class AlignCommand : public Command {
- public:
- AlignCommand();
- ~AlignCommand();
- int execute();
-
- private:
- GlobalData* globaldata;
- string candidateFileName, templateFileName, distanceFileName;
- int kmerSize;
- float match, misMatch, gapOpen, gapExtend;
- ofstream out;
- ifstream in;
+public:
+ AlignCommand();
+ ~AlignCommand();
+ int execute();
+
+private:
+ GlobalData* globaldata;
+ string candidateFileName, templateFileName, distanceFileName;
+ int kmerSize;
+ float match, misMatch, gapOpen, gapExtend;
+ ofstream out;
+ ifstream in;
};