//
// ReadPixels()
//
void JLSInputStream::ReadPixels(void* pvoid, LONG cbyteAvailable)
{
LONG cbytePlane = _info.width * _info.height * ((_info.bitspersample + 7)/8);
if (cbyteAvailable < cbytePlane * _info.components)
throw JlsException(UncompressedBufferTooSmall);
if (_info.ilv == ILV_NONE)
{
BYTE* pbyte = (BYTE*)pvoid;
for (LONG icomp = 0; icomp < _info.components; ++icomp)
{
ReadScan(pbyte);
pbyte += cbytePlane;
}
}
else
{
ReadScan(pvoid);
}
}
//
// ReadPixels()
//
void JLSInputStream::ReadPixels(void* pvoid, size_t cbyteAvailable)
{
if (_rect.Width <= 0)
{
_rect.Width = _info.width;
_rect.Height = _info.height;
}
int64_t cbytePlane = (int64_t)(_rect.Width) * _rect.Height * ((_info.bitspersample + 7)/8);
if (int64_t(cbyteAvailable) < cbytePlane * _info.components)
throw JlsException(UncompressedBufferTooSmall);
int scancount = _info.ilv == ILV_NONE ? _info.components : 1;
BYTE* pbyte = (BYTE*)pvoid;
for (LONG scan = 0; scan < scancount; ++scan)
{
ReadScan(pbyte);
pbyte += cbytePlane;
}
}
/* Management function to score and filter exons */
void ProcessHSPs(long l1,
long l2,
int Strand,
packExternalInformation* external,
packHSP* hsp
)
{
/* Fill in the temporary HSP arrays (pre-processing) */
/* GENIS hack */
if (SRP)
{
if (UTR) {
printMess("Preprocessing read information: step 1");
ReadScan(external,hsp,Strand,l1,l2);
} else {
printMess("Preprocessing homology information: step 1");
HSPScan(external,hsp,Strand,l1,l2);
}
printMess("Preprocessing homology information: step 2");
HSPScan2(external,hsp,Strand,l1,l2);
}
}
