Radha Agarkar
A Bioinformatician
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Extract ids from file with perl
By Radha Agarkar 2810 days ago
#!/usr/bin/perl
use strict;
use warnings;
my $fh=read_fh("fin.txt");
my %idHash;
my $lastKey;
while (<$fh>) {
chomp $_;
my @cells = split /\t/, $_;
$idHash{$cells[0]}=$.;
push @allIds, $cells[0];
}
#Delete the last id for secutiry -- might does not finish all steps
delete $hash{$allIds[-1]};
next if exists $hash{$look_for};
############################################################
#Open and Read a file
sub read_fh {
my $filename = shift @_;
my $filehandle;
if ($filename =~ /gz$/) {
open $filehandle, "gunzip -dc $filename |" or die $!;
}
else {
open $filehandle, "<$filename" or die $!;
}
return $filehandle;
}
