in reply to Re^2: Error opening file handle within while loop
in thread Error opening file handle within while loop

Also, apologies but ignore that it says $columnsA, just a discrepancy between the script I'm currently testing and the one I've posted here.
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Re^4: Error opening file handle within while loop
by poj (Abbot) on Feb 10, 2016 at 13:05 UTC

    Presumably you fixed this error also

    my $mafBlock = qx(maf_parse --start $start --end $end $maf); print OUT1 "$mafBlock1\n"; # << should be $maxBlock
    poj
      Hi, yes well spotted and apologies, this has been fixed. My original code contained slightly different variable names and I changed them to post here to try and simplify things, seems I made a bigger problem though by creating mistakes!