Beefy Boxes and Bandwidth Generously Provided by pair Networks
Don't ask to ask, just ask

Re: Strange output problem

by Riales (Hermit)
on Apr 12, 2012 at 17:24 UTC ( #964792=note: print w/replies, xml ) Need Help??

in reply to Strange output problem

Nothing jumps out at me, but I am inclined to agree with your guess about the problem being in the last part of the code. Have you tried adding print statements before the chomp, before the substitution, and after the substitution?

while (<$new_in_file>) { print "BEFORE CHOMP: $_\n"; chomp; next if $. == 1; # remove header line s/POS/SAMPLE/ if $. == 2; s/\s+/,/g if $. == 2; # replace whitespace with a comma on I +D row next if $. >= 3 and $. <= 9; # remove unwanted lines print "BEFORE SUBSTITUTION: $_\n"; s/\s+(\d)\|(\d)\S+/,$1 $2/g; # clean up the SNPs & put into CSV + format print "AFTER SUBSTITUTION: $_\n"; print $new_out_file "$_\n"; }

Log In?

What's my password?
Create A New User
Node Status?
node history
Node Type: note [id://964792]
and all is quiet...

How do I use this? | Other CB clients
Other Users?
Others taking refuge in the Monastery: (2)
As of 2017-03-26 06:35 GMT
Find Nodes?
    Voting Booth?
    Should Pluto Get Its Planethood Back?

    Results (313 votes). Check out past polls.