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This commit is contained in:
Igor Pavlov
2017-04-30 00:00:00 +00:00
committed by Kornel
parent 603abd5528
commit 2efa10565a
442 changed files with 15479 additions and 8525 deletions
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20
C/BwtSort.c
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@@ -1,5 +1,5 @@
/* BwtSort.c -- BWT block sorting
2013-11-12 : Igor Pavlov : Public domain */
2017-04-03 : Igor Pavlov : Public domain */
#include "Precomp.h"
@@ -314,7 +314,7 @@ UInt32 NO_INLINE SortGroup(UInt32 BlockSize, UInt32 NumSortedBytes, UInt32 group
#ifndef BLOCK_SORT_EXTERNAL_FLAGS
UInt32 subGroupSize = ((ind2[j] & ~0xC0000000) >> kNumBitsMax);
if ((ind2[j] & 0x40000000) != 0)
subGroupSize += ((ind2[j + 1] >> kNumBitsMax) << kNumExtra0Bits);
subGroupSize += ((ind2[(size_t)j + 1] >> kNumBitsMax) << kNumExtra0Bits);
subGroupSize++;
for (;;)
{
@@ -362,7 +362,7 @@ UInt32 BlockSort(UInt32 *Indices, const Byte *data, UInt32 blockSize)
for (i = 0; i < kNumHashValues; i++)
counters[i] = 0;
for (i = 0; i < blockSize - 1; i++)
counters[((UInt32)data[i] << 8) | data[i + 1]]++;
counters[((UInt32)data[i] << 8) | data[(size_t)i + 1]]++;
counters[((UInt32)data[i] << 8) | data[0]]++;
Groups = counters + BS_TEMP_SIZE;
@@ -392,11 +392,11 @@ UInt32 BlockSort(UInt32 *Indices, const Byte *data, UInt32 blockSize)
}
for (i = 0; i < blockSize - 1; i++)
Groups[i] = counters[((UInt32)data[i] << 8) | data[i + 1]];
Groups[i] = counters[((UInt32)data[i] << 8) | data[(size_t)i + 1]];
Groups[i] = counters[((UInt32)data[i] << 8) | data[0]];
for (i = 0; i < blockSize - 1; i++)
Indices[counters[((UInt32)data[i] << 8) | data[i + 1]]++] = i;
Indices[counters[((UInt32)data[i] << 8) | data[(size_t)i + 1]]++] = i;
Indices[counters[((UInt32)data[i] << 8) | data[0]]++] = i;
#ifndef BLOCK_SORT_EXTERNAL_FLAGS
@@ -451,8 +451,8 @@ UInt32 BlockSort(UInt32 *Indices, const Byte *data, UInt32 blockSize)
Bool finishedGroup = ((Indices[i] & 0x80000000) == 0);
if ((Indices[i] & 0x40000000) != 0)
{
groupSize += ((Indices[i + 1] >> kNumBitsMax) << kNumExtra0Bits);
Indices[i + 1] &= kIndexMask;
groupSize += ((Indices[(size_t)i + 1] >> kNumBitsMax) << kNumExtra0Bits);
Indices[(size_t)i + 1] &= kIndexMask;
}
Indices[i] &= kIndexMask;
groupSize++;
@@ -460,7 +460,7 @@ UInt32 BlockSort(UInt32 *Indices, const Byte *data, UInt32 blockSize)
{
Indices[i - finishedGroupSize] &= kIndexMask;
if (finishedGroupSize > 1)
Indices[i - finishedGroupSize + 1] &= kIndexMask;
Indices[(size_t)(i - finishedGroupSize) + 1] &= kIndexMask;
{
UInt32 newGroupSize = groupSize + finishedGroupSize;
SetFinishedGroupSize(Indices + i - finishedGroupSize, newGroupSize);
@@ -503,8 +503,8 @@ UInt32 BlockSort(UInt32 *Indices, const Byte *data, UInt32 blockSize)
UInt32 groupSize = ((Indices[i] & ~0xC0000000) >> kNumBitsMax);
if ((Indices[i] & 0x40000000) != 0)
{
groupSize += ((Indices[i + 1] >> kNumBitsMax) << kNumExtra0Bits);
Indices[i + 1] &= kIndexMask;
groupSize += ((Indices[(size_t)i + 1] >> kNumBitsMax) << kNumExtra0Bits);
Indices[(size_t)i + 1] &= kIndexMask;
}
Indices[i] &= kIndexMask;
groupSize++;