walker-database/templates/admin.html

{% extends "base.html" %}
{% block content %}
    <link rel="stylesheet"
          href="//cdnjs.cloudflare.com/ajax/libs/highlight.js/11.7.0/styles/default.min.css">
    <script src="//cdnjs.cloudflare.com/ajax/libs/highlight.js/11.7.0/highlight.min.js"></script>
    <script>hljs.highlightAll();</script>
    <h1>Admin Dashboard</h1>
    <article>
        <p>Logged in as {{user}}</p>
        <a href="{{url_for('chemical_create')}}">
            <button>
                Add a Chemical
            </button>
        </a>
        <h2>Admin Authentication</h2>
        <p>
            Since there is now an admin, only admins can create new admin accounts. You can do so through the <code>/admin/create</code>
            route.
        </p>
        <h2>API Routes</h2>
        <ul>
            <li><code>/chemical/all</code> - returns all chemicals in the database as JSON</li>
            <li><code>/chemical/search</code> - returns JSON for search queries. This endpoint takes GET parameters as follows:
                <ul>
                    <li>mz_min: Minimum M/Z Ratio</li>
                    <li>mz_max: Maximum M/Z Ratio</li>
                    <li>rt_min: Minimum Retention Time</li>
                    <li>rt_max: Maximum Retention Time</li>
                </ul>
            </li>
            <li><code>/chemical/&lt;chemical id&gt;/{view,update,delete}</code> - CRUD endpoints for chemicals.</li>
        </ul>
        <h2>Programmatically adding Chemicals</h2>
        <p>
            You need admin credentials to access the <code>/chemical/create</code> endpoint, so using an HTTP library
            like python's requests library is highly recommended for keeping track of session cookies.
        </p>
        <pre><code class="language-python">
import requests
session = requests.session()
baseurl = "chemicaldb.teidkim.me"
session.post(baseurl + "/admin/login", {"username": &lt;username&gt;, "password": &lt;password&gt;})
fields = {
    "chemical_db_id": &lt;db id from another database&gt;,
    "library": (library),
    # name, formula, and mass are required fields!
    "name": (name of the chemical),
    "formula": (molecular formula),
    "mass": (monoisotopic mass, float),
    "pubchem_cid": &lt;string&gt;,
    "pubmed_refcount": &lt;integer&gt;
    "standard_class": &lt;string&gt;
    "inchikey": &lt;inchikey&gt;,
    "inchikey14": &lt;inchikey14&gt;,
    # final_mz and final_rt are required fields!
    "final_mz": (m/z ratio after experiment, float),
    "final_rt": (retention time after experiment, float),
    "final_adduct": &lt;string&gt;,
    "final_adduct": &lt;string&gt;,
    "detected_adducts": &lt;string&gt;,
    "adduct_calc_mz": &lt;string&gt;,
    "msms_detected": &lt;string if yes, do not include this field otherwise&gt;
    "msms_purity": &lt;float&gt;
}
session.post(baseurl + "/chemical/create", fields)
        </code></pre>
    </article>
{% endblock %}