void flush()
{
if ( ! flushed )
{
flushed = true;
implicitFlush();
PSGO->flush();
PSGO.reset();
uint64_t const offset = headerlength + PSGO->getWrittenBytes();
libmaus2::util::NumberSerialisation::serialiseNumber(*PMETA,offset);
libmaus2::util::NumberSerialisation::serialiseNumber(*PMETA,valueswritten);
PMETA->flush();
PMETA.reset();
assert ( POSI->tellp() == static_cast<int64_t>(offset) );
libmaus2::aio::InputStreamInstance::unique_ptr_type METAin(new libmaus2::aio::InputStreamInstance(metafn));
while ( METAin->peek() != std::istream::traits_type::eof() )
libmaus2::util::NumberSerialisation::serialiseNumber(*POSI,libmaus2::util::NumberSerialisation::deserialiseNumber(*METAin));
METAin.reset();
libmaus2::aio::FileRemoval::removeFile(metafn);
// write index offset
libmaus2::util::NumberSerialisation::serialiseNumber(*POSI,offset);
POSI->flush();
POSI.reset();
}
}
void flush()
{
if ( Pstream )
{
Pstream->seekp(0,std::ios::beg);
uint64_t offset = 0;
libmaus2::dazzler::db::OutputBase::putLittleEndianInteger8(*Pstream,novl,offset);
Pstream->flush();
Pstream.reset();
}
}
~AlignmentWriter()
{
if ( novl != novlexptd )
{
DOSI.seekp(0,std::ios::beg);
libmaus2::dazzler::align::AlignmentFile::serialiseHeader(DOSI,novl,tspace);
DOSI.seekp(dpos,std::ios::beg);
}
if ( PEMIG )
{
PEMIG->flush();
PEMIG.reset();
}
if ( PIOSI )
{
PIOSI->flush();
PIOSI.reset();
}
DOSI.flush();
PDOSI.reset();
}
