Zengtudor/DNASequence
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update fixing bug

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Zengtudor 2024-09-18 16:01:57 +08:00
parent 5be58df294
commit e2d486cfd1
1 changed files with 11 additions and 11 deletions
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22
src/main.cpp
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@ -1,3 +1,4 @@
#include <array>
#include <exception> #include <exception>
#include <filesystem> #include <filesystem>
#include<fstream> #include<fstream>
@ -10,11 +11,13 @@
// std::string reversedComplement(std::string DNAsequence); // std::string reversedComplement(std::string DNAsequence);
#define OPEN_IFS_AND_CHECK(file_path,value_name)std::ifstream value_name(file_path);if(value_name.is_open()==false){std::stringstream ss;ss<<"cannot open input file stream : "<<file_path.filename();throw std::runtime_error(ss.str());} #define OPEN_IFS_AND_CHECK(file_path,value_name)std::ifstream value_name(file_path);if(value_name.is_open()==false){std::stringstream ss;ss<<"cannot open input file stream : "<<file_path.filename();throw std::runtime_error(ss.str());}else{zt::print("Open input file stream to value ["#value_name"] ok , from [",file_path.filename(),"]\n");}
#define OPEN_OFS_AND_CHECK(file_path,value_name)std::ofstream value_name(file_path);if(value_name.is_open()==false){std::stringstream ss;ss<<"cannot open output file stream : "<<file_path.filename();throw std::runtime_error(ss.str());} #define OPEN_OFS_AND_CHECK(file_path,value_name)std::ofstream value_name(file_path);if(value_name.is_open()==false){std::stringstream ss;ss<<"cannot open output file stream : "<<file_path.filename();throw std::runtime_error(ss.str());}else{zt::print("Open output file stream to value ["#value_name"] ok , from [",file_path.filename(),"]\n");}
std::string reverseComplement(std::string DNAsequence) const size_t MAX_SIZE = 5e4+5;
std::string reverseComplement(std::array<char, MAX_SIZE> DNAsequence)
{ {
using namespace std; using namespace std;
@ -50,7 +53,7 @@ int main()
// std::ios_base::sync_with_stdio(false); //加了没效果 // std::ios_base::sync_with_stdio(false); //加了没效果
using namespace std; using namespace std;
char buf[50000]; std::array<char,MAX_SIZE> buf;
int lines = 0; int lines = 0;
filesystem::path input_path("filteredReads.txt"),output_path("reversedSequence.txt"); filesystem::path input_path("filteredReads.txt"),output_path("reversedSequence.txt");
@ -60,18 +63,15 @@ int main()
OPEN_IFS_AND_CHECK(input_path, input_file_stream) OPEN_IFS_AND_CHECK(input_path, input_file_stream)
OPEN_OFS_AND_CHECK(output_path, output_file_stream) OPEN_OFS_AND_CHECK(output_path, output_file_stream)
zt::check_fstream_isopen(input_file_stream, output_file_stream);
zt::print("open file ok!\n");
string l = ""; string l = "";
while (input_file_stream.getline(buf,50000,'\n')) while (input_file_stream.getline(buf.data(),50000,'\n'))
{ {
int m = lines%2; int m = lines%2;
if (m == 1) if (m == 1)
output_file_stream << reverseComplement(buf) << endl; reverseComplement(buf);
else // output_file_stream << reverseComplement(buf) << endl;
// else
output_file_stream << buf << endl; output_file_stream << buf << endl;
lines++; lines++;
} }