bdv.export

Class ProposeMipmaps

java.lang.Object

bdv.export.ProposeMipmaps

public class ProposeMipmaps
extends Object

Propose number of mipmap levels, as well subsampling factors and chunk size for each level.

Choice of proposed chunksize is not based on any hard benchmark data currently. Chunk sizes are proposed such that chunks have power-of-two side lengths, are roughly square in world space, and contain close to (but not more than) a specified number of elements (4096 by default). It is very likely that more efficient choices can be found by manual tuning, depending on hardware and use case.

Author:

Tobias Pietzsch

Constructor Summary

Constructors

Constructor and Description
ProposeMipmaps()

Method Summary

Modifier and Type	Method and Description
static String	getArrayString(int[][] resolutions) Format in[][] array, such as resolutions or chunksizes definition, as a String (to be used in export dialog textfields).
static void	normalizeVoxelSize(double[] size) Adjust voxelSize such that the smallest dimension is 1.0
static Map<Integer,ExportMipmapInfo>	proposeMipmaps(mpicbg.spim.data.generic.sequence.AbstractSequenceDescription<?,?,?> seq) Propose number of mipmap levels as well subsampling factors and chunk size for each level, for each setup of the given sequence.
static ExportMipmapInfo	proposeMipmaps(mpicbg.spim.data.generic.sequence.BasicViewSetup setup) Propose number of mipmap levels as well subsampling factors and chunk size for each level, based on the image and voxel size of the given setup.
static ExportMipmapInfo	proposeMipmaps(mpicbg.spim.data.generic.sequence.BasicViewSetup setup, int maxNumElements) Propose number of mipmap levels as well subsampling factors and chunk size for each level, based on the image and voxel size of the given setup.
static int[]	suggestPoTBlockSize(double[] voxelSize, int maxNumElements) Propose block size such that each dimension is power-of-two, number of elements is as big as possible, but not larger than maxNumElements and the block (scaled by the voxelSize) is as close to square as possible given constraints 1 and 2.
static int[]	suggestPoTBlockSize(double[] voxelSize, long[] size, int maxNumElements) Propose block size such that each dimension is power-of-two, number of elements is as big as possible, but not larger than maxNumElements and the block (scaled by the voxelSize) is as close to square as possible given constraints 1 and 2.

Methods inherited from class java.lang.Object

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

Constructor Detail

ProposeMipmaps

public ProposeMipmaps()

Method Detail

proposeMipmaps

public static Map<Integer,ExportMipmapInfo> proposeMipmaps(mpicbg.spim.data.generic.sequence.AbstractSequenceDescription<?,?,?> seq)

Propose number of mipmap levels as well subsampling factors and chunk size for each level, for each setup of the given sequence.

Parameters:

seq -

Returns:

map from setup id to proposed mipmap settings

proposeMipmaps

public static ExportMipmapInfo proposeMipmaps(mpicbg.spim.data.generic.sequence.BasicViewSetup setup)

Propose number of mipmap levels as well subsampling factors and chunk size for each level, based on the image and voxel size of the given setup. Chunks contain close to (but not more than) 4096 elements.

Parameters:

setup -

Returns:

proposed mipmap settings

proposeMipmaps

public static ExportMipmapInfo proposeMipmaps(mpicbg.spim.data.generic.sequence.BasicViewSetup setup,
                                              int maxNumElements)

Propose number of mipmap levels as well subsampling factors and chunk size for each level, based on the image and voxel size of the given setup. Chunk sizes are proposed such that chunks have power-of-two side lengths, are roughly square in world space, and contain close to (but not more than) maxNumElements.

Parameters:

setup -

maxNumElements -

Returns:

proposed mipmap settings

getArrayString

public static String getArrayString(int[][] resolutions)

Format in[][] array, such as resolutions or chunksizes definition, as a String (to be used in export dialog textfields).

normalizeVoxelSize

public static void normalizeVoxelSize(double[] size)

Adjust voxelSize such that the smallest dimension is 1.0

Parameters:

size -

suggestPoTBlockSize

public static int[] suggestPoTBlockSize(double[] voxelSize,
                                        int maxNumElements)

Propose block size such that

1. each dimension is power-of-two,
2. number of elements is as big as possible, but not larger than maxNumElements
3. and the block (scaled by the voxelSize) is as close to square as possible given constraints 1 and 2.

suggestPoTBlockSize

public static int[] suggestPoTBlockSize(double[] voxelSize,
                                        long[] size,
                                        int maxNumElements)

Propose block size such that

1. each dimension is power-of-two,
2. number of elements is as big as possible, but not larger than maxNumElements
3. and the block (scaled by the voxelSize) is as close to square as possible given constraints 1 and 2.

Additionally, the full size[] of the image limits the number of bits spent in a particular dimension. For example, if size[2] = 3, then resulting block size will not exceed 4 in the Z dimension.