Class RawDataTypes

java.lang.Object
net.sf.basedb.core.RawDataTypes

public class RawDataTypes
extends Object
This class is used for reading the XML configuration file with information about raw data types. All files returned by Application.getRawDataTypeFiles() are parsed.
Version:
2.0
Author:
Nicklas
Last modified
$Date: 2017-05-22 14:35:27 +0200 (må, 22 maj 2017) $
  • Field Details

    • log

      private static final org.slf4j.Logger log
      Log core events.
    • rawDataTypes

      private static Map<String,​RawDataType> rawDataTypes
      A map from raw data type name --> RawDataType.
    • platformTypes

      private static Map<String,​RawDataType> platformTypes
    • all

      private static Set<RawDataType> all
    • dtdFile

      private static final URL dtdFile
      The DTD which is used to validate the XML file.
    • isInitialised

      private static boolean isInitialised
  • Constructor Details

    • RawDataTypes

      public RawDataTypes()
  • Method Details

    • init

      static void init() throws BaseException
      Initialize the class.
      Throws:
      BaseException - This exception is thrown if there is an error
    • initPlatforms

      static void initPlatforms​(Session session)
      Load file-only platforms and create raw data types for them.
      Since:
      2.5
    • unload

      static void unload()
      Unload all settings.
    • loadRawDataTypesFile

      private static void loadRawDataTypesFile() throws BaseException
      Load and parse the file with raw data types. This method will populate the rawDataTypes variable.
      Throws:
      BaseException
    • getRawDataTypes

      public static Collection<RawDataType> getRawDataTypes()
      Get a collection with all raw data types that has been defined. This method returns both database and file-only raw data types. To get file-only raw data types use getFileOnlyRawDataTypes()
      Returns:
      A Collection containing RawDataType objects where RawDataType.isStoredInDb() returns true
    • getSortedRawDataTypes

      public static Collection<RawDataType> getSortedRawDataTypes​(Comparator<RawDataType> comparator)
      Get all raw data types sorted according to the given comparator.
      Parameters:
      comparator - A compartor
      Returns:
      A sorted collection
      Since:
      2.16.2
    • getFileOnlyRawDataTypes

      public static Collection<RawDataType> getFileOnlyRawDataTypes()
      Get the raw data types that are representations of file-only Platform:s.
      Returns:
      A Collection containing RawDataType objects where RawDataType.isStoredInDb() returns false
      Since:
      2.5
    • getRawDataType

      public static RawDataType getRawDataType​(String id)
      Get a information about a raw data type.
      Parameters:
      id - The id of the raw data type
      Returns:
      A RawDataType object with information about the raw data type, or null if the specified id is not found
    • getSafeRawDataType

      public static RawDataType getSafeRawDataType​(String id)
      Get a information about a raw data type or throw an exception if the raw data type is not found.
      Parameters:
      id - The id of the raw data type
      Returns:
      A RawDataType object with information about the raw data type
      Throws:
      ItemNotFoundException - If the specified raw data type is not found
      Since:
      2.6
    • getPlatformRawDataType

      private static RawDataType getPlatformRawDataType​(Session session, String id)
    • getVariantRawDataType

      private static RawDataType getVariantRawDataType​(Session session, String id)
    • registerFileOnlyRawDataType

      static void registerFileOnlyRawDataType​(RawDataType rdt)
    • unregisterFileOnlyRawDataType

      static void unregisterFileOnlyRawDataType​(RawDataType rdt)
    • loadRawDataTypes

      private static void loadRawDataTypes​(Set<String> usedNames, Document dom, String xmlFile)
      Load the raw data types and put the information in the rawDataTypes map.
    • loadProperties

      private static List<RawDataProperty> loadProperties​(Element rawDataTypeElement, int channels, String xmlFile)
      Load the properties for the specified raw data type node and return a list of RawDataProperty objects.
    • loadIntensityFormulas

      private static List<IntensityFormula> loadIntensityFormulas​(Element rawDataTypeElement, int channels, String xmlFile)
      Load the intensity formulas for the specified raw data type node and return a list of IntensityFormula objects.