Class: ObservationMatricesController
- Inherits:
-
ApplicationController
- Object
- ActionController::Base
- ApplicationController
- ObservationMatricesController
- Defined in:
- app/controllers/observation_matrices_controller.rb
Instance Method Summary collapse
-
#api_index ⇒ Object
GET /api/v1/observation_matrices.
-
#api_show ⇒ Object
GET /api/v1/observation_matrices/:id.
- #autocomplete ⇒ Object
-
#batch_add ⇒ Object
.json.
-
#batch_create ⇒ Object
.json.
- #column ⇒ Object
- #column_labels ⇒ Object
-
#create ⇒ Object
POST /observation_matrices POST /observation_matrices.json.
- #csv ⇒ Object
- #descriptor_list ⇒ Object
-
#destroy ⇒ Object
DELETE /observation_matrices/1 DELETE /observation_matrices/1.json.
- #download ⇒ Object
- #download_contents ⇒ Object
-
#edit ⇒ Object
GET /observation_matrices/1/edit.
-
#index ⇒ Object
GET /observation_matrices GET /observation_matrices.json.
- #list ⇒ Object
-
#new ⇒ Object
GET /observation_matrices/new.
-
#nexml ⇒ Object
TODO export formats can move to a concern controller.
-
#nexml_params ⇒ Object
private
TODO: Not all params are supported yet.
- #nexus ⇒ Object
- #observation_matrix_params ⇒ Object private
- #otu_contents ⇒ Object
- #otu_contents_params ⇒ Object private
- #otus_used_in_matrices ⇒ Object
- #reorder_columns ⇒ Object
- #reorder_rows ⇒ Object
-
#row ⇒ Object
GET /observation_matrices/row.json?observation_matrix_row_id=1 TODO: Why is this here? (used in Matrix Row Coder).
- #row_labels ⇒ Object
-
#search ⇒ Object
TODO: deprecate.
- #set_observation_matrix ⇒ Object private
-
#show ⇒ Object
GET /observation_matrices/1 GET /observation_matrices/1.json.
- #tnt ⇒ Object
-
#update ⇒ Object
PATCH/PUT /observation_matrices/1 PATCH/PUT /observation_matrices/1.json.
Methods included from DataControllerConfiguration::ProjectDataControllerConfiguration
Methods included from RedirectHelper
Methods included from RequestType
Methods included from LogRecent
Methods included from Cookies
#digest_cookie, #digested_cookie_exists?
Methods included from Whitelist
Methods included from Api::Intercept
Methods included from TokenAuthentication
#intercept_project, #intercept_user, #intercept_user_or_project, #project_token_authenticate, #token_authenticate
Instance Method Details
#api_index ⇒ Object
GET /api/v1/observation_matrices
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# File 'app/controllers/observation_matrices_controller.rb', line 239 def api_index @observation_matrices = Queries::ObservationMatrix::Filter.new(params.merge!(api: true)).all .where(project_id: sessions_current_project_id) .page(params[:page]) .per(params[:per]) render '/observation_matrices/api/v1/index' end |
#api_show ⇒ Object
GET /api/v1/observation_matrices/:id
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# File 'app/controllers/observation_matrices_controller.rb', line 248 def api_show render '/observation_matrices/api/v1/show' end |
#autocomplete ⇒ Object
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# File 'app/controllers/observation_matrices_controller.rb', line 117 def autocomplete @observation_matrices = ObservationMatrix.where(project_id: sessions_current_project_id).where('name ilike ?', "%#{params[:term]}%") end |
#batch_add ⇒ Object
.json
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# File 'app/controllers/observation_matrices_controller.rb', line 96 def batch_add o = ObservationMatrix.batch_add(params.merge(project_id: sessions_current_project_id)) if o.kind_of?(Hash) render json: o else render json: o, status: :unprocessable_entity end end |
#batch_create ⇒ Object
.json
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# File 'app/controllers/observation_matrices_controller.rb', line 86 def batch_create o = ObservationMatrix.batch_create(params.merge(project_id: sessions_current_project_id)) if o.kind_of?(Hash) render json: o else render json: o, status: :unprocessable_entity end end |
#column ⇒ Object
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# File 'app/controllers/observation_matrices_controller.rb', line 212 def column @observation_matrix_column = ObservationMatrixColumn.where(project_id: sessions_current_project_id).find(params.require(:observation_matrix_column_id)) end |
#column_labels ⇒ Object
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# File 'app/controllers/observation_matrices_controller.rb', line 133 def column_labels end |
#create ⇒ Object
POST /observation_matrices POST /observation_matrices.json
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# File 'app/controllers/observation_matrices_controller.rb', line 47 def create @observation_matrix = ObservationMatrix.new(observation_matrix_params) respond_to do |format| if @observation_matrix.save format.html { redirect_to @observation_matrix, notice: 'Matrix was successfully created.' } format.json { render :show, status: :created, location: @observation_matrix } else format.html { render :new } format.json { render json: @observation_matrix.errors, status: :unprocessable_entity } end end end |
#csv ⇒ Object
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# File 'app/controllers/observation_matrices_controller.rb', line 184 def csv respond_to do |format| base = '/observation_matrices/export/csv/' format.html { render base + 'index' } format.text { s = render_to_string(partial: base + 'csv', locals: { as_file: true }, layout: false, formats: [:html]) send_data(s, filename: "csv_#{DateTime.now}.csv", type: 'text/plain') } end end |
#descriptor_list ⇒ Object
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# File 'app/controllers/observation_matrices_controller.rb', line 162 def descriptor_list respond_to do |format| base = '/observation_matrices/export/descriptor_list/' format.html { render base + 'index' } format.text { s = render_to_string(partial: base + 'descriptor_list', locals: { as_file: true }, layout: false, formats: [:html]) send_data(s, filename: "descriptor_list_#{DateTime.now}.csv", type: 'text/plain') } end end |
#destroy ⇒ Object
DELETE /observation_matrices/1 DELETE /observation_matrices/1.json
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# File 'app/controllers/observation_matrices_controller.rb', line 77 def destroy @observation_matrix.destroy respond_to do |format| format.html { redirect_to observation_matrices_url, notice: 'Matrix was successfully destroyed.' } format.json { head :no_content } end end |
#download ⇒ Object
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# File 'app/controllers/observation_matrices_controller.rb', line 216 def download send_data Export::Download.generate_csv(ObservationMatrix.where(project_id: sessions_current_project_id)), type: 'text', filename: "observation_matrices_#{DateTime.now}.csv" end |
#download_contents ⇒ Object
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# File 'app/controllers/observation_matrices_controller.rb', line 220 def download_contents send_data Export::Download.generate_csv(ObservationMatrix.where(project_id: sessions_current_project_id)), type: 'text', filename: "observation_matrices_#{DateTime.now}.csv" end |
#edit ⇒ Object
GET /observation_matrices/1/edit
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# File 'app/controllers/observation_matrices_controller.rb', line 42 def edit end |
#index ⇒ Object
GET /observation_matrices GET /observation_matrices.json
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# File 'app/controllers/observation_matrices_controller.rb', line 12 def index respond_to do |format| format.html do @recent_objects = ObservationMatrix.recent_from_project_id(sessions_current_project_id).order(updated_at: :desc).limit(10) render '/shared/data/all/index' end format.json { @observation_matrices = ::Queries::ObservationMatrix::Filter.new(params).all .where(project_id: sessions_current_project_id) .page(params[:page]) .per(params[:per]) } end end |
#list ⇒ Object
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# File 'app/controllers/observation_matrices_controller.rb', line 32 def list @observation_matrices = ObservationMatrix.with_project_id(sessions_current_project_id).page(params[:page]).per(params[:per]) end |
#new ⇒ Object
GET /observation_matrices/new
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# File 'app/controllers/observation_matrices_controller.rb', line 37 def new redirect_to new_matrix_task_path, notice: 'Redirecting to new task.' end |
#nexml ⇒ Object
TODO export formats can move to a concern controller
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# File 'app/controllers/observation_matrices_controller.rb', line 138 def nexml @options = nexml_params respond_to do |format| base = '/observation_matrices/export/nexml/nexml' format.html { render base } format.text { s = render_to_string(base, layout: false, formats: [:rdf]) send_data(s, filename: "nexml_#{DateTime.now}.xml", type: 'text/plain') } end end |
#nexml_params ⇒ Object (private)
TODO: Not all params are supported yet.
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# File 'app/controllers/observation_matrices_controller.rb', line 255 def nexml_params { observation_matrix: @observation_matrix, target: '', include_otus: 'true', include_collection_objects: 'true', include_descriptors: 'true', include_otu_depictions: 'true', include_matrix: 'true', include_trees: 'false', rdf: false }.merge!( params.permit( :include_otus, :include_collection_objects, :include_descriptors, :include_matrix, :include_trees, :rdf ).to_h ) end |
#nexus ⇒ Object
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# File 'app/controllers/observation_matrices_controller.rb', line 195 def nexus respond_to do |format| base = '/observation_matrices/export/nexus/' format.html { render base + 'index' } format.text { s = render_to_string(partial: base + 'nexus', locals: { as_file: true }, layout: false, formats: [:html]) send_data(s, filename: "nexus_#{DateTime.now}.nex", type: 'text/plain') } end end |
#observation_matrix_params ⇒ Object (private)
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# File 'app/controllers/observation_matrices_controller.rb', line 309 def observation_matrix_params params.require(:observation_matrix).permit(:name) end |
#otu_contents ⇒ Object
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# File 'app/controllers/observation_matrices_controller.rb', line 150 def otu_contents @options = otu_contents_params respond_to do |format| base = '/observation_matrices/export/otu_content/index' format.html { render base } format.text { s = render_to_string(base, layout: false) send_data(s, filename: "otu_contents_#{DateTime.now}.csv", type: 'text/plain') } end end |
#otu_contents_params ⇒ Object (private)
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# File 'app/controllers/observation_matrices_controller.rb', line 276 def otu_contents_params { observation_matrix: @observation_matrix, target: '', include_otus: 'true', include_collection_objects: 'false', include_contents: 'true', include_distribution: 'true', include_type: 'true', taxon_name: 'true', include_nomenclature: 'true', include_autogenerated_description: 'true', include_depictions: 'true', rdf: false }.merge!( params.permit( :include_otus, :include_collection_objects, :include_matrix, :include_contents, :include_distribution, :include_type, :taxon_name, :include_nomenclature, :include_autogenerated_description, :include_depictions, :rdf ).to_h ) end |
#otus_used_in_matrices ⇒ Object
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# File 'app/controllers/observation_matrices_controller.rb', line 224 def otus_used_in_matrices # ObservationMatrix.with_otu_ids_array([13597, 25680]) if params[:otu_ids].present? p = ObservationMatrix.with_otu_id_array(params[:otu_ids].split('|')).pluck(:id) if p.nil? render json: {otus_used_in_matrices: ''}.to_json else render json: {otus_used_in_matrices: p}.to_json end else render json: {otus_used_in_matrices: ''}.to_json end end |
#reorder_columns ⇒ Object
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# File 'app/controllers/observation_matrices_controller.rb', line 113 def reorder_columns @observation_matrix.reorder_columns(params.require(:by)) end |
#reorder_rows ⇒ Object
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# File 'app/controllers/observation_matrices_controller.rb', line 105 def reorder_rows if @observation_matrix.reorder_rows(params.require(:by)) render json: :success else render json: :error, status: :unprocessable_entity end end |
#row ⇒ Object
GET /observation_matrices/row.json?observation_matrix_row_id=1 TODO: Why is this here? (used in Matrix Row Coder)
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# File 'app/controllers/observation_matrices_controller.rb', line 208 def row @observation_matrix_row = ObservationMatrixRow.where(project_id: sessions_current_project_id).find(params.require(:observation_matrix_row_id)) end |
#row_labels ⇒ Object
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# File 'app/controllers/observation_matrices_controller.rb', line 130 def row_labels end |
#search ⇒ Object
TODO: deprecate
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# File 'app/controllers/observation_matrices_controller.rb', line 122 def search if params[:id].blank? redirect_to observation_matrices_path, alert: 'You must select an item from the list with a click or tab press before clicking show.' else redirect_to observation_matrix_path(params[:id]) end end |
#set_observation_matrix ⇒ Object (private)
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# File 'app/controllers/observation_matrices_controller.rb', line 305 def set_observation_matrix @observation_matrix = ObservationMatrix.where(project_id: sessions_current_project_id).find(params[:id]) end |
#show ⇒ Object
GET /observation_matrices/1 GET /observation_matrices/1.json
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# File 'app/controllers/observation_matrices_controller.rb', line 29 def show end |
#tnt ⇒ Object
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# File 'app/controllers/observation_matrices_controller.rb', line 173 def tnt respond_to do |format| base = '/observation_matrices/export/tnt/' format.html { render base + 'index' } format.text { s = render_to_string(partial: base + 'tnt', locals: { as_file: true }, layout: false, formats: [:html]) send_data(s, filename: "tnt_#{DateTime.now}.tnt", type: 'text/plain') } end end |
#update ⇒ Object
PATCH/PUT /observation_matrices/1 PATCH/PUT /observation_matrices/1.json
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# File 'app/controllers/observation_matrices_controller.rb', line 63 def update respond_to do |format| if @observation_matrix.update(observation_matrix_params) format.html { redirect_to @observation_matrix, notice: 'Matrix was successfully updated.' } format.json { render :show, status: :ok, location: @observation_matrix } else format.html { render :edit } format.json { render json: @observation_matrix.errors, status: :unprocessable_entity } end end end |