I am trying to read a file called ecoli.txt, which contains the DNA sequence for ecoli, and store its contents into a string. I tried to print the string to test my code. However, when I run the program, there is no output. I am still new to java so I am sure there is an error in my code, I just need help finding it.
package codons;
import java.io.*;
public class codons
{
public static void main(String[] args)
{
try
{
FileReader codons = new FileReader("codons.txt");
FileReader filereader = new FileReader("ecoli.txt");
BufferedReader ecoli = new BufferedReader(filereader);
StringBuilder dna_string = new StringBuilder();
String line = ecoli.readLine();
while(line != null);
{
dna_string.append(line);
line = ecoli.readLine();
}
String string = new String(dna_string);
System.out.println(string);
ecoli.close();
}
catch (FileNotFoundException e)
{
e.printStackTrace();
}
catch (IOException e)
{
e.printStackTrace();
}
}
}
edit:
I was still having trouble getting the program to work the way I wanted it to so I attempted to complete writing the rest of what I wanted in the program and I am still not getting any output. Anyway, this is where I am at now:
package codons;
import java.io.*;
import java.util.*;
import java.lang.*;
import java.text.*;
public class codons
{
public static void main(String[] args)
{
try
{
FileReader filecodons = new FileReader("codons.txt");
FileReader filereader = new FileReader("ecoli.txt");
BufferedReader ecoli = new BufferedReader(filereader);
StringBuilder dna_sb = new StringBuilder();
String line = ecoli.readLine();
while(line != null)
{
dna_sb.append(line);
line = ecoli.readLine();
}
String dna_string = new String(dna_sb);
ecoli.close();
BufferedReader codons = new BufferedReader(filecodons);
StringBuilder codon_sb = new StringBuilder();
String codon = codons.readLine();
while(codon != null)
{
codon_sb.append(codon);
line = codons.readLine();
}
String codon_string = new String(codon_sb);
codons.close();
for(int x = 0; x <= codon_sb.length(); x++)
{
int count = 0;
String codon_ss = new String(codon_string.substring(x, x+3));
for(int i = 0; i <= dna_sb.length(); i++)
{
String dna_ss = new String(dna_string.substring(i, i+3));
int result = codon_ss.compareTo(dna_ss);
if(result == 0)
{
count += 1;
}
}
System.out.print("The codon '");
System.out.print(codon_ss);
System.out.print("'is in the dna sequence");
System.out.print(count);
System.out.println("times.");
}
}
catch (FileNotFoundException e)
{
e.printStackTrace();
}
catch (IOException e)
{
e.printStackTrace();
}
}
}
