Package ubic.gemma.core.loader.expression.geo

Class QuantitationTypeParameterGuesser

java.lang.Object

ubic.gemma.core.loader.expression.geo.QuantitationTypeParameterGuesser

public class QuantitationTypeParameterGuesser
extends Object

Has the unpleasant task of figuring out what the quantitation type should look like, given a description and name string.

Author:

Paul

See Also:

for a list of Quantitation Type names which are skipped (so some of the below might not be needed)

Constructor Summary

Constructors

Constructor	Description
QuantitationTypeParameterGuesser()

Method Summary

Modifier and Type	Method	Description
protected static Boolean	guessIsBackground(String name, String description)
protected static PrimitiveType	guessPrimitiveType(String name, String description, Object exampleValue)
static void	guessQuantitationTypeParameters(QuantitationType qt, String name, String description)
static void	guessQuantitationTypeParameters(QuantitationType qt, String name, String description, Object exampleValue)	Attempt to fill in the details of the quantitation type.
protected static ScaleType	guessScaleType(String name, String description)
protected static StandardQuantitationType	guessType(String name, String description)
protected static boolean	isBackgroundSubtracted(String name, String description)
protected static boolean	isNormalized(String name, String description)
protected static boolean	isPreferred(QuantitationType qt)	Determine if a quantitation type is 'preferred'.
protected static boolean	isRatio(String name, String description)
protected static boolean	maybeBackground(String namelc, String descriptionlc)
protected static boolean	maybeDerivedSignal(String name)
protected static boolean	maybeMeasuredSignal(String name)
protected static boolean	maybeRatio(String name)

Methods inherited from class java.lang.Object

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

Constructor Detail

QuantitationTypeParameterGuesser

public QuantitationTypeParameterGuesser()

Method Detail

guessQuantitationTypeParameters

public static void guessQuantitationTypeParameters(QuantitationType qt,
                                                   String name,
                                                   String description)

guessQuantitationTypeParameters

public static void guessQuantitationTypeParameters(QuantitationType qt,
                                                   String name,
                                                   String description,
                                                   Object exampleValue)

Attempt to fill in the details of the quantitation type.

Parameters:

qt - QuantitationType to fill in details for.

name - of the quantitation type from the GEO sample column

description - of the quantitation type from the GEO sample column

exampleValue - to help conversion test whether the parameters match.

guessIsBackground

protected static Boolean guessIsBackground(String name,
                                           String description)

guessPrimitiveType

protected static PrimitiveType guessPrimitiveType(String name,
                                                  String description,
                                                  Object exampleValue)

guessScaleType

protected static ScaleType guessScaleType(String name,
                                          String description)

guessType

protected static StandardQuantitationType guessType(String name,
                                                    String description)

isBackgroundSubtracted

protected static boolean isBackgroundSubtracted(String name,
                                                String description)

isNormalized

protected static boolean isNormalized(String name,
                                      String description)

isPreferred

protected static boolean isPreferred(QuantitationType qt)

Determine if a quantitation type is 'preferred'.

Parameters:

qt - QT

Returns:

is preferred

isRatio

protected static boolean isRatio(String name,
                                 String description)

maybeBackground

protected static boolean maybeBackground(String namelc,
                                         String descriptionlc)

maybeDerivedSignal

protected static boolean maybeDerivedSignal(String name)

maybeMeasuredSignal

protected static boolean maybeMeasuredSignal(String name)

maybeRatio

protected static boolean maybeRatio(String name)