org.molgenis.omx.ngs.db
Class SampleEntityImporter

java.lang.Object
  org.molgenis.omx.ngs.db.SampleEntityImporter

All Implemented Interfaces:

EntityImporter

public class SampleEntityImporter
extends Object
implements EntityImporter

Reads Sample from a delimited (csv) file, resolving xrefs to ids where needed, that is the tricky bit ;-)

Constructor Summary

SampleEntityImporter()

Method Summary

int	importEntity(TupleReader reader, Database db, Database.DatabaseAction dbAction) Imports Sample from tab/comma delimited File

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

SampleEntityImporter

public SampleEntityImporter()

Method Detail

importEntity

public int importEntity(TupleReader reader,
                        Database db,
                        Database.DatabaseAction dbAction)
                 throws IOException,
                        DatabaseException

Imports Sample from tab/comma delimited File

Specified by:

importEntity in interface EntityImporter

Parameters:

db - database to import into

reader - csv reader to load data from

defaults - to set default values for each row

dbAction - indicating wether to add,update,remove etc

missingValues - indicating what value in the csv is treated as 'null' (e.g. "" or "NA")

Returns:

number of elements imported

Throws:

IOException

DatabaseException