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{% extends "index_page.html" %}
{% block title %}Trait Submission{% endblock %}
{% block content %}
<!-- Start of body -->
{% with messages = get_flashed_messages(with_categories=true) %}
{% if messages %}
{% for category, message in messages %}
<div class="container-fluid bg-{{ category }}">
<p>{{ message|safe }}</p>
</div>
{% endfor %}
{% endif %}
{% endwith %}
<div class="container">
<div class="page-header text-left">
<h1>Trait Metadata and Data Editing Form: {{ name }}</h1>
<small><a href="{{url_for('metadata_edit.show_history', dataset_id=dataset_id, name=name)}}" target="_blank">[View History]</a></small>
</div>
<form id="edit-form" class="form-horizontal" method="post" action="/datasets/{{dataset_id}}/traits/{{publish_xref.id_}}?resource-id={{resource_id}}&dataset_name={{dataset_name}}" enctype='multipart/form-data'>
<div class="form-group">
<div class="controls left-block col-sm-8 col-lg-8" style="width: max-content;">
<input name="inbred-set-id" class="changed" type="hidden" value="{{ publish_xref.inbred_set_id }}"/>
<input name="phenotype-id" class="changed" type="hidden" value="{{ publish_xref.phenotype_id }}"/>
<input name="comments" class="changed" type="hidden" value="{{ publish_xref.comments }}"/>
<input name="edited" class="changed" type="hidden" value="false"/>
</div>
</div>
<div>
<h2>Edit Sample Data</h2>
<p>
Download a spreadsheet of sample values to edit in Excel (or a similar program) and then upload the edited file
</p>
<div>
<a href="/datasets/pheno/{{ name }}/group/{{ dataset_id }}/csv?resource-id={{ resource_id }}" class="btn btn-link">
Click to Download Sample Data
</a>
</div>
<div class="form-group">
<input type = "file" class="col-md-4 control-label text-left" name = "file" />
</div>
<input type="submit" style="width: 125px; margin-right: 25px;" class="btn btn-success form-control changed" value="Submit Change">
</div>
<hr>
<div>
<h2>Edit Metadata</h2>
<div class="form-group">
<label for="pubmed-id" class="col-sm-3 col-lg-2 control-label text-left">PubMed ID</label>
<!-- Do not enter PubMed_ID if this trait has not been Published.
If the PubMed_ID you entered is alreday stored in our
database, all the following fields except Postpublication
Description will be ignored. Do not enter any non-digit
character in this field. -->
<div class="col-sm-7 col-lg-8">
<input type="text" name="pubmed-id" class="form-control"
value="{{publication.pubmed_id |default('', true)}}">
<input name="old_id_" class="changed" type="hidden" value="{{ publication.id_ |default('', true) }}"/>
</div>
</div>
<div class="form-group">
<label for="pre-pub-desc" class="col-sm-3 col-lg-2 control-label text-left">Prepublication Description</label>
<div class="col-sm-7 col-lg-8">
<textarea name="pre-pub-desc" class="form-control" rows="4">{{ phenotype.pre_pub_description |default('', true) }}</textarea>
<input name="old_pre_pub_description" class="changed" type="hidden" value="{{ phenotype.pre_pub_description |default('', true) }}"/>
</div>
<!-- If the PubMed ID is entered, the Postpublication Description
will be shown to all users. If there is no PubMed ID, and the
Prepublication Description is entered, only you and
authorized users can see the Postpublication Description -->
</div>
<div class="form-group">
<label for="post-pub-desc" class="col-sm-3 col-lg-2 control-label text-left">Postpublication Description</label>
<div class="col-sm-7 col-lg-8">
<textarea name="post-pub-desc" class="form-control" rows="4">{{ phenotype.post_pub_description |default('', true) }}</textarea>
<input name="old_post_pub_description" class="changed" type="hidden" value="{{ phenotype.post_pub_description |default('', true) }}"/>
</div>
</div>
<div class="form-group">
<label for="orig-desc" class="col-sm-3 col-lg-2 control-label text-left">Original Description</label>
<div class="col-sm-7 col-lg-8">
<textarea name="orig-desc" class="form-control" rows="4">{{ phenotype.original_description |default('', true) }}</textarea>
<input name="old_original_description" class="changed" type="hidden" value="{{ phenotype.original_description |default('', true) }}"/>
</div>
</div>
<div class="form-group">
<label for="txt:units" class="col-sm-3 col-lg-2 control-label text-left">Units</label>
<div class="col-sm-7 col-lg-8">
<input id="txt:units" type="text" name="units"
class="form-control"
value="{{phenotype.units |default('', true)}}" />
<input name="old_units" class="changed" type="hidden" value="{{ phenotype.units |default('', true) }}"/>
</div>
</div>
<div class="form-group">
<label for="pre-pub-abbrev" class="col-sm-3 col-lg-2 control-label text-left">
Prepublication Abbreviation
</label>
<div class="col-sm-7 col-lg-8">
<input id="pre-pub-abbrev" name="pre-pub-abbrev"
class="form-control"
value="{{phenotype.pre_pub_abbreviation |default('', true)}}" />
<input name="old_pre_pub_abbreviation" class="changed" type="hidden" value="{{ phenotype.pre_pub_abbreviation |default('', true) }}"/>
</div>
</div>
<div class="form-group">
<label for="post-pub-abbrev" class="col-sm-3 col-lg-2 control-label text-left">
Postpublication Abbreviation
</label>
<div class="col-sm-7 col-lg-8">
<input type="text" id="post-pub-abbrex" name="post-pub-abbrev"
class="form-control"
value="{{phenotype.post_pub_abbreviation |default('', true)}}" />
<input name="old_post_pub_abbreviation" class="changed" type="hidden" value="{{ phenotype.post_pub_abbreviation |default('', true) }}"/>
</div>
</div>
<div class="form-group">
<label for="labcode" class="col-sm-3 col-lg-2 control-label text-left">
Lab Code
</label>
<div class="col-sm-7 col-lg-8">
<input type="text" id="labcode" name="labcode"
class="form-control"
value="{{phenotype.lab_code |default('', true) }}" />
<input name="old_lab_code" class="changed" type="hidden" value="{{ phenotype.lab_code |default('', true) }}"/>
</div>
</div>
<div class="form-group">
<label for="submitter" class="col-sm-3 col-lg-2 control-label text-left">
Submitter
</label>
<div class="col-sm-7 col-lg-8">
<input type="text" id="submitter" name="submitter"
class="form-control"
value="{{phenotype.submitter |default('', true)}}" />
<input name="old_submitter" class="changed" type="hidden" value="{{ phenotype.submitter |default('', true) }}"/>
</div>
</div>
<div class="form-group">
<label for="authorized-users" class="col-sm-3 col-lg-2 control-label text-left">
Authorized Users
</label>
<div class="col-sm-7 col-lg-8">
<input type="text" id="authorized-users" name="authorized-users"
class="form-control"
value="{{phenotype.authorized_users |default('', true)}}" />
<input name="old_authorized_users" class="changed" type="hidden" value="{{ phenotype.authorized_users |default('', true) }}"/>
</div>
</div>
<div class="form-group">
<label for="authors" class="col-sm-3 col-lg-2 control-label text-left">Authors</label>
<div class="col-sm-7 col-lg-8">
<textarea name="authors" class="form-control" rows="3" placeholder="Example: Roy S, Ingels J, Bohl CJ, McCarty M, Lu L, Mulligan MK, Mozhui K, Centeno A, Williams EG, Auwerx J, Williams RW">{{ publication.authors |default('', true) }}</textarea>
<input name="old_authors" class="changed" type="hidden" value="{{ publication.authors |default('', true) }}"/>
</div>
</div>
<div class="form-group">
<label for="year" class="col-sm-3 col-lg-2 control-label text-left">Year</label>
<div class="col-sm-7 col-lg-8">
<input type="number" name="year" class="form-control"
min="1000"
value="{{publication.year |default(datetime.datetime.now().year) }}" />
<input name="old_year" class="changed" type="hidden" value="{{ publication.year |default('', true) }}"/>
</div>
</div>
<div class="form-group">
<label for="month" class="col-sm-3 col-lg-2 control-label text-left">Month</label>
<div class="col-sm-7 col-lg-8">
<select id="month" name="month" class="form-control">
{%set selected_month =(publication.month or datetime.datetime.now().strftime("%b"))%}
{%for smonth, lmonth in (("Jan", "January"),("Feb", "February"),("Mar", "March"),("Apr", "April"),("May", "May"),("Jun", "Jun"),("Jul", "July"),("Aug", "August"),("Sep", "September"),("Oct", "October"),("Nov", "November"),("Dec", "December"))%}
<option value="{{smonth}}"
{%if smonth == selected_month%}
selected="selected"
{%endif%}>{{lmonth}}</option>
{%endfor%}
</select>
<input name="old_month" class="changed" type="hidden" value="{{ publication.month |default('', true) }}"/>
</div>
</div>
<div class="form-group">
<label for="txt:title" class="col-sm-3 col-lg-2 control-label text-left">Title</label>
<div class="col-sm-7 col-lg-8">
<input type="text" id="txt:title" name="title"
class="form-control"
value="{{publication.title |default('', true)}}" />
<input name="old_title" class="changed" type="hidden" value="{{ publication.title |default('', true) }}"/>
</div>
</div>
<div class="form-group">
<label for="abstract" class="col-sm-3 col-lg-2 control-label text-left">Abstract</label>
<div class="col-sm-7 col-lg-8">
<textarea name="abstract" class="form-control" rows="6">{{ publication.abstract |default('', true) }}</textarea>
<input name="old_abstract" class="changed" type="hidden" value="{{ publication.abstract |default('', true) }}"/>
</div>
</div>
<div class="form-group">
<label for="volume" class="col-sm-3 col-lg-2 control-label text-left">Volume</label>
<div class="col-sm-7 col-lg-8">
<input type="text" id="volume" name="volume"
class="form-control"
value="{{publication.volume |default('', true)}}" />
<input name="old_volume" class="changed" type="hidden" value="{{ publication.volume |default('', true) }}"/>
</div>
</div>
<div class="form-group">
<label for="journal" class="col-sm-3 col-lg-2 control-label text-left">Journal</label>
<div class="col-sm-7 col-lg-8">
<input type="text" id="journal" name="journal"
class="form-control"
value="{{publication.journal |default('', true)}}" />
<input name="old_journal" class="changed" type="hidden" value="{{ publication.journal_ |default('', true) }}"/>
</div>
</div>
<div class="form-group">
<label for="pages" class="col-sm-3 col-lg-2 control-label text-left">Pages</label>
<div class="col-sm-7 col-lg-8">
<input type="text" id="pages" name="pages"
class="form-control"
value="{{publication.pages |default('', true)}}" />
<input name="old_pages" class="changed" type="hidden" value="{{ publication.pages |default('', true) }}"/>
</div>
</div>
<input type="submit" style="width: 125px; margin-right: 25px;" class="btn btn-success form-control changed" value="Submit Change">
</div>
{% if sample_list|length < 2000 %}
<div style="padding-top: 20px;">
<p class="text-info" style="padding-left: 5em;">
<strong>Type "x" to delete a value.</strong>
</p>
<table style="width: 500px;" class="table table-hover table-striped table-bordered left-float">
<thead>
<th></th>
<th>ID</th>
<th>Sample</th>
<th>Value</th>
<th></th>
<th>SE</th>
<th>N</th>
</thead>
<tbody>
{% for sample in sample_list %}
<tr>
<td><input type="checkbox"></td>
<td>{{ loop.index }}</td>
<td>{{ sample }}</td>
<td><input type="text" name="value:{{ sample }}" class="table_input" value="{% if sample_data.get(sample) %}{{ '%0.3f' | format(sample_data.get(sample).value | float) }}{% else %}x{% endif %}" size=4 maxlength=6></input></td>
<td>±</td>
<td><input type="text" name="error:{{ sample }}" class="table_input" value="{% if sample_data.get(sample).error %}{{ '%0.3f' | format(sample_data.get(sample).error | float) }}{% else %}x{% endif %}" size=4 maxlength=5></input></td>
<td><input type="text" name="n_cases:{{ sample }}" class="table_input" value="{% if sample_data.get(sample).n_cases %}{{ sample_data.get(sample).n_cases }}{% else %}x{% endif %}" size=3 maxlength=3></input></td>
</tr>
{% endfor %}
</tbody>
</table>
</div>
{% endif %}
</form>
</div>
{%endblock%}
{% block js %}
<script>
gn_server_url = "{{ gn_server_url }}";
function MarkAsChanged(){
$(this).addClass("changed");
}
$(":input").blur(MarkAsChanged).change(MarkAsChanged);
$("input[type=submit]").click(function(){
$(":input:not(.changed)").attr("disabled", "disabled");
});
// This is an awkward way to detect changes to table data, so it doesn't process it otherwise
$(".table_input").change(function(){
$("input[name=edited]").val("true");
});
</script>
{% endblock %}
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