void FingerTable::initfingers()
{
ChordId EmptyId ;
for (int pos = 1; pos <= getTableLength(); pos++)
{
/*generater start*/
ChordId start = ChordId(localnode->getChordId().GetId(),constants,"","");
start.add(ChordId(int(pow(2,pos-1)),constants,"",""));
/*generater end*/
ChordId end = ChordId(localnode->getChordId().GetId(),constants,"","");
if(pos != NBITS)
end.add(ChordId(int(pow(2,pos)),constants,"",""));
fingers[pos-1].start = start ;
fingers[pos-1].interval[0] = start ;
fingers[pos-1].interval[1] = end ;
//init the all nodes
fingers[pos-1].node = EmptyId ;
}
setPredecessor(EmptyId) ;
clearSuccList() ;
}
void
run() {
int i = 0;
int pageNum;
PagePointer cursor;
PagePointer cursorPrev;
for (; i < INSTRUCTIONSIZE; i++) {
usleep(256000);
pageNum = instructionArray[i] / PAGESIZE;
if (isInTable(pageNum) == 1) {
printf("[命中: address#%d\tin page#%d]\t", instructionArray[i], pageNum); printTable();
/*printf("Hit: address#%d\tin page#%d\t", instructionArray[i], pageNum); printTable(); */
} else {
if (getTableLength() < 5) {
cursor = pageTable->next;
cursorPrev = pageTable;
while (cursor != NULL) {
cursor = cursor->next;
cursorPrev = cursorPrev->next;
}
cursor = (PagePointer)malloc(sizeof(PageNode));
cursor->num = pageNum;
cursor->next = NULL;
cursorPrev->next = cursor;
printf("[调入: address#%d\tin page#%d]\t", instructionArray[i], pageNum); printTable();
/*printf("In : address#%d\tin page#%d\t", instructionArray[i], pageNum); printTable(); */
} else {
PagePointer out = pageTable->next;
pageTable->next = out->next;
printf("[换出: page#%d]\t", out->num);
/*printf("Out: page#%d\t", out->num); */
out->num = pageNum;
out->next = NULL;
cursor = pageTable->next;
cursorPrev = pageTable;
while (cursor != NULL) {
cursor = cursor->next;
cursorPrev = cursorPrev->next;
}
cursorPrev->next = out;
printf("[调入: address#%d\tin page#%d]\t", instructionArray[i], pageNum); printTable();
/*printf("In : address#%d\tin page#%d\t", instructionArray[i], pageNum); printTable(); */
}
}
}
}
void GeneratedPseudoGenome<uint_read_len, uint_reads_cnt, uint_pg_len, GeneratedReadsListClass>::buildRepetitiveReadsFilter() {
clock_checkpoint();
uint_max filterCount = 0;
genReadsList->setDuplicateFilterKmerLength(this->duplicateFilterKmerLength);
uint_pg_len* lookup = new uint_pg_len[getTableLength()]();
uint_max lookupIdx = 0;
for (uint_read_len i = 0; i < this->duplicateFilterKmerLength; i++)
lookupIdx = lookupIdx * this->properties->symbolsCount + this->properties->symbolOrder[(unsigned char) this->getSymbol(i)];
uint_max popSymbol[UCHAR_MAX] = {0};
for(uchar j = 1; j < this->properties->symbolsCount; j++) {
popSymbol[j] = j;
for(uchar k = 1; k < this->duplicateFilterKmerLength; k++)
popSymbol[j] *= this->properties->symbolsCount;
}
uint_reads_cnt readsListIndex = 0;
uint_pg_len i = 0;
while (i < this->length) {
while ((int_max) genReadsList->getReadPosition(readsListIndex) < (int_max) i + this->duplicateFilterKmerLength - this->maxReadLength())
readsListIndex++;
while (lookup[lookupIdx] >= genReadsList->getReadPosition(readsListIndex) + 1) {
genReadsList->setDuplicateFilterFlag(readsListIndex);
filterCount++;
readsListIndex++;
}
lookup[lookupIdx] = i + 1;
lookupIdx -= popSymbol[this->properties->symbolOrder[(unsigned char) this->getSymbol(i)]];
lookupIdx = lookupIdx * this->properties->symbolsCount + this->properties->symbolOrder[(unsigned char) this->getSymbol(i++ + this->duplicateFilterKmerLength)];
}
delete[] lookup;
cout << "Found " << filterCount << " reads containing duplicate " << (int) genReadsList->getDuplicateFilterKmerLength()
<< "-mers in " << clock_millis() << " msec!\n";
}
int FingerTable::toString(char **buf , unsigned int &length)
{
/**/
char *buffer = new char[4000] ;
if (buffer==NULL)
return -1;
char *message = buffer ;
sprintf(message,"**********FINGER TABLE**********") ;
message = message + strlen (message);
strncpy (message, "\r\n\0", 2);
message = message + 2;
for(int i = 0 ; i < getTableLength() ; i++)
{
sprintf (message, "finger[%d]: node:%d start:%d interval:%d~%d",
i+1,
getFinger(i+1)->node.GetId() ,
getFinger(i+1)->start.GetId() ,
getFinger(i+1)->interval[0].GetId() ,
getFinger(i+1)->interval[1].GetId()
);
message = message + strlen (message);
strncpy (message, "\r\n\0", 2);
message = message + 2;
}
sprintf(message,"**********SUCC LIST**********") ;
message = message + strlen (message);
strncpy (message, "\r\n\0", 2);
message = message + 2;
for(i = 0 ; i < getSuccNum() ; i++)
{
sprintf (message, "SUCCLIST[%d]: id:%d ip:%s",
i,
getSuccessor(i).GetId() ,
getSuccessor(i).GetAddress()
);
message = message + strlen (message);
strncpy (message, "\r\n\0", 2);
message = message + 2;
}
sprintf(message,"\r\n**********PREDECESSOR**********") ;
message = message + strlen (message);
strncpy (message, "\r\n\0", 2);
message = message + 2;
sprintf (message, "PREDECESSOR: id:%d ip:%s",
getPredecessor().GetId() ,
getPredecessor().GetAddress()
);
message = message + strlen (message);
strncpy (message, "\r\n\0", 2);
message = message + 2;
strncpy(message,"\0",1) ;
*buf = buffer ;
length = strlen(buffer) ;
return 0 ;
}