diff options
Diffstat (limited to 'wqflask')
| -rw-r--r-- | wqflask/base/trait.py | 2 | ||||
| -rw-r--r-- | wqflask/wqflask/correlation/show_corr_results.py | 109 | ||||
| -rw-r--r-- | wqflask/wqflask/static/new/css/trait_list.css | 32 | ||||
| -rw-r--r-- | wqflask/wqflask/templates/correlation_page.html | 518 | ||||
| -rw-r--r-- | wqflask/wqflask/templates/search_result_page.html | 1 |
5 files changed, 393 insertions, 269 deletions
diff --git a/wqflask/base/trait.py b/wqflask/base/trait.py index 0f8f937c..ec8c40a0 100644 --- a/wqflask/base/trait.py +++ b/wqflask/base/trait.py @@ -516,7 +516,7 @@ def retrieve_trait_info(trait, dataset, get_qtl_info=False): # If the dataset is confidential and the user has access to confidential # phenotype traits, then display the pre-publication description instead # of the post-publication description - if trait.confidential: + if not trait.pubmed_id: trait.abbreviation = trait.pre_publication_abbreviation trait.description_display = trait.pre_publication_description else: diff --git a/wqflask/wqflask/correlation/show_corr_results.py b/wqflask/wqflask/correlation/show_corr_results.py index 4c2b64ba..1b801b1d 100644 --- a/wqflask/wqflask/correlation/show_corr_results.py +++ b/wqflask/wqflask/correlation/show_corr_results.py @@ -484,75 +484,78 @@ def generate_corr_json(corr_results, this_trait, dataset, target_dataset, for_ap if trait.view == False: continue results_dict = {} - if not for_api: - results_dict['checkbox'] = "<INPUT TYPE='checkbox' NAME='searchResult' class='checkbox trait_checkbox' style='padding-right: 0px;' VALUE='" + hmac.hmac_creation('{}:{}'.format(trait.name, trait.dataset.name)) + "'>" - results_dict['index'] = i + 1 - results_dict['trait_id'] = "<a href='/show_trait?trait_id="+str(trait.name)+"&dataset="+str(dataset.name)+"'>"+str(trait.name)+"</a>" - else: - results_dict['trait_id'] = trait.name + results_dict['index'] = i + 1 + results_dict['trait_id'] = trait.name + results_dict['dataset'] = trait.dataset.name if target_dataset.type == "ProbeSet": results_dict['symbol'] = trait.symbol - results_dict['description'] = trait.description_display + results_dict['description'] = "N/A" results_dict['location'] = trait.location_repr - results_dict['mean'] = float(trait.mean) + results_dict['mean'] = "N/A" + results_dict['lrs_score'] = "N/A" + results_dict['additive'] = "N/A" + if bool(trait.description_display): + results_dict['description'] = trait.description_display + if bool(trait.mean): + results_dict['mean'] = float(trait.mean) if trait.LRS_score_repr != "N/A": - results_dict['lrs_score'] = "%.1f" % float(trait.LRS_score_repr) - else: - results_dict['lrs_score'] = "N/A" + results_dict['lrs_score'] = f"{float(trait.LRS_score_repr):.1f}" results_dict['lrs_location'] = trait.LRS_location_repr - if trait.additive != "": - results_dict['additive'] = "%0.3f" % float(trait.additive) - else: - results_dict['additive'] = "N/A" - if for_api: - results_dict['sample_r'] = "%0.3f" % float(trait.sample_r) - else: - results_dict['sample_r'] = "<a target='_blank' href='corr_scatter_plot?dataset_1=" + str(dataset.name) + "&dataset_2=" + str(trait.dataset.name) + "&trait_1=" + str(this_trait.name) + "&trait_2=" + str(trait.name) + "'>" + "%0.3f" % float(trait.sample_r) + "</a>" + if bool(trait.additive): + results_dict['additive'] = f"{float(trait.additive):.3f}" + results_dict['sample_r'] = f"{float(trait.sample_r):.3f}" results_dict['num_overlap'] = trait.num_overlap - results_dict['sample_p'] = "%0.3e" % float(trait.sample_p) - if trait.lit_corr == "" or trait.lit_corr == 0: - results_dict['lit_corr'] = "--" - else: - results_dict['lit_corr'] = "%0.3f" % float(trait.lit_corr) - if trait.tissue_corr == "" or trait.tissue_corr == 0: - results_dict['tissue_corr'] = "--" - else: - results_dict['tissue_corr'] = "%0.3f" % float(trait.tissue_corr) + results_dict['sample_p'] = f"{float(trait.sample_p):.3e}" + results_dict['lit_corr'] = "--" + results_dict['tissue_corr'] = "--" + results_dict['tissue_pvalue'] = "--" + if bool(trait.lit_corr): + results_dict['lit_corr'] = f"{float(trait.lit_corr):.3f}" + if bool(trait.tissue_corr): + results_dict['tissue_corr'] = f"{float(trait.tissue_corr):.3f}" + results_dict['tissue_pvalue'] = f"{float(trait.tissue_pvalue):.3e}" elif target_dataset.type == "Publish": - results_dict['description'] = trait.description_display - results_dict['authors'] = trait.authors - if trait.pubmed_id: + results_dict['abbreviation_display'] = "N/A" + results_dict['description'] = "N/A" + results_dict['authors_display'] = "N/A" + results_dict['additive'] = "N/A" + if for_api: + results_dict['pubmed_id'] = "N/A" + results_dict['year'] = "N/A" + else: + results_dict['pubmed_link'] = "N/A" + results_dict['pubmed_text'] = "N/A" + + if bool(trait.abbreviation): + results_dict['abbreviation_display'] = trait.abbreviation + if bool(trait.description_display): + results_dict['description'] = trait.description_display + if bool(trait.authors): + authors_list = trait.authors.split(',') + if len(authors_list) > 6: + results_dict['authors_display'] = ", ".join(authors_list[:6]) + ", et al." + else: + results_dict['authors_display'] = trait.authors + if bool(trait.pubmed_id): if for_api: results_dict['pubmed_id'] = trait.pubmed_id results_dict['year'] = trait.pubmed_text else: - results_dict['pubmed'] = "<a href='" + trait.pubmed_link + "'> " + trait.pubmed_text + "</a>" - else: - if for_api: - results_dict['pubmed_id'] = "N/A" - results_dict['year'] = "N/A" - else: - results_dict['pubmed'] = "N/A" + results_dict['pubmed_link'] = trait.pubmed_link + results_dict['pubmed_text'] = trait.pubmed_text + results_dict['lrs_score'] = trait.LRS_score_repr results_dict['lrs_location'] = trait.LRS_location_repr - if trait.additive != "": - results_dict['additive'] = "%0.3f" % float(trait.additive) - else: - results_dict['additive'] = "N/A" - if for_api: - results_dict['sample_r'] = "%0.3f" % trait.sample_r - else: - results_dict['sample_r'] = "<a target='_blank' href='corr_scatter_plot?dataset_1=" + str(dataset.name) + "&dataset_2=" + str(trait.dataset.name) + "&trait_1=" + str(this_trait.name) + "&trait_2=" + str(trait.name) + "'>" + "%0.3f" % trait.sample_r + "</a>" + if bool(trait.additive): + results_dict['additive'] = f"{float(trait.additive):.3f}" + results_dict['sample_r'] = f"{float(trait.sample_r):.3f}" results_dict['num_overlap'] = trait.num_overlap - results_dict['sample_p'] = "%0.3e" % float(trait.sample_p) + results_dict['sample_p'] = f"{float(trait.sample_p):.3e}" else: - results_dict['lrs_location'] = trait.LRS_location_repr - if for_api: - results_dict['sample_r'] = "%0.3f" % trait.sample_r - else: - results_dict['sample_r'] = "<a target='_blank' href='corr_scatter_plot?dataset_1=" + str(dataset.name) + "&dataset_2=" + str(trait.dataset.name) + "&trait_1=" + str(this_trait.name) + "&trait_2=" + str(trait.name) + "'>" + "%0.3f" % float(trait.sample_r) + "</a>" + results_dict['location'] = trait.location_repr + results_dict['sample_r'] = f"{float(trait.sample_r):.3f}" results_dict['num_overlap'] = trait.num_overlap - results_dict['sample_p'] = "%0.3e" % float(trait.sample_p) + results_dict['sample_p'] = f"{float(trait.sample_p):.3e}" results_list.append(results_dict) diff --git a/wqflask/wqflask/static/new/css/trait_list.css b/wqflask/wqflask/static/new/css/trait_list.css index 691dcb12..b83655da 100644 --- a/wqflask/wqflask/static/new/css/trait_list.css +++ b/wqflask/wqflask/static/new/css/trait_list.css @@ -1,12 +1,20 @@ -div.tool-button-container {
- min-width: 950px;
-}
-
-div.collection-table-options {
- min-width: 1100px;
-}
-
-div.show-hide-container {
- margin-bottom: 5px;
- margin-top: 10px;
-}
\ No newline at end of file +div.tool-button-container { + min-width: 950px; +} + +div.collection-table-options { + min-width: 1100px; +} + +div.show-hide-container { + margin-bottom: 5px; + margin-top: 10px; +} + +button.active { + background: #e5e5e5; + -webkit-box-shadow: inset 0px 0px 5px #c1c1c1; + -moz-box-shadow: inset 0px 0px 5px #c1c1c1; + box-shadow: inset 0px 0px 5px #c1c1c1; + outline: none; + }
\ No newline at end of file diff --git a/wqflask/wqflask/templates/correlation_page.html b/wqflask/wqflask/templates/correlation_page.html index bc0b592c..6419b185 100644 --- a/wqflask/wqflask/templates/correlation_page.html +++ b/wqflask/wqflask/templates/correlation_page.html @@ -2,9 +2,11 @@ {% block title %}Correlation Results{% endblock %} {% block css %} <link rel="stylesheet" type="text/css" href="{{ url_for('css', filename='DataTables/css/jquery.dataTables.css') }}" /> - <link rel="stylesheet" type="text/css" href="/static/new/css/show_trait.css" /> <link rel="stylesheet" type="text/css" href="{{ url_for('js', filename='DataTablesExtensions/buttonsBootstrap/css/buttons.bootstrap.css') }}" /> <link rel="stylesheet" type="text/css" href="{{ url_for('js', filename='DataTablesExtensions/buttonStyles/css/buttons.dataTables.min.css') }}"> + <link rel="stylesheet" type="text/css" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.15.1/css/all.min.css"> + <link rel="stylesheet" type="text/css" href="/static/new/css/trait_list.css" /> + <link rel="stylesheet" type="text/css" href="/static/new/css/show_trait.css" /> {% endblock %} {% block content %} <div class="container" style="min-width: 1250px;"> @@ -112,10 +114,38 @@ </div> {% endif %} </div> - <div style="margin-bottom: 5px;"> - <b>Show/Hide Columns:</b> + <div class="show-hide-container"> + <b>Show/Hide Columns:</b> + <br> + <button class="toggle-vis" data-column="1">Index</button> + <button class="toggle-vis" data-column="2">Record</button> + {% if target_dataset.type == 'ProbeSet' %} + <button class="toggle-vis" data-column="3">Symbol</button> + <button class="toggle-vis" data-column="4">Description</button> + <button class="toggle-vis" data-column="5">Location</button> + <button class="toggle-vis" data-column="6">Mean</button> + <button class="toggle-vis" data-column="7">High P</button> + <button class="toggle-vis" data-column="8">Peak Location</button> + <button class="toggle-vis" data-column="9">Effect Size</button> + {% elif target_dataset.type == 'Publish' %} + <button class="toggle-vis" data-column="3">Abbreviation</button> + <button class="toggle-vis" data-column="4">Description</button> + <button class="toggle-vis" data-column="5">Authors</button> + <button class="toggle-vis" data-column="6">Year</button> + <button class="toggle-vis" data-column="7">Sample {% if corr_method == 'pearson' %}r{% else %}rho{% endif %}</button> + <button class="toggle-vis" data-column="8">N</button> + <button class="toggle-vis" data-column="9">Sample p({% if corr_method == 'pearson' %}r{% else %}rho{% endif %})</button> + <button class="toggle-vis" data-column="10">High P</button> + <button class="toggle-vis" data-column="11">Peak Location</button> + <button class="toggle-vis" data-column="12">Effect Size</button> + {% else %} + <button class="toggle-vis" data-column="3">Location</button> + <button class="toggle-vis" data-column="4">Sample {% if corr_method == 'pearson' %}r{% else %}rho{% endif %}</button> + <button class="toggle-vis" data-column="5">N</button> + <button class="toggle-vis" data-column="6">Sample p({% if corr_method == 'pearson' %}r{% else %}rho{% endif %})</button> + {% endif %} </div> - <div style="width: 100%; min-width: {% if target_dataset.type == "ProbeSet" %}1700px{% elif target_dataset.type == "Publish" %}1600px{% else %}600px{% endif %};"> + <div style="width: 100%; {% if target_dataset.type == "ProbeSet" %}min-width: 1700px;{% elif target_dataset.type == "Publish" %}min-width: 1600px;{% else %}width: 650px;{% endif %}"> <table id="trait_table" class="table-hover table-striped cell-border" style="float: left;"> <thead> <tr> @@ -127,77 +157,7 @@ </thead> <tbody> - {% for trait in correlation_results %} - <tr> - <td><INPUT TYPE="checkbox" NAME="searchResult" class="checkbox trait_checkbox" style="padding-right: 0px;" VALUE="{{ data_hmac('{}:{}'.format(trait.name, trait.dataset.name)) }}"></td> - <td data-export="{{ loop.index }}" style="padding-left: 8px; padding-right: 0px; padding-top: 4px; align: right;">{{ loop.index }}</td> - <td data-export="{{ trait.name }}"> - <a href="{{ url_for('show_trait_page', - trait_id = trait.name, - dataset = trait.dataset.name - )}}"> - {{ trait.name }} - </a> - </td> - {% if target_dataset.type == 'ProbeSet' %} - <td data-export="{{ trait.symbol }}">{{ trait.symbol }}</td> - <td data-export="{{ trait.description_display }}">{{ trait.description_display }}</TD> - <td data-export="{{ trait.location_repr }}" style="white-space: nowrap;">{{ trait.location_repr }}</td> - <td data-export="{{ '%0.3f' % trait.mean|float }}" align="right">{{ '%0.3f' % trait.mean|float }}</td> - <td data-export="{{ '%0.3f'|format(trait.sample_r) }}"" align="right"><a target="_blank" href="corr_scatter_plot?dataset_1={% if dataset.name == 'Temp' %}Temp_{{ dataset.group.name }}{% else %}{{ dataset.name }}{% endif %}&dataset_2={% if trait.dataset.name == 'Temp' %}Temp_{{ trait.dataset.group.name }}{% else %}{{ trait.dataset.name }}{% endif %}&trait_1={{ this_trait.name }}&trait_2={{ trait.name }}">{{ '%0.3f'|format(trait.sample_r) }}</a></td> - <td data-export="{{ trait.num_overlap }}" align="right">{{ trait.num_overlap }}</td> - <td data-export="{{ '%0.3e'|format(trait.sample_p) }}" align="right">{{ '%0.3e'|format(trait.sample_p) }}</td> - {% if trait.lit_corr == "" or trait.lit_corr == 0.000 %} - <td data-export="--" align="right">--</td> - {% else %} - <td data-export="{{ '%0.3f'|format(trait.lit_corr) }}" align="right">{{ '%0.3f'|format(trait.lit_corr) }}</td> - {% endif %} - {% if trait.tissue_corr == "" or trait.tissue_corr == 0.000 %} - <td data-export="--" align="right">--</td> - <td data-export="--" align="right">--</td> - {% else %} - <td data-export="{{ '%0.3f'|format(trait.tissue_corr) }}" align="right">{{ '%0.3f'|format(trait.tissue_corr) }}</td> - <td data-export="{{ '%0.3e'|format(trait.tissue_pvalue) }}" align="right">{{ '%0.3e'|format(trait.tissue_pvalue) }}</td> - {% endif %} - <td data-export={% if trait.LRS_score_repr != "N/A" %}"{{ '%0.1f' % trait.LRS_score_repr|float }}"{% else %}"N/A"{% endif %} align="right">{% if trait.LRS_score_repr != "N/A" %}{{ '%0.1f' % trait.LRS_score_repr|float }}{% else %}N/A{% endif %}</td> - <td data-export="{{ trait.LRS_location_repr }}" align="right">{{ trait.LRS_location_repr }}</td> - <td data-export={% if trait.additive != "" %}"{{ '%0.3f' % trait.additive|float }}"{% else %}"N/A"{% endif %} align="right">{% if trait.additive != "" %}{{ '%0.3f' % trait.additive|float }}{% else %}N/A{% endif %}</td> - {% elif target_dataset.type == "Publish" %} - {% if trait.abbreviation %} - <td title="{{ trait.abbreviation }}" data-export="{{ trait.abbreviation }}">{% if trait.abbreviation|length > 20 %}{{ trait.abbreviation[:20] }}...{% else %}{{ trait.abbreviation }}{% endif %}</td> - {% else %} - <td data-export="N/A">N/A</td> - {% endif %} - <td data-export="{{ trait.description_display }}">{% if trait.description_display|length > 70 %}{{ trait.description_display[:70] }}...{% else %}{{ trait.description_display }}{% endif %}</td> - {% if trait.authors %} - {% set authors_list = trait.authors.split(',') %} - <td data-export="{{ trait.authors }}">{% if authors_list|length > 6 %}{{ authors_list[:6]|join(', ') }}, et al.{% else %}{{ trait.authors }}{% endif %}</td> - {% else %} - <td data-export="N/A">N/A</td> - {% endif %} - <td data-export="{{ trait.pubmed_text }}"> - {% if trait.pubmed_text != "N/A" %} - <a href="{{ trait.pubmed_link }}"> - {{ trait.pubmed_text }} - </a> - {% else %} - {{ trait.pubmed_text }} - {% endif %} - </td> - <td data-export="{{ '%0.3f'|format(trait.sample_r) }}"" align="right"><a target="_blank" href="corr_scatter_plot?dataset_1={% if dataset.name == 'Temp' %}Temp_{{ dataset.group.name }}{% else %}{{ dataset.name }}{% endif %}&dataset_2={{ trait.dataset.name }}&trait_1={{ this_trait.name }}&trait_2={{ trait.name }}">{{ '%0.3f'|format(trait.sample_r) }}</a></td> - <td data-export="{{ trait.num_overlap }}" align="right">{{ trait.num_overlap }}</td> - <td data-export="{{ '%0.3e'|format(trait.sample_p) }}" align="right">{{ '%0.3e'|format(trait.sample_p) }}</td> - <td data-export="{{ trait.LRS_score_repr }}" align="right">{{ trait.LRS_score_repr }}</td> - <td data-export="{{ trait.LRS_location_repr }}" align="right">{{ trait.LRS_location_repr }}</td> - <td data-export={% if trait.additive != "" %}"{{ '%0.3f' % trait.additive|float }}"{% else %}"N/A"{% endif %} align="right">{% if trait.additive != "" %}{{ '%0.3f' % trait.additive|float }}{% else %}N/A{% endif %}</td> - {% elif target_dataset.type == "Geno" %} - <td data-export="{{ trait.location_repr }}" align="right">{{ trait.location_repr }}</TD> - <td data-export="{{ '%0.3f'|format(trait.sample_r) }}"" align="right"><a target="_blank" href="corr_scatter_plot?dataset_1={% if dataset.name == 'Temp' %}Temp_{{ dataset.group.name }}{% else %}{{ dataset.name }}{% endif %}&dataset_2={{ trait.dataset.name }}&trait_1={{ this_trait.name }}&trait_2={{ trait.name }}">{{ '%0.3f'|format(trait.sample_r) }}</a></td> - <td data-export="{{ trait.num_overlap }}" align="right">{{ trait.num_overlap }}</td> - <td data-export="{{ '%0.3e'|format(trait.sample_p) }}" align="right">{{ '%0.3e'|format(trait.sample_p) }}</td> - {% endif %} - </tr> - {% endfor %} + <td colspan="100%" align="center"><br><b><font size="15">Loading...</font></b><br></td> </tbody> </table> </div> @@ -215,6 +175,8 @@ <script language="javascript" type="text/javascript" src="{{ url_for('js', filename='DataTablesExtensions/buttons/js/dataTables.buttons.min.js') }}"></script> <script language="javascript" type="text/javascript" src="{{ url_for('js', filename='DataTablesExtensions/buttons/js/buttons.colVis.min.js') }}"></script> <script language="javascript" type="text/javascript" src="{{ url_for('js', filename='DataTablesExtensions/plugins/sorting/natural.js') }}"></script> + <script language="javascript" type="text/javascript" src="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.15.1/js/all.min.js"></script> + <script language="javascript" type="text/javascript" src="https://cdn.datatables.net/scroller/2.0.2/js/dataTables.scroller.min.js"></script> <script type="text/javascript" charset="utf-8"> var table_json = {{ json_results | safe }} @@ -329,16 +291,7 @@ console.time("Creating table"); - {% if target_dataset.type == "ProbeSet" %} table_conf = { - "drawCallback": function( settings ) { - $('#trait_table tr').click(function(event) { - if (event.target.type !== 'checkbox') { - $(':checkbox', this).trigger('click'); - } - }); - $('.trait_checkbox:checkbox').on("change", change_buttons); - }, buttons: [ { extend: 'columnsToggle', @@ -352,136 +305,295 @@ postfixButtons: [ 'colvisRestore' ] } ], + "data": table_json, + "columns": [ + { + 'data': null, + 'width': "25px", + 'orderDataType': "dom-checkbox", + 'orderSequence': [ "desc", "asc"], + 'render': function(data, type, row, meta) { + return '<input type="checkbox" name="searchResult" class="checkbox trait_checkbox" value="' + data.hmac + '">' + } + }, + { + 'title': "Index", + 'type': "natural", + 'width': "30px", + 'data': "index" + }, + { + 'title': "Record", + 'type': "natural-minus-na", + 'data': null, + 'width': "60px", + 'render': function(data, type, row, meta) { + return '<a target="_blank" href="/show_trait?trait_id=' + data.trait_id + '&dataset=' + data.dataset + '">' + data.trait_id + '</a>' + } + }{% if target_dataset.type == 'ProbeSet' %}, + { + 'title': "Symbol", + 'type': "natural", + 'width': "120px", + 'data': "symbol" + }, + { + 'title': "Description", + 'type': "natural", + 'data': null, + 'render': function(data, type, row, meta) { + try { + return decodeURIComponent(escape(data.description)) + } catch(err){ + return escape(data.description) + } + } + }, + { + 'title': "Location", + 'type': "natural-minus-na", + 'width': "125px", + 'data': "location" + }, + { + 'title': "Mean", + 'type': "natural-minus-na", + 'width': "40px", + 'data': "mean", + 'orderSequence': [ "desc", "asc"] + }, + { + 'title': "Sample {% if corr_method == 'pearson' %}r{% else %}rho{% endif %}", + 'type': "natural-minus-na", + 'width': "40px", + 'data': "sample_r", + 'orderSequence': [ "desc", "asc"] + }, + { + 'title': "N", + 'type': "natural-minus-na", + 'width': "40px", + 'data': "num_overlap", + 'orderSequence': [ "desc", "asc"] + }, + { + 'title': "Sample p({% if corr_method == 'pearson' %}r{% else %}rho{% endif %})", + 'type': "natural-minus-na", + 'width': "65px", + 'data': "sample_p", + 'orderSequence': [ "desc", "asc"] + }, + { + 'title': "Lit {% if corr_method == 'pearson' %}r{% else %}rho{% endif %}", + 'type': "natural-minus-na", + 'width': "40px", + 'data': "lit_corr", + 'orderSequence': [ "desc", "asc"] + }, + { + 'title': "Tissue {% if corr_method == 'pearson' %}r{% else %}rho{% endif %}", + 'type': "natural-minus-na", + 'width': "40px", + 'data': "tissue_corr", + 'orderSequence': [ "desc", "asc"] + }, + { + 'title': "Tissue p({% if corr_method == 'pearson' %}r{% else %}rho{% endif %})", + 'type': "natural-minus-na", + 'width': "40px", + 'data': "tissue_pvalue", + 'orderSequence': [ "desc", "asc"] + }, + { + 'title': "High P<a href=\"http://gn1.genenetwork.org/glossary.html#LRS\" target=\"_blank\" style=\"color: white;\"> <i class=\"fa fa-info-circle\" aria-hidden=\"true\"></i></a>", + 'type': "natural-minus-na", + 'data': "lrs_score", + 'width': "60px", + 'orderSequence': [ "desc", "asc"] + }, + { + 'title': "Peak Location", + 'type': "natural-minus-na", + 'width': "125px", + 'data': "lrs_location" + }, + { + 'title': "Effect Size<a href=\"http://gn1.genenetwork.org/glossary.html#A\" target=\"_blank\" style=\"color: white;\"> <i class=\"fa fa-info-circle\" aria-hidden=\"true\"></i></a>", + 'type': "natural-minus-na", + 'data': "additive", + 'width': "85px", + 'orderSequence': [ "desc", "asc"] + }{% elif target_dataset.type == 'Publish' %}, + { + 'title': "Abbreviation", + 'type': "natural", + 'width': "200px", + 'data': null, + 'render': function(data, type, row, meta) { + try { + return decodeURIComponent(escape(data.abbreviation_display)) + } catch(err){ + return data.abbreviation_display + } + } + }, + { + 'title': "Description", + 'type': "natural", + 'data': null, + 'render': function(data, type, row, meta) { + try { + return decodeURIComponent(escape(data.description)) + } catch(err){ + return data.description + } + } + }, + { + 'title': "Authors", + 'type': "natural", + 'width': "400px", + 'data': null, + 'render': function(data, type, row, meta) { + try { + return decodeURIComponent(escape(data.authors_display)) + } catch(err){ + return data.authors_display + } + } + }, + { + 'title': "Year", + 'type': "natural-minus-na", + 'data': null, + 'width': "80px", + 'render': function(data, type, row, meta) { + if (data.pubmed_id != "N/A"){ + return '<a href="' + data.pubmed_link + '">' + data.pubmed_text + '</a>' + } else { + return data.pubmed_text + } + }, + 'orderSequence': [ "desc", "asc"] + }, + { + 'title': "Sample {% if corr_method == 'pearson' %}r{% else %}rho{% endif %}", + 'type': "natural-minus-na", + 'width': "40px", + 'data': "sample_r", + 'orderSequence': [ "desc", "asc"] + }, + { + 'title': "N", + 'type': "natural-minus-na", + 'width': "40px", + 'data': "num_overlap", + 'orderSequence': [ "desc", "asc"] + }, + { + 'title': "Sample p({% if corr_method == 'pearson' %}r{% else %}rho{% endif %})", + 'type': "natural-minus-na", + 'width': "65px", + 'data': "sample_p", + 'orderSequence': [ "desc", "asc"] + }, + { + 'title': "High P<a href=\"http://gn1.genenetwork.org/glossary.html#LRS\" target=\"_blank\" style=\"color: white;\"> <i class=\"fa fa-info-circle\" aria-hidden=\"true\"></i></a>", + 'type': "natural-minus-na", + 'data': "lrs_score", + 'width': "60px", + 'orderSequence': [ "desc", "asc"] + }, + { + 'title': "Peak Location", + 'type': "natural-minus-na", + 'width': "125px", + 'data': "lrs_location" + }, + { + 'title': "Effect Size<a href=\"http://gn1.genenetwork.org/glossary.html#A\" target=\"_blank\" style=\"color: white;\"> <i class=\"fa fa-info-circle\" aria-hidden=\"true\"></i></a>", + 'type': "natural-minus-na", + 'data': "additive", + 'width': "85px", + 'orderSequence': [ "desc", "asc"] + }{% elif target_dataset.type == 'Geno' %}, + { + 'title': "Location", + 'type': "natural-minus-na", + 'width': "120px", + 'data': "location" + }, + { + 'title': "Sample {% if corr_method == 'pearson' %}r{% else %}rho{% endif %}", + 'type': "natural-minus-na", + 'width': "40px", + 'data': "sample_r", + 'orderSequence': [ "desc", "asc"] + }, + { + 'title': "N", + 'type': "natural-minus-na", + 'width': "40px", + 'data': "num_overlap", + 'orderSequence': [ "desc", "asc"] + }, + { + 'title': "Sample p({% if corr_method == 'pearson' %}r{% else %}rho{% endif %})", + 'type': "natural-minus-na", + 'width': "65px", + 'data': "sample_p", + 'orderSequence': [ "desc", "asc"] + }{% endif %} + ], "columnDefs": [ { "targets": 0, "orderable": false } ], - "columns": [ - { "type": "natural" }, - { "type": "natural" }, - { "type": "natural" }, - { "type": "natural" }, - { "type": "natural", "width": "15%" }, - { "type": "natural" }, - { "type": "natural" }, - { "orderDataType": "dom-innertext", 'orderSequence': [ "desc", "asc"] }, - { "type": "natural" }, - { "type": "scientific" }, - { "type": "natural-minus-na", 'orderSequence': [ "desc", "asc"] }, - { "type": "natural-minus-na", 'orderSequence': [ "desc", "asc"] }, - { "type": "scientific" }, - { "type": "natural-minus-na" }, - { "type": "natural-minus-na" }, - { "type": "natural-minus-na" } - ], - "createdRow": function ( row, data, index ) { - $('td', row).eq(4).attr('title', $('td', row).eq(4).text()); - if ($('td', row).eq(4).text().length > 40) { - $('td', row).eq(4).text($('td', row).eq(4).text().substring(0, 40)); - $('td', row).eq(4).text($('td', row).eq(4).text() + '...') - } - }, + {% if target_dataset.type == 'Geno' %} + "order": [[6, "asc" ]], + {% else %} "order": [[9, "asc" ]], - "sDom": "Btir", - "iDisplayLength": -1, - "autoWidth": false, - "deferRender": true, + {% endif %} + "sDom": "itir", + "autoWidth": true, "bSortClasses": false, - "paging": false, - "orderClasses": true + "scrollY": "50vh", + "scroller": true, + "scrollCollapse": true } - {% elif target_dataset.type == "Publish" %} - table_conf = { - "drawCallback": function( settings ) { - $('#trait_table tr').click(function(event) { - if (event.target.type !== 'checkbox') { - $(':checkbox', this).trigger('click'); - } - }); - $('.trait_checkbox:checkbox').on("change", change_buttons); - }, - "buttons": [ - { - extend: 'columnsToggle', - columns: function( idx, data, node ) { - if (idx != 0) { - return true; - } else { - return false; - } - }, - postfixButtons: [ 'colvisRestore' ] - } - ], - "columnDefs": [ - { "targets": 0, "orderable": false } - ], - "columns": [ - { "type": "natural" }, - { "type": "natural" }, - { "type": "natural" }, - { "type": "natural" }, - { "type": "natural", "width": "20%" }, - { "type": "natural", "width": "12%" }, - { "type": "natural-minus-na" }, - { "orderDataType": "dom-innertext", 'orderSequence': [ "desc", "asc"] }, - { "type": "natural" }, - { "type": "scientific" }, - { "type": "natural-minus-na" }, - { "type": "natural-minus-na" }, - { "type": "natural-minus-na" } - ], - "order": [[9, "asc" ]], - "sDom": "Btir", - "iDisplayLength": -1, - "autoWidth": false, - "deferRender": true, - "bSortClasses": false, - "paging": false, - "orderClasses": true, - } - {% elif target_dataset.type == "Geno" %} - table_conf = { - "paging": false, - buttons: [ - { - extend: 'columnsToggle', - columns: function( idx, data, node ) { - if (idx != 0) { - return true; - } else { - return false; - } - }, - postfixButtons: [ 'colvisRestore' ] - } - ], - "columnDefs": [ - { "targets": 0, "orderable": false } - ], - "columns": [ - { "type": "natural" }, - { "type": "natural" }, - { "type": "natural" }, - { "type": "natural" }, - { "orderDataType": "dom-innertext", 'orderSequence': [ "desc", "asc"] }, - { "type": "natural-minus-na" }, - { "type": "scientific" } - ], - "order": [[6, "asc" ]], - "sDom": "Btir", - "autoWidth": false, - "bDeferRender": true, - "scrollY": "800px", - "scrollCollapse": false - } - {% endif %} + trait_table = $('#trait_table').DataTable(table_conf); - the_table = $('#trait_table').DataTable(table_conf); + trait_table.on( 'order.dt search.dt draw.dt', function () { + trait_table.column(1, {search:'applied', order:'applied'}).nodes().each( function (cell, i) { + cell.innerHTML = i+1; + } ); + } ).draw(); console.timeEnd("Creating table"); + $('.toggle-vis').on('click', function (e) { + e.preventDefault(); + + // Get the column API object + var column = trait_table.column( $(this).attr('data-column') ); + + // Toggle the visibility + column.visible( ! column.visible() ); + + if (column.visible()){ + $(this).removeClass("active"); + } else { + $(this).addClass("active"); + } + } ); + + $('#redraw').on('click', function (e) { + e.preventDefault(); + trait_table.columns().visible( true ); + $('.toggle-vis.active').removeClass('active'); + }); + submit_special = function(url) { $("#correlation_form").attr("action", url); return $("#correlation_form").submit(); @@ -498,7 +610,7 @@ $("#select_traits").click(function() { console.log("redrawing") - the_table.draw(); + trait_table.draw(); }); }); </script> diff --git a/wqflask/wqflask/templates/search_result_page.html b/wqflask/wqflask/templates/search_result_page.html index 9a28a78e..2a8d6931 100644 --- a/wqflask/wqflask/templates/search_result_page.html +++ b/wqflask/wqflask/templates/search_result_page.html @@ -5,6 +5,7 @@ <link rel="stylesheet" type="text/css" href="{{ url_for('css', filename='fontawesome/css/font-awesome.min.css') }}" /> <link rel="stylesheet" type="text/css" href="{{ url_for('js', filename='DataTablesExtensions/scroller/css/scroller.dataTables.min.css') }}"> <link rel="stylesheet" type="text/css" href="{{ url_for('js', filename='DataTablesExtensions/buttonStyles/css/buttons.dataTables.min.css') }}"> + <link rel="stylesheet" type="text/css" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.15.1/css/all.min.css"> <link rel="stylesheet" type="text/css" href="/static/new/css/show_trait.css" /> <link rel="stylesheet" type="text/css" href="static/new/css/trait_list.css" /> {% endblock %} |