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in reply to Re^7: Listing of files using glob
in thread Listing of files using glob

It's a bit more complicated. The OP uses $& as the hash key after matching />.*/, which removes the newline (as . does not match a newline), but it can overwrite a previous hash value if the line does not match, which we cannot tell without seeing the input data.

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Re^9: Listing of files using glob
by MidLifeXis (Monsignor) on Jan 05, 2012 at 14:12 UTC

    Aaah, quite right. I am curious about the line endingness of FILE then (in which case, chomp would not do the right thing either :-/ )

    --MidLifeXis

[reply]
Re^9: Listing of files using glob
by AG87 (Acolyte) on Jan 06, 2012 at 05:16 UTC

    The input data is like 

    >1elwA
AAAAAASSSSSSSSSSSSSSDDDDDDDDDDDFFFFFFFFFF
>1flwA
GGGGGGGGGGHHHHHHHHHHHHIIIIIIIIIIIIIIJJJJJJJJJJ
>1ghwA
KKKKKKKKKKLLLLLLLLLLMMMMMMMMMMNNNNNNNNNNOOOOO

    [download]

    Where >1elwA, >1flwA, >1ghwA should be the keys of the hashes and the respective data should be the value of the hash. The code/sub for storing in the file is

    #!/usr/bin/perl

my %seqInfo = ();

open(FILE, 'test.fasta');
{
while(<FILE>)
{
my $line = $_;
 if ($line =~ />.*/)
  {
  #print "$&\n";
  }
else
  {
  #print "$line\n";
  }
$seqInfo{$&} = $line;
print "$& => $line\n";
}
}

    [download]

    and the output is 

    => >1elwA

 => AAAAAASSSSSSSSSSSSSSDDDDDDDDDDDFFFFFFFFFF

 => >1flwA

 => GGGGGGGGGGHHHHHHHHHHHHIIIIIIIIIIIIIIJJJJJJJJJJ

 => >1ghwA

 => KKKKKKKKKKLLLLLLLLLLMMMMMMMMMMNNNNNNNNNNOOOOO

    [download]

    However according to my understanding the output should be like 

    >1elwA => AAAAAASSSSSSSSSSSSSSDDDDDDDDDDDFFFFFFFFFF

    [download]

    Maybe the file is not properly stored as keys and values :( :(

[reply]
[d/l]
[select]

      Thankyou for the replies, Infact I have figured out the problem and have solved it. I have added a counter in it and its working fine + I have replaced the $& character with the similar substr expression as advised. So now the code is working fine. Thanks again for all the replies... :) :) :)

[reply]

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