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merged development sponsor_sub_report_genes.tt into sponsor_sub_repor…
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…t.tt
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@tgrego
tgrego committed Jan 14, 2015
1 parent 99288d4 commit c1d3b34
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Showing 3 changed files with 149 additions and 339 deletions.
5 changes: 0 additions & 5 deletions lib/LIMS2/WebApp/Controller/PublicReports.pm
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Original file line number Diff line number Diff line change
Expand Up @@ -320,13 +320,8 @@ sub view : Path( '/public_reports/sponsor_report' ) : Args(3) {
}
}


my $template = 'publicreports/sponsor_sub_report.tt';

if ($stage eq 'Genes') {
$template = 'publicreports/sponsor_sub_report_genes.tt';
}

# Store report values in stash for display onscreen
$c->stash(
'template' => $template,
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209 changes: 149 additions & 60 deletions root/site/publicreports/sponsor_sub_report.tt
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Original file line number Diff line number Diff line change
Expand Up @@ -43,11 +43,7 @@ document.title = "[%- sponsor_id %]";
<thead>
<tr>
[%- FOR disp_col IN display_columns %]
[%- IF disp_col == "sponsors" %]
[%- IF all %]
<th>[% disp_col %]</th>
[%- END %]
[%- ELSIF disp_col == "vector designs" %]
[%- IF disp_col == "vector designs" %]
<th>[% disp_col %] <i class="icon-question-sign" id="vector_designs" href="#"
data-content="Number of gibson designs created for this gene (may not yet be plated)"
rel="popover" data-placement="bottom" data-trigger="hover"></i></th>
Expand Down Expand Up @@ -103,87 +99,180 @@ document.title = "[%- sponsor_id %]";
[% IF c.user %]
<th>[% disp_col %]</th>
[%- END %]
[%- ELSIF disp_col == '# colonies' ||
disp_col == '# wt clones' ||
disp_col == '# mosaic clones' ||
disp_col == '# in-frame clones' ||
disp_col == '# frame-shift clones' %]
<th>[% disp_col %]</th>
[%- ELSE %]
<th>[% disp_col %]</th>
[%- END %]
[%- END %]
</tr>
</thead>
<tbody>
[%- FOREACH row IN data %]
<tr>
[%- FOREACH col IN columns %]
[%- colval = row.item(col) %]
[%- IF col == "final_qc_seq_pass" || col == "final_pick_qc_seq_pass" || col == "dna_status_pass" %]
[%-IF colval == "1" %]
<td style="color:green">pass</td>
[%- ELSIF colval == "0" %]
<td style="color:red">fail</td>
[%- ELSE %]
<td style="color:orange">----</td>
[%- END %]
[%- ELSIF col == "cassette_promotor" || col == "neo_p" || col == "neo_pl" || col == "bsd_p" || col == "bsd_pl" %]
[%- IF colval == "1" %]
<td style="color:green">yes</td>
[%- ELSIF colval == "0" %]
<td style="color:red">no</td>
[%- ELSE %]
<td style="color:orange">---</td>
[% END %]
[%- FOREACH row IN data %]
<tr>
[%- FOREACH col IN columns %]
[%- colval = row.item(col) %]

[%- IF col == "final_qc_seq_pass" || col == "final_pick_qc_seq_pass" || col == "dna_status_pass" %]
[%-IF colval == "1" %]
<td style="color:green">pass</td>
[%- ELSIF colval == "0" %]
<td style="color:red">fail</td>
[%- ELSE %]
<td style="color:orange">----</td>
[%- END %]
[%- ELSIF col == "cassette_promotor" || col == "neo_p" || col == "neo_pl" || col == "bsd_p" || col == "bsd_pl" %]
[%- IF colval == "1" %]
<td style="color:green">yes</td>
[%- ELSIF colval == "0" %]
<td style="color:red">no</td>
[%- ELSE %]
<td style="color:orange">---</td>
[% END %]
[% ELSIF col == "gene_id" %]

[% IF c.session.selected_species == 'Human' %]
<td><a class="brand" href="http://www.genenames.org/cgi-bin/gene_symbol_report?hgnc_id=[% colval %]">[% colval %]</a></td>
[% ELSIF c.session.selected_species == 'Mouse' %]
<td><a class="brand" href="http://www.informatics.jax.org/marker/[% colval %]">[% colval %]</a></td>
[% END %]

[% ELSIF col == "gene_symbol" %]
[% IF c.user %]
<td><a class="brand" href="[% c.uri_for('/user/report/gene/', { gene_id => colval } ) %]">[% colval %]</a></td>
[% ELSIF row.item('targeted_clones') == '✔' || row.item('targeted_clones') > 0 %]
<td><a class="brand" href="[% c.uri_for('/public_reports/gene_report', colval ) %]">[% colval %]</a></td>
<td><a class="brand" href="[% c.uri_for('/user/report/gene/', { gene_id => row.item('gene_id') } ) %]">[% colval %]</a></td>
[% ELSE %]
<td>[% colval %]</td>
[% END %]
[% ELSIF col == "effort_concluded" && colval == "1" %]
<td>✔</td>
[% ELSIF col == "gene_symbol" %]
<td>[% colval %]</td>
[%- ELSIF col == "sponsors" %]
[%- IF all %]
<td>[% colval %]</td>
[%- END %]
<td>[% colval %]</td>
[%- ELSIF !colval %]
<td></td>
[%- ELSE %]
[%- IF col == 'passing_vector_wells' || col == 'targeted_clones' || col == 'accepted_crispr_vector' %]
<td style="background:#8AD95A" >[%- colval %]</td>
[%- ELSIF col == 'crispr_pairs'
|| col == 'vector_designs'
|| col == 'vector_wells'
|| col == 'targeting_vector_wells'
|| col == 'accepted_vector_wells'
|| col == 'electroporations'
|| col == 'colonies_picked'
|| col == 'crispr_wells'
|| col == 'crispr_vector_wells'
|| col == 'crispr_dna_wells'
|| col == 'accepted_crispr_dna_wells'
|| col == 'recovery_class'
|| col == 'priority'
|| col == 'effort_concluded' %]
<td style="background:#E5E4E2" >[%- colval %]</td>
[%- ELSIF col == 'vector_pcr_passes' %]
[%- ELSIF col == 'passing_vector_wells'
|| col == 'accepted_crispr_vector'
%]
<td style="background:#8AD95A">[%- colval %]</td>
[%- ELSIF col == 'targeted_clones' %]
[%- IF row.item('targeted_clones') && row.item('fs_count') %]
<td style="background:#8AD95A">[%- colval %]</td>
[% ELSE %]
<td style="background:#FF4646">[%- colval %]</td>
[% END %]
[%- ELSIF col == 'fs_count'
|| col == 'if_count'
|| col == 'wt_count'
|| col == 'ms_count' %]

[% IF row.item('targeted_clones') %]
<td style="background:#E5E4E2" ><a class="brand" href="[% c.uri_for('/public_reports/gene_report', row.item('gene_id') ) %]">[% colval %]</a></td>
[% ELSE %]
<td style="background:#E5E4E2">[%- colval %]</td>
[% END %]

[%- ELSIF col == 'recovery_class' %]

[%- IF row.item('fs_count') && row.item('effort_concluded') %]
<td style="background:#8AD95A">[%- colval %]</td>
[%- ELSIF row.item('effort_concluded') %]
<td style="background:#FF4646">[%- colval %]</td>
[% ELSIF colval != '-' %]
<td style="background:#E5E4E2">[%- colval %]</td>
[% ELSE %]
<td>[%- colval %]</td>
[% END %]




[%- ELSIF col == 'crispr_pairs'
|| col == 'vector_designs'
|| col == 'vector_wells'
|| col == 'targeting_vector_wells'
|| col == 'accepted_vector_wells'

|| col == 'colonies_picked'
|| col == 'crispr_wells'
|| col == 'crispr_vector_wells'
|| col == 'crispr_dna_wells'
|| col == 'accepted_crispr_dna_wells'

|| col == 'priority'

|| col == 'total_colonies'
|| col == 'effort_concluded'
%]
<td style="background:#E5E4E2">[%- colval %]</td>
[%- ELSIF col == 'electroporations' %]
<td style="background:#E5E4E2">
[%- IF row.item('electroporations') %]
<a onclick="displayRow('[%- row.item('gene_id') %]')">[%- colval %]</a>
[%- ELSE %]
[%- colval %]
[%- END %]
</td>
[%- ELSIF col == 'vector_pcr_passes' %]
[% IF c.user %]
<td style="background:#E5E4E2" >[%- colval %]</td>
[%- END %]
[%- ELSE %]
<td>[%- colval %]</td>

[% ELSIF col == "ep_data" %]

[%- IF row.item('ep_data').0 %]
</tbody>
<tbody id="[%- row.item('gene_id') %]" style="display:none">
[%- FOREACH ep_data IN row.item('ep_data') %]

<tr>
<td colspan=9></td>
<td>[%- ep_data.item('total_colonies') %]</td>
<td>[%- ep_data.item('ep_pick_count') %]</td>
<td>[%- ep_data.item('ep_pick_pass_count') %]</td>
<td>[%- ep_data.item('fs_count') %]</td>
<td>[%- ep_data.item('if_count') %]</td>
<td>[%- ep_data.item('wt_count') %]</td>
<td>[%- ep_data.item('ms_count') %]</td>
<td colspan=1></td>
</tr>

[%- END %]
</tbody>
<tbody>
[%- END %]
[%- END %]
[%- END %]
</tr>
[%- END %]

[%- ELSE %]
<td>[%- colval %]</td>
[%- END %]

[%- END %]
</tr>
[%- END %]
</tbody>
</table>

[%- ELSE %]
<h3>Error: No rows found for this report!</h3>
[%- END %]




<script type="text/javascript">

function displayRow( my_id ){
var row = document.getElementById(my_id);
if (row.style.display == '')
row.style.display = 'none';
else
row.style.display = '';
}

</script>



<script type="text/javascript">
// description fields on the table
$('#vector_designs').popover();
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