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{%extends "phenotypes/base.html"%}
{%from "flash_messages.html" import flash_all_messages%}
{%from "macro-table-pagination.html" import table_pagination%}
{%from "populations/macro-display-population-card.html" import display_population_card%}
{%block title%}Phenotypes{%endblock%}
{%block pagetitle%}Phenotypes{%endblock%}
{%block lvl4_breadcrumbs%}
<li {%if activelink=="view-dataset"%}
class="breadcrumb-item active"
{%else%}
class="breadcrumb-item"
{%endif%}>
<a href="{{url_for('species.populations.phenotypes.view_dataset',
species_id=species.SpeciesId,
population_id=population.Id,
dataset_id=dataset.Id)}}">View</a>
</li>
{%endblock%}
{%block contents%}
{{flash_all_messages()}}
<div class="row">
<p>The basic dataset details are:</p>
<table class="table">
<thead>
<tr>
<th>Name</th>
<th>Full Name</th>
<th>Short Name</th>
</tr>
</thead>
<tbody>
<tr>
<td>{{dataset.Name}}</td>
<td>{{dataset.FullName}}</td>
<td>{{dataset.ShortName}}</td>
</tr>
</tbody>
</table>
</div>
<div class="row">
<p><a href="{{url_for('species.populations.phenotypes.add_phenotypes',
species_id=species.SpeciesId,
population_id=population.Id,
dataset_id=dataset.Id)}}"
title="Add a bunch of phenotypes"
class="btn btn-primary">Add phenotypes</a></p>
</div>
<div class="row">
<h2>Phenotype Data</h2>
<p>Click on any of the phenotypes in the table below to view and edit that
phenotype's data.</p>
<p>Use the search to filter through all the phenotypes and find specific
phenotypes of interest.</p>
</div>
<div class="row">
<table id="tbl-phenotypes-list" class="table compact stripe cell-border">
<thead>
<tr>
<th></th>
<th>Index</th>
<th>Record</th>
<th>Description</th>
</tr>
</thead>
<tbody></tbody>
</table>
</div>
{%endblock%}
{%block sidebarcontents%}
{{display_population_card(species, population)}}
{%endblock%}
{%block javascript%}
<script type="text/javascript">
$(function() {
var species_id = {{species.SpeciesId}};
var population_id = {{population.Id}};
var dataset_id = {{dataset.Id}};
var dataset_name = "{{dataset.Name}}";
var data = {{phenotypes | tojson}};
var dtPhenotypesList = buildDataTable(
"#tbl-phenotypes-list",
data,
[
{
data: function(pheno) {
return `<input type="checkbox" name="selected-phenotypes" `
+ `id="chk-selected-phenotypes-${pheno.InbredSetCode}_${pheno.xref_id}" `
+ `value="${pheno.InbredSetCode}_${pheno.xref_id}" `
+ `class="chk-row-select" />`
}
},
{data: "sequence_number"},
{
data: function(pheno, type, set, meta) {
var spcs_id = {{species.SpeciesId}};
var pop_id = {{population.Id}};
var dtst_id = {{dataset.Id}};
return `<a href="/species/${spcs_id}` +
`/populations/${pop_id}` +
`/phenotypes/datasets/${dtst_id}` +
`/phenotype/${pheno.xref_id}` +
`" target="_blank">` +
`${pheno.InbredSetCode}_${pheno.xref_id}` +
`</a>`;
}
},
{
data: function(pheno) {
return (pheno.Post_publication_description ||
pheno.Original_description ||
pheno.Pre_publication_description);
}
}
],
{
select: "multi+shift",
layout: {
top2: {
buttons: [
{
extend: "selectAll",
className: "btn btn-info",
titleAttr: "Click to select ALL records in the table."
},
{
extend: "selectNone",
className: "btn btn-info",
titleAttr: "Click to deselect ANY selected record(s) in the table."
},
{
text: "Bulk Edit (Download Data)",
action: (event, dt, node, config) => {
var phenoids = [];
var selected = dt.rows({selected: true, page: "all"}).data();
for(var idx = 0; idx < selected.length; idx++) {
phenoids.push({
phenotype_id: selected[idx].Id,
xref_id: selected[idx].xref_id
});
}
if(phenoids.length == 0) {
alert("No record selected. Nothing to do!");
return false;
}
$.ajax(
(`/species/${species_id}/populations/` +
`${population_id}/phenotypes/datasets/` +
`${dataset_id}/download`),
{
method: "POST",
data: JSON.stringify(phenoids),
xhrFields: {
responseType: "blob"
},
success: (data, textStatus, jqXHR) => {
var link = document.createElement("a");
uri = window.URL.createObjectURL(data);
link.href = uri;
link.download = `${dataset_name}_data.tsv`;
document.body.appendChild(link);
link.click();
window.URL.revokeObjectURL(uri);
link.remove();
},
error: (jQXHR, textStatus, errorThrown) => {
console.log("Experienced an error: ", textStatus);
console.log("The ERROR: ", errorThrown);
},
contentType: "application/json"
});
},
className: "btn btn-info",
titleAttr: "Click to download data for editing."
},
{
text: "Bulk Edit (Upload Data)",
action: (event, dt, node, config) => {
alert("Not implemented yet!")
},
className: "btn btn-info",
titleAttr: "Click to upload edited data you got by clicking the `Bulk Edit (Download Data)` button."
}
]
},
top1Start: {
pageLength: {
text: "Show _MENU_ of _TOTAL_"
}
},
topStart: "info",
top1End: null
},
rowId: function(pheno) {
return `${pheno.InbredSetCode}_${pheno.xref_id}`;
}
});
});
</script>
{%endblock%}
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