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rust-index: handle `MixedIndex` in `pyindex_to_graph` On the long run we will want to implement the Graph trait directly in Rust, but for now we take the path with the least amount of change to focus on the coming persistent NodeMap code. We test this new code through with the lazy ancestors code. Differential Revision: https://phab.mercurial-scm.org/D7657

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fastcover.c
747 lines | 27.4 KiB | text/x-c | CLexer
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 /*-*************************************
* Dependencies
***************************************/
#include <stdio.h> /* fprintf */
#include <stdlib.h> /* malloc, free, qsort */
#include <string.h> /* memset */
#include <time.h> /* clock */
#include "mem.h" /* read */
#include "pool.h"
#include "threading.h"
#include "cover.h"
#include "zstd_internal.h" /* includes zstd.h */
#ifndef ZDICT_STATIC_LINKING_ONLY
#define ZDICT_STATIC_LINKING_ONLY
#endif
#include "zdict.h"
/*-*************************************
* Constants
***************************************/
Gregory Szorc
zstandard: vendor python-zstandard 0.11...
r42237 #define FASTCOVER_MAX_SAMPLES_SIZE (sizeof(size_t) == 8 ? ((unsigned)-1) : ((unsigned)1 GB))
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 #define FASTCOVER_MAX_F 31
#define FASTCOVER_MAX_ACCEL 10
#define DEFAULT_SPLITPOINT 0.75
#define DEFAULT_F 20
#define DEFAULT_ACCEL 1
/*-*************************************
* Console display
***************************************/
static int g_displayLevel = 2;
#define DISPLAY(...) \
{ \
fprintf(stderr, __VA_ARGS__); \
fflush(stderr); \
}
#define LOCALDISPLAYLEVEL(displayLevel, l, ...) \
if (displayLevel >= l) { \
DISPLAY(__VA_ARGS__); \
} /* 0 : no display; 1: errors; 2: default; 3: details; 4: debug */
#define DISPLAYLEVEL(l, ...) LOCALDISPLAYLEVEL(g_displayLevel, l, __VA_ARGS__)
#define LOCALDISPLAYUPDATE(displayLevel, l, ...) \
if (displayLevel >= l) { \
if ((clock() - g_time > refreshRate) || (displayLevel >= 4)) { \
g_time = clock(); \
DISPLAY(__VA_ARGS__); \
} \
}
#define DISPLAYUPDATE(l, ...) LOCALDISPLAYUPDATE(g_displayLevel, l, __VA_ARGS__)
static const clock_t refreshRate = CLOCKS_PER_SEC * 15 / 100;
static clock_t g_time = 0;
/*-*************************************
* Hash Functions
***************************************/
static const U64 prime6bytes = 227718039650203ULL;
static size_t ZSTD_hash6(U64 u, U32 h) { return (size_t)(((u << (64-48)) * prime6bytes) >> (64-h)) ; }
static size_t ZSTD_hash6Ptr(const void* p, U32 h) { return ZSTD_hash6(MEM_readLE64(p), h); }
static const U64 prime8bytes = 0xCF1BBCDCB7A56463ULL;
static size_t ZSTD_hash8(U64 u, U32 h) { return (size_t)(((u) * prime8bytes) >> (64-h)) ; }
static size_t ZSTD_hash8Ptr(const void* p, U32 h) { return ZSTD_hash8(MEM_readLE64(p), h); }
/**
* Hash the d-byte value pointed to by p and mod 2^f
*/
static size_t FASTCOVER_hashPtrToIndex(const void* p, U32 h, unsigned d) {
if (d == 6) {
return ZSTD_hash6Ptr(p, h) & ((1 << h) - 1);
}
return ZSTD_hash8Ptr(p, h) & ((1 << h) - 1);
}
/*-*************************************
* Acceleration
***************************************/
typedef struct {
unsigned finalize; /* Percentage of training samples used for ZDICT_finalizeDictionary */
unsigned skip; /* Number of dmer skipped between each dmer counted in computeFrequency */
} FASTCOVER_accel_t;
static const FASTCOVER_accel_t FASTCOVER_defaultAccelParameters[FASTCOVER_MAX_ACCEL+1] = {
{ 100, 0 }, /* accel = 0, should not happen because accel = 0 defaults to accel = 1 */
{ 100, 0 }, /* accel = 1 */
{ 50, 1 }, /* accel = 2 */
{ 34, 2 }, /* accel = 3 */
{ 25, 3 }, /* accel = 4 */
{ 20, 4 }, /* accel = 5 */
{ 17, 5 }, /* accel = 6 */
{ 14, 6 }, /* accel = 7 */
{ 13, 7 }, /* accel = 8 */
{ 11, 8 }, /* accel = 9 */
{ 10, 9 }, /* accel = 10 */
};
/*-*************************************
* Context
***************************************/
typedef struct {
const BYTE *samples;
size_t *offsets;
const size_t *samplesSizes;
size_t nbSamples;
size_t nbTrainSamples;
size_t nbTestSamples;
size_t nbDmers;
U32 *freqs;
unsigned d;
unsigned f;
FASTCOVER_accel_t accelParams;
} FASTCOVER_ctx_t;
/*-*************************************
* Helper functions
***************************************/
/**
* Selects the best segment in an epoch.
* Segments of are scored according to the function:
*
* Let F(d) be the frequency of all dmers with hash value d.
* Let S_i be hash value of the dmer at position i of segment S which has length k.
*
* Score(S) = F(S_1) + F(S_2) + ... + F(S_{k-d+1})
*
Gregory Szorc
zstandard: vendor python-zstandard 0.12...
r43207 * Once the dmer with hash value d is in the dictionary we set F(d) = 0.
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 */
static COVER_segment_t FASTCOVER_selectSegment(const FASTCOVER_ctx_t *ctx,
U32 *freqs, U32 begin, U32 end,
ZDICT_cover_params_t parameters,
U16* segmentFreqs) {
/* Constants */
const U32 k = parameters.k;
const U32 d = parameters.d;
const U32 f = ctx->f;
const U32 dmersInK = k - d + 1;
/* Try each segment (activeSegment) and save the best (bestSegment) */
COVER_segment_t bestSegment = {0, 0, 0};
COVER_segment_t activeSegment;
/* Reset the activeDmers in the segment */
/* The activeSegment starts at the beginning of the epoch. */
activeSegment.begin = begin;
activeSegment.end = begin;
activeSegment.score = 0;
/* Slide the activeSegment through the whole epoch.
* Save the best segment in bestSegment.
*/
while (activeSegment.end < end) {
/* Get hash value of current dmer */
Gregory Szorc
zstandard: vendor python-zstandard 0.11...
r42237 const size_t idx = FASTCOVER_hashPtrToIndex(ctx->samples + activeSegment.end, f, d);
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157
Gregory Szorc
zstandard: vendor python-zstandard 0.12...
r43207 /* Add frequency of this index to score if this is the first occurrence of index in active segment */
Gregory Szorc
zstandard: vendor python-zstandard 0.11...
r42237 if (segmentFreqs[idx] == 0) {
activeSegment.score += freqs[idx];
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 }
/* Increment end of segment and segmentFreqs*/
activeSegment.end += 1;
Gregory Szorc
zstandard: vendor python-zstandard 0.11...
r42237 segmentFreqs[idx] += 1;
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 /* If the window is now too large, drop the first position */
if (activeSegment.end - activeSegment.begin == dmersInK + 1) {
/* Get hash value of the dmer to be eliminated from active segment */
const size_t delIndex = FASTCOVER_hashPtrToIndex(ctx->samples + activeSegment.begin, f, d);
segmentFreqs[delIndex] -= 1;
/* Subtract frequency of this index from score if this is the last occurrence of this index in active segment */
if (segmentFreqs[delIndex] == 0) {
activeSegment.score -= freqs[delIndex];
}
/* Increment start of segment */
activeSegment.begin += 1;
}
/* If this segment is the best so far save it */
if (activeSegment.score > bestSegment.score) {
bestSegment = activeSegment;
}
}
/* Zero out rest of segmentFreqs array */
while (activeSegment.begin < end) {
const size_t delIndex = FASTCOVER_hashPtrToIndex(ctx->samples + activeSegment.begin, f, d);
segmentFreqs[delIndex] -= 1;
activeSegment.begin += 1;
}
{
/* Zero the frequency of hash value of each dmer covered by the chosen segment. */
U32 pos;
for (pos = bestSegment.begin; pos != bestSegment.end; ++pos) {
const size_t i = FASTCOVER_hashPtrToIndex(ctx->samples + pos, f, d);
freqs[i] = 0;
}
}
return bestSegment;
}
static int FASTCOVER_checkParameters(ZDICT_cover_params_t parameters,
size_t maxDictSize, unsigned f,
unsigned accel) {
/* k, d, and f are required parameters */
if (parameters.d == 0 || parameters.k == 0) {
return 0;
}
/* d has to be 6 or 8 */
if (parameters.d != 6 && parameters.d != 8) {
return 0;
}
/* k <= maxDictSize */
if (parameters.k > maxDictSize) {
return 0;
}
/* d <= k */
if (parameters.d > parameters.k) {
return 0;
}
/* 0 < f <= FASTCOVER_MAX_F*/
if (f > FASTCOVER_MAX_F || f == 0) {
return 0;
}
/* 0 < splitPoint <= 1 */
if (parameters.splitPoint <= 0 || parameters.splitPoint > 1) {
return 0;
}
/* 0 < accel <= 10 */
if (accel > 10 || accel == 0) {
return 0;
}
return 1;
}
/**
* Clean up a context initialized with `FASTCOVER_ctx_init()`.
*/
static void
FASTCOVER_ctx_destroy(FASTCOVER_ctx_t* ctx)
{
if (!ctx) return;
free(ctx->freqs);
ctx->freqs = NULL;
free(ctx->offsets);
ctx->offsets = NULL;
}
/**
* Calculate for frequency of hash value of each dmer in ctx->samples
*/
static void
FASTCOVER_computeFrequency(U32* freqs, const FASTCOVER_ctx_t* ctx)
{
const unsigned f = ctx->f;
const unsigned d = ctx->d;
const unsigned skip = ctx->accelParams.skip;
const unsigned readLength = MAX(d, 8);
size_t i;
assert(ctx->nbTrainSamples >= 5);
assert(ctx->nbTrainSamples <= ctx->nbSamples);
for (i = 0; i < ctx->nbTrainSamples; i++) {
size_t start = ctx->offsets[i]; /* start of current dmer */
size_t const currSampleEnd = ctx->offsets[i+1];
while (start + readLength <= currSampleEnd) {
const size_t dmerIndex = FASTCOVER_hashPtrToIndex(ctx->samples + start, f, d);
freqs[dmerIndex]++;
start = start + skip + 1;
}
}
}
/**
* Prepare a context for dictionary building.
* The context is only dependent on the parameter `d` and can used multiple
* times.
Gregory Szorc
zstandard: vendor python-zstandard 0.12...
r43207 * Returns 0 on success or error code on error.
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 * The context must be destroyed with `FASTCOVER_ctx_destroy()`.
*/
Gregory Szorc
zstandard: vendor python-zstandard 0.12...
r43207 static size_t
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 FASTCOVER_ctx_init(FASTCOVER_ctx_t* ctx,
const void* samplesBuffer,
const size_t* samplesSizes, unsigned nbSamples,
unsigned d, double splitPoint, unsigned f,
FASTCOVER_accel_t accelParams)
{
const BYTE* const samples = (const BYTE*)samplesBuffer;
const size_t totalSamplesSize = COVER_sum(samplesSizes, nbSamples);
/* Split samples into testing and training sets */
const unsigned nbTrainSamples = splitPoint < 1.0 ? (unsigned)((double)nbSamples * splitPoint) : nbSamples;
const unsigned nbTestSamples = splitPoint < 1.0 ? nbSamples - nbTrainSamples : nbSamples;
const size_t trainingSamplesSize = splitPoint < 1.0 ? COVER_sum(samplesSizes, nbTrainSamples) : totalSamplesSize;
const size_t testSamplesSize = splitPoint < 1.0 ? COVER_sum(samplesSizes + nbTrainSamples, nbTestSamples) : totalSamplesSize;
/* Checks */
if (totalSamplesSize < MAX(d, sizeof(U64)) ||
totalSamplesSize >= (size_t)FASTCOVER_MAX_SAMPLES_SIZE) {
DISPLAYLEVEL(1, "Total samples size is too large (%u MB), maximum size is %u MB\n",
Gregory Szorc
zstandard: vendor python-zstandard 0.11...
r42237 (unsigned)(totalSamplesSize >> 20), (FASTCOVER_MAX_SAMPLES_SIZE >> 20));
Gregory Szorc
zstandard: vendor python-zstandard 0.12...
r43207 return ERROR(srcSize_wrong);
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 }
/* Check if there are at least 5 training samples */
if (nbTrainSamples < 5) {
DISPLAYLEVEL(1, "Total number of training samples is %u and is invalid\n", nbTrainSamples);
Gregory Szorc
zstandard: vendor python-zstandard 0.12...
r43207 return ERROR(srcSize_wrong);
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 }
/* Check if there's testing sample */
if (nbTestSamples < 1) {
DISPLAYLEVEL(1, "Total number of testing samples is %u and is invalid.\n", nbTestSamples);
Gregory Szorc
zstandard: vendor python-zstandard 0.12...
r43207 return ERROR(srcSize_wrong);
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 }
/* Zero the context */
memset(ctx, 0, sizeof(*ctx));
DISPLAYLEVEL(2, "Training on %u samples of total size %u\n", nbTrainSamples,
Gregory Szorc
zstandard: vendor python-zstandard 0.11...
r42237 (unsigned)trainingSamplesSize);
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 DISPLAYLEVEL(2, "Testing on %u samples of total size %u\n", nbTestSamples,
Gregory Szorc
zstandard: vendor python-zstandard 0.11...
r42237 (unsigned)testSamplesSize);
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157
ctx->samples = samples;
ctx->samplesSizes = samplesSizes;
ctx->nbSamples = nbSamples;
ctx->nbTrainSamples = nbTrainSamples;
ctx->nbTestSamples = nbTestSamples;
ctx->nbDmers = trainingSamplesSize - MAX(d, sizeof(U64)) + 1;
ctx->d = d;
ctx->f = f;
ctx->accelParams = accelParams;
/* The offsets of each file */
ctx->offsets = (size_t*)calloc((nbSamples + 1), sizeof(size_t));
if (ctx->offsets == NULL) {
DISPLAYLEVEL(1, "Failed to allocate scratch buffers \n");
FASTCOVER_ctx_destroy(ctx);
Gregory Szorc
zstandard: vendor python-zstandard 0.12...
r43207 return ERROR(memory_allocation);
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 }
/* Fill offsets from the samplesSizes */
{ U32 i;
ctx->offsets[0] = 0;
assert(nbSamples >= 5);
for (i = 1; i <= nbSamples; ++i) {
ctx->offsets[i] = ctx->offsets[i - 1] + samplesSizes[i - 1];
}
}
/* Initialize frequency array of size 2^f */
ctx->freqs = (U32*)calloc(((U64)1 << f), sizeof(U32));
if (ctx->freqs == NULL) {
DISPLAYLEVEL(1, "Failed to allocate frequency table \n");
FASTCOVER_ctx_destroy(ctx);
Gregory Szorc
zstandard: vendor python-zstandard 0.12...
r43207 return ERROR(memory_allocation);
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 }
DISPLAYLEVEL(2, "Computing frequencies\n");
FASTCOVER_computeFrequency(ctx->freqs, ctx);
Gregory Szorc
zstandard: vendor python-zstandard 0.12...
r43207 return 0;
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 }
/**
* Given the prepared context build the dictionary.
*/
static size_t
FASTCOVER_buildDictionary(const FASTCOVER_ctx_t* ctx,
U32* freqs,
void* dictBuffer, size_t dictBufferCapacity,
ZDICT_cover_params_t parameters,
U16* segmentFreqs)
{
BYTE *const dict = (BYTE *)dictBuffer;
size_t tail = dictBufferCapacity;
Gregory Szorc
zstandard: vendor python-zstandard 0.12...
r43207 /* Divide the data into epochs. We will select one segment from each epoch. */
const COVER_epoch_info_t epochs = COVER_computeEpochs(
(U32)dictBufferCapacity, (U32)ctx->nbDmers, parameters.k, 1);
const size_t maxZeroScoreRun = 10;
size_t zeroScoreRun = 0;
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 size_t epoch;
Gregory Szorc
zstandard: vendor python-zstandard 0.11...
r42237 DISPLAYLEVEL(2, "Breaking content into %u epochs of size %u\n",
Gregory Szorc
zstandard: vendor python-zstandard 0.12...
r43207 (U32)epochs.num, (U32)epochs.size);
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 /* Loop through the epochs until there are no more segments or the dictionary
* is full.
*/
Gregory Szorc
zstandard: vendor python-zstandard 0.12...
r43207 for (epoch = 0; tail > 0; epoch = (epoch + 1) % epochs.num) {
const U32 epochBegin = (U32)(epoch * epochs.size);
const U32 epochEnd = epochBegin + epochs.size;
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 size_t segmentSize;
/* Select a segment */
COVER_segment_t segment = FASTCOVER_selectSegment(
ctx, freqs, epochBegin, epochEnd, parameters, segmentFreqs);
Gregory Szorc
zstandard: vendor python-zstandard 0.12...
r43207 /* If the segment covers no dmers, then we are out of content.
* There may be new content in other epochs, for continue for some time.
*/
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 if (segment.score == 0) {
Gregory Szorc
zstandard: vendor python-zstandard 0.12...
r43207 if (++zeroScoreRun >= maxZeroScoreRun) {
break;
}
continue;
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 }
Gregory Szorc
zstandard: vendor python-zstandard 0.12...
r43207 zeroScoreRun = 0;
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157
/* Trim the segment if necessary and if it is too small then we are done */
segmentSize = MIN(segment.end - segment.begin + parameters.d - 1, tail);
if (segmentSize < parameters.d) {
break;
}
/* We fill the dictionary from the back to allow the best segments to be
* referenced with the smallest offsets.
*/
tail -= segmentSize;
memcpy(dict + tail, ctx->samples + segment.begin, segmentSize);
DISPLAYUPDATE(
2, "\r%u%% ",
Gregory Szorc
zstandard: vendor python-zstandard 0.11...
r42237 (unsigned)(((dictBufferCapacity - tail) * 100) / dictBufferCapacity));
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 }
DISPLAYLEVEL(2, "\r%79s\r", "");
return tail;
}
/**
* Parameters for FASTCOVER_tryParameters().
*/
typedef struct FASTCOVER_tryParameters_data_s {
const FASTCOVER_ctx_t* ctx;
COVER_best_t* best;
size_t dictBufferCapacity;
ZDICT_cover_params_t parameters;
} FASTCOVER_tryParameters_data_t;
/**
* Tries a set of parameters and updates the COVER_best_t with the results.
* This function is thread safe if zstd is compiled with multithreaded support.
* It takes its parameters as an *OWNING* opaque pointer to support threading.
*/
static void FASTCOVER_tryParameters(void *opaque)
{
/* Save parameters as local variables */
FASTCOVER_tryParameters_data_t *const data = (FASTCOVER_tryParameters_data_t *)opaque;
const FASTCOVER_ctx_t *const ctx = data->ctx;
const ZDICT_cover_params_t parameters = data->parameters;
size_t dictBufferCapacity = data->dictBufferCapacity;
size_t totalCompressedSize = ERROR(GENERIC);
/* Initialize array to keep track of frequency of dmer within activeSegment */
U16* segmentFreqs = (U16 *)calloc(((U64)1 << ctx->f), sizeof(U16));
/* Allocate space for hash table, dict, and freqs */
BYTE *const dict = (BYTE * const)malloc(dictBufferCapacity);
Gregory Szorc
zstandard: vendor python-zstandard 0.12...
r43207 COVER_dictSelection_t selection = COVER_dictSelectionError(ERROR(GENERIC));
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 U32 *freqs = (U32*) malloc(((U64)1 << ctx->f) * sizeof(U32));
if (!segmentFreqs || !dict || !freqs) {
DISPLAYLEVEL(1, "Failed to allocate buffers: out of memory\n");
goto _cleanup;
}
/* Copy the frequencies because we need to modify them */
memcpy(freqs, ctx->freqs, ((U64)1 << ctx->f) * sizeof(U32));
/* Build the dictionary */
{ const size_t tail = FASTCOVER_buildDictionary(ctx, freqs, dict, dictBufferCapacity,
Gregory Szorc
zstandard: vendor python-zstandard 0.12...
r43207 parameters, segmentFreqs);
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 const unsigned nbFinalizeSamples = (unsigned)(ctx->nbTrainSamples * ctx->accelParams.finalize / 100);
Gregory Szorc
zstandard: vendor python-zstandard 0.12...
r43207 selection = COVER_selectDict(dict + tail, dictBufferCapacity - tail,
ctx->samples, ctx->samplesSizes, nbFinalizeSamples, ctx->nbTrainSamples, ctx->nbSamples, parameters, ctx->offsets,
totalCompressedSize);
if (COVER_dictSelectionIsError(selection)) {
DISPLAYLEVEL(1, "Failed to select dictionary\n");
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 goto _cleanup;
}
}
_cleanup:
Gregory Szorc
zstandard: vendor python-zstandard 0.12...
r43207 free(dict);
COVER_best_finish(data->best, parameters, selection);
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 free(data);
free(segmentFreqs);
Gregory Szorc
zstandard: vendor python-zstandard 0.12...
r43207 COVER_dictSelectionFree(selection);
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 free(freqs);
}
static void
FASTCOVER_convertToCoverParams(ZDICT_fastCover_params_t fastCoverParams,
ZDICT_cover_params_t* coverParams)
{
coverParams->k = fastCoverParams.k;
coverParams->d = fastCoverParams.d;
coverParams->steps = fastCoverParams.steps;
coverParams->nbThreads = fastCoverParams.nbThreads;
coverParams->splitPoint = fastCoverParams.splitPoint;
coverParams->zParams = fastCoverParams.zParams;
Gregory Szorc
zstandard: vendor python-zstandard 0.12...
r43207 coverParams->shrinkDict = fastCoverParams.shrinkDict;
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 }
static void
FASTCOVER_convertToFastCoverParams(ZDICT_cover_params_t coverParams,
ZDICT_fastCover_params_t* fastCoverParams,
unsigned f, unsigned accel)
{
fastCoverParams->k = coverParams.k;
fastCoverParams->d = coverParams.d;
fastCoverParams->steps = coverParams.steps;
fastCoverParams->nbThreads = coverParams.nbThreads;
fastCoverParams->splitPoint = coverParams.splitPoint;
fastCoverParams->f = f;
fastCoverParams->accel = accel;
fastCoverParams->zParams = coverParams.zParams;
Gregory Szorc
zstandard: vendor python-zstandard 0.12...
r43207 fastCoverParams->shrinkDict = coverParams.shrinkDict;
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 }
ZDICTLIB_API size_t
ZDICT_trainFromBuffer_fastCover(void* dictBuffer, size_t dictBufferCapacity,
const void* samplesBuffer,
const size_t* samplesSizes, unsigned nbSamples,
ZDICT_fastCover_params_t parameters)
{
BYTE* const dict = (BYTE*)dictBuffer;
FASTCOVER_ctx_t ctx;
ZDICT_cover_params_t coverParams;
FASTCOVER_accel_t accelParams;
/* Initialize global data */
g_displayLevel = parameters.zParams.notificationLevel;
/* Assign splitPoint and f if not provided */
parameters.splitPoint = 1.0;
parameters.f = parameters.f == 0 ? DEFAULT_F : parameters.f;
parameters.accel = parameters.accel == 0 ? DEFAULT_ACCEL : parameters.accel;
/* Convert to cover parameter */
memset(&coverParams, 0 , sizeof(coverParams));
FASTCOVER_convertToCoverParams(parameters, &coverParams);
/* Checks */
if (!FASTCOVER_checkParameters(coverParams, dictBufferCapacity, parameters.f,
parameters.accel)) {
DISPLAYLEVEL(1, "FASTCOVER parameters incorrect\n");
Gregory Szorc
zstandard: vendor python-zstandard 0.12...
r43207 return ERROR(parameter_outOfBound);
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 }
if (nbSamples == 0) {
DISPLAYLEVEL(1, "FASTCOVER must have at least one input file\n");
Gregory Szorc
zstandard: vendor python-zstandard 0.12...
r43207 return ERROR(srcSize_wrong);
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 }
if (dictBufferCapacity < ZDICT_DICTSIZE_MIN) {
DISPLAYLEVEL(1, "dictBufferCapacity must be at least %u\n",
ZDICT_DICTSIZE_MIN);
return ERROR(dstSize_tooSmall);
}
/* Assign corresponding FASTCOVER_accel_t to accelParams*/
accelParams = FASTCOVER_defaultAccelParameters[parameters.accel];
/* Initialize context */
Gregory Szorc
zstandard: vendor python-zstandard 0.12...
r43207 {
size_t const initVal = FASTCOVER_ctx_init(&ctx, samplesBuffer, samplesSizes, nbSamples,
Gregory Szorc
zstandard: vendor python-zstandard 0.10.1...
r40157 coverParams.d, parameters.splitPoint, parameters.f,
Gregory Szorc
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r43207 accelParams);
if (ZSTD_isError(initVal)) {
DISPLAYLEVEL(1, "Failed to initialize context\n");
return initVal;
}
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r40157 }
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r43207 COVER_warnOnSmallCorpus(dictBufferCapacity, ctx.nbDmers, g_displayLevel);
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r40157 /* Build the dictionary */
DISPLAYLEVEL(2, "Building dictionary\n");
{
/* Initialize array to keep track of frequency of dmer within activeSegment */
U16* segmentFreqs = (U16 *)calloc(((U64)1 << parameters.f), sizeof(U16));
const size_t tail = FASTCOVER_buildDictionary(&ctx, ctx.freqs, dictBuffer,
dictBufferCapacity, coverParams, segmentFreqs);
const unsigned nbFinalizeSamples = (unsigned)(ctx.nbTrainSamples * ctx.accelParams.finalize / 100);
const size_t dictionarySize = ZDICT_finalizeDictionary(
dict, dictBufferCapacity, dict + tail, dictBufferCapacity - tail,
samplesBuffer, samplesSizes, nbFinalizeSamples, coverParams.zParams);
if (!ZSTD_isError(dictionarySize)) {
DISPLAYLEVEL(2, "Constructed dictionary of size %u\n",
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r42237 (unsigned)dictionarySize);
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r40157 }
FASTCOVER_ctx_destroy(&ctx);
free(segmentFreqs);
return dictionarySize;
}
}
ZDICTLIB_API size_t
ZDICT_optimizeTrainFromBuffer_fastCover(
void* dictBuffer, size_t dictBufferCapacity,
const void* samplesBuffer,
const size_t* samplesSizes, unsigned nbSamples,
ZDICT_fastCover_params_t* parameters)
{
ZDICT_cover_params_t coverParams;
FASTCOVER_accel_t accelParams;
/* constants */
const unsigned nbThreads = parameters->nbThreads;
const double splitPoint =
parameters->splitPoint <= 0.0 ? DEFAULT_SPLITPOINT : parameters->splitPoint;
const unsigned kMinD = parameters->d == 0 ? 6 : parameters->d;
const unsigned kMaxD = parameters->d == 0 ? 8 : parameters->d;
const unsigned kMinK = parameters->k == 0 ? 50 : parameters->k;
const unsigned kMaxK = parameters->k == 0 ? 2000 : parameters->k;
const unsigned kSteps = parameters->steps == 0 ? 40 : parameters->steps;
const unsigned kStepSize = MAX((kMaxK - kMinK) / kSteps, 1);
const unsigned kIterations =
(1 + (kMaxD - kMinD) / 2) * (1 + (kMaxK - kMinK) / kStepSize);
const unsigned f = parameters->f == 0 ? DEFAULT_F : parameters->f;
const unsigned accel = parameters->accel == 0 ? DEFAULT_ACCEL : parameters->accel;
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r43207 const unsigned shrinkDict = 0;
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r40157 /* Local variables */
const int displayLevel = parameters->zParams.notificationLevel;
unsigned iteration = 1;
unsigned d;
unsigned k;
COVER_best_t best;
POOL_ctx *pool = NULL;
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r43207 int warned = 0;
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r40157 /* Checks */
if (splitPoint <= 0 || splitPoint > 1) {
LOCALDISPLAYLEVEL(displayLevel, 1, "Incorrect splitPoint\n");
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r43207 return ERROR(parameter_outOfBound);
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r40157 }
if (accel == 0 || accel > FASTCOVER_MAX_ACCEL) {
LOCALDISPLAYLEVEL(displayLevel, 1, "Incorrect accel\n");
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r43207 return ERROR(parameter_outOfBound);
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r40157 }
if (kMinK < kMaxD || kMaxK < kMinK) {
LOCALDISPLAYLEVEL(displayLevel, 1, "Incorrect k\n");
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r43207 return ERROR(parameter_outOfBound);
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r40157 }
if (nbSamples == 0) {
LOCALDISPLAYLEVEL(displayLevel, 1, "FASTCOVER must have at least one input file\n");
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r43207 return ERROR(srcSize_wrong);
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r40157 }
if (dictBufferCapacity < ZDICT_DICTSIZE_MIN) {
LOCALDISPLAYLEVEL(displayLevel, 1, "dictBufferCapacity must be at least %u\n",
ZDICT_DICTSIZE_MIN);
return ERROR(dstSize_tooSmall);
}
if (nbThreads > 1) {
pool = POOL_create(nbThreads, 1);
if (!pool) {
return ERROR(memory_allocation);
}
}
/* Initialization */
COVER_best_init(&best);
memset(&coverParams, 0 , sizeof(coverParams));
FASTCOVER_convertToCoverParams(*parameters, &coverParams);
accelParams = FASTCOVER_defaultAccelParameters[accel];
/* Turn down global display level to clean up display at level 2 and below */
g_displayLevel = displayLevel == 0 ? 0 : displayLevel - 1;
/* Loop through d first because each new value needs a new context */
LOCALDISPLAYLEVEL(displayLevel, 2, "Trying %u different sets of parameters\n",
kIterations);
for (d = kMinD; d <= kMaxD; d += 2) {
/* Initialize the context for this value of d */
FASTCOVER_ctx_t ctx;
LOCALDISPLAYLEVEL(displayLevel, 3, "d=%u\n", d);
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r43207 {
size_t const initVal = FASTCOVER_ctx_init(&ctx, samplesBuffer, samplesSizes, nbSamples, d, splitPoint, f, accelParams);
if (ZSTD_isError(initVal)) {
LOCALDISPLAYLEVEL(displayLevel, 1, "Failed to initialize context\n");
COVER_best_destroy(&best);
POOL_free(pool);
return initVal;
}
}
if (!warned) {
COVER_warnOnSmallCorpus(dictBufferCapacity, ctx.nbDmers, displayLevel);
warned = 1;
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r40157 }
/* Loop through k reusing the same context */
for (k = kMinK; k <= kMaxK; k += kStepSize) {
/* Prepare the arguments */
FASTCOVER_tryParameters_data_t *data = (FASTCOVER_tryParameters_data_t *)malloc(
sizeof(FASTCOVER_tryParameters_data_t));
LOCALDISPLAYLEVEL(displayLevel, 3, "k=%u\n", k);
if (!data) {
LOCALDISPLAYLEVEL(displayLevel, 1, "Failed to allocate parameters\n");
COVER_best_destroy(&best);
FASTCOVER_ctx_destroy(&ctx);
POOL_free(pool);
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r43207 return ERROR(memory_allocation);
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r40157 }
data->ctx = &ctx;
data->best = &best;
data->dictBufferCapacity = dictBufferCapacity;
data->parameters = coverParams;
data->parameters.k = k;
data->parameters.d = d;
data->parameters.splitPoint = splitPoint;
data->parameters.steps = kSteps;
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r43207 data->parameters.shrinkDict = shrinkDict;
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r40157 data->parameters.zParams.notificationLevel = g_displayLevel;
/* Check the parameters */
if (!FASTCOVER_checkParameters(data->parameters, dictBufferCapacity,
data->ctx->f, accel)) {
DISPLAYLEVEL(1, "FASTCOVER parameters incorrect\n");
free(data);
continue;
}
/* Call the function and pass ownership of data to it */
COVER_best_start(&best);
if (pool) {
POOL_add(pool, &FASTCOVER_tryParameters, data);
} else {
FASTCOVER_tryParameters(data);
}
/* Print status */
LOCALDISPLAYUPDATE(displayLevel, 2, "\r%u%% ",
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r42237 (unsigned)((iteration * 100) / kIterations));
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r40157 ++iteration;
}
COVER_best_wait(&best);
FASTCOVER_ctx_destroy(&ctx);
}
LOCALDISPLAYLEVEL(displayLevel, 2, "\r%79s\r", "");
/* Fill the output buffer and parameters with output of the best parameters */
{
const size_t dictSize = best.dictSize;
if (ZSTD_isError(best.compressedSize)) {
const size_t compressedSize = best.compressedSize;
COVER_best_destroy(&best);
POOL_free(pool);
return compressedSize;
}
FASTCOVER_convertToFastCoverParams(best.parameters, parameters, f, accel);
memcpy(dictBuffer, best.dict, dictSize);
COVER_best_destroy(&best);
POOL_free(pool);
return dictSize;
}
}