#include?“Header.h“
clock_t?t1?t2;
int?main（）
{
	Suffix_Arr?SA;
	if（SA.read（）==0）
	{
	????cout<<“Creating?Please?wait?!“<	????SA.Init_SA（）;
????????SA.Create_SA（）;
????????SA.Get_SA（）;
????????SA.Get_BWT（）;
????????SA.Get_Num（）;
????????SA.Get_SISA（）;
????????SA.Print（）;
	}
????cout<<“Successful!“<????char?sp[200]tmp[200]cp[200];
????char?fsp[200]fcp[200];
????ifstream?test（“R2.fq“）;
????t1=clock（）;
????while（?test>>tmp）
????{
????????test>>sp;
????????test>>tmp;
????????test>>tmp;
????????int?nn=strlen（sp）;
?????????for（int?i=0;i????????{
????????????if（sp[i]==‘A‘）
????????????????cp[i]=‘T‘;
????????????else?if（sp[i]==‘C‘）
????????????????cp[i]=‘G‘;
????????????else?if（sp[i]==‘G‘）
????????????????cp[i]=‘C‘;
????????????else?if（sp[i]==‘T‘）
????????????????cp[i]=‘A‘;
????????}

????????for（int?i=0;i????????{
????????????//fsp[nn-1-i]=sp[i];
????????????fcp[nn-1-i]=cp[i];
????????}
????????SA.Search（sp）;
????????//SA.Search（cp）;
????????//SA.Search（fsp）;
????????SA.Search（fcp）;
????????result<????}
????test.close（）;
????t2=clock（）;
????cout<<（double）（t2-t1）/CLOCKS_PER_SEC<	return?0;
}

?屬性????????????大小?????日期????時間???名稱
-----------?---------??----------?-----??----
?????目錄???????????0??2014-05-10?05:41??BWT\
?????文件?????4542697??2014-05-04?23:17??BWT\Occ.txt
?????文件?????1354139??2014-05-04?23:17??BWT\SimpleSA.txt
?????文件????????6924??2014-05-09?11:39??BWT\Header.h
?????文件??????220273??2014-05-10?05:40??BWT\result.txt
?????文件?????????228??2014-05-10?05:40??BWT\BWT.depend
?????文件????????1138??2014-04-17?03:52??BWT\BWT.cbp
?????文件?????5009545??2013-03-08?16:06??BWT\NC_008253.fna
?????文件????????1206??2014-05-10?05:35??BWT\main.cpp
?????文件?????????636??2014-05-10?05:41??BWT\BWT.layout
?????文件?????1043421??2014-05-09?03:02??BWT\R2.fq
?????文件?????4938921??2014-05-04?23:17??BWT\BWT.txt
?????文件?????1043421??2014-05-09?03:02??BWT\R1.fq
?????目錄???????????0??2014-04-17?03:48??BWT\bin\
?????目錄???????????0??2014-04-17?03:48??BWT\obj\
?????目錄???????????0??2014-05-10?05:35??BWT\bin\Debug\
?????文件??????987885??2014-05-10?05:35??BWT\bin\Debug\BWT.exe
?????目錄???????????0??2014-05-10?05:35??BWT\obj\Debug\
?????文件???????42802??2014-05-10?05:35??BWT\obj\Debug\main.o