int
CBlastPrelimSearch::x_LaunchMultiThreadedSearch(SInternalData& internal_data)
{
typedef vector< CRef<CPrelimSearchThread> > TBlastThreads;
TBlastThreads the_threads(GetNumberOfThreads());
auto_ptr<const CBlastOptionsMemento> opts_memento
(m_Options->CreateSnapshot());
_TRACE("Launching BLAST with " << GetNumberOfThreads() << " threads");
// -RMH- This appears to be a problem right now. When used...this
// can cause all the work to go to a single thread! (-MN- This is fixed in SB-768)
BlastSeqSrcSetNumberOfThreads(m_InternalData->m_SeqSrc->GetPointer(),
GetNumberOfThreads());
// Create the threads ...
NON_CONST_ITERATE(TBlastThreads, thread, the_threads) {
thread->Reset(new CPrelimSearchThread(internal_data,
opts_memento.get()));
if (thread->Empty()) {
NCBI_THROW(CBlastSystemException, eOutOfMemory,
"Failed to create preliminary search thread");
}
}
void RAROptions::Init()
{
memset(this,0,sizeof(RAROptions));
WinSize=0x2000000;
Overwrite=OVERWRITE_DEFAULT;
Method=3;
MsgStream=MSG_STDOUT;
ConvertNames=NAMES_ORIGINALCASE;
xmtime=EXTTIME_HIGH3;
FileSizeLess=INT64NDF;
FileSizeMore=INT64NDF;
HashType=HASH_CRC32;
#ifdef RAR_SMP
Threads=GetNumberOfThreads();
#endif
#ifdef USE_QOPEN
QOpenMode=QOPEN_AUTO;
#endif
}
CRef<CSearchResultSet>
CPsiBlast::Run()
{
m_Impl->SetNumberOfThreads(GetNumberOfThreads());
return m_Impl->Run();
}