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*/
package data.cerevisiae.harbison;
import common.inspect.GeneSet;
import fork.lib.base.Print;
import fork.lib.base.file.io.txt.ReadTable;
import fork.lib.base.file.management.Dirs;
import java.io.BufferedWriter;
import java.io.File;
import java.io.FileWriter;
/**
*
* @author forksapien
*/
public class Harbison2004Summary {
protected File f;
public Harbison2004Summary(File f){
this.f=f;
}
public void writeToFile(File out) throws Exception{
out.getParentFile().mkdirs();
String[][] arr= new ReadTable(f).getTableAsArray();
String[] cns= arr[0];
for(int i=1; i<cns.length ; i++){
String tf= cns[i];
tf= tf.replace("_YPD", "");
tf= tf.replace("(", "");
tf= tf.replace(")", "");
tf= tf.replace(" ", "_");
tf= tf.toUpperCase();
cns[i]= tf;
}
BufferedWriter bw= new BufferedWriter(new FileWriter(out));
for(int i=1; i<arr.length ; i++){
String[] r= arr[i];
String id= r[0];
int n=0;
String tfs= "";
for(int j=1; j<r.length ; j++){
String tf= cns[j];
double pv= Double.parseDouble(r[j]);
if(pv<0.001){
n++;
tfs+=tf+"/";
}
}
bw.write(id+"\t"+n+"\t"+tfs+"\n");
}
bw.close();
}
public static void main(String[] args) throws Exception{ //debug
File dir= Dirs.getFile("dir");
File f= new File(dir+"/other_datasets/harbison_2004/pvalbygene_forpaper_abbr.txt");
Harbison2004Summary hh= new Harbison2004Summary(f);
hh.writeToFile(new File(f.getParentFile()+"/summary.txt"));
}
}