Module: CollectionObjectsHelper

Defined in:
app/helpers/collection_objects_helper.rb

Instance Method Summary collapse

Instance Method Details

#collection_object_autocomplete_tag(collection_object) ⇒ Object 



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# File 'app/helpers/collection_objects_helper.rb', line 50

def collection_object_autocomplete_tag(collection_object)
  return nil if collection_object.nil?
  [
    collection_object_loan_tag(collection_object),
    collection_object_deaccession_tag(collection_object),
    collection_object_identifier_tag(collection_object),
    collection_object_taxon_determination_tag(collection_object)
  ].join(' ').html_safe
end

#collection_object_browse_next_by_identifier(collection_object) ⇒ link_to

Returns this may not work for all identifier types, i.e. those with identifiers like ‘123.34` or `3434.33X` may not increment correctly.

Returns:

  • (link_to) —

    this may not work for all identifier types, i.e. those with identifiers like ‘123.34` or `3434.33X` may not increment correctly



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# File 'app/helpers/collection_objects_helper.rb', line 204

def collection_object_browse_next_by_identifier(collection_object)
  return nil if collection_object.nil?
  o = collection_object.next_by_identifier
  return content_tag(:div, 'None', 'class' => 'navigation-item disable') if o.nil?
  link_text = content_tag(:span, 'Next by id', 'class' => 'small-icon icon-right', 'data-icon' => 'arrow-right')
  link_to(link_text, browse_collection_objects_task_path(collection_object_id: o.id),
          data: {arrow: :next,
                 'no-turbolinks' => 'false',
                 help: 'Sorts by identifier type, namespace, then an conversion of identifier into integer.  Will not work for all identifier types.'}, class:'navigation-item')
end

#collection_object_browse_previous_by_identifier(collection_object) ⇒ link_to

Returns this may not work for all identifier types, i.e. those with identifiers like ‘123.34` or `3434.33X` may not increment correctly.

Returns:

  • (link_to) —

    this may not work for all identifier types, i.e. those with identifiers like ‘123.34` or `3434.33X` may not increment correctly



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# File 'app/helpers/collection_objects_helper.rb', line 190

def collection_object_browse_previous_by_identifier(collection_object)
  return nil if collection_object.nil?
  o = collection_object.previous_by_identifier
  return content_tag(:div, 'None', 'class' => 'navigation-item disable') if o.nil?
  link_text = content_tag(:span, 'Previous by id', 'class' => 'small-icon icon-left', 'data-icon' => 'arrow-left')
  link_to(link_text, browse_collection_objects_task_path(collection_object_id: o.id), data: {
    arrow: :previous,
    'no-turbolinks' => 'true',
    help: 'Sorts by identifier type, namespace, then an conversion of identifier into integer.  Will not work for all identifier types.'},
    class: 'navigation-item')
end

#collection_object_count_by_classification(scope = nil) ⇒ Object

Perhaps a /lib/catalog method

Returns:

  • Hash



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# File 'app/helpers/collection_objects_helper.rb', line 271

def collection_object_count_by_classification(scope = nil)

  return [] if scope.nil?
  specimen_data = {}
  lot_data = {}

  total_index = {}

  scope.each do |n|
    a = ::Queries::CollectionObject::Filter.new(project_id: sessions_current_project_id, taxon_name_id: n.id, descendants: true,  collection_object_type: 'Specimen').all
    b = ::Queries::CollectionObject::Filter.new(project_id: sessions_current_project_id, taxon_name_id: n.id, descendants: true, collection_object_type: 'Lot').all

    ts = CollectionObject.where(id: a).calculate(:sum, :total)
    tl = CollectionObject.where(id: b).calculate(:sum, :total)

    if (ts > 0) || (tl > 0)
      lot_data[n.cached] = tl
      specimen_data[n.cached] = ts
      total_index[n.cached] = ts + tl
    end

  end

  # We only need to sort 1 pile!
  specimen_data = specimen_data.sort{|a,b| total_index[b[0]] <=> total_index[a[0]] }.to_h

  return {
    total_index:,
    data: [
      { name: 'Specimen', data: specimen_data},
      { name: 'Lot', data: lot_data}
    ]
  }
end

#collection_object_deaccession_tag(collection_object) ⇒ Object 



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# File 'app/helpers/collection_objects_helper.rb', line 96

def collection_object_deaccession_tag(collection_object)
  return nil if collection_object.nil? || (collection_object.deaccession_reason.blank? && collection_object.deaccessioned_at.nil?)
  msg = ['DEACCESSIONED"', collection_object.deaccession_reason, collection_object.deaccessioned_at&.year].compact.join(' - ')
  content_tag(:span, msg, class: [
    :feedback,
    'feedback-thin',
    'feedback-danger'
  ]).html_safe
end

#collection_object_identifier_tag(collection_object) ⇒ Object 



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# File 'app/helpers/collection_objects_helper.rb', line 84

def collection_object_identifier_tag(collection_object)
  return nil if collection_object.nil?
  t, i = collection_object_visualized_identifier(collection_object)

  return content_tag(:span, i, class: [
    :feedback,
    'feedback-thin',
    (t == :collection_object ? 'feedback-primary' : 'feedback-warning')
  ]) if i
  content_tag(:span, 'no identifier assigned', class: [:feedback, 'feedback-thin', 'feedback-warning'])
end

#collection_object_link(collection_object) ⇒ Object 



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# File 'app/helpers/collection_objects_helper.rb', line 27

def collection_object_link(collection_object)
  return nil if collection_object.nil?
  link_to(collection_object_tag(collection_object).html_safe, collection_object.metamorphosize)
end

#collection_object_loan_tag(collection_object) ⇒ Object 



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# File 'app/helpers/collection_objects_helper.rb', line 106

def collection_object_loan_tag(collection_object)
  return nil if collection_object.nil? || !collection_object.on_loan?
  msg = collection_object.loan_return_date ? 'On Loan until ' + collection_object.loan_return_date.to_s : 'Gifted'
  content_tag(:span, msg, class: [
    :feedback,
    'feedback-thin',
    'feedback-warning'
  ]).html_safe
end

#collection_object_metadata_badge(collection_object) ⇒ Object 



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# File 'app/helpers/collection_objects_helper.rb', line 215

def collection_object_metadata_badge(collection_object)
  return nil if collection_object.nil?
  o = collection_object

  layout = Waxy::Geometry::Layout.new(
    Waxy::Geometry::Orientation::LAYOUT_POINTY,
    Waxy::Geometry::Point.new(14,14), # size
    Waxy::Geometry::Point.new(14,14), # start
    0 # padding
  )

  s = [
    (o.identifiers.any? ? 1 : 0),
    (o.taxon_determinations.any? ? 1 : 0),
    (o.collecting_event&.map_center.nil? ? 0 : 1),
    (o.collecting_event_id ? 1 : 0),
    (o.buffered_determinations.blank? ? 0 : 1),
    (o.buffered_collecting_event.blank? ? 0 : 1),
  ]

  a = Waxy::Meta.new
  a.size = s
  a.stroke = 'grey'
  a.link_title = "#{o.id} created #{time_ago_in_words(o.created_at)} ago by #{user_tag(o.creator)}"

  c = Waxy::Render::Svg::Canvas.new(28, 28)
  c.body << Waxy::Render::Svg.rectangle(layout, [a], 0)
  c.to_svg
end

#collection_object_preparation_by_classification(scope = nil) ⇒ Object

Perhaps a /lib/catalog method

Returns:

  • Hash



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# File 'app/helpers/collection_objects_helper.rb', line 308

def collection_object_preparation_by_classification(scope = nil)
  return [] if scope.nil?
  data = {}
  no_data = {}

  preparations = ::PreparationType.joins(:collection_objects).where(collection_objects: {project_id: sessions_current_project_id}).distinct

  i = 0
  scope.each do |n|

    j = []

    a = ::Queries::CollectionObject::Filter.new(
      project_id: sessions_current_project_id,
      taxon_name_id:  n.id,
      descendants: true
    )

    # Yes a custom query could do this much faster
    preparations.each do |p|
      a.preparation_type_id = p.id
      t = CollectionObject.where(id: a.all).calculate(:sum, :total)
      if t > 0
        j.push [p.name, t]
        i += 1
      end
    end

    if j.empty?
      # There are no data at all, don't query for Missing
      no_data[n.id] = n.cached
    else
      a.preparation_type_id = nil
      a.preparation_type = false
      w = CollectionObject.where(id: a.all).calculate(:sum, :total)
      if w > 0
        j.push ['Missing', w]
      end

      data[n.cached] = j
    end
  end

  return {
    labels: preparations.collect{|p| p.name} + ['Missing'],
    data:,
    no_data:
  }

end

#collection_object_scientific_name(collection_object) ⇒ Object

Text only, taxon name cached or OTU name for the most recent determination



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# File 'app/helpers/collection_objects_helper.rb', line 62

def collection_object_scientific_name(collection_object)
  return nil if collection_object.nil?
  if a = collection_object.taxon_determinations.order(:position)&.first
    if a.otu.taxon_name
      a.otu.taxon_name.cached
    else
      a.otu.name
    end
  else
    nil
  end
end

#collection_object_tag(collection_object) ⇒ Object

Return [String, nil]

a descriptor including the identifier and determination



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# File 'app/helpers/collection_objects_helper.rb', line 5

def collection_object_tag(collection_object)
  return nil if collection_object.nil?
  a = [
    collection_object_loan_tag(collection_object),
    collection_object_deaccession_tag(collection_object),
    collection_object_identifier_tag(collection_object),
    taxon_determination_tag(collection_object.taxon_determinations.order(:position).first)
  ].compact

  if a.empty?
    a << [
      collection_object.buffered_collecting_event,
      collection_object.buffered_determinations,
      collection_object.buffered_other_labels
    ].compact
  end

  a << "[#{collection_object.type[(0..2)].capitalize}]"

  a.join('&nbsp;').html_safe
end

#collection_object_taxon_determination_tag(collection_object) ⇒ Object 



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# File 'app/helpers/collection_objects_helper.rb', line 142

def collection_object_taxon_determination_tag(collection_object)
  return nil if collection_object.nil?
  i = taxon_determination_tag(collection_object.taxon_determinations.order(:position).first)
  return content_tag(:span, i, class: [:feedback, 'feedback-thin', 'feedback-secondary']) if i
  nil
end

#collection_object_to_geo_json_feature(collection_object, base = true) ⇒ GeoJSON feature?

Parameters:

  • base (Boolean) (defaults to: true) —

    wehther to annotate the feature properties with TW ‘base’ attributes

Returns:

  • (GeoJSON feature, nil) 


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# File 'app/helpers/collection_objects_helper.rb', line 248

def collection_object_to_geo_json_feature(collection_object, base = true)
  return nil if collection_object.nil?
  if a = collecting_event_to_geo_json_feature(collection_object.collecting_event)
    l = label_for_collection_object(collection_object)
    a['properties']['target'] = {
      'type' => 'CollectionObject',
      'id' => collection_object.id,
      'label' => l
    }
    if base
      a['properties']['base'] =  {
        'type' => 'CollectionObject',
        'id' => collection_object.id,
        'label' => l}
    end
    a
  else
    nil
  end
end

#collection_object_visualized_identifier(collection_object) ⇒ Array [Identifier, String (type)]?

Returns also checks virtual container for identifier by proxy.

Returns:

  • (Array [Identifier, String (type)], nil) —

    also checks virtual container for identifier by proxy



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# File 'app/helpers/collection_objects_helper.rb', line 118

def collection_object_visualized_identifier(collection_object)
  return nil if collection_object.nil?

  # We now return the first Local identifier by default here
  # This accomodates RecordNumber vs CatalogNumber
  i = collection_object.identifiers.order(Arel.sql("CASE \
            WHEN identifiers.type IN ('Identifier::Local::CatalogNumber', 'Identifier::Local::RecordNumber') THEN 0  \
            ELSE 1                                                                                        \
          END, \
        identifiers.position")).select(:type, :identifier, :cached).first

  return [:collection_object, identifier_tag(i)] if i&.is_local?

  # Get some other identifier on container
  j = collection_object.container&.identifiers&.order(:position)&.first
  return [:container, identifier_tag(j)] if j

  # Use a non local/non container if provided 
  return [:collection_object, identifier_tag(i)] if i
  return [:container, identifier_tag(j)] if j

  nil
end

#collection_objects_search_form ⇒ Object 



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# File 'app/helpers/collection_objects_helper.rb', line 75

def collection_objects_search_form
  render('/collection_objects/quick_search_form')
end

#dwc_occurrence_table_body_tag(collection_objects) ⇒ Object 



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# File 'app/helpers/collection_objects_helper.rb', line 155

def dwc_occurrence_table_body_tag(collection_objects)
  collection_objects.collect do |c|
    dwc_occurrence_table_row_stub(c).html_safe
  end.join.html_safe
end

#dwc_occurrence_table_header_tag ⇒ Object

TODO: Isolate into own helper TODO: synchronize with class methods



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# File 'app/helpers/collection_objects_helper.rb', line 151

def dwc_occurrence_table_header_tag
  content_tag(:tr, CollectionObject::DwcExtensions::DWC_OCCURRENCE_MAP.keys.collect{|k| content_tag(:th, k)}.join.html_safe, class: [:error])
end

#dwc_occurrence_table_row_stub(collection_object) ⇒ Object 



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# File 'app/helpers/collection_objects_helper.rb', line 168

def dwc_occurrence_table_row_stub(collection_object)
  r = collection_object.dwc_occurrence
  if r
    dwc_occurrence_table_row_tag(r)
  else
    id = collection_object.to_param
    content_tag(:tr, nil, id: "dwc_row_stub_#{id}", data: {'collection-object-id': id}, class: 'dwc_row_stub' )
  end
end

#dwc_occurrence_table_row_tag(dwc_occurrence) ⇒ Object 



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# File 'app/helpers/collection_objects_helper.rb', line 178

def dwc_occurrence_table_row_tag(dwc_occurrence)
  o = metamorphosize_if(dwc_occurrence.dwc_occurrence_object)
  content_tag(:tr, class: :contextMenuCells) do
    [CollectionObject::DwcExtensions::DWC_OCCURRENCE_MAP.keys.collect{|k| content_tag(:td, dwc_occurrence.send(k))}.join,
     fancy_show_tag(o),
     fancy_edit_tag(o)
    ].join.html_safe
  end
end

#dwc_table(collection_objects) ⇒ Object 



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# File 'app/helpers/collection_objects_helper.rb', line 161

def dwc_table(collection_objects)
  content_tag(:table) do
    dwc_occurrence_table_header_tag +
      dwc_occurrence_table_body_tag(collection_objects)
  end
end

#label_for_collection_object(collection_object) ⇒ Object 



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# File 'app/helpers/collection_objects_helper.rb', line 36

def label_for_collection_object(collection_object)
  return nil if collection_object.nil?
  [ 'CollectionObject ' + collection_object.id.to_s,
    identifier_list_labels(collection_object)
  ].compact.join('; ')
end

#label_for_collection_object_container(collection_object) ⇒ Object 



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# File 'app/helpers/collection_objects_helper.rb', line 43

def label_for_collection_object_container(collection_object)
  return nil if collection_object.nil?
  collection_object.dwc_catalog_number ||
    collection_object.dwc_scientific_name ||
    collection_object.id
end

#radial_quick_forms_tag(object) ⇒ Object 



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# File 'app/helpers/collection_objects_helper.rb', line 32

def radial_quick_forms_tag(object)
  content_tag(:span, '', data: { "global-id": object.to_global_id.to_s, 'radial-quick-forms': 'true'})
end

#table_example(collection_objects) ⇒ Object 



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# File 'app/helpers/collection_objects_helper.rb', line 359

def table_example(collection_objects)
  cols = %i{
    class
    b
    c
  }

  tag.table do
    tag.tr { cols.collect{|h| tag.td(h.to_s) }.join.html_safe } +

    collection_objects.collect{|co|
      tag.tr +
        tag.td( co.dwc_class) +
        tag.td( co.dwc_order) +
        tag.td( co.dwc_family) +
        tag.td( co.dwc_sex)

    }.join.html_safe
  end.html_safe
end

#verify_accessions_task_link(collection_object) ⇒ Object 



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# File 'app/helpers/collection_objects_helper.rb', line 79

def verify_accessions_task_link(collection_object)
  priority = [collection_object.container, collection_object.identifiers.first, collection_object ].compact.first
  link_to('Verify', verify_accessions_task_path(by: priority.metamorphosize.class.name.tableize.singularize.to_sym, id: priority.to_param))
end