Package net.preibisch.mvrecon.fiji.datasetmanager

Class SmartSPIM.SmartSPIMMetaData

java.lang.Object

net.preibisch.mvrecon.fiji.datasetmanager.SmartSPIM.SmartSPIMMetaData

Enclosing class:

SmartSPIM

public static class SmartSPIM.SmartSPIMMetaData
extends Object

Field Summary

Fields

Modifier and Type	Field	Description
List<net.imglib2.util.Pair<Integer,Integer>>	channels
long[]	dimensions
final URI	dir
final URI	metadataFile
List<String>	sortedFileNames
List<Long>	xTileLocations
double	xyRes
List<Long>	yTileLocations
List<Long>	zOffsets
double	zRes

Constructor Summary

Constructors

Constructor	Description
SmartSPIMMetaData(URI metadataFile)

Method Summary

Modifier and Type	Method	Description
static URI	folderFor(URI dir, net.imglib2.util.Pair<Integer,Integer> channel, long xTile, long yTile)
URI	folderFor(net.imglib2.util.Pair<Integer,Integer> channel, long xTile, long yTile)
static ij.ImagePlus	loadImage(URI imageDir, String fileName)
static ij.ImagePlus	loadImage(URI dir, net.imglib2.util.Pair<Integer,Integer> channel, long xTile, long yTile, String fileName)
ij.ImagePlus	loadImage(net.imglib2.util.Pair<Integer,Integer> channel, long xTile, long yTile, String fileName)
protected net.imglib2.util.Pair<long[],List<String>>	loadImageSize(int channel, int xTile, int yTile)
protected static net.imglib2.util.Pair<long[],List<String>>	loadImageSize(SmartSPIM.SmartSPIMMetaData metadata, int channel, int xTile, int yTile)
List<String>	sortedSlicesFor(URI dir)
List<String>	sortedSlicesFor(net.imglib2.util.Pair<Integer,Integer> channel, long xTile, long yTile)

Methods inherited from class java.lang.Object

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

Field Details

metadataFile

public final URI metadataFile

dir

public final URI dir

dimensions

public long[] dimensions

sortedFileNames

public List<String> sortedFileNames

xyRes

public double xyRes

zRes

public double zRes

channels

public List<net.imglib2.util.Pair<Integer,Integer>> channels

xTileLocations

public List<Long> xTileLocations

yTileLocations

public List<Long> yTileLocations

zOffsets

public List<Long> zOffsets

Constructor Details

SmartSPIMMetaData

public SmartSPIMMetaData(URI metadataFile)
                  throws mpicbg.spim.data.SpimDataIOException

Throws:

mpicbg.spim.data.SpimDataIOException

Method Details

folderFor

public URI folderFor(net.imglib2.util.Pair<Integer,Integer> channel,
 long xTile,
 long yTile)

sortedSlicesFor

public List<String> sortedSlicesFor(net.imglib2.util.Pair<Integer,Integer> channel,
 long xTile,
 long yTile)

loadImage

public ij.ImagePlus loadImage(net.imglib2.util.Pair<Integer,Integer> channel,
 long xTile,
 long yTile,
 String fileName)

loadImageSize

protected net.imglib2.util.Pair<long[],List<String>> loadImageSize(int channel,
 int xTile,
 int yTile)

sortedSlicesFor

public List<String> sortedSlicesFor(URI dir)

loadImageSize

protected static net.imglib2.util.Pair<long[],List<String>> loadImageSize(SmartSPIM.SmartSPIMMetaData metadata,
 int channel,
 int xTile,
 int yTile)

folderFor

public static URI folderFor(URI dir,
 net.imglib2.util.Pair<Integer,Integer> channel,
 long xTile,
 long yTile)

loadImage

public static ij.ImagePlus loadImage(URI dir,
 net.imglib2.util.Pair<Integer,Integer> channel,
 long xTile,
 long yTile,
 String fileName)

loadImage

public static ij.ImagePlus loadImage(URI imageDir,
 String fileName)