Class: SequenceRelationshipsController

Inherits:
ApplicationController show all
Includes:
DataControllerConfiguration::ProjectDataControllerConfiguration
Defined in:
app/controllers/sequence_relationships_controller.rb

Constant Summary

Constants included from ProjectsHelper

ProjectsHelper::CLASSIFIER, ProjectsHelper::CLASSIFIER_ANNOTATION

Instance Method Summary collapse

Methods included from DataControllerConfiguration::ProjectDataControllerConfiguration

#annotator_params

Methods included from RedirectHelper

#destroy_redirect

Methods included from RequestType

#json_request?

Methods included from LogRecent

#log_user_recent_route

Methods included from Cookies

#digest_cookie, #digested_cookie_exists?

Methods included from Whitelist

#whitelist_constantize

Methods included from ProjectsHelper

#cumulative_gb_per_year, #document_cumulative_gb_per_year, #document_gb_per_year, #gb_per_year, #image_cumulative_gb_per_year, #image_gb_per_year, #invalid_object, #project_classification, #project_link, #project_matches, #project_tag, #projects_list, #projects_search_form, #taxonworks_classification

Methods included from Api::Intercept

#intercept_api

Methods included from TokenAuthentication

#intercept_project, #intercept_user, #intercept_user_or_project, #project_token_authenticate, #token_authenticate

Instance Method Details

#batch_load ⇒ Object 



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# File 'app/controllers/sequence_relationships_controller.rb', line 89

def batch_load
end

#batch_params ⇒ Object (private) 



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# File 'app/controllers/sequence_relationships_controller.rb', line 130

def batch_params
  params.permit(:name, :file, :import_level, files: [])
    .merge(user_id: sessions_current_user_id, project_id: sessions_current_project_id).to_h.symbolize_keys
end

#create ⇒ Object

POST /sequence_relationships POST /sequence_relationships.json



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# File 'app/controllers/sequence_relationships_controller.rb', line 34

def create
  @sequence_relationship = SequenceRelationship.new(sequence_relationship_params)

  respond_to do |format|
    if @sequence_relationship.save
      format.html { redirect_to sequence_relationship_path(@sequence_relationship),
                                notice: 'Sequence relationship was successfully created.' }
      format.json { render :show, status: :created, location: @sequence_relationship }
    else
      format.html { render :new }
      format.json { render json: @sequence_relationship.errors, status: :unprocessable_entity }
    end
  end
end

#create_primers_batch_load ⇒ Object 



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# File 'app/controllers/sequence_relationships_controller.rb', line 103

def create_primers_batch_load
  if params[:file] && digested_cookie_exists?(params[:file].tempfile, :Primers_sequences_md5)
    @result = BatchLoad::Import::SequenceRelationships::PrimersInterpreter.new(**batch_params)
    if @result.create!
      flash[:notice] = "Successfully proccessed file, #{@result.total_records_created} " \
                          'sequence relationships were created.'
      render 'sequence_relationships/batch_load/primers/create' and return
    else
      flash[:alert] = 'Batch import failed.'
    end
  else
    flash[:alert] = 'File to batch upload must be supplied.'
  end
  render :batch_load
end

#destroy ⇒ Object

DELETE /sequence_relationships/1 DELETE /sequence_relationships/1.json



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# File 'app/controllers/sequence_relationships_controller.rb', line 66

def destroy
  @sequence_relationship.destroy
  respond_to do |format|
    if @sequence_relationship.destroyed?
      format.html { destroy_redirect @sequence_relationship, notice: 'Sequence relationship was successfully destroyed.' }
      format.json { head :no_content}
    else
      format.html { destroy_redirect @sequence_relationship, notice: 'Sequence relationship was not destroyed, ' + @sequence_relationship.errors.full_messages.join('; ') }
      format.json { render json: @sequence_relationship.errors, status: :unprocessable_entity }
    end
  end
end

#edit ⇒ Object

GET /sequence_relationships/1/edit



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# File 'app/controllers/sequence_relationships_controller.rb', line 25

def edit
end

#index ⇒ Object

GET /sequence_relationships GET /sequence_relationships.json



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# File 'app/controllers/sequence_relationships_controller.rb', line 8

def index
  @recent_objects = SequenceRelationship.recent_from_project_id(sessions_current_project_id)
    .order(updated_at: :desc).limit(10)
  render '/shared/data/all/index'
end

#list ⇒ Object 



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# File 'app/controllers/sequence_relationships_controller.rb', line 28

def list
  @sequence_relationships = SequenceRelationship.with_project_id(sessions_current_project_id).page(params[:page])
end

#new ⇒ Object

GET /sequence_relationships/new



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# File 'app/controllers/sequence_relationships_controller.rb', line 20

def new
  @sequence_relationship = SequenceRelationship.new
end

#preview_primers_batch_load ⇒ Object 



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# File 'app/controllers/sequence_relationships_controller.rb', line 92

def preview_primers_batch_load
  if params[:file]
    @result = BatchLoad::Import::SequenceRelationships::PrimersInterpreter.new(**batch_params)
    digest_cookie(params[:file].tempfile, :Primers_sequences_md5)
    render 'sequence_relationships/batch_load/primers/preview'
  else
    flash[:notice] = 'No file provided!'
    redirect_to action: :batch_load
  end
end

#search ⇒ Object 



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# File 'app/controllers/sequence_relationships_controller.rb', line 80

def search
  if params[:id].blank?
    redirect_to sequence_relationships_path, notice: 'You must select an item from the list with a ' \
                                                          'click or tab press before clicking show.'
  else
    redirect_to sequence_relationship_path(params[:id])
  end
end

#sequence_relationship_params ⇒ Object (private) 



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# File 'app/controllers/sequence_relationships_controller.rb', line 125

def sequence_relationship_params
  params.require(:sequence_relationship).permit(:subject_sequence_id, :type,
                                                :object_sequence_id, :created_by_id, :updated_by_id, :project_id)
end

#set_sequence_relationship ⇒ Object (private) 



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# File 'app/controllers/sequence_relationships_controller.rb', line 121

def set_sequence_relationship
  @sequence_relationship = SequenceRelationship.where(project_id: sessions_current_project_id).find(params[:id])
end

#show ⇒ Object

GET /sequence_relationships/1 GET /sequence_relationships/1.json



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# File 'app/controllers/sequence_relationships_controller.rb', line 16

def show
end

#update ⇒ Object

PATCH/PUT /sequence_relationships/1 PATCH/PUT /sequence_relationships/1.json



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# File 'app/controllers/sequence_relationships_controller.rb', line 51

def update
  respond_to do |format|
    if @sequence_relationship.update(sequence_relationship_params)
      format.html { redirect_to url_for(@sequence_relationship.metamorphosize),
                                notice: 'Sequence relationship was successfully updated.' }
      format.json { render :show, status: :ok, location: @sequence_relationship }
    else
      format.html { render :edit }
      format.json { render json: @sequence_relationship.errors, status: :unprocessable_entity }
    end
  end
end