apollo.editor
Class TransactionSubpart

java.lang.Object
  apollo.editor.TransactionSubpart

All Implemented Interfaces:

java.io.Serializable

public class TransactionSubpart
extends java.lang.Object
implements java.io.Serializable

Enumeration/value class that captures the subpart of the feature that is effected by the transaction. This is an optional part of a Transaction as some transactions effect the whole feature (e.g. delete transcript). Do I go too far with this enumeration stuff? I think its nice to have a strongly typed enumeration over a loose string but it is more work to add more subparts

See Also:

Serialized Form

Field Summary

static TransactionSubpart	CDNA_NAME
static TransactionSubpart	COMMENT
static TransactionSubpart	DBXREF
static TransactionSubpart	DESCRIPTION
static TransactionSubpart	FINISHED
static TransactionSubpart	ID
static TransactionSubpart	IS_DICISTRONIC
static TransactionSubpart	IS_PROBLEMATIC
static TransactionSubpart	LIMITS
protected static org.apache.log4j.Logger	logger
static TransactionSubpart	MINUS_1_FRAMESHIFT
static TransactionSubpart	NAME
static TransactionSubpart	NON_CONSENSUS_SPLICE_OKAY
static TransactionSubpart	PARENT
static TransactionSubpart	PEPTIDE_ID This maps to SequenceI accessionNo
static TransactionSubpart	PEPTIDE_LIMITS
static TransactionSubpart	PEPTIDE_NAME Yuck! we need a Peptide feature! this subpart is just a hack around a lack of peptide feature.
static TransactionSubpart	PLUS_1_FRAMESHIFT
static TransactionSubpart	REPLACE_STOP
static TransactionSubpart	SYNONYM
static TransactionSubpart	TYPE

Method Summary

boolean	isBoolean()
boolean	isComment()
boolean	isDbXref()
boolean	isDescription()
boolean	isFinished()
boolean	isId()
boolean	isInt()
boolean	isLimits()
boolean	isName()
boolean	isProblematic()
boolean	isString()
boolean	isSynonym()
boolean	isType()
void	setValue(SeqFeatureI feat, java.lang.Object value)
void	setValue(SeqFeatureI feat, java.lang.Object value, boolean isAdd)
static TransactionSubpart	stringToSubpart(java.lang.String subpartString)
java.lang.String	toString()

Methods inherited from class java.lang.Object

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

Field Detail

logger

protected static final org.apache.log4j.Logger logger

PARENT

public static TransactionSubpart PARENT

ID

public static TransactionSubpart ID

NAME

public static TransactionSubpart NAME

TYPE

public static TransactionSubpart TYPE

COMMENT

public static TransactionSubpart COMMENT

SYNONYM

public static TransactionSubpart SYNONYM

LIMITS

public static TransactionSubpart LIMITS

PEPTIDE_LIMITS

public static TransactionSubpart PEPTIDE_LIMITS

PEPTIDE_NAME

public static TransactionSubpart PEPTIDE_NAME

Yuck! we need a Peptide feature! this subpart is just a hack around a lack of peptide feature. This is SequenceI's displayId

PEPTIDE_ID

public static TransactionSubpart PEPTIDE_ID

This maps to SequenceI accessionNo

CDNA_NAME

public static TransactionSubpart CDNA_NAME

REPLACE_STOP

public static TransactionSubpart REPLACE_STOP

PLUS_1_FRAMESHIFT

public static TransactionSubpart PLUS_1_FRAMESHIFT

MINUS_1_FRAMESHIFT

public static TransactionSubpart MINUS_1_FRAMESHIFT

NON_CONSENSUS_SPLICE_OKAY

public static TransactionSubpart NON_CONSENSUS_SPLICE_OKAY

IS_DICISTRONIC

public static TransactionSubpart IS_DICISTRONIC

IS_PROBLEMATIC

public static TransactionSubpart IS_PROBLEMATIC

FINISHED

public static TransactionSubpart FINISHED

DBXREF

public static TransactionSubpart DBXREF

DESCRIPTION

public static TransactionSubpart DESCRIPTION

Method Detail

toString

public java.lang.String toString()

Overrides:

toString in class java.lang.Object

stringToSubpart

public static TransactionSubpart stringToSubpart(java.lang.String subpartString)

isBoolean

public boolean isBoolean()

isString

public boolean isString()

isType

public boolean isType()

isId

public boolean isId()

isInt

public boolean isInt()

isName

public boolean isName()

isComment

public boolean isComment()

isSynonym

public boolean isSynonym()

isLimits

public boolean isLimits()

isFinished

public boolean isFinished()

isProblematic

public boolean isProblematic()

isDbXref

public boolean isDbXref()

isDescription

public boolean isDescription()

setValue

public void setValue(SeqFeatureI feat,
                     java.lang.Object value)

setValue

public void setValue(SeqFeatureI feat,
                     java.lang.Object value,
                     boolean isAdd)