Hi, please help. I'm very new to Perl and coding, I have a big file with 15 columns and some with missing information. What I'm trying to do, is select column [ 13] with missing information and column [ 14] with no missing information; and then use column [ 4] as a key to map to column [ 2] and print all lines in column [ 2].

Here's how my data file looks like (tab delimited): 

BC000    1    1    2    3    F          3    51                    51 
+   
BC000    0    2            M                                      999
BC000    0    3    37    36    F                                  65  
+  
BC000    0    4    2    3    M                                  50    
+50
BC000    0    5    2    3    F              45                    47  
+  46
BC000    0    6    2    3    F          3    42                       
+ 
BC000    0    7    2    3    M                                      99
+9
BC000    0    8    2    3    F          3                        42   
+ 
BC000    0    9    2    3    F          1                        39   
+ 
BC000    0    10    2    3    F          3                        35  
+  
BC000    0    11    45    8    M                                  11  
+  
BC000    0    12    45    8    F                                  9

[download]

Basically: column [ 13] = year of birth column [ 4] = motherID column [ 2] = individualID All motherIDs will have an individualID (the same as motherID) Here's my code: 

    #!/usr/bin/perl
    use warnings;
    use strict;
    
    my $filename = 'pedigree_proband_testfile.txt';
    
    open (FILE, "<", $filename) or die "Cannot open file $!";
    
    my @data = <FILE>;
    my @column;
    my $motherID;
    
    
    
    foreach my $line (@data)
    {
        @column = split ( /\t/, $line);
        
        if ($column[13] eq "" && $column[4] ne "" ) 
        {
            $motherID = join($column[2],$column[4]);
            
            
            if ("$motherID" eq "$column[2]")
            {
                print "$line\t\n";
            } 
        }
    }

[download]

I tried this but it doesn't return any values. Can you please help? I'm really new to this, I'm trying to write a script to avoid mapping the columns manually in MS Excel as it's a big file with over 4000 rows. Many many thanks in advance!

In reply to How to map data from one column based on another column in perl by waekit

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