malacology
/
MiMi
1
0
Fork 0
Code Issues Pull Requests Packages Projects Releases 2 Wiki Activity

polish: get rid of extra new

This commit is contained in:
kuoi 2023-03-20 21:40:40 +08:00
parent 0cbec45015
commit c32f318f85
1 changed files with 45 additions and 20 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

65
main.cpp
View File

@ -40,6 +40,8 @@ bool isNum(string strnum);
bool checkalign(class Sample sam);
string to_lower(string stri);
string add_space(char x, string str_old);
string rep_space(string str_old);
string del_space(string str_old);
string checktype(string str);
int countfre(string str, char c);
int checkextension(string str);
@ -86,43 +88,36 @@ Sample readFas(char* itn) {
matrixfile.clear();
matrixfile.seekg(0);
// check the nchar
string* str_a = new string;
string* str_b = new string;
string str_a, str_b;
int r = lnum / ntax;
for (int i = 0; i < r; i++) {
getline(matrixfile, *str_a);
getline(matrixfile, str_a);
if (i > 0) {
*str_b = *str_b + *str_a;
str_b = str_b + str_a;
}
}
nchar = (*str_b).length();
delete str_a;
str_a = nullptr;
delete str_b;
str_b = nullptr;
nchar = str_b.length();
matrixfile.clear();
matrixfile.seekg(0);
// create class
Sample sam(ntax, nchar);
// get class
string* str_c = new string;
string str_c;
for (int a = 1, b = 0; a <= lnum; a++) {
if (a % r == 1) {
getline(matrixfile, sam.taxas[b]);
sam.taxas[b].erase(0, 1);
}
if (a % r > 1) {
getline(matrixfile, *str_c);
sam.chars[b] = sam.chars[b] + *str_c;
getline(matrixfile, str_c);
sam.chars[b] = sam.chars[b] + str_c;
}
if (a % r == 0) {
getline(matrixfile, *str_c);
sam.chars[b] = sam.chars[b] + *str_c;
getline(matrixfile, str_c);
sam.chars[b] = sam.chars[b] + str_c;
b++;
}
}
delete str_c;
str_c = nullptr;
matrixfile.close();
return sam;
}
@ -242,6 +237,32 @@ string add_space(char x, string str_old) {
return str_new;
}
string del_space(string str_old) {
int i;
string str_new;
char x = ' ';
for (i = 0; i < (int)str_old.length(); i++) {
if (str_old[i] != x) {
str_new = str_new + str_old[i];
}
}
return str_new;
}
string rep_space(string str_old) {
int i;
string str_new;
char x = ' ', c = '_';
for (i = 0; i < (int)str_old.length(); i++) {
if (str_old[i] != x) {
str_new = str_new + str_old[i];
} else {
str_new = str_new + c;
}
}
return str_new;
}
string to_lower(string stri) {
transform(stri.begin(), stri.end(), stri.begin(), ::tolower);
return stri;
@ -435,14 +456,18 @@ Sample read_input(char* itn, int intype) {
void write_output(class Sample sam, char* otn, int outype) {
ofstream matrixfile(otn);
if (matrixfile.is_open()) {
if (outype == 1) writeFas(sam, otn);
if (outype == 2) writeNex(sam, otn);
if (outype == 3) writePhy(sam, otn);
if (outype == 4) writeTnt(sam, otn);
for (unsigned int i = 0; i < sam.ntax; i++) {
sam.chars[i] = del_space(sam.chars[i]);
sam.taxas[i] = rep_space(sam.taxas[i]);
}
} else {
cout << "MiMi:\tOutput file can't be open" << endl;
exit(0);
}
if (outype == 1) writeFas(sam, otn);
if (outype == 2) writeNex(sam, otn);
if (outype == 3) writePhy(sam, otn);
if (outype == 4) writeTnt(sam, otn);
}
bool checkalign(class Sample sam) {