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First thing I noticed: there's no need to slurp the entire file into an array if you're going to loop through it line-by-line anyway, so this:

open(DAT,'<',"./useful_dat.tab")||die "Canot open file\n"; my @file=<DAT>; close DAT; shift @file;##remove header foreach my $line(@file){

would be better:

open(DAT,'<',"./useful_dat.tab")||die "Canot open file\n"; <DAT>; # discard a line while(my $line = <DAT>){ #loop through the rest

As for the rest: Ok, you're looping through the file, and for each line, you call inhibited_rec(), which calls awk to loop through the same file again, looking for a match on the first fields, then for each line, if the second field isn't 'Activation', you call activated_rec() which uses awk to loop through the same file again, perhaps recursively..... Ouch. It seems to me you could end up running your file through that pipeline at least as many times as the number of lines in the file squared, if not cubed or more.

Loop through the file once, and save the data into a structure that'll allow you to compare fields as you like. Perhaps an array of arrays, or a hash of hashes, or whatever makes sense for your data. If necessary, make a couple copies of it in different variables, so you can compare them to each other to find your circular connections (maybe not necessary, but might make it easier to understand what you're doing).


In reply to Re^2: Perl Recursion by aaron_baugher
in thread Perl Recursion by azheid

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