Why is the second while there? Do you want to find several occurences on the same line? Also, you probably don't want to print all the genes found so far after finding a gene, you want to print them once all of them have been found:
#!/usr/bin/perl
use warnings;
use strict;
open my $HUBFILE, '<', '1048_undefined.tsv' or die $!;
my @hubs;
while (my $line = <$HUBFILE>) {
push @hubs, $1 if $line =~ /\d \t (\w+) \t/x;
}
close $HUBFILE;
open my $OUT, '>', 'hubs.txt' or die $!;
for my $hub (@hubs) {
print {$OUT} "HUB:$hub\n";
}
close $OUT;
Notice I modified some other parts of the code, too: I switched to 3-argument open with lexical filehandles, foreach style loop instead of the C-style one, etc.
($q=q:Sq=~/;[c](.)(.)/;chr(-||-|5+lengthSq)`"S|oS2"`map{chr |+ord
}map{substrSq`S_+|`|}3E|-|`7**2-3:)=~y+S|`+$1,++print+eval$q,q,a,
-
Are you posting in the right place? Check out Where do I post X? to know for sure.
-
Posts may use any of the Perl Monks Approved HTML tags. Currently these include the following:
<code> <a> <b> <big>
<blockquote> <br /> <dd>
<dl> <dt> <em> <font>
<h1> <h2> <h3> <h4>
<h5> <h6> <hr /> <i>
<li> <nbsp> <ol> <p>
<small> <strike> <strong>
<sub> <sup> <table>
<td> <th> <tr> <tt>
<u> <ul>
-
Snippets of code should be wrapped in
<code> tags not
<pre> tags. In fact, <pre>
tags should generally be avoided. If they must
be used, extreme care should be
taken to ensure that their contents do not
have long lines (<70 chars), in order to prevent
horizontal scrolling (and possible janitor
intervention).
-
Want more info? How to link
or How to display code and escape characters
are good places to start.
|
