objects - PhenoSyntaxFileAdapter and FlybaseProformaAdapter or something like that - todo...

Uses of DataAdapterI in phenote.dataadapter.nexus

Classes in phenote.dataadapter.nexus that implement DataAdapterI

class

NEXUSAdapter Writes Phenote characters to a NEXUS file.

Uses of DataAdapterI in phenote.dataadapter.phenosyntax

Classes in phenote.dataadapter.phenosyntax that implement DataAdapterI

class

PhenoSyntaxFileAdapter Writes pheno syntax characters to a file.

Uses of DataAdapterI in phenote.dataadapter.phenoxml

Classes in phenote.dataadapter.phenoxml that implement DataAdapterI

class

PhenoXmlAdapter

Uses of DataAdapterI in phenote.main

Methods in phenote.main that return DataAdapterI

(package private) DataAdapterI	CommandLine.getReadAdapter() If input/read was specified on the command line this returns the correctly-initialized read data adapter for it.
(package private) DataAdapterI	CommandLine.getWriteAdapter() If output/write was specified on the command line this returns the correctly-initialized write data adapter for it.