我正在编写一个执行基本定量生物学操作的程序。我有两个单独的文件，.h和.cpp。 .h包含我的带有函数原型的类，而我的.cpp包含我的函数定义。我觉得我正确编写了代码，但它无法编译。这是我的代码：
//.h file
#ifndef __JMCREADY_QUBIENGINE_H_
#define __JMCREADY_QUBIENGINE_H_
#include <vector>
#include <string>
#include <fstream>
using namespace std;
class QubiEngine{
private:
vector<string> dna;
public:
QubiEngine(); //Default constructor
QubiEngine(ifstream& dnaFile); //Reads lines from given input file and pushes every read DNA sequence into the dna vector.
void dna2rna(); //Reads the DNA from the dna vector and computes it's RNA, then stores them in a file rna.txt
void compute_revcom(); //Reads the DNA sequences from the dna vector, computes the reverse, and stores in revcom.txt
void nucl_frequency(); //Counts the total occurances of each nucleotide in the DNA sequence.
int count_CpG(); //Counts the occurance of the string "CG"
bool isPalindromic(); //Checks if the string is palindromic.
};
#endif
//.cpp file
#include "jmcready_QubiEngine.h"
#include <iostream>
#include <string>
#include <vector>
#include <fstream>
#include <algorithm>
#include <iterator>
using namespace std;
QubiEngine::QubiEngine(ifstream& dnaFile){
string neucleotides; //Declares an empty string of nucelotides,
//opens the file to be stored into the vector,
while (getline(dnaFile, neucleotides)){ //and while it is reading the whole line from the
dna.push_back(neucleotides); //dnaFile, it is pushing the nucelotides into the vector.
}
}
void QubiEngine::dna2rna(){
ofstream outfile;
outfile.open("rna.txt"); //Creates a blank text file
const char* foo = "t";
for (vector<string>::iterator it = dna.begin(), endOfString = dna.end(); it != endOfString; it++){
if ( find(dna.begin(), dna.end(), foo) != dna.end() ){ //for loop with a nested if statement to run through each
dna.at(*foo) = "u"; //member of the vector and check if the iterator is equal
outfile << *it; //to "t", if it is, it is changed to "u."
} //Then saves the new iterator value to the outfile.
}
outfile.close(); //Closes the file so no further changes can be made.
}
void QubiEngine::compute_revcom(){
char letter = '\0';
ofstream outfile;
outfile.open ("revcom.txt"); //Another blank text file.
vector<string> temp; //A dummy blank vector to store the reverse of the dna vector.
reverse( dna.begin(), dna.end() ); //Stores the reverse of vector dna to temp vector.
for (vector<string>::iterator it = temp.begin(), endOfString = temp.end(); it != endOfString; it++){
while ( it != dna.end() ){ //For loop with nested while loop to change
switch(letter){ //each element in the temp vector to it's complement element.
case 'a' :
*it = "t";
break;
case 't' :
*it = "a";
break;
case 'c' :
*it = "g";
break;
case 'g' :
*it = "c";
break;
default :
cout << "File contains elements that aren't valid, please fix."<< endl;
break;
}
}
}
outfile.close();
}
void QubiEngine::nucl_frequency(){
int numOfA = 0; //Declares multiple counts and letters
int numOfT = 0; //to keep track of each nucleotide seperately
int numOfC = 0;
int numOfG = 0;
string a = "a";
string t = "t";
string c = "c";
string g = "g";
for (vector<string>::iterator it = dna.begin(), endOfString = dna.end(); it != endOfString; it++){
if (*it == a){ //For loop with multiple nested if statements
numOfA++; //to check each individual element
} //and count it towards the total.
if(*it == t){
numOfT++;
}
if (*it == c){
numOfC++;
}
if (*it == g){
numOfG++;
}
}
}
int QubiEngine::count_CpG(){
int count = 0;
string CpG = "cg";
for (vector<string>::iterator it = dna.begin(), endOfString = dna.end(); it != endOfString; it++){
if (*it == CpG){ //For loop with nested if statement to check
count++; //for the string "cg" and add them to an int
} //counter.
}
return count;
}
bool QubiEngine::isPalindromic(){
for (vector<string>::iterator it = dna.begin(), endOfString = dna.end(); it != endOfString; it++){
if(*it == string(dna.rbegin(), dna.rend())){ //For loop with nested if statement
return true;
} //to check if *it is equal to
else{
return false;
} //the reverse of it's original,
//if it is equal than it is palindromic.
}
}
int main (int args, char* argv[]) { //Main function given in the pdf, calls each
ifstream dnaFile; //public function to check if it works, and how
dnaFile.open("dna.txt");
QubiEngine qbengine(dnaFile); //effectively.
qbengine.dna2rna();
qbengine.compute_revcom();
qbengine.nucl_frequency();
int cpg = qbengine.count_CpG();
cout << "The total number of CG islands is : " << cpg << endl;
if ( qbengine.isPalindromic() )
cout << "Palindromic" << endl;
else
cout << "Not Palindromic" << endl;
return 0;
};
答案 0 :(得分：1)
在QubiEngine::QubiEngine(ifstream& dnaFile)中不要
dnaFile("dna.txt");
它已经初始化（在main中）并且它无论如何都不是正确的sintax。
在dna2rna *it中string是*it == 't'，因此在string您尝试将char与string::iterator进行比较。它不起作用，但您已经知道如何解决此问题：您在其他位置使用char，使用它来遍历字符串中的所有char并将char与{{1}进行比较}。
在compute_revcom中，您永远不会初始化letter，但是您在switch中使用它，请使用st。
您也不会提前string::iterator中的while。您还需要使用't'代替"t"，一个是char，另一个是字符串。
再次在nucl_frequency中，您将string与char进行比较，使用string::iterator。
在count_CpG中，您忘记了dna的类型，它是一个字符串向量，使用正确的迭代器类型。此外，*it == CpG将比较两个字符串的相等性，这不是您想要的。
如果*it是“cgcg”，您希望计数为2但实际上为0.看看您是否可以使用string::iterator执行此任务。
另外
vector<string>& temp = dna; //A dummy blank vector to store the reverse of the dna vector.
因为那个“＆amp;”它不符合您的想法，temp将dna（确切地）而不是副本。
可能还有更多。
尽量不要一次写入所有内容并在最后构建。相反，写一个函数，或函数的一部分，并构建（和测试）。
从编译和工作的小程序转移到编译和工作的稍大程序。重复直到完成！
答案 1 :(得分：0)
尝试将#include <fstream>添加到您的头文件中，似乎您遗漏了它（对于ifstream）
实际上，尝试将main移动到单独的文件中，例如main.cpp，其中只有#include "jmcready_QubiEngine.h"，没有 .cpp