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Include Cactus (restricted) in list of pairwise alignments #1138

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Include Cactus (restricted) in list of pairwise alignments #1138

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10 changes: 8 additions & 2 deletions modules/EnsEMBL/Web/Document/HTML/Compara.pm
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Original file line number Diff line number Diff line change
Expand Up @@ -436,7 +436,7 @@ sub draw_pairwise_alignment_list {
my ($self, $species) = @_;

my $hub = $self->hub;
my ($data, $synt_methods) = $self->pairwise_mlss_data( ['TRANSLATED_BLAT_NET','BLASTZ_NET', 'LASTZ_NET', 'ATAC', 'SYNTENY'] );
my ($data, $synt_methods) = $self->pairwise_mlss_data( ['TRANSLATED_BLAT_NET','BLASTZ_NET', 'LASTZ_NET', 'ATAC', 'CACTUS_HAL_PW', 'SYNTENY'] );

## Do some munging
my ($species_order, $info) = $self->get_species_info([keys %$data], 1);
Expand Down Expand Up @@ -487,11 +487,17 @@ sub draw_pairwise_alignment_list {
if ($Bio::EnsEMBL::Compara::Method::PLAIN_TEXT_DESCRIPTIONS{$method}) {
$method = $Bio::EnsEMBL::Compara::Method::PLAIN_TEXT_DESCRIPTIONS{$method};
}

my $stats_field = $method ne 'Cactus (restricted)' # statistics unavailable for Cactus (restricted) alignments
? qq{<a href="/info/genome/compara/mlss.html?mlss=$mlss_id">stats</a>}
: '&nbsp;'
;

$astr .= qq{<tr>
<td style="padding:0px 10px 0px 0px;text-align:right;">&nbsp;</td>
<td style="padding:0px 10px 0px 0px;text-align:right;widht:20px">$method |</td>
<td style="padding:0px 10px 0px 0px;text-align:left;width:60px;">$sample_location</td>
<td style="padding:0px 10px 0px 0px;text-align:left;width:40px;"><a href="/info/genome/compara/mlss.html?mlss=$mlss_id">stats</a></td><tr>};
<td style="padding:0px 10px 0px 0px;text-align:left;width:40px;">$stats_field</td><tr>};
}
$astr .= qq{</table>};
my $self_desc = $sp eq $other ? ' [self-alignment]' : '';
Expand Down