AI-Gene-Sequence

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t/tsimp.t  view on Meta::CPAN

  ok($rt,0);
}

{ print "# mutate_remove\n";
  my $gene = $main->clone;
  my $rt = $gene->mutate_remove(1,0);
  ok($rt,1);
  ok($gene->d eq 'bcdefghij');
  $rt = $gene->mutate_remove(1,0,2);
  ok($rt,1);
  ok($gene->d eq 'defghij');
  $rt = $gene->mutate_remove(1,7); # outside of gene
  ok($rt,0);
  ok($gene->d eq 'defghij');
  $rt = $gene->mutate_remove(1,5,5); # extends beyond gene
  ok($rt,1);
  ok($gene->d eq 'defgh');
  # hammer randomness
  $rt = 0;
  for (1..$hammer) {
    $gene = $main->clone;
    eval '$gene->mutate_remove(1,undef,0)';
    $rt = 1 if $@;
  }
  ok($rt,0);
}

{ print "# mutate_insert\n";
  my $gene = $main->clone;
  my $rt = $gene->mutate_insert(1,0);
  ok($rt,1);
  ok($gene->d eq 'Nabcdefghij');
  $gene = $main->clone;
  $rt = $gene->mutate_insert(1,10); # last possible pos
  ok($rt,1);
  ok($gene->d eq 'abcdefghijN');
  $gene = $main->clone;
  $rt = $gene->mutate_insert;
  ok($rt,1);
  ok($gene->d ne 'abcdefghij');
  $gene = $main->clone;
  $rt = $gene->mutate_insert(1,11); # outside of gene
  ok($rt,0);
  ok($gene->d eq 'abcdefghij');
  # hammer randomness
  $rt = 0;
  for (1..$hammer) {
    $gene = $main->clone;
    eval '$gene->mutate_insert';
    $rt = 1 if $@;
  }
  ok($rt,0);
}

{ print "# mutate_overwrite\n";
  my $gene = $main->clone;
  my $rt = $gene->mutate_overwrite(1,0,1); # first to second
  ok($rt,1);
  ok($gene->d, 'aacdefghij');
  $gene = $main->clone;
  $rt = $gene->mutate_overwrite(1,0,4,3); # has length
  ok($rt,1);
  ok($gene->d, 'abcdabchij');
  $gene = $main->clone;
  $rt = $gene->mutate_overwrite(1,3,4,3); # overlap
  ok($rt,1);
  ok($gene->d, 'abcddefhij');
  $gene = $main->clone;
  $rt = $gene->mutate_overwrite(1,0,10,3); # dump lies at end of gene
  ok($rt,1);
  ok($gene->d, 'abcdefghijabc');
  $gene = $main->clone;
  $rt = $gene->mutate_overwrite(1,0,11); # dump lies beyond end of gene
  ok($rt,0);
  ok($gene->d, 'abcdefghij');
  $gene = $main->clone;
  $rt = $gene->mutate_overwrite(1,11,4); # area to copy lies outside gene
  ok($rt,0);
  ok($gene->d, 'abcdefghij');
  # hammer randomness
  $rt = 0;
  for (1..$hammer) {
    $gene = $main->clone;
    eval '$gene->mutate_overwrite(1,undef,undef,0)';
    $rt = 1 if $@;
  }
  ok($rt,0);
}

{ print "# mutate_reverse\n";
  my $gene = $main->clone;
  my $rt = $gene->mutate_reverse(1,0,2);
  ok($rt,1);
  ok($gene->d, 'bacdefghij');
  $gene = $main->clone;
  $rt = $gene->mutate_reverse(1,0,10); # whole gene
  ok($rt,1);
  ok($gene->d, 'jihgfedcba');
  $gene = $main->clone;
  $rt = $gene->mutate_reverse(1,8,4); # extends beyond gene
  ok($rt,0);
  ok($gene->d, 'abcdefghij');
  $gene = $main->clone;
  $rt = $gene->mutate_reverse(1,10,1); # starts outside gene
  ok($rt,0);
  ok($gene->d, 'abcdefghij');
  # hammer randomness
  $rt = 0;
  for (1..$hammer) {
    $gene = $main->clone;
    eval '$gene->mutate_reverse(1,undef,0)';
    $rt = 1 if $@;
  }
  ok($rt,0);
}

{ print "# mutate_duplicate\n";
  my $gene = $main->clone;
  my $rt = $gene->mutate_duplicate(1,0,0);
  ok($rt,1);
  ok($gene->d, 'aabcdefghij');
  $gene = $main->clone;
  $rt = $gene->mutate_duplicate(1,9,0); # from end of gene to front
  ok($rt,1);
  ok($gene->d, 'jabcdefghij');
  $gene = $main->clone;
  $rt = $gene->mutate_duplicate(1,10,0); # from outside of gene
  ok($rt,0);
  ok($gene->d, 'abcdefghij');
  $gene = $main->clone;
  $rt = $gene->mutate_duplicate(1,0,11); # to posn beyond end of gene
  ok($rt,0);
  ok($gene->d, 'abcdefghij');
  $gene = $main->clone;
  $rt = $gene->mutate_duplicate(1,0,10); # to posn at very end of gene
  ok($rt,1);
  ok($gene->d, 'abcdefghija');
  $gene = $main->clone;
  $rt = $gene->mutate_duplicate(1,0,10,10); # double the gene
  ok($rt,1);
  ok($gene->d, 'abcdefghijabcdefghij');
  # hammer randomness
  $rt = 0;
  for (1..$hammer) {
    $gene = $main->clone;
    eval '$gene->mutate_duplicate(1,undef,undef,0)';
  }
  ok($rt,0);
}

{ print "# mutate_switch\n";
  my $gene = $main->clone;
  my $rt = $gene->mutate_switch(1,0,9); # first and last
  ok($rt,1);
  ok($gene->d, 'jbcdefghia');
  $gene = $main->clone;
  $rt = $gene->mutate_switch(1,0,8,2,2); # 1st 2 and last 2
  ok($rt,1);
  ok($gene->d, 'ijcdefghab');
  $gene = $main->clone;
  $rt = $gene->mutate_switch(1,0,5,2,4); # different lengths
  ok($rt,1);
  ok($gene->d, 'fghicdeabj');
  $gene = $main->clone;
  $rt = $gene->mutate_switch(1,0,10); # pos2 outside gene
  ok($rt,0);
  ok($gene->d, 'abcdefghij');
  $gene = $main->clone;
  $rt = $gene->mutate_switch(1,10,0); # pos1 outside gene (silently same as)
  ok($rt,0);
  ok($gene->d, 'abcdefghij');
  $gene = $main->clone;
  $rt = $gene->mutate_switch(1,0,9,1,2); # second section extends beyond
  ok($rt,0);
  ok($gene->d, 'abcdefghij');
  $gene = $main->clone;
  $rt = $gene->mutate_switch(1,0,2,5,3); # overlap of sections
  ok($rt,0);
  ok($gene->d, 'abcdefghij');
  # hammer randomness
  $rt = 0;
  for (1..$hammer) {
    $gene = $main->clone;
    eval '$gene->mutate_switch(1,undef,undef,0,0)';
    $rt = 1 if $@;
  }
  ok($rt,0);
}


{ print "# mutate_shuffle\n";
  my $gene = $main->clone;
  my $rt = $gene->mutate_shuffle(1,5,0); # from after to
  ok($rt,1);
  ok($gene->d, 'fabcdeghij');
  $gene = $main->clone;
  $rt = $gene->mutate_shuffle(1,5,0,2); # extended sequence
  ok($rt,1);
  ok($gene->d, 'fgabcdehij');
  $gene = $main->clone;
  $rt = $gene->mutate_shuffle(1,0,5,2); # to after from
  ok($rt,1);
  ok($gene->d, 'cdeabfghij');
  $gene = $main->clone;
  $rt = $gene->mutate_shuffle(1,0,9,1); # 1st to last
  ok($rt,1);
  ok($gene->d, 'bcdefghiaj');
  $gene = $main->clone;
  $rt = $gene->mutate_shuffle(1,0,3,8); # overlap
  ok($rt,0);
  ok($gene->d, 'abcdefghij');
  $gene = $main->clone;
  $rt = $gene->mutate_shuffle(1,0,10,1); # to posn outside gene
  ok($rt,0);
  ok($gene->d, 'abcdefghij');
  $gene = $main->clone;
  $rt = $gene->mutate_shuffle(1,0,8,5); # should suceed
  ok($rt,1);
  ok($gene->d, 'fghabcdeij');
  $gene = $main->clone;
  $rt = $gene->mutate_shuffle(1,8,5,5); # extends beyond gene



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