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/*++
Module Name:
DataWriter.cpp
Abstract:
General file writer.
Environment:
User mode service.
Not thread safe.
--*/
#include "stdafx.h"
#include "BigAlloc.h"
#include "Compat.h"
#include "DataWriter.h"
#include "ParallelTask.h"
#include "exit.h"
#include "Bam.h"
#include "Error.h"
using std::min;
using std::max;
//#define VALIDATE_WRITE 1
char *
DataWriterSupplier::generateSortIntermediateFilePathName(AlignerOptions *options)
{
const char * tempExtension = ".tmp";
char* tempFileName;
if (NULL != options->sortIntermediateDirectory) {
//
// Pathname is sortIntermediateDirectory + PATH_SEP + terminal component of outputFile.fileName + .tmp
//
const char *terminalComponent = strrchr(options->outputFile.fileName, PATH_SEP);
if (NULL == terminalComponent) {
terminalComponent = options->outputFile.fileName;
}
else {
terminalComponent++; // Skips over the PATH_SEP
}
size_t len = strlen(options->sortIntermediateDirectory) + 1 + strlen(terminalComponent) + strlen(tempExtension) + 1; // Last +1 for string terminating null
// todo: this is going to leak, but there's no easy way to free it, and it's small...
tempFileName = new char[len];
sprintf(tempFileName, "%s%c%s%s", options->sortIntermediateDirectory, PATH_SEP, terminalComponent, tempExtension);
} else {
size_t len = strlen(options->outputFile.fileName) + strlen(tempExtension) + 1;
// todo: this is going to leak, but there's no easy way to free it, and it's small...
tempFileName = new char[len];
sprintf(tempFileName, "%s%s", options->outputFile.fileName, tempExtension);
}
return tempFileName;
}
class AsyncDataWriterSupplier : public DataWriterSupplier
{
public:
AsyncDataWriterSupplier(const char* i_filename, DataWriter::FilterSupplier* i_filterSupplier,
FileEncoder* i_encoder, int i_bufferCount, size_t i_bufferSize);
~AsyncDataWriterSupplier()
{
delete filterSupplier;
}
virtual DataWriter* getWriter();
virtual void close();
private:
friend class AsyncDataWriter;
friend class FileEncoder;
void advance(size_t physical, size_t logical, size_t* o_physical, size_t* o_logical);
const char* filename;
AsyncFile* file;
DataWriter::FilterSupplier* filterSupplier;
FileEncoder* encoder;
const int bufferCount;
const size_t bufferSize;
ExclusiveLock lock;
size_t sharedOffset;
size_t sharedLogical;
bool closing;
};
class AsyncDataWriter : public DataWriter
{
public:
AsyncDataWriter(AsyncFile* i_file, AsyncDataWriterSupplier* i_supplier,
int i_count, size_t i_bufferSize, Filter* i_filter, FileEncoder* i_encoder);
virtual ~AsyncDataWriter()
{
for (int i = 0; i < count; i++) {
delete batches[i].file;
BigDealloc(batches[i].buffer);
batches[i].buffer = NULL;
}
delete [] batches;
DestroyExclusiveLock(&lock);
if (NULL != filter) {
delete filter;
filter = NULL;
}
} // ~AsyncDataWriter
virtual bool getBuffer(char** o_buffer, size_t* o_size);
virtual void advance(GenomeDistance bytes, GenomeLocation location = 0);
virtual bool getBatch(int relative, char** o_buffer, size_t* o_size, size_t* o_used, size_t* o_offset, size_t* o_logicalUsed = 0, size_t* o_logicalOffset = NULL);
virtual bool nextBatch(bool lastBatch = false);
virtual void close();
private:
void acquireLock()
{ if (encoder != NULL) { AcquireExclusiveLock(&lock); } }
void releaseLock()
{ if (encoder != NULL) { ReleaseExclusiveLock(&lock); } }
struct Batch
{
char* buffer;
AsyncFile::Writer* file;
size_t bufferSizeInit;
size_t bufferSize;
size_t used;
size_t fileOffset;
size_t logicalUsed;
size_t logicalOffset;
EventObject encoded;
};
Batch* batches;
const int count;
AsyncDataWriterSupplier* supplier;
int current;
FileEncoder* encoder;
ExclusiveLock lock;
friend class FileEncoder;
};
FileEncoder::FileEncoder(
int numThreads,
bool bindToProcessors,
ParallelWorkerManager* i_manager)
:
encoderRunning(false),
coworker(numThreads == 0 ? NULL
: new ParallelCoworker(numThreads, bindToProcessors, i_manager, FileEncoder::outputReadyCallback, this)),
manager(i_manager)
{}
void
FileEncoder::initialize(
AsyncDataWriter* i_writer)
{
writer = i_writer;
lock = &writer->lock;
encoderBatch = writer->count - 1;
if (coworker != NULL) {
coworker->getManager()->initialize(this);
coworker->start();
}
}
void
FileEncoder::inputReady()
{
AcquireExclusiveLock(lock);
if (! encoderRunning) {
checkForInput();
}
ReleaseExclusiveLock(lock);
}
void
FileEncoder::close()
{
// wait for pending encodes
AcquireExclusiveLock(lock);
int start = encoderBatch;
int pending = (writer->current + writer->count - start) % writer->count;
ReleaseExclusiveLock(lock);
for (int i = 0; i < pending; i++) {
WaitForEvent(&writer->batches[(start + i) % writer->count].encoded);
}
coworker->stop();
}
void
FileEncoder::outputReadyCallback(
void *p)
{
((FileEncoder*) p)->outputReady();
}
void
FileEncoder::outputReady()
{
AcquireExclusiveLock(lock);
encoderRunning = false;
// begin writing the buffer to disk
AsyncDataWriter::Batch* write = &writer->batches[encoderBatch];
writer->supplier->advance(write->used, 0, &write->fileOffset, &write->logicalOffset);
#ifdef VALIDATE_WRITE
fprintf(stderr, "outputReady beginWrite #%d @%lld: %lld bytes\n", encoderBatch, write->fileOffset, write->used);
if (!BgzfHeader::validate(write->buffer, write->used)) {
WriteErrorMessage("BGZF Header validation failed. toUsed:%lld\n", write->used);
soft_exit(1);
}
#endif
if (! write->file->beginWrite(write->buffer, write->used, write->fileOffset, NULL)) {
WriteErrorMessage("error: file write %lld bytes at offset %lld failed\n", write->used, write->fileOffset);
soft_exit(1);
}
//
// Shrink MarkDup buffers to reduce memory consumption
//
if (write->bufferSize > write->bufferSizeInit) {
if (!write->file->waitForCompletion()) {
WriteErrorMessage("error: file write failed\n");
soft_exit(1);
}
size_t newBufferSize = write->bufferSizeInit;
char* newBuffer = (char*)BigAlloc(newBufferSize);
if (newBuffer == NULL) {
WriteErrorMessage("Unable to allocate %lld bytes for write buffer\n", newBufferSize);
soft_exit(1);
}
#ifdef VALIDATE_WRITE
fprintf(stderr, "Shrinking MarkDup buffer from %lld to %lld bytes\n", write->bufferSize, newBufferSize);
#endif
BigDealloc(write->buffer);
write->buffer = newBuffer;
write->bufferSize = newBufferSize;
}
AllowEventWaitersToProceed(&write->encoded);
// check for more work
checkForInput();
ReleaseExclusiveLock(lock);
}
void
FileEncoder::checkForInput()
{
// look for another block ready to encode
while (true) {
int nextBatch = (encoderBatch + 1) % writer->count;
if (nextBatch == writer->current) {
break;
}
encoderBatch = nextBatch;
AsyncDataWriter::Batch* encode = &writer->batches[encoderBatch];
#ifdef VALIDATE_WRITE
fprintf(stderr, "Encoding batch %d, used %lld\n", encoderBatch, encode->used);
#endif
encoderRunning = true;
coworker->step();
break;
}
}
void
FileEncoder::setupEncode(
int relative)
{
encoderBatch = (writer->current + relative + writer->count) % writer->count;
}
void
FileEncoder::getEncodeBatch(
char** o_batch,
size_t* o_batchSize,
size_t* o_batchUsed)
{
AsyncDataWriter::Batch* batch = &writer->batches[encoderBatch];
*o_batch = batch->buffer;
*o_batchSize = batch->bufferSize;
*o_batchUsed = batch->used;
//fprintf(stderr, "getEncodeBatch #%d: %lld/%lld\n", encoderBatch, batch->used, batch->bufferSize);
}
void
FileEncoder::getOffsets(
size_t* o_logicalOffset,
size_t* o_physicalOffset)
{
// logical has already been set correctly in batch
*o_logicalOffset = writer->batches[encoderBatch].logicalOffset;
// physical is not yet updated, use shared
*o_physicalOffset = writer->supplier->sharedOffset;
}
void
FileEncoder::setEncodedBatchSize(
size_t newSize)
{
size_t old = writer->batches[encoderBatch].used;
//fprintf(stderr, "setEncodedBatchSize #%d %lld -> %lld\n", encoderBatch, old, newSize);
if (newSize != old) {
AcquireExclusiveLock(lock);
AsyncDataWriter::Batch* batch = &writer->batches[encoderBatch];
batch->logicalUsed = batch->used;
batch->used = newSize;
ReleaseExclusiveLock(lock);
}
}
AsyncDataWriter::AsyncDataWriter(
AsyncFile* i_file,
AsyncDataWriterSupplier* i_supplier,
int i_count,
size_t i_bufferSize,
Filter* i_filter,
FileEncoder* i_encoder)
:
DataWriter(i_filter),
encoder(i_encoder),
supplier(i_supplier),
count(i_count),
current(0)
{
_ASSERT(count >= 2);
batches = new Batch[count];
for (int i = 0; i < count; i++) {
batches[i].buffer = (char*)BigAlloc(i_bufferSize);
if (batches[i].buffer == NULL) {
WriteErrorMessage("Unable to allocate %lld bytes for write buffer\n", i_bufferSize);
soft_exit(1);
}
batches[i].bufferSizeInit = i_bufferSize;
batches[i].bufferSize = i_bufferSize;
batches[i].file = i_file->getWriter();
batches[i].used = 0;
batches[i].fileOffset = 0;
batches[i].logicalUsed = 0;
batches[i].logicalOffset = 0;
if (encoder != NULL) {
CreateEventObject(&batches[i].encoded);
AllowEventWaitersToProceed(&batches[i].encoded); // initialize so empty bufs are available
}
}
InitializeExclusiveLock(&lock);
if (encoder != NULL) {
encoder->initialize(this);
}
}
bool
AsyncDataWriter::getBuffer(
char** o_buffer,
size_t* o_size)
{
*o_buffer = batches[current].buffer + batches[current].used;
*o_size = batches[current].bufferSize - batches[current].used;
return true;
}
void
AsyncDataWriter::advance(
GenomeDistance bytes,
GenomeLocation location)
{
_ASSERT((size_t)bytes <= batches[current].bufferSize - batches[current].used);
char* data = batches[current].buffer + batches[current].used;
size_t batchOffset = batches[current].used;
batches[current].used = min<long long>(batches[current].bufferSize, batchOffset + bytes);
if (filter != NULL) {
//_int64 start = timeInNanos();
filter->onAdvance(this, batchOffset, data, bytes, location);
//InterlockedAdd64AndReturnNewValue(&FilterTime, timeInNanos() - start);
}
}
bool
AsyncDataWriter::getBatch(
int relative,
char** o_buffer,
size_t* o_size,
size_t* o_used,
size_t* o_offset,
size_t* o_logicalUsed,
size_t* o_logicalOffset)
{
if (relative < 1 - count || relative > count - 1) {
return false;
}
if (encoder != NULL && relative <= ((encoder->encoderBatch - current + count) % count) - count) {
return false;
}
int index = (current + relative + count) % count; // ensure non-negative
Batch* batch = &batches[index];
*o_buffer = batch->buffer;
if (o_size != NULL) {
*o_size = batch->bufferSize;
}
if (o_used != NULL) {
*o_used = relative <= 0 ? batch->used : 0;
}
if (o_offset != NULL) {
*o_offset = relative <= 0 ? batch->fileOffset : 0;
}
if (o_logicalUsed != NULL) {
*o_logicalUsed = relative <=0 ? batch->logicalUsed: 0;
}
if (o_logicalOffset != NULL) {
*o_logicalOffset = relative <=0 ? batch->logicalOffset : 0;
}
if (relative >= 0) {
if (encoder != NULL) {
WaitForEvent(&batch->encoded);
}
batch->file->waitForCompletion();
}
return true;
}
bool
AsyncDataWriter::nextBatch(bool lastBatch)
{
_int64 start = timeInNanos();
if (encoder != NULL) {
WaitForEvent(&batches[(current + 1) % count].encoded);
}
acquireLock();
int written = current;
Batch* write = &batches[written];
write->logicalUsed = write->used;
current = (current + 1) % count;
if (!batches[current].file->waitForCompletion()) {
WriteErrorMessage("error: file write failed\n");
soft_exit(1);
}
#ifdef VALIDATE_WRITE
fprintf(stderr, "nextBatch reset %d used=0 count %d\n", current, count);
#endif
batches[current].used = 0;
bool newBuffer = filter != NULL && (filter->filterType == CopyFilter || filter->filterType == TransformFilter);
bool newSize = filter != NULL && (filter->filterType == TransformFilter || filter->filterType == ResizeFilter || filter->filterType == DupMarkFilter);
if (newSize) {
// advisory only
write->fileOffset = supplier->sharedOffset;
write->logicalOffset = supplier->sharedLogical;
} else {
supplier->advance(encoder == NULL ? write->used : 0, write->logicalUsed, &write->fileOffset, &write->logicalOffset);
}
bool suppressWrite = false;
if (filter != NULL) {
bool needMoreBuffer = false; // Does MarkDup require a larger buffer to store all duplicate candidates
size_t bytesRead = 0;
size_t n = filter->onNextBatch(this, write->fileOffset, write->used, lastBatch, &needMoreBuffer, &bytesRead);
if (n == UINT64_MAX) // The filter's hacky way of telling us it's squirreled away the data and we shouldn't write it to the file.
{
_ASSERT(!newSize);
_ASSERT(lastBatch); // Is this really necessary? You could imagine filters that save more than the last batch.
suppressWrite = true;
}
if (newSize) {
if (filter->filterType == DupMarkFilter) {
if (needMoreBuffer) {
size_t newBufferSize = write->bufferSize * 2;
char* newBuffer = (char*)BigAlloc(newBufferSize);
if (newBuffer == NULL) {
WriteErrorMessage("Unable to allocate %lld bytes for write buffer\n", newBufferSize);
soft_exit(1);
}
memcpy(newBuffer, write->buffer, write->used);
BigDealloc(batches[current].buffer);
batches[current].used = write->used;
batches[current].logicalUsed = batches[current].used;
batches[current].bufferSize = newBufferSize;
batches[current].buffer = newBuffer;
#ifdef VALIDATE_WRITE
fprintf(stderr, "1-Realloc MarkDup buffer. Used: %lld New: %lld\n", write->used, newBufferSize);
#endif
write->used = 0;
write->logicalUsed = 0;
} else if (bytesRead < write->used) {
batches[current].used = write->used - bytesRead;
batches[current].logicalUsed = batches[current].used;
if (batches[current].used > batches[current].bufferSize) {
size_t newBufferSize = write->bufferSize;
char* newBuffer = (char*)BigAlloc(newBufferSize);
if (newBuffer == NULL) {
WriteErrorMessage("Unable to allocate %lld bytes for write buffer\n", newBufferSize);
soft_exit(1);
}
memcpy(newBuffer, write->buffer + bytesRead, batches[current].used);
BigDealloc(batches[current].buffer);
batches[current].bufferSize = newBufferSize;
batches[current].buffer = newBuffer;
#ifdef VALIDATE_WRITE
fprintf(stderr, "2-Realloc MarkDup buffer. Used: %lld New: %lld\n", write->used, newBufferSize);
#endif
} else {
memcpy(batches[current].buffer, write->buffer + bytesRead, batches[current].used);
}
write->used = n;
write->logicalUsed = n;
}
}
write->used = n;
#ifdef VALIDATE_WRITE
fprintf(stderr, "batch:%d, used:%lld, logicalUsed:%lld, batchSize:%lld, filterType:%d\n", written, write->used, write->logicalUsed, write->bufferSize, filter->filterType);
#endif
supplier->advance(encoder == NULL ? write->used : 0, write->logicalUsed, &write->fileOffset, &write->logicalOffset);
}
if (newBuffer) {
// current has used>0, written has logicalUsed>0, for compressed & uncompressed data respectively
batches[current].used = write->used;
batches[current].fileOffset = write->fileOffset;
batches[current].logicalUsed = 0;
batches[current].logicalOffset = write->logicalOffset;
write->used = 0;
written = current;
write = &batches[written];
current = (current + 1) % count;
if (!batches[current].file->waitForCompletion()) {
WriteErrorMessage("error: file write failed\n");
soft_exit(1);
}
batches[current].used = 0;
batches[current].logicalUsed = 0;
}
}
_int64 start2 = timeInNanos();
releaseLock();
InterlockedAdd64AndReturnNewValue(&FilterTime, start2 - start);
if (encoder == NULL) {
//_ASSERT(BgzfHeader::validate(write->buffer, write->used)); //!! remove before checkin
if (!suppressWrite) {
if (!write->file->beginWrite(write->buffer, write->used, write->fileOffset, NULL)) {
WriteErrorMessage("error: file write %lld bytes at offset %lld failed\n", write->used, write->fileOffset);
soft_exit(1);
}
}
} else {
PreventEventWaitersFromProceeding(&write->encoded);
encoder->inputReady();
}
InterlockedAdd64AndReturnNewValue(&WaitTime, timeInNanos() - start2);
return true;
}
void
AsyncDataWriter::close()
{
nextBatch(true); // ensure last buffer gets written. true says its the last buffer for anyone who cares
if (encoder != NULL) {
encoder->close();
for (int i = 0; i < count; i++) {
DestroyEventObject(&batches[i].encoded);
}
}
for (int i = 0; i < count; i++) {
batches[i].file->close();
}
}
AsyncDataWriterSupplier::AsyncDataWriterSupplier(
const char* i_filename,
DataWriter::FilterSupplier* i_filterSupplier,
FileEncoder* i_encoder,
int i_bufferCount,
size_t i_bufferSize)
:
filename(i_filename),
filterSupplier(i_filterSupplier),
encoder(i_encoder),
bufferCount(i_bufferCount),
bufferSize(i_bufferSize),
sharedOffset(0),
sharedLogical(0),
closing(false)
{
file = AsyncFile::open(filename, true);
if (file == NULL) {
WriteErrorMessage("failed to open %s for write\n", filename);
soft_exit(1);
}
InitializeExclusiveLock(&lock);
}
DataWriter*
AsyncDataWriterSupplier::getWriter()
{
return new AsyncDataWriter(file, this, bufferCount, bufferSize,
filterSupplier && ! closing ? filterSupplier->getFilter() : NULL,
closing ? NULL : encoder);
}
void
AsyncDataWriterSupplier::close()
{
closing = true;
if (filterSupplier != NULL) {
filterSupplier->onClosing(this);
}
file->close();
if (filterSupplier != NULL) {
filterSupplier->onClosed(this);
}
DestroyExclusiveLock(&lock);
}
void
AsyncDataWriterSupplier::advance(
size_t physical,
size_t logical,
size_t* o_physical,
size_t* o_logical)
{
AcquireExclusiveLock(&lock);
*o_physical = sharedOffset;
sharedOffset += physical;
*o_logical = sharedLogical;
sharedLogical += logical;
#ifdef VALIDATE_WRITE
fprintf(stderr, "advance %lld + %lld = %lld, logical %lld + %lld = %lld\n", *o_physical, physical, sharedOffset, *o_logical, logical, sharedLogical);
#endif
ReleaseExclusiveLock(&lock);
}
DataWriterSupplier*
DataWriterSupplier::create(
const char* filename,
size_t bufferSize,
bool emitInternalScore,
char *internalScoreTag,
DataWriter::FilterSupplier* filterSupplier,
FileEncoder* encoder,
int count)
{
return new AsyncDataWriterSupplier(filename, filterSupplier, encoder, count, bufferSize);
}
class ComposeFilter : public DataWriter::Filter
{
public:
ComposeFilter(DataWriter::Filter* i_a, DataWriter::Filter* i_b) :
Filter(max(i_a->filterType, i_b->filterType)), a(i_a), b(i_b) {}
virtual ~ComposeFilter()
{ delete a; delete b; }
virtual void inHeader(bool flag)
{
a->inHeader(flag);
b->inHeader(flag);
}
virtual void onAdvance(DataWriter* writer, size_t batchOffset, char* data, GenomeDistance bytes, GenomeLocation location)
{
a->onAdvance(writer, batchOffset, data, bytes, location);
b->onAdvance(writer, batchOffset, data, bytes, location);
}
virtual size_t onNextBatch(DataWriter* writer, size_t offset, size_t bytes, bool lastBatch, bool* needMoreBuffer, size_t* fromBufferUsed)
{
size_t sa = a->onNextBatch(writer, offset, bytes, lastBatch, needMoreBuffer, fromBufferUsed);
size_t sb = b->onNextBatch(writer, offset, sa, lastBatch, needMoreBuffer, fromBufferUsed);
return sb;
}
private:
DataWriter::Filter* a;
DataWriter::Filter* b;
};
class ComposeFilterSupplier : public DataWriter::FilterSupplier
{
public:
ComposeFilterSupplier(DataWriter::FilterSupplier* i_a, DataWriter::FilterSupplier* i_b) :
FilterSupplier(max(i_a->filterType, i_b->filterType)), a(i_a), b(i_b) {}
virtual ~ComposeFilterSupplier()
{ delete a; delete b; }
virtual DataWriter::Filter* getFilter()
{ return new ComposeFilter(a->getFilter(), b->getFilter()); }
virtual void onClosing(DataWriterSupplier* supplier)
{
a->onClosing(supplier);
b->onClosing(supplier);
}
virtual void onClosed(DataWriterSupplier* supplier)
{
a->onClosed(supplier);
b->onClosed(supplier);
}
private:
DataWriter::FilterSupplier* a;
DataWriter::FilterSupplier* b;
};
DataWriter::FilterSupplier*
DataWriter::FilterSupplier::compose(
DataWriter::FilterSupplier* other)
{
return new ComposeFilterSupplier(this, other);
}
volatile _int64 DataWriter::WaitTime = 0;
volatile _int64 DataWriter::FilterTime = 0;
StdoutAsyncFile::StdoutAsyncFile()
{
if (anyCreated) {
WriteErrorMessage("You can only ever write to stdout once per SNAP run (even if you're doing multiple runs with the comma syntax\n");
soft_exit(1);
}
anyCreated = true;
#ifdef _MSC_VER
int result = _setmode( _fileno( stdout ), _O_BINARY ); // puts stdout in to non-translated mode, so if we're writing compressed data windows' CRLF processing doesn't destroy it.
if (-1 == result) {
WriteErrorMessage("StdoutAsyncFile::freopen to change to untranslated mode failed\n");
soft_exit(1);
}
#endif // _MSC_VER
writeElementQueue->next = writeElementQueue->prev = writeElementQueue;
highestOffsetCompleted = 0;
InitializeExclusiveLock(&lock);
CreateEventObject(&unexaminedElementsOnQueue);
CreateEventObject(&elementsCompleted);
PreventEventWaitersFromProceeding(&unexaminedElementsOnQueue);
PreventEventWaitersFromProceeding(&elementsCompleted);
CreateSingleWaiterObject(&consumerThreadDone);
closing = false;
StartNewThread(ConsumerThreadMain, this);
}
StdoutAsyncFile *
StdoutAsyncFile::open(const char *filename, bool write)
{
if (strcmp("-", filename) || !write) {
WriteErrorMessage("StdoutAsynFile must be named - and must be opened for write.\n");
soft_exit(1);
}
return new StdoutAsyncFile();
}
class StdoutAsyncFileWriter : public AsyncFile::Writer
{
public:
StdoutAsyncFileWriter(StdoutAsyncFile *i_asyncFile);
~StdoutAsyncFileWriter() {}
// waits for all writes to complete, frees resources
bool close();
// begin a write; if there is already a write in progress, might wait for it to complete
bool beginWrite(void* buffer, size_t length, size_t offset, size_t *bytesWritten);
// wait for all prior beginWrites to complete
bool waitForCompletion();
private:
bool anyWritesStarted;
size_t highestOffsetWritten;
StdoutAsyncFile *asyncFile;
};
StdoutAsyncFileWriter::StdoutAsyncFileWriter(StdoutAsyncFile *i_asyncFile)
{
asyncFile = i_asyncFile;
highestOffsetWritten = 0;
anyWritesStarted = false;
}
bool
StdoutAsyncFileWriter::close()
{
return waitForCompletion();
}
bool
StdoutAsyncFileWriter::beginWrite(void* buffer, size_t length, size_t offset, size_t *bytesWritten)
{
_ASSERT(offset > highestOffsetWritten || !anyWritesStarted);
//fprintf(stderr, "StdoutAsyncFileWriter::beginWrite(0x%llx, %lld, %lld)\n", buffer, length, offset);
asyncFile->beginWrite(buffer, length, offset, bytesWritten);
highestOffsetWritten = offset + length;
anyWritesStarted = true;
return true;
}
bool
StdoutAsyncFileWriter::waitForCompletion()
{
if (!anyWritesStarted) {
return true;
}
asyncFile->waitForCompletion(highestOffsetWritten);
return true;
}
StdoutAsyncFile::~StdoutAsyncFile()
{
DestroyExclusiveLock(&lock);
DestroyEventObject(&unexaminedElementsOnQueue);
DestroyEventObject(&elementsCompleted);
}
bool
StdoutAsyncFile::close()
{
AcquireExclusiveLock(&lock);
closing = true;
AllowEventWaitersToProceed(&unexaminedElementsOnQueue);
ReleaseExclusiveLock(&lock);
WaitForSingleWaiterObject(&consumerThreadDone);
return true;
}
AsyncFile::Writer*
StdoutAsyncFile::getWriter()
{
return new StdoutAsyncFileWriter(this);
}
AsyncFile::Reader*
StdoutAsyncFile::getReader()
{
WriteErrorMessage("StdoutAsyncFile::getReader() called.\n");
soft_exit(1);
return NULL;
}
_int64
StdoutAsyncFile::getSize()
{
return -1;
}
void
StdoutAsyncFile::ConsumerThreadMain(void *param)
{
StdoutAsyncFile *file = (StdoutAsyncFile *)param;
SingleWaiterObject *doneObject = &file->consumerThreadDone;
file->runConsumer();
SignalSingleWaiterObject(doneObject);
}
void
StdoutAsyncFile::beginWrite(void *buffer, size_t length, size_t offset, size_t *o_bytesWritten)
{
if (0 == length) {
return;
}
WriteElement *element = new WriteElement;
element->buffer = buffer;
element->length = length;
element->offset = offset;
element->o_bytesWritten = o_bytesWritten;
AcquireExclusiveLock(&lock);
_ASSERT(offset >= highestOffsetCompleted);
//
// The queue is in order. See if this element goes first.
//
if (isQueueEmpty() || offset < writeElementQueue->next->offset) {
_ASSERT(isQueueEmpty() || offset <= writeElementQueue->next->offset); // It fits entirely before the next element
element->enqueue(writeElementQueue);
if (element->offset == highestOffsetCompleted) {
//
// Wake the consumer, this is ready to write.
//
AllowEventWaitersToProceed(&unexaminedElementsOnQueue);
}
} else {
//
// It isn't the first thing on the queue. Figure out where it goes.
//
WriteElement *possiblePredecessor = writeElementQueue->next;
while (possiblePredecessor->next != writeElementQueue && possiblePredecessor->next->offset < offset) {
possiblePredecessor = possiblePredecessor->next;
}
_ASSERT(possiblePredecessor->offset < offset);
element->enqueue(possiblePredecessor);
}
ReleaseExclusiveLock(&lock);
}
void
StdoutAsyncFile::waitForCompletion(size_t offset)
{
AcquireExclusiveLock(&lock);
while (offset > highestOffsetCompleted) {
PreventEventWaitersFromProceeding(&elementsCompleted);
ReleaseExclusiveLock(&lock);
WaitForEvent(&elementsCompleted);
AcquireExclusiveLock(&lock);
}
ReleaseExclusiveLock(&lock);
}
void
StdoutAsyncFile::runConsumer()
{
size_t maxWriteSize = 1024 * 1024;
AcquireExclusiveLock(&lock);
for (;;) {
if (isQueueEmpty() && closing) {
ReleaseExclusiveLock(&lock);
//
// Done. The caller is responsible for signalling the consumerThreadDone object.
//
return;
}
if (isQueueEmpty() || writeElementQueue->next->offset != highestOffsetCompleted) {
//
// Wait for work.
//
ReleaseExclusiveLock(&lock);
WaitForEvent(&unexaminedElementsOnQueue);
AcquireExclusiveLock(&lock);
PreventEventWaitersFromProceeding(&unexaminedElementsOnQueue);
continue;
}
//
// We have the next write queued. Write it. Use a loop in case fwrite doesn't take the whole thing at once.
//
WriteElement *element = writeElementQueue->next;
//fprintf(stderr,"StdoutAsyncFile::runConsumer(): writing buffer at 0x%llx, size %lld\n", element->buffer, element->length);
ReleaseExclusiveLock(&lock);
size_t bytesLeftToWrite = element->length;
size_t totalBytesWritten = 0;
while (bytesLeftToWrite > 0) {
size_t bytesToWrite = __min(bytesLeftToWrite, maxWriteSize);
size_t bytesWritten = fwrite((char *)element->buffer + totalBytesWritten, 1, bytesToWrite, stdout);
_ASSERT(bytesWritten <= bytesToWrite);
if (0 == bytesWritten) {
if (ENOMEM == errno && maxWriteSize > 1024) {
//
// For whatever reason, sometimes trying to write too much to stdout generates an ENOMEM (though we have tons of memory).
// If we see that and we're not already at a small size, just reduce our max write size and try again.
//
maxWriteSize /= 2;
} else {
WriteErrorMessage("StdoutAsyncFile::runConsumer(): fwrite failed %d\n", errno);
soft_exit(1);
}
}
bytesLeftToWrite -= bytesWritten;
totalBytesWritten += bytesWritten;
}
if (NULL != element->o_bytesWritten) {
*element->o_bytesWritten = totalBytesWritten;
}
AcquireExclusiveLock(&lock);
_ASSERT(writeElementQueue->next == element);
element->dequeue();
highestOffsetCompleted = element->offset + element->length;
AllowEventWaitersToProceed(&elementsCompleted);
delete element;
}
/*NOTREACHED*/
}
void
StdoutAsyncFile::WriteElement::enqueue(WriteElement *previous)
{
next = previous->next;
prev = previous;
prev->next = this;
next->prev = this;
}
void
StdoutAsyncFile::WriteElement::dequeue()
{
next->prev = prev;
prev->next = next;
next = prev = NULL;
}
bool StdoutAsyncFile::anyCreated = false;
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