void writeSynced(char const * c, uint64_t n)
{
// flush if necessary
if ( deflatecontext.deflateB[deflatecontext.deflatecurobject]->pc != deflatecontext.deflateB[deflatecontext.deflatecurobject]->pa )
flushInternal();
// enque data for compression
while ( n )
{
uint64_t const freespace = deflatecontext.deflateB[deflatecontext.deflatecurobject]->pe - deflatecontext.deflateB[deflatecontext.deflatecurobject]->pc;
uint64_t const towrite = std::min(n,freespace);
std::copy(reinterpret_cast<uint8_t const *>(c),reinterpret_cast<uint8_t const *>(c)+towrite,deflatecontext.deflateB[deflatecontext.deflatecurobject]->pc);
c += towrite;
deflatecontext.deflateB[deflatecontext.deflatecurobject]->pc += towrite;
n -= towrite;
if ( deflatecontext.deflateB[deflatecontext.deflatecurobject]->pc == deflatecontext.deflateB[deflatecontext.deflatecurobject]->pe )
flushInternal();
}
// flush if necessary
if ( deflatecontext.deflateB[deflatecontext.deflatecurobject]->pc != deflatecontext.deflateB[deflatecontext.deflatecurobject]->pa )
flushInternal();
}
//==============================================================================
Error DebugDrawer::flush()
{
Error err = flushInternal(GL_LINES);
if(!err)
{
err = flushInternal(GL_TRIANGLES);
}
return err;
}
void put(uint8_t const c)
{
assert ( deflatecontext.deflateB[deflatecontext.deflatecurobject]->pc != deflatecontext.deflateB[deflatecontext.deflatecurobject]->pe );
*((deflatecontext.deflateB[deflatecontext.deflatecurobject]->pc)++) = c;
if ( deflatecontext.deflateB[deflatecontext.deflatecurobject]->pc == deflatecontext.deflateB[deflatecontext.deflatecurobject]->pe )
flushInternal();
}
/**
* write block c of length n. stream needs to be synced
* before using this function.
*
* @param c block data
* @param n number of bytes in c
* @return number of bgzf blocks written
**/
uint64_t writeSyncedCount(char const * c, uint64_t n)
{
// check whether buffer is empty
if ( deflatecontext.deflateB[deflatecontext.deflatecurobject]->pc != deflatecontext.deflateB[deflatecontext.deflatecurobject]->pa )
{
libmaus::exception::LibMausException se;
se.getStream() << "Call to BgzfDeflateParallel::writeSyncedCount() but stream is not synced." << std::endl;
se.finish();
throw se;
}
uint64_t bcnt = 0;
// enque data for compression
while ( n )
{
uint64_t const freespace = deflatecontext.deflateB[deflatecontext.deflatecurobject]->pe - deflatecontext.deflateB[deflatecontext.deflatecurobject]->pc;
uint64_t const towrite = std::min(n,freespace);
std::copy(reinterpret_cast<uint8_t const *>(c),reinterpret_cast<uint8_t const *>(c)+towrite,deflatecontext.deflateB[deflatecontext.deflatecurobject]->pc);
c += towrite;
deflatecontext.deflateB[deflatecontext.deflatecurobject]->pc += towrite;
n -= towrite;
if ( deflatecontext.deflateB[deflatecontext.deflatecurobject]->pc == deflatecontext.deflateB[deflatecontext.deflatecurobject]->pe )
{
flushInternal();
bcnt += 1;
}
}
// flush if necessary
if ( deflatecontext.deflateB[deflatecontext.deflatecurobject]->pc != deflatecontext.deflateB[deflatecontext.deflatecurobject]->pa )
{
flushInternal();
bcnt += 1;
}
return bcnt;
}
void write(char const * c, uint64_t n)
{
while ( n )
{
uint64_t const freespace = deflatecontext.deflateB[deflatecontext.deflatecurobject]->pe - deflatecontext.deflateB[deflatecontext.deflatecurobject]->pc;
uint64_t const towrite = std::min(n,freespace);
std::copy(reinterpret_cast<uint8_t const *>(c),reinterpret_cast<uint8_t const *>(c)+towrite,deflatecontext.deflateB[deflatecontext.deflatecurobject]->pc);
c += towrite;
deflatecontext.deflateB[deflatecontext.deflatecurobject]->pc += towrite;
n -= towrite;
if ( deflatecontext.deflateB[deflatecontext.deflatecurobject]->pc == deflatecontext.deflateB[deflatecontext.deflatecurobject]->pe )
flushInternal();
}
}
void FileOutputStream::flush()
{
flushBuffer();
flushInternal();
}
FileOutputStream::~FileOutputStream()
{
flushBuffer();
flushInternal();
closeHandle();
}
