#! perl -slw use strict; use Data::Dump qw[ pp ]; my %h; while( ) { chomp; my( $k, $v ) = split; push @{ $h{ $k } }, $v; push @{ $h{ $v } }, $k; } my @keys = sort{ substr( $a, 6 ) <=> substr( $b, 6 ) } keys %h; my $n = 0; my %offsets = map{ $_ => $n++ } @keys; my %masks; for my $k ( @keys ) { $masks{ $k } //= chr(0)x2; vec( $masks{ $k }, $offsets{ $_ }, 1 ) = 1 for $k, @{ $h{ $k } }; } for my $i ( 0 .. $#keys ) { for my $j ( 0 .. $#keys ) { if( ( $masks{ $keys[ $i ] } & $masks{ $keys[ $j ] } ) ne chr(0)x2 ) { $masks{ $keys[ $i ] } |= $masks{ $keys[ $j ] }; $masks{ $keys[ $j ] } |= $masks{ $keys[ $i ] }; } } } my %uniq; $uniq{ $_ } = 1 for values %masks; $n = 0; for my $group ( keys %uniq ) { printf "Group %d : ", ++$n; print join ' ', map{ $keys[ $_ ] } grep{ vec( $group, $_, 1 ) } 0 .. $#keys; } __DATA__ Contig1 Contig2 Contig1 Contig3 Contig2 Contig1 Contig2 Contig3 Contig3 Contig1 Contig3 Contig2 Contig3 Contig4 Contig4 Contig3 Contig4 Contig5 Contig6 Contig7 Contig7 Contig6 Contig8 Contig9 Contig9 Contig10 Contig10 Contig8 Contig10 Contig11 Contig11 Contig10 Contig12 Contig11 Contig12 Contig5