static Uint4 ToUint4(size_t size)
{
Uint4 ret = Uint4(size);
if ( ret != size ) {
NCBI_THROW(CLoaderException, eLoaderFailed,
"Uint4 overflow");
}
return ret;
}
static SSpecParamsSet*
s_FindNextParamsSet(const SSpecParamsSet* cur_set,
const string& key,
unsigned int& best_index)
{
unsigned int low = 1;
unsigned int high = Uint4(cur_set->entries.size());
while (low < high) {
unsigned int mid = (low + high) / 2;
const SSpecParamsEntry& entry = cur_set->entries[mid];
int comp_res = s_CompareStrings(key, entry.key);
if (comp_res == 0) {
best_index = mid;
return static_cast<SSpecParamsSet*>(entry.value.GetNCPointer());
}
else if (comp_res > 0)
low = mid + 1;
else
high = mid;
}
best_index = high;
return NULL;
}
CPoolOfThreads_ForServer::TItemHandle
CPoolOfThreads_ForServer::GetHandle(void)
{
Uint4 q_num = Uint4(m_GetQueueNum.Add(1)) % m_MaxThreads;
return m_Queues[q_num]->GetHandle();
}
void
CPoolOfThreads_ForServer::AcceptRequest(const TRequest& req)
{
Uint4 q_num = Uint4(m_PutQueueNum.Add(1)) % m_MaxThreads;
m_Queues[q_num]->Put(req);
}
bool CSeqDBTaxInfo::GetTaxNames(Int4 tax_id,
SSeqDBTaxInfo & info )
{
static CTaxDBFileInfo t;
if (t.IsMissingTaxInfo()) return false;
Int4 low_index = 0;
Int4 high_index = t.GetTaxidCount() - 1;
const char * Data = t.GetDataPtr();
const CSeqDBTaxId* Index = t.GetIndexPtr();
Int4 low_taxid = Index[low_index ].GetTaxId();
Int4 high_taxid = Index[high_index].GetTaxId();
if((tax_id < low_taxid) || (tax_id > high_taxid))
return false;
Int4 new_index = (low_index+high_index)/2;
Int4 old_index = new_index;
while(1) {
Int4 curr_taxid = Index[new_index].GetTaxId();
if (tax_id < curr_taxid) {
high_index = new_index;
} else if (tax_id > curr_taxid){
low_index = new_index;
} else { /* Got it ! */
break;
}
new_index = (low_index+high_index)/2;
if (new_index == old_index) {
if (tax_id > curr_taxid) {
new_index++;
}
break;
}
old_index = new_index;
}
if (tax_id == Index[new_index].GetTaxId()) {
info.taxid = tax_id;
Uint4 begin_data(Index[new_index].GetOffset());
Uint4 end_data(0);
if (new_index == high_index) {
// Last index is special...
end_data = Uint4(t.GetDataFileSize());
if (end_data < begin_data) {
// Should not happen.
ERR_POST( "Error: Offset error at end of taxdb file.");
return false;
}
} else {
end_data = (Index[new_index+1].GetOffset());
}
const char * start_ptr = &Data[begin_data];
CSeqDB_Substring buffer(start_ptr, start_ptr + (end_data - begin_data));
CSeqDB_Substring sci, com, blast, king;
bool rc1, rc2, rc3;
rc1 = SeqDB_SplitString(buffer, sci, '\t');
rc2 = SeqDB_SplitString(buffer, com, '\t');
rc3 = SeqDB_SplitString(buffer, blast, '\t');
king = buffer;
if (rc1 && rc2 && rc3 && buffer.Size()) {
sci .GetString(info.scientific_name);
com .GetString(info.common_name);
blast .GetString(info.blast_name);
king .GetString(info.s_kingdom);
return true;
}
}
return false;
}
