Hello. I have a text file(tab-delim) with some as shown below.
ID SAMPLE_NAME EFFECTS SIZE
001 U7654 NEGATIVE 5.666
002 U7345 POSITIVE 4.333
003 U7674 NEGATIVE 1.696
002 U7845 POSITIVE -4.333
I am trying to get the sample name and size columns. Here is what I used.
#!usr/bin/perl -w
use strict;
# open the file that has to be read
open(my $in, "filename.txt");
#open a new file which has to be made
open (my $out, ">result.txt");
#In the while loop, put the columns that have to be printed in the new
+ file.
while(<$in>){
my @fields = split /\t/;
my $SAMPLE_NAME = $fields[1];
my $SIZE = $fields[3];
#print the columns
{
print $out "$SAMPLE_NAME\ $SIZE\n";
}
}
close the filehandles
close($in);
close($out);
-----
Output I get:
SAMPLE_NAME SIZE
001
clearly this is not right. First I get the column heading but not the values and then I get the first value of the ID column. Can someone see what is going on?
How do I extract only the values which are greater than 2.0 and less than 5.0 from the size column?
Posts are HTML formatted. Put <p> </p> tags around your paragraphs. Put <code> </code> tags around your code and data!
Titles consisting of a single word are discouraged, and in most cases are disallowed outright.
Read Where should I post X? if you're not absolutely sure you're posting in the right place.
Please read these before you post! —
Posts may use any of the Perl Monks Approved HTML tags:
- a, abbr, b, big, blockquote, br, caption, center, col, colgroup, dd, del, details, div, dl, dt, em, font, h1, h2, h3, h4, h5, h6, hr, i, ins, li, ol, p, pre, readmore, small, span, spoiler, strike, strong, sub, summary, sup, table, tbody, td, tfoot, th, thead, tr, tt, u, ul, wbr
You may need to use entities for some characters, as follows. (Exception: Within code tags, you can put the characters literally.)
| |
For: |
|
Use: |
| & | | & |
| < | | < |
| > | | > |
| [ | | [ |
| ] | | ] |
Link using PerlMonks shortcuts! What shortcuts can I use for linking?
See Writeup Formatting Tips and other pages linked from there for more info.