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Code cleanup and documentation

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This commit is contained in:
Landon Wark
2024-02-09 14:03:35 -06:00
parent eda62fba5a
commit a534d229a8
30 changed files with 1558 additions and 1347 deletions
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119
src/submissions/templates/basicsubmission_details.html Normal file
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<!doctype html>
<html>
<head>
{% block head %}
<style>
/* Tooltip container */
.tooltip {
position: relative;
display: inline-block;
border-bottom: 1px dotted black; /* If you want dots under the hoverable text */
}
/* Tooltip text */
.tooltip .tooltiptext {
visibility: hidden;
width: 120px;
background-color: black;
color: #fff;
text-align: center;
padding: 5px 0;
border-radius: 6px;
/* Position the tooltip text - see examples below! */
position: absolute;
z-index: 1;
bottom: 100%;
left: 50%;
margin-left: -60px;
}
/* Show the tooltip text when you mouse over the tooltip container */
.tooltip:hover .tooltiptext {
visibility: visible;
font-size: large;
}
</style>
<title>Submission Details for {{ sub['Plate Number'] }}</title>
{% endblock %}
</head>
<body>
{% block body %}
<!-- {% set excluded = ['reagents', 'samples', 'controls', 'extraction_info', 'pcr_info', 'comment', 'barcode', 'platemap', 'export_map', 'equipment'] %} -->
<h2><u>Submission Details for {{ sub['Plate Number'] }}</u></h2>&nbsp;&nbsp;&nbsp;{% if sub['barcode'] %}<img align='right' height="30px" width="120px" src="data:image/jpeg;base64,{{ sub['barcode'] | safe }}">{% endif %}
<p>{% for key, value in sub.items() if key not in sub['excluded'] %}
&nbsp;&nbsp;&nbsp;&nbsp;<b>{{ key }}: </b>{% if key=='Cost' %}{% if sub['Cost'] %} {{ "${:,.2f}".format(value) }}{% endif %}{% else %}{{ value }}{% endif %}<br>
{% endfor %}</p>
<h3><u>Reagents:</u></h3>
<p>{% for item in sub['reagents'] %}
&nbsp;&nbsp;&nbsp;&nbsp;<b>{{ item['type'] }}</b>: {{ item['lot'] }} (EXP: {{ item['expiry'] }})<br>
{% endfor %}</p>
{% if sub['equipment'] %}
<h3><u>Equipment:</u></h3>
<p>{% for item in sub['equipment'] %}
&nbsp;&nbsp;&nbsp;&nbsp;<b>{{ item['role'] }}:</b> {{ item['name'] }} ({{ item['asset_number'] }}): {{ item['processes'][0]|replace('\n\t', '<br>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;') }}<br>
{% endfor %}</p>
{% endif %}
{% if sub['samples'] %}
<h3><u>Samples:</u></h3>
<p>{% for item in sub['samples'] %}
&nbsp;&nbsp;&nbsp;&nbsp;<b>{{ item['well'] }}:</b> {% if item['organism'] %} {{ item['name'] }} - ({{ item['organism']|replace('\n\t', '<br>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;') }}){% else %} {{ item['name']|replace('\n\t', '<br>&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;') }}{% endif %}<br>
{% endfor %}</p>
{% endif %}
{% if sub['controls'] %}
<h3><u>Attached Controls:</u></h3>
{% for item in sub['controls'] %}
<p>&nbsp;&nbsp;&nbsp;<b>{{ item['name'] }}:</b> {{ item['type'] }} (Targets: {{ item['targets'] }})</p>
{% if item['kraken'] %}
<p>&nbsp;&nbsp;&nbsp;{{ item['name'] }} Top 5 Kraken Results:</p>
<p>{% for genera in item['kraken'] %}
&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;{{ genera['name'] }}: {{ genera['kraken_count'] }} ({{ genera['kraken_percent'] }})<br>
{% endfor %}</p>
{% endif %}
{% endfor %}
{% endif %}
{% if sub['ext_info'] %}
{% for entry in sub['ext_info'] %}
<h3><u>Extraction Status:</u></h3>
<p>{% for key, value in entry.items() %}
{% if "column" in key %}
&nbsp;&nbsp;&nbsp;&nbsp;<b>{{ key|replace('_', ' ')|title() }}:</b> {{ value }}uL<br>
{% else %}
&nbsp;&nbsp;&nbsp;&nbsp;<b>{{ key|replace('_', ' ')|title() }}:</b> {{ value }}<br>
{% endif %}
{% endfor %}</p>
{% endfor %}
{% endif %}
{% if sub['pcr_info'] %}
{% for entry in sub['pcr_info'] %}
{% if 'comment' not in entry.keys() %}
<h3><u>qPCR Momentum Status:</u></h3>
{% else %}
<h3><u>qPCR Status:</u></h3>
{% endif %}
<p>{% for key, value in entry.items() if key != 'imported_by'%}
{% if "column" in key %}
&nbsp;&nbsp;&nbsp;&nbsp;<b>{{ key|replace('_', ' ')|title() }}:</b> {{ value }}uL<br>
{% else %}
&nbsp;&nbsp;&nbsp;&nbsp;<b>{{ key|replace('_', ' ')|title() }}:</b> {{ value }}<br>
{% endif %}
{% endfor %}</p>
{% endfor %}
{% endif %}
{% if sub['comment'] %}
<h3><u>Comments:</u></h3>
<p>{% for entry in sub['comment'] %}
&nbsp;&nbsp;&nbsp;&nbsp;&nbsp;<b>{{ entry['name'] }}:</b><br> {{ entry['text'] }}<br>- {{ entry['time'] }}<br>
{% endfor %}</p>
{% endif %}
{% if sub['platemap'] %}
<h3><u>Plate map:</u></h3>
{{ sub['platemap'] }}
{% endif %}
{% if sub['export_map'] %}
<h3><u>Plate map:</u></h3>
<img height="300px" width="650px" src="data:image/jpeg;base64,{{ sub['export_map'] | safe }}">
{% endif %}
{% endblock %}
</body>
</html>