ncbo/bioportal_web_ui

- @title = "Annotator"

%head
  = javascript_include_tag "bp_annotator"

%div.mt-4
  = t(".annotatorplus_html", annotatorplus_href: annotatorplus_path())

%h2.mt-4 Annotator
%p
  = t('.intro').html_safe
  = link_to(Rails.configuration.settings.links[:help_annotator], id: "annotator-help", "aria-label": "View annotator help") do
    %i.fas.fa-question-circle.fa-lg{"aria-hidden": "true"}

%form.mb-4
  %div.mb-3
    = text_area_tag("annotation_text", nil, rows: 10, class: "form-control",
                    placeholder: "Enter or paste text to be annotated", 'aria-describedby': "inputTextHelpBlock")
    %div#inputTextHelpBlock
      = link_to('insert sample text', 'javascript:void(0);', id: 'insert_text_link', class: 'form-text')

  %div.mb-3
    %div.form-check.form-check-inline
      = check_box_tag("longest_only", "all", false, class: "form-check-input")
      %label.form-check-label{for: "longest_only"} Match longest only
    %div.form-check.form-check-inline
      = check_box_tag("whole_word_only", "all", false, class: "form-check-input")
      %label.form-check-label{for: "whole_word_only"} Match partial words
    %div.form-check.form-check-inline
      = check_box_tag("mappings", "all", false, id: "mappings_all", class: "form-check-input")
      %label.form-check-label{for: "mappings_all"} Include mappings
    %div.form-check.form-check-inline
      = check_box_tag("exclude_numbers", "all", false, class: "form-check-input")
      %label.form-check-label{for: "exclude_numbers"} Exclude numbers
    %div.form-check.form-check-inline
      = check_box_tag("exclude_synonyms", "all", false, class: "form-check-input")
      %label.form-check-label{for: "exclude_synonyms"} Exclude synonyms

  %div.mb-3
    = render partial: 'shared/ontology_picker', locals: { custom_ontologies: @annotator_ontologies }
  
  - if @sem_type_ont
    %div.mb-3
      %label{for: "semantic_types", class: 'form-label'} Select UMLS semantic types
      = select_tag("semantic_types", options_for_select(@semantic_types_for_select), multiple: "true",
                   data: {placeholder: "Start typing to select UMLS semantic types"}, class: "form-select",
                   style: "width: 432px")

  %div.mb-3
    %label{for: "class_hierarchy_max_level", class: 'form-label'} Include ancestors up to level
    - options = [["none", 0], *(1..10).map {|i| [i, i]}, ["all", 999]]
    = select_tag("class_hierarchy_max_level", options_for_select(options, 0), class: "form-select",
                 style: "width: 432px")

  - if @recognizers.length > 1
    %div.mb-3
      %label{for: "recognizer", class: 'form-label'} Entity recognizer
      - default_recognizer = @recognizers.include?("mgrep") ? "mgrep" : @recognizers.first
      = select_tag("recognizer", options_for_select(@recognizers.map { |r| [r, r] }, default_recognizer),
                   class: "form-select", style: "width: 432px")

  %div.mb-3
    %input#annotator_button{type: "button", value: "Get Annotations", class: "btn btn-primary"}/
    %span.annotator_spinner{style: "display: none;"}
      %img{src: asset_path('spinners/spinner_000000_16px.gif'), style: "vertical-align: middle;"}/
    %span#annotator_error.annotator_error{style: "color: red; vertical-align: middle; margin-left: 3px;"}

%div.row
  %div.col
    #annotations_container
      #result_counts
      %h2{:style => "margin-bottom: 0;"}
        Annotations
      #filter_list{:style => "font-size: 9pt; color: gray; display: none; clear: both; margin: -15px 0 5px"}
        %span#filter_title> Results are filtered by:
        \ 
        %span#filter_names
      #results_error{:style => "color: red; margin-bottom: 7px;"}
      %table#annotations.zebra{:style => "min-width: 700px; width: 100%;"}
        %thead
          %tr
            %th
              Class
              %span.popup_container
                %span.bp_popup_link_container
                  %a#filter_classes.bp_popup_link{:href => "javascript:void(0);"} filter
                %div#classes_filter_list.bp_popup_list
            %th
              Ontology
              %span.popup_container
                %span.bp_popup_link_container
                  %a#filter_ontologies.bp_popup_link{:href => "javascript:void(0);"} filter
                %div#ontology_filter_list.bp_popup_list
            %th{class: "match_type"}
              Type
              %span.popup_container
                %span.bp_popup_link_container
                  %a#filter_match_type.bp_popup_link{:href => "javascript:void(0);"} filter
                %div#match_type_filter_list.bp_popup_list
            %th UMLS Sem Type
            %th{class: "match_context"} Context
            %th
              Matched Class
              %span.popup_container
                %span.bp_popup_link_container
                  %a#filter_matched_classes.bp_popup_link{:href => "javascript:void(0);"} filter
                %div#matched_classes_filter_list.bp_popup_list
            %th
              Matched Ontology
              %span.popup_container
                %span.bp_popup_link_container
                  %a#filter_matched_ontologies.bp_popup_link{:href => "javascript:void(0);"} filter
                %div#matched_ontology_filter_list.bp_popup_list
        %tbody
      #download_links{:style => "margin-top: 1.5em;"}
        %p
          %span{:style => "padding: 0 3px 0 0;"}>
            %b Format results as:
            %span#download_links_tabdelimited.link_button.ui_button
            %span#download_links_json.link_button.ui_button
            %span#download_links_text.link_button.ui_button
          %span#download_links_xml.link_button.ui_button
        %span{:style => "font-size: smaller;"}
          To reproduce these results:
          %br/
          %span#annotator_parameters
          %br/
          Additional parameters are documented at
          \#{link_to 'Annotator Web Service', "#{$REST_URL}/documentation#nav_annotator", :target => "_blank"}