compound_list.html 27.5 KB
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{% extends "base.html" %}
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{% load customtags %}
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{% block title %}compounds list{% endblock %}
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{% block extra_js %}
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{{block.super}}
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<script src="/static/marvinjs-18/js/util.js"></script>
<script src="/static/marvinjs-18/js/marvinjslauncher.js"></script>
<script src="/static/marvinjs-18/gui/lib/promise-1.0.0.min.js"></script>
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<script src="/static/js/ippidb-compoundws.js"></script>
<script src="/static/js/ippidb-marvinjsmodal.js"></script>
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{% endblock %}

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{% block content %}
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<div class="inner-wrap">
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    <nav class="breadcrumb breadNav" role="navigation">
        <div class="breadNav-label">You are here</div>
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        <div aria-labelledby="breadcrumb-label">
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            {% block breadcrumb %} <a href="/compounds/" class="breadNav-link"> > Query compounds</a>{% endblock %} 
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        </div>
    </nav>
</div>
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<div class="container-fluid">
<div class="row flex-xl-nowrap">
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<main class="col-12" role="main">
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    <form class="container-fluid">
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        <div class="m-2">
            <div class="row">
                <span class="border border-primary rounded p-1 m-1 col-lg-12 col-xl-2">
                    <div class="row" style="display: inline-flex">
                        <i class="icon icon-common icon-search mr-2 ml-1 col-2" style="font-size: 1.75rem; vertical-align: middle" title="Text search"></i>                                
                        <input style="width: 100%" id="q" value="{{ q | default_if_none:"" }}" class="form-control col-9" type="search" placeholder="Type search text here" onchange="modifyUrl('q',$('#q').val());">
                    </div>            
                </span>
                <span class="border border-primary rounded p-1 m-1 col-lg-12 col-xl-auto">
                    <i class="icon icon-conceptual icon-chemical" style="font-size: 1.75rem; vertical-align: middle" title="Compound filters"></i>
                    <div class="dropdown btn-group">
                        <button class="btn btn-primary dropdown-toggle" type="button" id="pcpropMenuButton" data-toggle="dropdown" aria-haspopup="true" aria-expanded="false">
                            Physico-Chemical Properties
                        </button>
                        <div class="dropdown-menu" aria-labelledby="pcpropMenuButton">
                            {% include "modal_open_button.html" with label="H donors" param_name="nb_donor_h" %}
                            {% include "modal_open_button.html" with label="H acceptors" param_name="nb_acceptor_h" %}
                            {% include "modal_open_button.html" with label="TPSA" param_name="tpsa" %}
                            {% include "modal_open_button.html" with label="Nb rotatable bonds" param_name="nb_rotatable_bonds" %}
                            {% include "modal_open_button.html" with label="Molecular weight" param_name="molecular_weight" %}        
                            {% include "modal_open_button.html" with label="AlogP" param_name="a_log_p" %}
                            {% include "modal_open_button.html" with label="Nb aromatic SSSR" param_name="nb_aromatic_sssr" %}
                            {% include "modal_open_button.html" with label="Nb chiral centers" param_name="nb_chiral_centers" %}
                            {% include "modal_open_button.html" with label="Fsp3" param_name="fsp3" %}
                        </div>
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                    </div>
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                    <button class="btn btn-primary" data-toggle="modal" data-target="#modal-marvin" onclick="return false;">
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                        Chemical similarity
                    </button>                
                    <div class="dropdown btn-group" style="display: inline-flex;">
                        <button class="btn btn-primary dropdown-toggle" type="button" id="crMenuButton" data-toggle="dropdown" aria-haspopup="true" aria-expanded="false">
                            Chemistry Rules
                        </button>
                        <div class="dropdown-menu" aria-labelledby="crMenuButton">
                            {% include "dropdown_checkbox.html" with label="Lipinsky rule of 5" param_name="lipinsky" value=lipinsky %}
                            {% include "dropdown_checkbox.html" with label="Veber" param_name="veber" value=veber %}
                            {% include "dropdown_checkbox.html" with label="Pfizer 3/75" param_name="pfizer" value=pfizer %}
                        </div>
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                    </div>
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                    <div class="dropdown btn-group" style="display: inline-flex;">
                        <button class="btn btn-primary dropdown-toggle" type="button" id="aeMenuButton" data-toggle="dropdown" aria-haspopup="true" aria-expanded="false">
                            Activity and Efficiencies
                        </button>
                        <div class="dropdown-menu" aria-labelledby="aeMenuButton">
                            {% include "modal_open_button.html" with label="Best Activity" param_name="best_activity" %}
                            {% include "modal_open_button.html" with label="LE" param_name="le" %}
                            {% include "modal_open_button.html" with label="LLE" param_name="lle" %}
                        </div>
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                    </div>
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                    <div class="dropdown btn-group" style="display: inline-flex;">
                        <button class="btn btn-primary dropdown-toggle" type="button" id="mmoaMenuButton" data-toggle="dropdown" aria-haspopup="true" aria-expanded="false">
                            Molecular Mechanism of Action
                        </button>
                        <div class="dropdown-menu" aria-labelledby="mmoaMenuButton">
                            {% include "dropdown_checkbox.html" with label="PDB ligand available" param_name="pdb_ligand_av" value=pdb_ligand_av %}
                            <div class="dropdown-divider"></div>
                            {% include "dropdown_checkbox.html" with label="Inhibition role" param_name="inhibition_role" value=inhibition_role %}
                            {% include "dropdown_checkbox.html" with label="Stabilisation role" param_name="stabilisation_role" value=stabilisation_role %}
                        </div>
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                    </div>
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                    <div class="dropdown btn-group" style="display: inline-flex;">
                        <button class="btn btn-primary dropdown-toggle" type="button" id="elMenuButton" data-toggle="dropdown" aria-haspopup="true" aria-expanded="false">
                            External Links
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                        </button>
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                        <div class="dropdown-menu" aria-labelledby="elMenuButton">
                            <label class="dropdown-item" onclick="toggleCheckBox('pubchem_id')">
                                <input type="checkbox" id="pubchem_id" {% if pubchem_id %}checked{% endif %}/> in PubChem
                            </label>
                            <label class="dropdown-item" onclick="toggleCheckBox('chembl_id')">
                                <input type="checkbox" id="chembl_id"  {% if chembl_id %}checked{% endif %}/> in ChEMBL
                            </label>
                            <label class="dropdown-item" onclick="toggleCheckBox('chemspider_id')">
                                <input type="checkbox" id="chemspider_id" {% if chemspider_id %}checked{% endif %}/> in ChemSpider
                            </label>                                            
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                        </div>
                    </div>            
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                </span>
                <span class="border border-primary rounded p-1 m-1 col-lg-5 col-xl-auto">
                    <i class="icon icon-conceptual icon-structures-3d"  style="font-size: 1.75rem; vertical-align: middle" title="PPI target filters"></i>
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                    <div class="dropdown btn-group" style="display: inline-flex;">
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                            <button class="btn btn-primary dropdown-toggle" type="button" id="ptfMenuButton" data-toggle="dropdown" aria-haspopup="true" aria-expanded="false">
                                PPI target filters
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                            </button>
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                            <div class="dropdown-menu" aria-labelledby="ptfMenuButton">
                                {% include "modal_open_button.html" with label="PFAM" param_name="domain" %}
                                {% include "modal_open_button.html" with label="Bound complex" param_name="boundcomplex" %}
                                {% include "modal_open_button.html" with label="Partner complex" param_name="partnercomplex" %}
                                {% include "modal_open_button.html" with label="PPI Family" param_name="family" %}
                                {% include "modal_open_button.html" with label="Organism" param_name="taxonomy" %}
                                {% include "modal_open_button.html" with label="Disease" param_name="disease" %}
                                {% include "modal_open_button.html" with label="Molecular function" param_name="molecular_function" %}
                                {% include "modal_open_button.html" with label="PPI" param_name="ppi" %}
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                            </div>
                        </div>            
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                </span>
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                <span class="border border-primary rounded p-1 m-1 col-lg-5 col-xl-auto">
                        <i class="icon icon-common icon-flask" style="font-size: 1.75rem; vertical-align: middle" title="Affinity assay filters"></i>
                        <div class="dropdown btn-group" style="display: inline-flex;">
                                <button class="btn btn-primary dropdown-toggle" type="button" id="aaMenuButton" data-toggle="dropdown" aria-haspopup="true" aria-expanded="false">
                                    Affinity assays
                                </button>
                                <div class="dropdown-menu" aria-labelledby="aaMenuButton">                                
                                    {% include "modal_open_button.html" with label="Biochemical tests" param_name="biochtest" %}
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                                    {% include "modal_open_button.html" with label="Cellular tests" param_name="celltest" %}
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                                    <div class="dropdown-divider"></div>
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                                    <label class="dropdown-item" onclick="toggleCheckBox('celltest_av')">
                                        <input type="checkbox" id="celltest_av" {% if celltest_av %}checked{% endif %}/> Cellular tests performed
                                    </label>
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                                    <label class="dropdown-item" onclick="toggleCheckBox('inhitest_av')">
                                        <input type="checkbox" id="inhitest_av" {% if inhitest_av %}checked{% endif %}/> Inhibition tests performed
                                    </label>
                                    <label class="dropdown-item" onclick="toggleCheckBox('stabtest_av')">
                                        <input type="checkbox" id="stabtest_av" {% if stabtest_av %}checked{% endif %}/> Stabilisation tests performed
                                    </label>
                                    <label class="dropdown-item" onclick="toggleCheckBox('bindtest_av')">
                                        <input type="checkbox" id="bindtest_av" {% if bindtest_av %}checked{% endif %}/> Binding tests performed
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                                    </label>
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                                    <label class="dropdown-item" onclick="toggleCheckBox('pktest_av')">
                                        <input type="checkbox" id="pktest_av" {% if pktest_av %}checked{% endif %}/> Pharmacokinetic tests performed
                                    </label>
                                    <label class="dropdown-item" onclick="toggleCheckBox('cytoxtest_av')">
                                        <input type="checkbox" id="cytoxtest_av" {% if cytoxtest_av %}checked{% endif %}/> Cytotoxicity tests performed
                                    </label>
                                    <label class="dropdown-item" onclick="toggleCheckBox('insilico_av')">
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                                        <input type="checkbox" id="insilico_av" {% if insilico_av %}checked{% endif %}/> In silico studies performed
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                                    </label>
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                                    <div class="dropdown-divider"></div>
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                                    {% include "modal_open_button.html" with label="Publications" param_name="pubs" %}
                                </div>
                            </div>            
                </span>
            </div>
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        </div>
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        <div class="m-2 d-flex justify-content-between">
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            <span>{{ paginator.count }} compounds</span>
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            {% if filter_on %}
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            <span>
                &nbsp;-&nbsp;filters:&nbsp;
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                    {% include "slider_badge.html" with param_name="nb_donor_h" param_value=nb_donor_h param_value_min=nb_donor_h_value_min param_value_max=nb_donor_h_value_max param_label="H donors" %}
                    {% include "slider_badge.html" with param_name="nb_acceptor_h" param_value=nb_acceptor_h param_value_min=nb_acceptor_h_value_min param_value_max=nb_acceptor_h_value_max param_label="H acceptors" %}
                    {% include "slider_badge.html" with param_name="tpsa" param_value=tpsa param_value_min=tpsa_value_min param_value_max=tpsa_value_max param_label="TPSA" %}
                    {% include "slider_badge.html" with param_name="nb_rotatable_bonds" param_value=nb_rotatable_bonds param_value_min=nb_rotatable_bonds_min param_value_max=nb_rotatable_bonds_max param_label="Rot. bonds" %}
                    {% include "slider_badge.html" with param_name="molecular_weight" param_value=molecular_weight param_value_min=molecular_weight_value_min param_value_max=molecular_weight_value_max param_label="MW cutoff" %}
                    {% include "slider_badge.html" with param_name="a_log_p" param_value=a_log_p param_value_min=a_log_p_value_min param_value_max=a_log_p_value_max param_label="AlogP cutoff" %}
                    {% include "slider_badge.html" with param_name="nb_aromatic_sssr" param_value=nb_aromatic_sssr param_value_min=nb_aromatic_sssr_value_min param_value_max=nb_aromatic_sssr_value_max param_label="Nb aromatic SSSR" %}
                    {% include "slider_badge.html" with param_name="nb_chiral_centers" param_value=nb_chiral_centers param_value_min=nb_chiral_centers_value_min param_value_max=nb_chiral_centers_value_max param_label="Nb chiral centers" %}
                    {% include "slider_badge.html" with param_name="fsp3" param_value=fsp3 param_value_min=fsp3_value_min param_value_max=fsp3_value_max param_label="Fsp3" %}
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                    {% include "boolean_badge.html" with param_name="lipinsky" param_value=lipinsky label="Lipinsky rule of 5"%}
                    {% include "boolean_badge.html" with param_name="veber" param_value=veber label="Veber"%}
                    {% include "boolean_badge.html" with param_name="pfizer" param_value=pfizer label="Pfizer 3/75"%}
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                    {% include "slider_badge.html" with param_name="best_activity" param_value=best_activity param_value_min=best_activity_value_min param_value_max=best_activity_value_max param_label="Best Act." %}
                    {% include "slider_badge.html" with param_name="le" param_value=le param_value_min=le_value_min param_value_max=le_value_max param_label="LE" %}
                    {% include "slider_badge.html" with param_name="lle" param_value=lle param_value_min=lle_value_min param_value_max=lle_value_max param_label="LLE" %}
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                    {% include "boolean_badge.html" with param_name="pdb_ligand_av" param_value=pdb_ligand_av label="PDB ligand available"%}
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                    {% include "boolean_badge.html" with param_name="inhibition_role" param_value=inhibition_role label="Inhibition role"%}
                    {% include "boolean_badge.html" with param_name="stabilisation_role" param_value=stabilisation_role label="Stabilisation role"%}
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                    {% include "boolean_badge.html" with param_name="pubchem_id" param_value=pubchem_id label="PubChem ID"%}
                    {% include "boolean_badge.html" with param_name="chembl_id" param_value=chembl_id label="ChEMBL ID"%}
                    {% include "boolean_badge.html" with param_name="chemspider_id" param_value=chemspider_id label="ChemSpider ID"%}

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                    {% include "selected_badge.html" with param_name="domain" values=selected_domain %}
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                    {% include "selected_badge.html" with param_name="boundcomplex" values=selected_boundcomplex %}
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                    {% include "selected_badge.html" with param_name="partnercomplex" values=selected_partnercomplex %}
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                    {% include "selected_badge.html" with param_name="family" values=selected_family %}
                    {% include "selected_badge.html" with param_name="taxonomy" values=selected_taxonomy %}
                    {% include "selected_badge.html" with param_name="disease" values=selected_disease %}
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                    {% include "selected_badge.html" with param_name="molecular_function" values=selected_molecular_function %}
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                    {% include "selected_badge.html" with param_name="ppi" values=selected_ppi %}
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                    {% include "similarity_badge.html" with param_name="similar_to" param_value=similar_to_query param_label="Similar to " %}

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                    {% include "selected_badge.html" with param_name="biochtest" values=selected_biochtest %}
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                    {% include "selected_badge.html" with param_name="celltest" values=selected_celltest %}
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                    {% include "boolean_badge.html" with param_name="celltest_av" param_value=celltest_av label="Cellular tests performed"%}
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                    {% include "boolean_badge.html" with param_name="inhitest_av" param_value=inhitest_av label="Inhibition tests performed"%}
                    {% include "boolean_badge.html" with param_name="stabtest_av" param_value=stabtest_av label="Stabilisation tests performed"%}
                    {% include "boolean_badge.html" with param_name="bindtest_av" param_value=bindtest_av label="Binding tests performed"%}
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                    {% include "boolean_badge.html" with param_name="pktest_av" param_value=pktest_av label="Pharmacokinetic tests performed"%}
                    {% include "boolean_badge.html" with param_name="cytoxtest_av" param_value=cytoxtest_av label="Cytotoxicity tests performed"%}
                    {% include "boolean_badge.html" with param_name="insilico_av" param_value=insilico_av label="In silico studies performed"%}
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                    {% include "slider_badge.html" with param_name="pubs" param_value=pubs param_value_min=pubs_value_min param_value_max=pubs_value_max param_label="Publications" %}
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            </span>
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            {% endif %}
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            <div class="m-1 ml-auto">
                {% include "compound_list_pagination.html" %}
            </div>
            <div class="btn-group btn-group-sm ml-1">
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                <button class="btn btn-secondary dropdown-toggle" type="button" id="sortMenuButton" data-toggle="dropdown" aria-haspopup="true" aria-expanded="false">
                    <i class="fas fa-sort-amount-down" title="sort by"></i>
                </button>
                <div class="dropdown-menu" aria-labelledby="sortMenuButto">
                    {% for sort_by_value, sort_by_entry in sort_by_options.items %}
                            <a class="dropdown-item {% if sort_by_value == sort_by %}active{% endif %}" href="#" onclick="modifyUrl('sort_by','{{ sort_by_value }}')">{{ sort_by_entry.name }} ({{ sort_by_entry.order }})</a>
                    {% endfor %}
                </div>
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            </div>
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            <span class="btn-group btn-group-sm ml-1 pb-0">
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                <a class="btn btn-default btn-outline-primary {% if display == 'v' %}active{% endif %}" href="#" {% if display != 'v' %}onclick="modifyUrl('display', 'v')"{% endif %}>
                    <i class="fa fa-th" title="Thumbnails"></i>
                </a>
                <a class="btn btn-default btn-outline-primary {% if display == 'l' %}active{% endif %}" href="#" {% if display != 'l' %}onclick="modifyUrl('display', 'l')"{% endif %}>
                    <i class="fa fa-bars" title="List"></i>
                </a>
                <a class="btn btn-default btn-outline-primary {% if display == 't' %}active{% endif %}" href="#" {% if display != 't' %}onclick="modifyUrl('display', 't')"{% endif %}>
                    <i class="fa fa-table" title="Table"></i>
                </a>
            </span>
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        </div>
    </form>
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{% if page_obj %}
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    <div class="container-fluid">
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    {% if display == 'v' %}
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        <div class="d-flex flex-wrap m-2 justify-content-between">
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        {% for compound in page_obj %}
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            {% include "compound_v_item.html" with compound=compound %}
        {% endfor %}
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        </div>
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    {% elif display == 'l'%}
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        {% for compound in page_obj %}
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            {% include "compound_l_item.html" with compound=compound %}
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        {% endfor %}
    {% else %}
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        {% include "compound_t_list.html" with compounds=page_obj %}
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    {% endif %}
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    </div>
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{% else %}
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    <p>Nothing found there!</p>
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{% endif %}					
                    </main>
</div>
</div>

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  {% include "compound_list_pagination.html" %}
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  {% include "multiselection_modal.html" with label="PPI Family" selected_list=selected_family unselected_list=family param_name="family" all_param_name="family_all" all_param_value=family_all %}
  {% include "multiselection_modal.html" with label="PPI" selected_list=selected_ppi unselected_list=ppi param_name="ppi" all_param_name="ppi_all" all_param_value=ppi_all %}
  {% include "multiselection_modal.html" with label="Disease" selected_list=selected_disease unselected_list=disease param_name="disease" all_param_name="disease_all" all_param_value=disease_all %}
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  {% include "multiselection_modal.html" with label="Molecular function" selected_list=selected_molecular_function unselected_list=molecular_function param_name="molecular_function" all_param_name="molecular_function_all" all_param_value=molecular_function_all %}
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  {% include "multiselection_modal.html" with label="Organism" selected_list=selected_taxonomy unselected_list=taxonomy param_name="taxonomy" all_param_name="taxonomy_all" all_param_value=taxonomy_all %}
  {% include "multiselection_modal.html" with label="Bound complex" selected_list=selected_boundcomplex unselected_list=boundcomplex param_name="boundcomplex" all_param_name="boundcomplex_all" all_param_value=boundcomplex_all %}
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  {% include "multiselection_modal.html" with label="Partner complex" selected_list=selected_partnercomplex unselected_list=partnercomplex param_name="partnercomplex" all_param_name="partnercomplex_all" all_param_value=boundcomplex_all %}
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  {% include "multiselection_modal.html" with label="PFAM" selected_list=selected_domain unselected_list=domain param_name="domain" all_param_name="domain_all" all_param_value=domain_all %}
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  {% include "multiselection_modal.html" with label="Biochemical tests" selected_list=selected_biochtest unselected_list=biochtest param_name="biochtest" all_param_name="biochtest_all" all_param_value=domain_all on_value="test_name" %}
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  {% include "multiselection_modal.html" with label="Cellular tests" selected_list=selected_celltest unselected_list=celltest param_name="celltest" all_param_name="celltest_all" all_param_value=domain_all on_value="test_name" %}
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  {% include "slider_modal.html" with label="Molecular Weight" param_name="molecular_weight" param_min=molecular_weight_min param_max=molecular_weight_max param_value=molecular_weight param_value_min=molecular_weight_value_min param_value_max=molecular_weight_value_max step='50' param_label='Select a cutoff value for the molecular weight of the compounds to be selected'%}
  {% include "slider_modal.html" with label="AlogP" param_name="a_log_p" param_min=a_log_p_min param_max=a_log_p_max param_value=a_log_p param_value_min=a_log_p_value_min param_value_max=a_log_p_value_max step='1' param_label='Select a cutoff value for the AlogP of the compounds to be selected'%}
  {% include "slider_modal.html" with label="H donors" param_name="nb_donor_h" param_min=nb_donor_h_min param_max=nb_donor_h_max param_value=nb_donor_h param_value_min=nb_donor_h_value_min param_value_max=nb_donor_h_value_max step='1' param_label='Select a cutoff value for the number of H donors in the compounds to be selected'%}
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  {% include "slider_modal.html" with label="H acceptors" param_name="nb_acceptor_h" param_min=nb_acceptor_h_min param_max=nb_acceptor_h_max param_value=nb_acceptor_h param_value_min=nb_acceptor_h_value_min param_value_max=nb_acceptor_h_value_max step='1' param_label='Select a cutoff value for the number of H acceptors in the compounds to be selected'%}
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  {% include "slider_modal.html" with label="TPSA" param_name="tpsa" param_min=tpsa_min param_max=tpsa_max param_value=tpsa param_value_min=tpsa_value_min param_value_max=tpsa_value_max step='50' param_label='Select a cutoff value for the TPSA of the compounds to be selected'%}
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  {% include "slider_modal.html" with label="Nb rotatable bonds" param_name="nb_rotatable_bonds" param_min=nb_rotatable_bonds_min param_max=nb_rotatable_bonds_max param_value=nb_rotatable_bonds param_value_min=nb_rotatable_bonds_value_min param_value_max=nb_rotatable_bonds_value_max step='1' param_label='Select a cutoff value for the number of rotatable bounds in the compounds to be selected'%}
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  {% include "slider_modal.html" with label="Nb aromatic SSSR" param_name="nb_aromatic_sssr" param_min=nb_aromatic_sssr_min param_max=nb_aromatic_sssr_max param_value=nb_aromatic_sssr param_value_min=nb_aromatic_sssr_value_min param_value_max=nb_aromatic_sssr_value_max step='1' param_label='Select a cutoff value for the number of aromatic SSSR in the compounds to be selected'%}
  {% include "slider_modal.html" with label="Nb chiral centers" param_name="nb_chiral_centers" param_min=nb_chiral_centers_min param_max=nb_chiral_centers_max param_value=nb_chiral_centers param_value_min=nb_chiral_centers_value_min param_value_max=nb_chiral_centers_value_max step='1' param_label='Select a cutoff value for the number of chiral centers in the compounds to be selected'%}
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  {% include "slider_modal.html" with label="FSP3" param_name="fsp3" param_min=fsp3_min param_max=fsp3_max param_value=fsp3 param_value_min=fsp3_value_min param_value_max=fsp3_value_max step='0.1' param_label='Select a cutoff value for the FSP3 of the compounds to be selected'%}
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  {% include "slider_modal.html" with label="Publications" param_name="pubs" param_min=pubs_min param_max=pubs_max param_value=pubs param_value_min=pubs_value_min param_value_max=pubs_value_max  step='1' param_label='Select a cutoff value for the number of publications mentioning the compounds to be selected'%}
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  {% include "marvinjs_modal.html" with smiles=similar_to_query fingerprint=similar_to_fingerprint %}
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  {% include "slider_modal.html" with label="Best Activiry" param_name="best_activity" param_min=best_activity_min param_max=best_activity_max param_value=best_activity param_value_min=best_activity_value_min param_value_max=best_activity_value_max step='1' param_label='Select a cutoff value for the best activity of the compounds to be selected'%}
  {% include "slider_modal.html" with label="LE" param_name="le" param_min=le_min param_max=le_max param_value=le param_value_min=le_value_min param_value_max=le_value_max step='0.1' param_label='Select a cutoff value for the LE of the compounds to be selected'%}
  {% include "slider_modal.html" with label="LLE" param_name="lle" param_min=lle_min param_max=lle_max param_value=lle param_value_min=lle_value_min param_value_max=lle_value_max step='1' param_label='Select a cutoff value for the LLE of the compounds to be selected'%}
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{% endblock %}