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CompressedMatrixBlock.java
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CompressedMatrixBlock.java
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/*
* Licensed to the Apache Software Foundation (ASF) under one
* or more contributor license agreements. See the NOTICE file
* distributed with this work for additional information
* regarding copyright ownership. The ASF licenses this file
* to you under the Apache License, Version 2.0 (the
* "License"); you may not use this file except in compliance
* with the License. You may obtain a copy of the License at
*
* http://www.apache.org/licenses/LICENSE-2.0
*
* Unless required by applicable law or agreed to in writing,
* software distributed under the License is distributed on an
* "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
* KIND, either express or implied. See the License for the
* specific language governing permissions and limitations
* under the License.
*/
package org.apache.sysds.runtime.compress;
import java.io.DataInput;
import java.io.DataOutput;
import java.io.IOException;
import java.io.ObjectInput;
import java.io.ObjectOutput;
import java.lang.ref.SoftReference;
import java.util.ArrayList;
import java.util.Iterator;
import java.util.List;
import java.util.concurrent.Future;
import org.apache.commons.lang.NotImplementedException;
import org.apache.commons.logging.Log;
import org.apache.commons.logging.LogFactory;
import org.apache.commons.math3.random.Well1024a;
import org.apache.sysds.common.Types.CorrectionLocationType;
import org.apache.sysds.conf.ConfigurationManager;
import org.apache.sysds.lops.MMTSJ.MMTSJType;
import org.apache.sysds.lops.MapMultChain.ChainType;
import org.apache.sysds.runtime.DMLRuntimeException;
import org.apache.sysds.runtime.compress.colgroup.AColGroup;
import org.apache.sysds.runtime.compress.colgroup.AColGroup.CompressionType;
import org.apache.sysds.runtime.compress.colgroup.ColGroupEmpty;
import org.apache.sysds.runtime.compress.colgroup.ColGroupIO;
import org.apache.sysds.runtime.compress.colgroup.ColGroupUncompressed;
import org.apache.sysds.runtime.compress.lib.CLALibAppend;
import org.apache.sysds.runtime.compress.lib.CLALibBinaryCellOp;
import org.apache.sysds.runtime.compress.lib.CLALibCMOps;
import org.apache.sysds.runtime.compress.lib.CLALibCompAgg;
import org.apache.sysds.runtime.compress.lib.CLALibDecompress;
import org.apache.sysds.runtime.compress.lib.CLALibMMChain;
import org.apache.sysds.runtime.compress.lib.CLALibMatrixMult;
import org.apache.sysds.runtime.compress.lib.CLALibRexpand;
import org.apache.sysds.runtime.compress.lib.CLALibScalar;
import org.apache.sysds.runtime.compress.lib.CLALibSlice;
import org.apache.sysds.runtime.compress.lib.CLALibSquash;
import org.apache.sysds.runtime.compress.lib.CLALibTSMM;
import org.apache.sysds.runtime.compress.lib.CLALibTernaryOp;
import org.apache.sysds.runtime.compress.lib.CLALibUnary;
import org.apache.sysds.runtime.compress.lib.CLALibUtils;
import org.apache.sysds.runtime.controlprogram.caching.MatrixObject.UpdateType;
import org.apache.sysds.runtime.controlprogram.parfor.stat.InfrastructureAnalyzer;
import org.apache.sysds.runtime.data.DenseBlock;
import org.apache.sysds.runtime.data.SparseBlock;
import org.apache.sysds.runtime.data.SparseRow;
import org.apache.sysds.runtime.instructions.InstructionUtils;
import org.apache.sysds.runtime.instructions.cp.CM_COV_Object;
import org.apache.sysds.runtime.instructions.cp.ScalarObject;
import org.apache.sysds.runtime.instructions.spark.data.IndexedMatrixValue;
import org.apache.sysds.runtime.matrix.data.CTableMap;
import org.apache.sysds.runtime.matrix.data.IJV;
import org.apache.sysds.runtime.matrix.data.LibMatrixDatagen;
import org.apache.sysds.runtime.matrix.data.MatrixBlock;
import org.apache.sysds.runtime.matrix.data.MatrixIndexes;
import org.apache.sysds.runtime.matrix.data.MatrixValue;
import org.apache.sysds.runtime.matrix.data.RandomMatrixGenerator;
import org.apache.sysds.runtime.matrix.operators.AggregateBinaryOperator;
import org.apache.sysds.runtime.matrix.operators.AggregateOperator;
import org.apache.sysds.runtime.matrix.operators.AggregateTernaryOperator;
import org.apache.sysds.runtime.matrix.operators.AggregateUnaryOperator;
import org.apache.sysds.runtime.matrix.operators.BinaryOperator;
import org.apache.sysds.runtime.matrix.operators.CMOperator;
import org.apache.sysds.runtime.matrix.operators.COVOperator;
import org.apache.sysds.runtime.matrix.operators.Operator;
import org.apache.sysds.runtime.matrix.operators.QuaternaryOperator;
import org.apache.sysds.runtime.matrix.operators.ReorgOperator;
import org.apache.sysds.runtime.matrix.operators.ScalarOperator;
import org.apache.sysds.runtime.matrix.operators.TernaryOperator;
import org.apache.sysds.runtime.matrix.operators.UnaryOperator;
import org.apache.sysds.runtime.util.IndexRange;
import org.apache.sysds.utils.DMLCompressionStatistics;
public class CompressedMatrixBlock extends MatrixBlock {
private static final Log LOG = LogFactory.getLog(CompressedMatrixBlock.class.getName());
private static final long serialVersionUID = 73193720143154058L;
/**
* Column groups
*/
protected transient List<AColGroup> _colGroups;
/**
* Boolean specifying if the colGroups are overlapping each other. This happens after a right matrix multiplication.
*/
protected boolean overlappingColGroups = false;
/**
* Soft reference to a decompressed version of this matrix block.
*/
protected transient SoftReference<MatrixBlock> decompressedVersion;
public CompressedMatrixBlock() {
super(true);
sparse = false;
nonZeros = -1;
}
/**
* Main constructor for building a block from scratch.
*
* Use with caution, since it constructs an empty matrix block with nothing inside.
*
* @param rl number of rows in the block
* @param cl number of columns
*/
public CompressedMatrixBlock(int rl, int cl) {
super(true);
rlen = rl;
clen = cl;
sparse = false;
nonZeros = -1;
}
/**
* Copy constructor taking that CompressedMatrixBlock and populate this new compressedMatrixBlock with pointers to
* the same columnGroups.
*
* @param that CompressedMatrixBlock to copy values from
*/
public CompressedMatrixBlock(CompressedMatrixBlock that) {
super(true);
rlen = that.getNumRows();
clen = that.getNumColumns();
this.copyCompressedMatrix(that);
}
/**
* Copy constructor taking an uncompressedMatrixBlock to copy metadata from also while copying metadata, a soft
* reference is constructed to the uncompressed matrixBlock, to allow quick decompressions if the program is not
* under memory pressure.
*
* This method is used in the CompressionFactory.
*
* @param uncompressedMatrixBlock An uncompressed Matrix to copy metadata from.
*/
protected CompressedMatrixBlock(MatrixBlock uncompressedMatrixBlock) {
super(true);
rlen = uncompressedMatrixBlock.getNumRows();
clen = uncompressedMatrixBlock.getNumColumns();
sparse = false;
nonZeros = uncompressedMatrixBlock.getNonZeros();
decompressedVersion = new SoftReference<>(uncompressedMatrixBlock);
}
/**
* Direct constructor with everything.
*
* @param rl Number of rows in the block
* @param cl Number of columns
* @param nnz Number of non zeros
* @param overlapping If the matrix is overlapping
* @param groups The list of column groups
*/
public CompressedMatrixBlock(int rl, int cl, long nnz, boolean overlapping, List<AColGroup> groups) {
super(true);
this.rlen = rl;
this.clen = cl;
this.sparse = false;
this.nonZeros = nnz;
this.overlappingColGroups = overlapping;
this._colGroups = groups;
}
@Override
public void reset(int rl, int cl, boolean sp, long estnnz, double val) {
throw new DMLCompressionException("Invalid to reset a Compressed MatrixBlock");
}
/**
* Allocate the given column group and remove all references to old column groups.
*
* This is done by simply allocating a ned _colGroups list and adding the given column group
*
* @param cg The column group to use after.
*/
public void allocateColGroup(AColGroup cg) {
_colGroups = new ArrayList<>(1);
_colGroups.add(cg);
}
/**
* Replace the column groups in this CompressedMatrixBlock with the given column groups
*
* @param colGroups new ColGroups in the MatrixBlock
*/
public void allocateColGroupList(List<AColGroup> colGroups) {
_colGroups = colGroups;
}
/**
* Get the column groups of this CompressedMatrixBlock
*
* @return the column groups
*/
public List<AColGroup> getColGroups() {
return _colGroups;
}
/**
* Decompress block into a MatrixBlock
*
* @return a new uncompressed matrix block containing the contents of this block
*/
public MatrixBlock decompress() {
return decompress(1);
}
/**
* Decompress block into a MatrixBlock
*
* @param k degree of parallelism
* @return a new uncompressed matrix block containing the contents of this block
*/
public synchronized MatrixBlock decompress(int k) {
// Early out if empty.
if(isEmpty())
return new MatrixBlock(rlen, clen, true, 0);
// Early out if decompressed version already is cached
MatrixBlock ret = getCachedDecompressed();
if(ret != null)
return ret;
ret = CLALibDecompress.decompress(this, k);
// Set soft reference to the decompressed version
decompressedVersion = new SoftReference<>(ret);
return ret;
}
@Override
public void putInto(MatrixBlock target, int rowOffset, int colOffset, boolean sparseCopyShallow) {
CLALibDecompress.decompressTo(this, target, rowOffset, colOffset, 1, false);
}
/**
* Get the cached decompressed matrix (if it exists otherwise null).
*
* This in practice means that if some other instruction have materialized the decompressed version it can be
* accessed though this method with a guarantee that it did not go through the entire decompression phase.
*
* @return The cached decompressed matrix, if it does not exist return null
*/
public MatrixBlock getCachedDecompressed() {
if(decompressedVersion != null) {
final MatrixBlock mb = decompressedVersion.get();
if(mb != null) {
DMLCompressionStatistics.addDecompressCacheCount();
LOG.trace("Decompressed block was in soft reference.");
return mb;
}
}
return null;
}
public CompressedMatrixBlock squash(int k) {
return CLALibSquash.squash(this, k);
}
@Override
public long recomputeNonZeros() {
if(isOverlapping())
nonZeros = clen * rlen;
else {
long nnz = 0;
for(AColGroup g : _colGroups)
nnz += g.getNumberNonZeros(rlen);
nonZeros = nnz;
}
if(nonZeros == 0) // If there is no nonzeros then reallocate into single empty column group.
allocateColGroup(ColGroupEmpty.create(getNumColumns()));
return nonZeros;
}
@Override
public long recomputeNonZeros(int rl, int ru) {
throw new NotImplementedException();
}
@Override
public long recomputeNonZeros(int rl, int ru, int cl, int cu) {
throw new NotImplementedException();
}
@Override
public long getInMemorySize() {
return estimateCompressedSizeInMemory();
}
@Override
public long estimateSizeInMemory() {
return estimateCompressedSizeInMemory();
}
/**
* Obtain an upper bound on the memory used to store the compressed block.
*
* @return an upper bound on the memory used to store this compressed block considering class overhead.
*/
public long estimateCompressedSizeInMemory() {
long total = baseSizeInMemory();
for(AColGroup grp : _colGroups)
total += grp.estimateInMemorySize();
return total;
}
public static long baseSizeInMemory() {
long total = 16; // Object header
total += getHeaderSize(); // Matrix Block elements
total += 8; // Col Group Ref
total += 8; // v reference
total += 8; // soft reference to decompressed version
total += 1 + 7; // Booleans plus padding
total += 40; // Col Group Array List
return total;
}
@Override
public double quickGetValue(int r, int c) {
if(isOverlapping()) {
double v = 0.0;
for(AColGroup group : _colGroups)
v += group.get(r, c);
return v;
}
else {
for(AColGroup group : _colGroups) {
final int idx = group.getColIndices().findIndex(c);
if(idx >= 0)
return group.getIdx(r, idx);
}
return 0;
}
}
@Override
public long getExactSizeOnDisk() {
// header information
long ret = 4 + 4 + 8 + 1;
ret += ColGroupIO.getExactSizeOnDisk(_colGroups);
return ret;
}
@Override
public long estimateSizeOnDisk() {
return getExactSizeOnDisk();
}
@Override
public void readFields(DataInput in) throws IOException {
// deserialize compressed block
rlen = in.readInt();
clen = in.readInt();
nonZeros = in.readLong();
overlappingColGroups = in.readBoolean();
_colGroups = ColGroupIO.readGroups(in, rlen);
}
public static CompressedMatrixBlock read(DataInput in) throws IOException {
int rlen = in.readInt();
int clen = in.readInt();
long nonZeros = in.readLong();
boolean overlappingColGroups = in.readBoolean();
List<AColGroup> groups = ColGroupIO.readGroups(in, rlen);
return new CompressedMatrixBlock(rlen, clen, nonZeros, overlappingColGroups, groups);
}
@Override
public void write(DataOutput out) throws IOException {
final long estimateUncompressed = nonZeros > 0 ? MatrixBlock.estimateSizeOnDisk(rlen, clen,
nonZeros) : Long.MAX_VALUE;
final long estDisk = nonZeros > 0 ? getExactSizeOnDisk() : Long.MAX_VALUE;
if(nonZeros > 0 && estDisk > estimateUncompressed) {
// If the size of this matrixBlock is smaller in uncompressed format, then
// decompress and save inside an uncompressed column group.
final String message = "smaller serialization size: compressed: " + estDisk + " vs uncompressed: "
+ estimateUncompressed;
final MatrixBlock uncompressed = getUncompressed(message);
uncompressed.examSparsity(true);
// Here only Empty or Uncompressed should be returned.
AColGroup cg = ColGroupUncompressed.create(uncompressed);
allocateColGroup(cg);
// update non zeros, if not fully correct in compressed block
nonZeros = cg.getNumberNonZeros(rlen);
// Clear the soft reference to the decompressed version,
// since the one column group is perfectly,
// representing the decompressed version.
clearSoftReferenceToDecompressed();
}
// serialize compressed matrix block
out.writeInt(rlen);
out.writeInt(clen);
out.writeLong(nonZeros);
out.writeBoolean(overlappingColGroups);
ColGroupIO.writeGroups(out, _colGroups);
}
/**
* Redirects the default java serialization via externalizable to our default hadoop writable serialization for
* efficient broadcast/rdd de-serialization.
*
* @param is object input
* @throws IOException if IOException occurs
*/
@Override
public void readExternal(ObjectInput is) throws IOException {
readFields(is);
}
/**
* Redirects the default java serialization via externalizable to our default hadoop writable serialization for
* efficient broadcast/rdd serialization.
*
* @param os object output
* @throws IOException if IOException occurs
*/
@Override
public void writeExternal(ObjectOutput os) throws IOException {
write(os);
}
@Override
public MatrixBlock scalarOperations(ScalarOperator sop, MatrixValue result) {
return CLALibScalar.scalarOperations(sop, this, result);
}
@Override
public MatrixBlock binaryOperations(BinaryOperator op, MatrixValue thatValue, MatrixValue result) {
MatrixBlock that = thatValue == null ? null : (MatrixBlock) thatValue;
MatrixBlock ret = result == null ? null : (MatrixBlock) result;
return CLALibBinaryCellOp.binaryOperationsRight(op, this, that, ret);
}
public MatrixBlock binaryOperationsLeft(BinaryOperator op, MatrixValue thatValue, MatrixValue result) {
MatrixBlock that = thatValue == null ? null : (MatrixBlock) thatValue;
MatrixBlock ret = result == null ? null : (MatrixBlock) result;
return CLALibBinaryCellOp.binaryOperationsLeft(op, this, that, ret);
}
@Override
public MatrixBlock append(MatrixBlock[] that, MatrixBlock ret, boolean cbind) {
if(cbind && that.length == 1)
return CLALibAppend.append(this, that[0], InfrastructureAnalyzer.getLocalParallelism());
else {
MatrixBlock left = getUncompressed("append list or r-bind not supported in compressed");
MatrixBlock[] thatUC = new MatrixBlock[that.length];
for(int i = 0; i < that.length; i++)
thatUC[i] = getUncompressed(that[i]);
return left.append(thatUC, ret, cbind);
}
}
@Override
public void append(MatrixValue v2, ArrayList<IndexedMatrixValue> outlist, int blen, boolean cbind, boolean m2IsLast,
int nextNCol) {
MatrixBlock left = getUncompressed("append ArrayList");
MatrixBlock right = getUncompressed(v2);
left.append(right, outlist, blen, cbind, m2IsLast, nextNCol);
}
@Override
public MatrixBlock chainMatrixMultOperations(MatrixBlock v, MatrixBlock w, MatrixBlock out, ChainType ctype, int k) {
checkMMChain(ctype, v, w);
// multi-threaded MMChain of single uncompressed ColGroup
if(_colGroups != null && _colGroups.size() == 1 &&
_colGroups.get(0).getCompType() == CompressionType.UNCOMPRESSED)
return ((ColGroupUncompressed) _colGroups.get(0)).getData().chainMatrixMultOperations(v, w, out, ctype, k);
return CLALibMMChain.mmChain(this, v, w, out, ctype, k);
}
@Override
public MatrixBlock aggregateBinaryOperations(MatrixBlock m1, MatrixBlock m2, MatrixBlock ret,
AggregateBinaryOperator op) {
checkAggregateBinaryOperations(m1, m2, op);
return CLALibMatrixMult.matrixMultiply(m1, m2, ret, op.getNumThreads(), false, false);
}
public MatrixBlock aggregateBinaryOperations(MatrixBlock m1, MatrixBlock m2, MatrixBlock ret,
AggregateBinaryOperator op, boolean transposeLeft, boolean transposeRight) {
checkAggregateBinaryOperations(m1, m2, op, transposeLeft, transposeRight);
return CLALibMatrixMult.matrixMultiply(m1, m2, ret, op.getNumThreads(), transposeLeft, transposeRight);
}
@Override
public MatrixBlock aggregateUnaryOperations(AggregateUnaryOperator op, MatrixValue result, int blen,
MatrixIndexes indexesIn, boolean inCP) {
MatrixBlock ret = (result == null) ? null : (MatrixBlock) result;
return CLALibCompAgg.aggregateUnary(this, ret, op, blen, indexesIn, inCP);
}
@Override
public MatrixBlock transposeSelfMatrixMultOperations(MatrixBlock out, MMTSJType tstype, int k) {
// check for transpose type
if(tstype == MMTSJType.LEFT) {
if(isEmpty())
return new MatrixBlock(clen, clen, true);
// create output matrix block
if(out == null)
out = new MatrixBlock(clen, clen, false);
else
out.reset(clen, clen, false);
out.allocateDenseBlock();
CLALibTSMM.leftMultByTransposeSelf(this, out, k);
return out;
}
else {
throw new DMLRuntimeException("Invalid MMTSJ type '" + tstype.toString() + "'.");
}
}
@Override
public MatrixBlock replaceOperations(MatrixValue result, double pattern, double replacement) {
if(Double.isInfinite(pattern)) {
LOG.info("Ignoring replace infinite in compression since it does not contain this value");
return this;
}
else if(isOverlapping()) {
final String message = "replaceOperations " + pattern + " -> " + replacement;
return getUncompressed(message).replaceOperations(result, pattern, replacement);
}
else {
CompressedMatrixBlock ret = new CompressedMatrixBlock(getNumRows(), getNumColumns());
final List<AColGroup> prev = getColGroups();
final int colGroupsLength = prev.size();
final List<AColGroup> retList = new ArrayList<>(colGroupsLength);
for(int i = 0; i < colGroupsLength; i++)
retList.add(prev.get(i).replace(pattern, replacement));
ret.allocateColGroupList(retList);
ret.recomputeNonZeros();
return ret;
}
}
@Override
public MatrixBlock reorgOperations(ReorgOperator op, MatrixValue ret, int startRow, int startColumn, int length) {
// Allow transpose to be compressed output. In general we need to have a transposed flag on
// the compressed matrix. https://issues.apache.org/jira/browse/SYSTEMDS-3025
printDecompressWarning(op.getClass().getSimpleName() + " -- " + op.fn.getClass().getSimpleName());
MatrixBlock tmp = decompress(op.getNumThreads());
return tmp.reorgOperations(op, ret, startRow, startColumn, length);
}
public boolean isOverlapping() {
return _colGroups.size() != 1 && overlappingColGroups;
}
public void setOverlapping(boolean overlapping) {
overlappingColGroups = overlapping;
}
@Override
public MatrixBlock slice(int rl, int ru, int cl, int cu, boolean deep, MatrixBlock ret) {
validateSliceArgument(rl, ru, cl, cu);
return CLALibSlice.slice(this, rl, ru, cl, cu, deep);
}
@Override
public void slice(ArrayList<IndexedMatrixValue> outlist, IndexRange range, int rowCut, int colCut, int blen,
int boundaryRlen, int boundaryClen) {
MatrixBlock tmp = getUncompressed(
"slice for distribution to spark. (Could be implemented such that it does not decompress)");
tmp.slice(outlist, range, rowCut, colCut, blen, boundaryRlen, boundaryClen);
}
@Override
public MatrixBlock unaryOperations(UnaryOperator op, MatrixValue result) {
return CLALibUnary.unaryOperations(this, op, result);
}
@Override
public boolean containsValue(double pattern) {
// Only if pattern is a finite value and overlapping then decompress.
if(isOverlapping() && Double.isFinite(pattern))
return getUncompressed("ContainsValue").containsValue(pattern);
else {
for(AColGroup g : _colGroups)
if(g.containsValue(pattern))
return true;
return false;
}
}
@Override
public double max() {
AggregateUnaryOperator op = InstructionUtils.parseBasicAggregateUnaryOperator("uamax", 1);
return aggregateUnaryOperations(op, null, 1000, null).getValue(0, 0);
}
@Override
public double min() {
AggregateUnaryOperator op = InstructionUtils.parseBasicAggregateUnaryOperator("uamin", 1);
return aggregateUnaryOperations(op, null, 1000, null).getValue(0, 0);
}
@Override
public double sum() {
AggregateUnaryOperator op = InstructionUtils.parseBasicAggregateUnaryOperator("uak+", 1);
return aggregateUnaryOperations(op, null, 1000, null).getValue(0, 0);
}
@Override
public MatrixBlock colSum() {
MatrixBlock res = new MatrixBlock(1, getNumColumns(), false);
res.allocateDenseBlock();
double[] resV = res.getDenseBlockValues();
AColGroup.colSum(_colGroups, resV, getNumRows());
res.recomputeNonZeros();
return res;
}
@Override
public double sumSq() {
AggregateUnaryOperator op = InstructionUtils.parseBasicAggregateUnaryOperator("uasqk+", 1);
return aggregateUnaryOperations(op, null, 1000, null).getValue(0, 0);
}
@Override
public double prod() {
AggregateUnaryOperator op = InstructionUtils.parseBasicAggregateUnaryOperator("ua*", 1);
return aggregateUnaryOperations(op, null, 1000, null).getValue(0, 0);
}
@Override
public double mean() {
AggregateUnaryOperator op = InstructionUtils.parseBasicAggregateUnaryOperator("uamean", 1);
return aggregateUnaryOperations(op, null, 1000, null).getValue(0, 0);
}
@Override
public MatrixBlock rexpandOperations(MatrixBlock ret, double max, boolean rows, boolean cast, boolean ignore,
int k) {
return CLALibRexpand.rexpand(this, ret, max, rows, cast, ignore, k);
}
@Override
public boolean isEmptyBlock(boolean safe) {
final long nonZeros = getNonZeros();
return _colGroups == null || nonZeros == 0 || (nonZeros == -1 && recomputeNonZeros() == 0);
}
@Override
public MatrixBlock binaryOperationsInPlace(BinaryOperator op, MatrixValue thatValue) {
printDecompressWarning("binaryOperationsInPlace", (MatrixBlock) thatValue);
MatrixBlock left = new MatrixBlock();
left.copy(getUncompressed());
MatrixBlock right = getUncompressed(thatValue);
left.binaryOperationsInPlace(op, right);
return left;
}
@Override
public void incrementalAggregate(AggregateOperator aggOp, MatrixValue correction, MatrixValue newWithCorrection,
boolean deep) {
printDecompressWarning("IncrementalAggregate not supported");
MatrixBlock left = getUncompressed();
MatrixBlock correctionMatrixBlock = getUncompressed(correction);
MatrixBlock newWithCorrectionMatrixBlock = getUncompressed(newWithCorrection);
left.incrementalAggregate(aggOp, correctionMatrixBlock, newWithCorrectionMatrixBlock, deep);
}
@Override
public void incrementalAggregate(AggregateOperator aggOp, MatrixValue newWithCorrection) {
printDecompressWarning("IncrementalAggregate not supported");
MatrixBlock left = getUncompressed();
MatrixBlock newWithCorrectionMatrixBlock = getUncompressed(newWithCorrection);
left.incrementalAggregate(aggOp, newWithCorrectionMatrixBlock);
}
@Override
public void permutationMatrixMultOperations(MatrixValue m2Val, MatrixValue out1Val, MatrixValue out2Val, int k) {
printDecompressWarning("permutationMatrixMultOperations", (MatrixBlock) m2Val);
MatrixBlock left = getUncompressed();
MatrixBlock right = getUncompressed(m2Val);
left.permutationMatrixMultOperations(right, out1Val, out2Val, k);
}
@Override
public MatrixBlock leftIndexingOperations(MatrixBlock rhsMatrix, int rl, int ru, int cl, int cu, MatrixBlock ret,
UpdateType update) {
printDecompressWarning("leftIndexingOperations");
MatrixBlock left = getUncompressed();
MatrixBlock right = getUncompressed(rhsMatrix);
return left.leftIndexingOperations(right, rl, ru, cl, cu, ret, update);
}
@Override
public MatrixBlock leftIndexingOperations(ScalarObject scalar, int rl, int cl, MatrixBlock ret, UpdateType update) {
printDecompressWarning("leftIndexingOperations");
MatrixBlock tmp = getUncompressed();
return tmp.leftIndexingOperations(scalar, rl, cl, ret, update);
}
@Override
public MatrixBlock zeroOutOperations(MatrixValue result, IndexRange range, boolean complementary) {
printDecompressWarning("zeroOutOperations");
MatrixBlock tmp = getUncompressed();
return tmp.zeroOutOperations(result, range, complementary);
}
@Override
public CM_COV_Object cmOperations(CMOperator op) {
return CLALibCMOps.centralMoment(this, op);
}
@Override
public CM_COV_Object cmOperations(CMOperator op, MatrixBlock weights) {
printDecompressWarning("cmOperations");
MatrixBlock right = getUncompressed(weights);
if(isEmpty())
return super.cmOperations(op, right);
AColGroup grp = _colGroups.get(0);
if(grp instanceof ColGroupUncompressed)
return ((ColGroupUncompressed) grp).getData().cmOperations(op, right);
return getUncompressed().cmOperations(op, right);
}
@Override
public CM_COV_Object covOperations(COVOperator op, MatrixBlock that) {
MatrixBlock right = getUncompressed(that);
return getUncompressed("covOperations", op.getNumThreads()).covOperations(op, right);
}
@Override
public CM_COV_Object covOperations(COVOperator op, MatrixBlock that, MatrixBlock weights) {
MatrixBlock right1 = getUncompressed(that);
MatrixBlock right2 = getUncompressed(weights);
return getUncompressed("covOperations", op.getNumThreads()).covOperations(op, right1, right2);
}
@Override
public MatrixBlock sortOperations(MatrixValue weights, MatrixBlock result) {
MatrixBlock right = getUncompressed(weights);
return getUncompressed("sortOperations").sortOperations(right, result);
}
@Override
public MatrixBlock aggregateTernaryOperations(MatrixBlock m1, MatrixBlock m2, MatrixBlock m3, MatrixBlock ret,
AggregateTernaryOperator op, boolean inCP) {
boolean m1C = m1 instanceof CompressedMatrixBlock;
boolean m2C = m2 instanceof CompressedMatrixBlock;
boolean m3C = m3 instanceof CompressedMatrixBlock;
printDecompressWarning("aggregateTernaryOperations " + op.aggOp.getClass().getSimpleName() + " "
+ op.indexFn.getClass().getSimpleName() + " " + op.aggOp.increOp.fn.getClass().getSimpleName() + " "
+ op.binaryFn.getClass().getSimpleName() + " m1,m2,m3 " + m1C + " " + m2C + " " + m3C);
MatrixBlock left = getUncompressed(m1);
MatrixBlock right1 = getUncompressed(m2);
MatrixBlock right2 = getUncompressed(m3);
ret = left.aggregateTernaryOperations(left, right1, right2, ret, op, inCP);
if(ret.getNumRows() == 0 || ret.getNumColumns() == 0)
throw new DMLCompressionException("Invalid output");
return ret;
}
@Override
public MatrixBlock uaggouterchainOperations(MatrixBlock mbLeft, MatrixBlock mbRight, MatrixBlock mbOut,
BinaryOperator bOp, AggregateUnaryOperator uaggOp) {
printDecompressWarning("uaggouterchainOperations");
MatrixBlock left = getUncompressed();
MatrixBlock right = getUncompressed(mbRight);
return left.uaggouterchainOperations(left, right, mbOut, bOp, uaggOp);
}
@Override
public MatrixBlock groupedAggOperations(MatrixValue tgt, MatrixValue wghts, MatrixValue ret, int ngroups,
Operator op, int k) {
printDecompressWarning("groupedAggOperations");
MatrixBlock left = getUncompressed();
MatrixBlock right = getUncompressed(wghts);
return left.groupedAggOperations(left, right, ret, ngroups, op, k);
}
@Override
public MatrixBlock removeEmptyOperations(MatrixBlock ret, boolean rows, boolean emptyReturn, MatrixBlock select) {
printDecompressWarning("removeEmptyOperations");
MatrixBlock tmp = getUncompressed();
return tmp.removeEmptyOperations(ret, rows, emptyReturn, select);
}
@Override
public void ctableOperations(Operator op, double scalar, MatrixValue that, CTableMap resultMap,
MatrixBlock resultBlock) {
printDecompressWarning("ctableOperations Var 1");
MatrixBlock left = getUncompressed();
MatrixBlock right = getUncompressed(that);
left.ctableOperations(op, scalar, right, resultMap, resultBlock);
}
@Override
public void ctableOperations(Operator op, double scalar, double scalar2, CTableMap resultMap,
MatrixBlock resultBlock) {
printDecompressWarning("ctableOperations Var 2");
MatrixBlock tmp = getUncompressed();
tmp.ctableOperations(op, scalar, scalar2, resultMap, resultBlock);
}
@Override
public void ctableOperations(Operator op, MatrixIndexes ix1, double scalar, boolean left, int brlen,
CTableMap resultMap, MatrixBlock resultBlock) {
printDecompressWarning("ctableOperations Var 3");
MatrixBlock tmp = getUncompressed();
tmp.ctableOperations(op, ix1, scalar, left, brlen, resultMap, resultBlock);
}
@Override
public void ctableOperations(Operator op, MatrixValue that, double scalar, boolean ignoreZeros, CTableMap resultMap,
MatrixBlock resultBlock) {
printDecompressWarning("ctableOperations Var 4");
MatrixBlock left = getUncompressed();
MatrixBlock right = getUncompressed(that);
left.ctableOperations(op, right, scalar, ignoreZeros, resultMap, resultBlock);
}
@Override
public MatrixBlock ctableSeqOperations(MatrixValue thatMatrix, double thatScalar, MatrixBlock resultBlock,
boolean updateClen) {
printDecompressWarning("ctableOperations Var 5");
MatrixBlock left = getUncompressed();
MatrixBlock right = getUncompressed(thatMatrix);
return left.ctableSeqOperations(right, thatScalar, resultBlock, updateClen);
}
@Override
public void ctableOperations(Operator op, MatrixValue that, MatrixValue that2, CTableMap resultMap,
MatrixBlock resultBlock) {
MatrixBlock left = getUncompressed("ctableOperations Var 7");
MatrixBlock right1 = getUncompressed(that);
MatrixBlock right2 = getUncompressed(that2);
left.ctableOperations(op, right1, right2, resultMap, resultBlock);
}
@Override
public MatrixBlock ternaryOperations(TernaryOperator op, MatrixBlock m2, MatrixBlock m3, MatrixBlock ret) {
return CLALibTernaryOp.ternaryOperations(this, op, m2, m3, ret);
}
@Override
public MatrixBlock quaternaryOperations(QuaternaryOperator qop, MatrixBlock um, MatrixBlock vm, MatrixBlock wm,
MatrixBlock out, int k) {
MatrixBlock left = getUncompressed("quaternaryOperations");
MatrixBlock right1 = getUncompressed(um);
MatrixBlock right2 = getUncompressed(vm);
MatrixBlock right3 = getUncompressed(wm);
return left.quaternaryOperations(qop, right1, right2, right3, out, k);
}
@Override
public MatrixBlock randOperationsInPlace(RandomMatrixGenerator rgen, Well1024a bigrand, long bSeed) {
LOG.info("Inplace rand ops not on CompressedMatrix");
MatrixBlock ret = new MatrixBlock(getNumRows(), getNumColumns(), true);
LibMatrixDatagen.generateRandomMatrix(ret, rgen, bigrand, bSeed);
return ret;
}
@Override
public MatrixBlock randOperationsInPlace(RandomMatrixGenerator rgen, Well1024a bigrand, long bSeed, int k) {
LOG.info("Inplace rand ops not on CompressedMatrix");
MatrixBlock ret = new MatrixBlock(getNumRows(), getNumColumns(), true);
LibMatrixDatagen.generateRandomMatrix(ret, rgen, bigrand, bSeed, k);
return ret;
}
@Override
public MatrixBlock seqOperationsInPlace(double from, double to, double incr) {
// output should always be uncompressed
throw new DMLRuntimeException("CompressedMatrixBlock: seqOperationsInPlace not supported.");
}
private static boolean isCompressed(MatrixBlock mb) {
return mb instanceof CompressedMatrixBlock;
}
public static MatrixBlock getUncompressed(MatrixValue mVal) {
return isCompressed((MatrixBlock) mVal) ? ((CompressedMatrixBlock) mVal).getUncompressed() : (MatrixBlock) mVal;
}
public static MatrixBlock getUncompressed(MatrixValue mVal, String message) {
return isCompressed((MatrixBlock) mVal) ? ((CompressedMatrixBlock) mVal)
.getUncompressed(message) : (MatrixBlock) mVal;
}
public MatrixBlock getUncompressed() {
return getUncompressed((String) null);
}
public MatrixBlock getUncompressed(String operation) {
return getUncompressed(operation,
ConfigurationManager.isParallelMatrixOperations() ? InfrastructureAnalyzer.getLocalParallelism() : 1);
}
public MatrixBlock getUncompressed(String operation, int k) {
final MatrixBlock d_compressed = getCachedDecompressed();
if(d_compressed != null)
return d_compressed;
// Print warning if we do not have a cached decompressed version.
if(operation != null)
printDecompressWarning(operation);
if(isEmpty())
return new MatrixBlock(getNumRows(), getNumColumns(), true);
return this.decompress(k);
}
private static void printDecompressWarning(String operation) {
LOG.warn("Decompressing because: " + operation);
}
private static void printDecompressWarning(String operation, MatrixBlock m2) {
if(isCompressed(m2))
printDecompressWarning(operation);
}
@Override
public boolean isShallowSerialize(boolean inclConvert) {
return true;
}
@Override
public void toShallowSerializeBlock() {
// do nothing
}
@Override
public void copy(MatrixValue thatValue) {
copy(thatValue, false);
}
private static CompressedMatrixBlock checkType(MatrixValue thatValue) {
if(thatValue == null || !(thatValue instanceof CompressedMatrixBlock))
throw new DMLRuntimeException("Invalid call to copy, require a compressed MatrixBlock to copy to");
return (CompressedMatrixBlock) thatValue;
}
@Override
public void copy(MatrixValue thatValue, boolean sp) {
CompressedMatrixBlock that = checkType(thatValue);
if(this == that) // prevent data loss (e.g., on sparse-dense conversion)
throw new RuntimeException("Copy must not overwrite itself!");
copyCompressedMatrix(that);
}
@Override
public MatrixBlock copyShallow(MatrixBlock that) {
if(that instanceof CompressedMatrixBlock)
throw new NotImplementedException();
else
throw new DMLCompressionException(
"Invalid copy shallow, since the matrixBlock given is not of type CompressedMatrixBlock");
}
@Override
public void copy(int rl, int ru, int cl, int cu, MatrixBlock src, boolean awareDestNZ) {
throw new DMLCompressionException("Invalid copy into CompressedMatrixBlock");
}
private void copyCompressedMatrix(CompressedMatrixBlock that) {
this.rlen = that.getNumRows();
this.clen = that.getNumColumns();
this.sparseBlock = null;
this.denseBlock = null;
this.nonZeros = that.getNonZeros();
this._colGroups = new ArrayList<>(that.getColGroups().size());
for(AColGroup cg : that._colGroups)
_colGroups.add(cg);