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java.lang.Objectutil.SequenceManager
public class SequenceManager
This class handles marking a sequence for the alignment.
Constructor Summary | |
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SequenceManager()
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Method Summary | |
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static void |
addSequence(java.lang.String sequence)
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static void |
addSequenceByPosition(int position)
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static boolean |
contains(java.lang.String sequence)
Checks if a sequenceis selected |
static void |
emptySelectedSequences()
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static java.lang.String |
getLastSelected()
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static java.lang.String |
getMarkedSequenceName()
Returns the marked sequence name. |
static S3DetObject |
getS3detobj()
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static java.util.Vector<java.lang.String> |
getSelectedSequences()
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static SequenceImpl |
getSequence(java.lang.String seqName,
AlignObject alObj)
Gets the sequence related with the specified name on the alignment |
static boolean |
isEmpty()
Checks if the selection is empty |
static boolean |
isSelected(java.lang.String sequence)
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static void |
setLastSelected(java.lang.String lastSelected)
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static void |
setMarkedSequenceName(java.lang.String markedSequenceName)
Sets the marked sequence name. |
static void |
setS3detobj(S3DetObject s3detobj)
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static void |
setSelectedSequences(java.util.Vector<java.lang.String> selectedSequences)
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static void |
toggleSequence(java.lang.String sequence)
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Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Constructor Detail |
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public SequenceManager()
Method Detail |
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public static java.lang.String getMarkedSequenceName()
public static void setMarkedSequenceName(java.lang.String markedSequenceName)
markedSequenceName
- public static java.util.Vector<java.lang.String> getSelectedSequences()
public static void setSelectedSequences(java.util.Vector<java.lang.String> selectedSequences)
selectedSequences
- the selectedSequences to setpublic static void addSequence(java.lang.String sequence)
sequence
- the sequence to addpublic static void toggleSequence(java.lang.String sequence)
sequence
- the sequence to addpublic static boolean isSelected(java.lang.String sequence)
selected
- the sequence to checkpublic static void emptySelectedSequences()
public static S3DetObject getS3detobj()
public static void setS3detobj(S3DetObject s3detobj)
s3detobj
- the s3detobj to setpublic static java.lang.String getLastSelected()
public static void setLastSelected(java.lang.String lastSelected)
lastSelected
- the lastSelected to setpublic static void addSequenceByPosition(int position)
position
- the position of the sequencein s3detobjpublic static boolean contains(java.lang.String sequence)
sequence
- element to find
public static boolean isEmpty()
public static SequenceImpl getSequence(java.lang.String seqName, AlignObject alObj)
seqNamem
- sequence element to findalObj
- alignment to search into
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