| line |
true |
false |
branch |
|
167
|
0 |
0 |
unless -e $parafile
|
|
196
|
0 |
0 |
unless -e $nonfile
|
|
235
|
0 |
0 |
unless (@seqs)
|
|
253
|
0 |
0 |
unless defined $args->{'-max_target_seqs'}
|
|
283
|
0 |
0 |
if ($query ne $curr_query)
|
|
292
|
0 |
0 |
if ($score >= $best_score * $rp->ref_score_mul)
|
|
304
|
0 |
0 |
unless $rp->debug_mode
|
|
307
|
0 |
0 |
unless ($cmul_score)
|
|
327
|
0 |
0 |
if (@ref_orgs > $ref_org_n)
|
|
357
|
0 |
0 |
if $seq->is_doubtful
|
|
361
|
0 |
0 |
if ($len > $max_len)
|
|
376
|
0 |
0 |
if ($self->count_ref_orgs < 2)
|
|
400
|
0 |
0 |
if $ref_org2 eq $ref_org1
|
|
411
|
0 |
0 |
if $in_best_hits
|
|
413
|
0 |
0 |
unless $rp->debug_mode
|
|
420
|
0 |
0 |
unless (keys %count_for)
|
|
434
|
0 |
0 |
unless &List::AllUtils::all(sub {
|
|
451
|
0 |
0 |
unless @new_seqs
|
|
470
|
0 |
0 |
unless @{$multiples // [];}
|
|
493
|
0 |
0 |
$chunk ? :
|
|
528
|
0 |
0 |
if (&List::AllUtils::any(sub {
|
|
|
0 |
0 |
elsif (&List::AllUtils::any(sub {
|
|
|
0 |
0 |
elsif (&List::AllUtils::any(sub {
|
|
543
|
0 |
0 |
if $id ne $_->full_id
|
|
576
|
0 |
0 |
if (@redundants)
|
|
597
|
0 |
0 |
unless ncmp($a->family_then_full_org, $b->family_then_full_org)
|
|
614
|
0 |
0 |
unless ($ali->count_seqs)
|
|
621
|
0 |
0 |
unless $rp->ali_keep_old_new_tags eq 'on'
|
|
630
|
0 |
0 |
if ($rp->ref_brh eq 'on')
|
|
647
|
0 |
0 |
if $rp->out_dir
|
|
649
|
0 |
0 |
unless ($rp->run_mode eq 'metagenomic')
|
|
661
|
0 |
0 |
if ($rp->ali_keep_lengthened_seqs eq 'off')
|
|
676
|
0 |
0 |
if ($rp->tax_reports eq 'on')
|
|
689
|
0 |
0 |
$rp->run_mode eq 'phylogenomic' ? :
|