com.pacbio.secondary.vis.data.session

Class DetailsStorage

java.lang.Object

com.pacbio.secondary.vis.data.session.DetailsStorage

public class DetailsStorage
extends java.lang.Object

Author:

mmilletti

Constructor Summary

Constructors

Constructor and Description
DetailsStorage()

Method Summary

Methods

Modifier and Type	Method and Description
boolean	acceptNewDataAndClear(GenomicViewDetailsData view, Interval view_visible_range, WsResults results, java.lang.String track_name)
void	add(Marker m)
void	clear()
Marker	findReadByPositionAndLane(long bp, int lane)
long	getBytesPerBase() returns data bytes used for each base
long	getBytesPerRead() returns data bytes used for each base
GraphStructure	getGraphStructure()
Locus	getLocus()
MarkerCollection	getMarkerCollection()
java.util.List<Marker>	getMarkers()
protected ReadInfo	getReadInfoFromWsRead(java.util.List<Marker> list, WsRead read)
long	getTotalBases() returns total bases loaded
boolean	setEpiProReadsDataIfAvailable(EpiProReadsReader model, GenomicViewDetails view, int current_contig, boolean force_redraw)
void	setGraphStructure(GraphStructure s)
void	setLocus(Locus locus)
void	setResultsInfo(GenomicViewDetailsData view, WsResults data)
int	size()
boolean	updateDataDoNotClear(GenomicViewDetailsData view, Interval view_visible_range, WsResults results, Locus data_locus)

Methods inherited from class java.lang.Object

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

Constructor Detail

DetailsStorage

public DetailsStorage()

Method Detail

add

public void add(Marker m)

size

public int size()

getMarkers

public java.util.List<Marker> getMarkers()

getMarkerCollection

public MarkerCollection getMarkerCollection()

getTotalBases

public long getTotalBases()

returns total bases loaded

Returns:

getBytesPerRead

public long getBytesPerRead()

returns data bytes used for each base

Returns:

getBytesPerBase

public long getBytesPerBase()

returns data bytes used for each base

Returns:

acceptNewDataAndClear

public boolean acceptNewDataAndClear(GenomicViewDetailsData view,
                            Interval view_visible_range,
                            WsResults results,
                            java.lang.String track_name)

Parameters:

view -

view_visible_range -

results -

track_name -

Returns:

updateDataDoNotClear

public boolean updateDataDoNotClear(GenomicViewDetailsData view,
                           Interval view_visible_range,
                           WsResults results,
                           Locus data_locus)

Parameters:

view -

view_visible_range -

results -

data_locus -

Returns:

getReadInfoFromWsRead

protected ReadInfo getReadInfoFromWsRead(java.util.List<Marker> list,
                             WsRead read)

Parameters:

read_id -

Returns:

setResultsInfo

public void setResultsInfo(GenomicViewDetailsData view,
                  WsResults data)

Parameters:

view -

data -

clear

public void clear()

getLocus

public Locus getLocus()

setLocus

public void setLocus(Locus locus)

getGraphStructure

public GraphStructure getGraphStructure()

setGraphStructure

public void setGraphStructure(GraphStructure s)

findReadByPositionAndLane

public Marker findReadByPositionAndLane(long bp,
                               int lane)

setEpiProReadsDataIfAvailable

public boolean setEpiProReadsDataIfAvailable(EpiProReadsReader model,
                                    GenomicViewDetails view,
                                    int current_contig,
                                    boolean force_redraw)

Parameters:

model -

detailsOptions -

Returns: