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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 "phenotypes/macro-display-pheno-dataset-card.html" import display_pheno_dataset_card%}
{%block title%}Phenotypes{%endblock%}
{%block pagetitle%}Phenotypes{%endblock%}
{%block lvl4_breadcrumbs%}
<li {%if activelink=="add-phenotypes"%}
class="breadcrumb-item active"
{%else%}
class="breadcrumb-item"
{%endif%}>
<a href="{{url_for('species.populations.phenotypes.add_phenotypes',
species_id=species.SpeciesId,
population_id=population.Id,
dataset_id=dataset.Id)}}">Add Phenotypes</a>
</li>
{%endblock%}
{%block contents%}
{{flash_all_messages()}}
<div class="row">
<form id="frm-add-phenotypes"
method="POST"
enctype="multipart/form-data"
action="{{url_for('species.populations.phenotypes.add_phenotypes',
species_id=species.SpeciesId,
population_id=population.Id,
dataset_id=dataset.Id,
use_bundle=use_bundle)}}"
data-resumable-target="{{url_for('files.resumable_upload_post')}}">
<legend>Add New Phenotypes</legend>
<div class="form-text help-block">
{%block frm_add_phenotypes_documentation%}{%endblock%}
<p><strong class="text-warning">This will not update any existing phenotypes!</strong></p>
</div>
{%block frm_add_phenotypes_elements%}{%endblock%}
<fieldset id="fldset-publication-info">
<legend>Publication Information</legend>
<input type="hidden" name="publication-id" id="txt-publication-id" />
<span class="form-text text-muted">
Select a publication for your data. <br />
Can't find a publication you can use? Go ahead and
<a href="{{url_for(
'publications.create_publication',
return_to='species.populations.phenotypes.add_phenotypes',
species_id=species.SpeciesId,
population_id=population.Id,
dataset_id=dataset.Id)}}">create a new publication</a>.</span>
<table id="tbl-select-publication" class="table compact stripe">
<thead>
<tr>
<th>#</th>
<th>PubMed ID</th>
<th>Title</th>
<th>Authors</th>
</tr>
</thead>
<tbody></tbody>
</table>
</fieldset>
<div class="form-group">
<input type="submit"
value="upload phenotypes"
class="btn btn-primary" />
</div>
</form>
</div>
<div class="row">
{%block page_documentation%}{%endblock%}
</div>
{%endblock%}
{%block javascript%}
<script type="text/javascript">
$(function() {
var publicationsDataTable = buildDataTable(
"#tbl-select-publication",
[],
[
{data: "index"},
{
data: (pub) => {
if(pub.PubMed_ID) {
return `<a href="https://pubmed.ncbi.nlm.nih.gov/` +
`${pub.PubMed_ID}/" target="_blank" ` +
`title="Link to publication on NCBI.">` +
`${pub.PubMed_ID}</a>`;
}
return "";
}
},
{
data: (pub) => {
var title = "⸻";
if(pub.Title) {
title = pub.Title
}
return `<a href="/publications/view/${pub.Id}" ` +
`target="_blank" ` +
`title="Link to view publication details">` +
`${title}</a>`;
}
},
{
data: (pub) => {
authors = pub.Authors.split(",").map(
(item) => {return item.trim();});
if(authors.length > 1) {
return authors[0] + ", et. al.";
}
return authors[0];
}
}
],
{
ajax: {
url: "/publications/list",
dataSrc: "publications"
},
select: "single",
scrollY: 700,
paging: false,
deferRender: true,
layout: {
topStart: "info",
topEnd: "search"
}
});
publicationsDataTable.on("select", (event, datatable, type, indexes) => {
indexes.forEach((element, index, thearray) => {
let row = datatable.row(element).node();
console.debug(datatable.row(element).data());
$("#frm-add-phenotypes #txt-publication-id").val(
datatable.row(element).data().Id);
});
});
publicationsDataTable.on("deselect", (event, datatable, type, indexes) => {
indexes.forEach((element, index, thearray) => {
let row = datatable.row(element).node();
$("#frm-add-phenotypes #txt-publication-id").val(null);
});
});
});
</script>
{%block more_javascript%}{%endblock%}
{%endblock%}
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