Home - News ( United States | United Kingdom | Italy | Germany ) - Football scores

Showing content from http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/doxyhtml/bgzf_8cpp_source.html below:

NCBI C++ ToolKit: src/sra/readers/bam/bgzf.cpp Source File

kSegmentSizePow2Max = 22;

kSegmentSizePow2Min = 18;

kMaxBufferSeconds = .5;

m_TotalReadSeconds(0),

m_PreviousReadBytes(0),

m_PreviousReadSeconds(0)

(

<<stat.first/

(1<<20)<<

<<stat.first/(stat.second*(1<<20))<<

<<stat.second);

( page->GetFilePos() != page_pos ) {

( page->GetFilePos() != page_pos ) {

( !page->Contains(file_pos) ) {

<<file_pos<<

);

add_read_bytes = 1000000;

add_read_bytes_per_second = 8e6;

add_read_bytes/add_read_bytes_per_second;

seconds_per_byte = read_seconds/read_bytes;

size_pow2 = kSegmentSizePow2Max;

seconds = (size_t(1)<<size_pow2)*seconds_per_byte;

( seconds > kMaxBufferSeconds && size_pow2 > kSegmentSizePow2Min ) {

<<

<<bytes<<

<<seconds<<

<<bytes/(seconds*(1<<20))<<

);

page.

.store(file_pos, memory_order_release);

page =

.GetPage(file_pos);

(page->Contains(file_pos));

* ptr = page->GetPagePtr();

off = size_t(file_pos - page->GetFilePos());

avail = page->GetPageSize() - off;

(

<= avail ) {

memcpy(dst, ptr+off, avail);

page =

.GetPage(file_pos);

(page->Contains(file_pos));

ptr = page->GetPagePtr();

off = size_t(file_pos - page->GetFilePos());

avail = page->GetPageSize() - off;

memcpy(dst, ptr+off,

);

<<

.first <<

<<

.second;

m_Data(new char[kMaxDataSize])

m_TotalUncompressBytes(0),

m_TotalUncompressSeconds(0)

(

<<stat.first/

(1<<20)<<

<<stat.first/(stat.second*(1<<20))<<

<<stat.second);

( block->GetFileBlockPos() != file_pos ) {

( block->GetFileBlockPos() != file_pos ) {

m_InReadBuffer(

::kMaxFileBlockSize),

(page->GetFilePos()+page->GetPageSize() == file_pos0) ) {

* header =

*

, page, file_pos);

(header[0] != 31 || header[1] !=

||

header[2] != 8 || header[3] != 4) {

<<file_pos0<<

<<

<<file_pos0<<

<<extra_size);

* more_extra =

(more_extra_dst, more_extra_size,

*

, page, file_pos);

file_pos += more_extra_size;

( more_extra != more_extra_dst ) {

memcpy(more_extra_dst, more_extra, more_extra_size);

( extra[0] ==

&& extra[1] ==

&&

extra_data_size == 2 &&

extra_block_size <= extra_size ) {

( extra_block_size >= extra_size ) {

extra_size -= extra_block_size;

extra += extra_block_size;

( block_size <= real_header_size +

) {

<<file_pos0<<

<<block_size);

* compressed_data =

*

, page, file_pos);

compressed_size = block_size - (real_header_size +

);

decompressed_size = 0;

* src = compressed_data;

src_size = compressed_size;

( stream.

!= src_size ||

<<file_pos0<<

<<

src_size<<

<<dst_size);

<<file_pos0<<

<<seconds<<

<<compressed_size/(seconds*(1<<20))<<

);

* footer = compressed_data + compressed_size;

<<file_pos0<<

<< data_size);

( decompressed_size != data_size ) {

<<file_pos0<<

<<

decompressed_size<<

<<data_size);

<<file_pos0<<

<<

(

<= avail ) {

static int s_GetDebug(void)

static const EFileMode kFileMode

static char * s_Reserve(size_t size, CSimpleBufferT< char > &buffer)

static const size_t kFixedHeaderSize

static const size_t kRequiredExtraSize

static const bool kCheckBlockCRC32

static const size_t kExtraHeaderSize

static const size_t kFooterSize

static const size_t kSegmentSize

static const size_t kSegmentSizePow2

NCBI_PARAM_DECL(int, BGZF, DEBUG)

ostream & operator<<(ostream &out, const CBGZFPos &p)

static const char * s_Read(char *buffer, size_t len, CPagedFile &file, CPagedFile::TPage &page, Uint8 file_pos)

static const size_t kInitialExtraSize

static CPagedFile::TFilePos s_GetPagePos(CPagedFile::TFilePos file_pos)

NCBI_PARAM_DEF_EX(int, BGZF, DEBUG, 0, eParam_NoThread, BGZF_DEBUG)

pair< CBGZFPos, CBGZFPos > CBGZFRange

Checksum and hash calculation classes.

static const TDataSize kMaxDataSize

atomic< TFileBlockPos > m_FileBlockPos

static const TFileBlockSize kMaxFileBlockSize

TFileBlockSize m_FileBlockSize

virtual const char * GetErrCodeString(void) const override

Get error code interpreted as text.

@ eInvalidArg

invalid function argument

@ eFormatError

includes decompression errors

bool x_ReadBlock(CBGZFBlock &block, TFileBlockPos file_pos, CPagedFile::TPage &page, CSimpleBufferT< char > &buffer)

pair< Uint8, double > GetUncompressStatistics() const

CBGZFPos::TFileBlockPos TFileBlockPos

void x_AddUncompressStatistics(Uint8 bytes, double seconds)

TBlock GetBlock(TFileBlockPos file_pos, CPagedFile::TPage &page, CSimpleBufferT< char > &buffer)

Uint8 m_TotalUncompressBytes

CBGZFFile(const string &file_name)

CRef< CPagedFile > m_File

double m_TotalUncompressSeconds

CRef< TBlockCache > m_BlockCache

TByteOffset GetByteOffset() const

TFileBlockPos GetFileBlockPos() const

static CBGZFPos GetInvalid()

CBGZFBlock::TFileBlockPos GetNextBlockFilePos() const

CBGZFBlock::TDataSize GetBlockDataSize() const

void Open(CBGZFFile &file)

void Seek(CBGZFPos pos, CBGZFPos end_pos=CBGZFPos::GetInvalid())

size_t GetNextAvailableBytes()

size_t Read(char *buf, size_t count)

bool HaveBytesInBlock() const

CBGZFPos::TByteOffset m_ReadPos

CBGZFFile::TBlock m_Block

CSimpleBufferT< char > m_OutReadBuffer

CSimpleBufferT< char > m_InReadBuffer

size_t ReadAll(size_t file_pos, char *buffer, size_t buffer_size)

CFastMutex & GetValueMutex()

const range_type & get_range() const

CFastMutex & GetValueMutex()

CChecksum – Checksum calculator.

atomic< TFilePos > m_FilePos

CMemoryFileMap * m_MemFile

CSimpleBufferT< char > m_Buffer

double m_PreviousReadSeconds

TPage GetPage(TFilePos pos)

void x_AddReadStatistics(Uint8 bytes, double seconds)

pair< Uint8, double > GetReadStatistics() const

AutoPtr< CMemoryFileMap > m_MemFile

CPagedFilePage::TFilePos TFilePos

CPagedFile(const string &file_name)

Uint8 m_PreviousReadBytes

void x_ReadPage(CPagedFilePage &page, TFilePos file_pos, size_t size)

double m_TotalReadSeconds

size_t GetNextPageSizePow2() const

void SetPreviousReadStatistics(const pair< Uint8, double > &stats)

CRef< TPageCache > m_PageCache

const value_type * data() const

void resize(size_type new_size)

std::ofstream out("events_result.xml")

main entry point for tests

void reset(element_type *p=0, EOwnership ownership=eTakeOwnership)

Reset will delete the old pointer (if owned), set content to the new value, and assume the ownership ...

element_type * get(void) const

Get pointer.

element_type * get(void) const

Get pointer.

Uint4 GetChecksum(void) const

Return calculated checksum.

void AddChars(const char *str, size_t len)

Update current control sum with data provided.

#define LOG_POST(message)

This macro is deprecated and it's strongly recomended to move in all projects (except tests) to macro...

TErrCode GetErrCode(void) const

Get error code.

void Warning(CExceptionArgs_Base &args)

#define NCBI_THROW_FMT(exception_class, err_code, message)

The same as NCBI_THROW but with message processed as output to ostream.

virtual const char * GetErrCodeString(void) const

Get error code interpreted as text.

void Info(CExceptionArgs_Base &args)

void Open(const string &filename, EOpenMode open_mode, EAccessMode access_mode, EShareMode share_mode=eShare)

Open file.

void * Map(TOffsetType offset, size_t length)

Map file segment.

bool Unmap(void *ptr)

Unmap file segment.

void SetFilePos(Uint8 position) const

Set file position from beginning of the file.

size_t Read(void *buf, size_t count) const

Read file.

@ eRead

File can be read.

@ eOpen

Open an existing file, or create a new one.

@ eMMS_Shared

Changes are shared.

@ eMMP_Read

Data can be read.

void Reset(void)

Reset reference object.

#define NCBI_PARAM_TYPE(section, name)

Generate typename for a parameter from its {section, name} attributes.

@ eParam_NoThread

Do not use per-thread values.

uint32_t Uint4

4-byte (32-bit) unsigned integer

uint64_t Uint8

8-byte (64-bit) unsigned integer

position_type GetLength(void) const

position_type GetFrom(void) const

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define END_SCOPE(ns)

End the previously defined scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

#define BEGIN_SCOPE(ns)

Define a new scope.

double Elapsed(void) const

Return time elapsed since first Start() or last Restart() call (in seconds).

@ eStart

Start timer immediately after creating.

static void hex(unsigned char c)

const struct ncbi::grid::netcache::search::fields::SIZE size

const GenericPointer< typename T::ValueType > T2 value

double r(size_t dimension_, const Int4 *score_, const double *prob_, double theta_)

static Uint4 MakeUint4(const char *buf)

static Uint2 MakeUint2(const char *buf)

#define inflateInit2(strm, windowBits)

RetroSearch is an open source project built by @garambo | Open a GitHub Issue

Search and Browse the WWW like it's 1997 | Search results from DuckDuckGo

HTML: 3.2 | Encoding: UTF-8 | Version: 0.7.4