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ianyfchang/Merge.java

Created May 7, 2014 07:35
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Merge two files based on common chromosome position
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Merge.java
import java.util.stream.*;
import java.util.*;
import java.nio.file.*;
import java.io.*;
import static java.lang.System.out;
class Merge {
public static void main (String... args)throws Exception{
Map<String,String> sorted = Files.lines(Paths.get(args[0]))
.map(line -> line.split("\t"))
.collect(Collectors.toMap(
array -> String.join(":",array[0], array[1], array[2]),
array -> String.join("\t",Arrays.asList(array))
));
Files.lines(Paths.get(args[1]))
.map(line -> line.split("\t"))
.peek( array -> out.println(String.join("\t", Arrays.asList(array))+"\t"+sorted.get(String.join(":",array[3],array[4],array[5]))))
.collect(Collectors.toList());
}
}
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