sanger/sequencescape

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app/controllers/receptacles_controller.rb

Summary

Maintainability
B
7 hrs
Test Coverage
F
57%

Complex method ReceptaclesController#create_request (81.5)
Open

  def create_request # rubocop:todo Metrics/AbcSize
    @request_type = RequestType.find(params[:request_type_id])
    @study = Study.find(params[:study_id]) if params[:cross_study_request].blank?
    @project = Project.find(params[:project_id]) if params[:cross_project_request].blank?

Flog calculates the ABC score for methods. The ABC score is based on assignments, branches (method calls), and conditions.

You can read more about ABC metrics or the flog tool

Complex method ReceptaclesController#lookup (51.1)
Open

  def lookup # rubocop:todo Metrics/AbcSize, Metrics/MethodLength
    return unless params[:asset] && params[:asset][:barcode]

    @assets = Labware.with_barcode(params[:asset][:barcode]).limit(50).page(params[:page])

Flog calculates the ABC score for methods. The ABC score is based on assignments, branches (method calls), and conditions.

You can read more about ABC metrics or the flog tool

Complex method ReceptaclesController#index (45.3)
Open

  def index # rubocop:todo Metrics/AbcSize, Metrics/MethodLength
    if params[:study_id]
      @study = Study.find(params[:study_id])
      @assets = @study.assets_through_aliquots.order(created_at: :desc).page(params[:page])
    else

Flog calculates the ABC score for methods. The ABC score is based on assignments, branches (method calls), and conditions.

You can read more about ABC metrics or the flog tool

Complex method ReceptaclesController#update (35.3)
Open

  def update # rubocop:todo Metrics/AbcSize, Metrics/MethodLength
    respond_to do |format|
      if @asset.update(asset_params.merge(params.to_unsafe_h.fetch(:lane, {})))
        flash[:notice] = 'Receptacle was successfully updated.'
        if params[:lab_view]

Flog calculates the ABC score for methods. The ABC score is based on assignments, branches (method calls), and conditions.

You can read more about ABC metrics or the flog tool

Method create_request has 30 lines of code (exceeds 25 allowed). Consider refactoring.
Open

  def create_request # rubocop:todo Metrics/AbcSize
    @request_type = RequestType.find(params[:request_type_id])
    @study = Study.find(params[:study_id]) if params[:cross_study_request].blank?
    @project = Project.find(params[:project_id]) if params[:cross_project_request].blank?

Severity: Minor
Found in app/controllers/receptacles_controller.rb - About 1 hr to fix

    ReceptaclesController#update has approx 12 statements
    Open

      def update # rubocop:todo Metrics/AbcSize, Metrics/MethodLength

    A method with Too Many Statements is any method that has a large number of lines.

    Too Many Statements warns about any method that has more than 5 statements. Reek's smell detector for Too Many Statements counts +1 for every simple statement in a method and +1 for every statement within a control structure (if, else, case, when, for, while, until, begin, rescue) but it doesn't count the control structure itself.

    So the following method would score +6 in Reek's statement-counting algorithm:

    def parse(arg, argv, &error)
      if !(val = arg) and (argv.empty? or /\A-/ =~ (val = argv[0]))
        return nil, block, nil                                         # +1
      end
      opt = (val = parse_arg(val, &error))[1]                          # +2
      val = conv_arg(*val)                                             # +3
      if opt and !arg
        argv.shift                                                     # +4
      else
        val[0] = nil                                                   # +5
      end
      val                                                              # +6
    end

    (You might argue that the two assigments within the first @if@ should count as statements, and that perhaps the nested assignment should count as +2.)

    ReceptaclesController#index has approx 9 statements
    Open

      def index # rubocop:todo Metrics/AbcSize, Metrics/MethodLength

    A method with Too Many Statements is any method that has a large number of lines.

    Too Many Statements warns about any method that has more than 5 statements. Reek's smell detector for Too Many Statements counts +1 for every simple statement in a method and +1 for every statement within a control structure (if, else, case, when, for, while, until, begin, rescue) but it doesn't count the control structure itself.

    So the following method would score +6 in Reek's statement-counting algorithm:

    def parse(arg, argv, &error)
      if !(val = arg) and (argv.empty? or /\A-/ =~ (val = argv[0]))
        return nil, block, nil                                         # +1
      end
      opt = (val = parse_arg(val, &error))[1]                          # +2
      val = conv_arg(*val)                                             # +3
      if opt and !arg
        argv.shift                                                     # +4
      else
        val[0] = nil                                                   # +5
      end
      val                                                              # +6
    end

    (You might argue that the two assigments within the first @if@ should count as statements, and that perhaps the nested assignment should count as +2.)

    ReceptaclesController has at least 18 methods
    Open

    class ReceptaclesController < ApplicationController # rubocop:todo Metrics/ClassLength

    Too Many Methods is a special case of LargeClass.

    Example

    Given this configuration

    TooManyMethods:
      max_methods: 3

    and this code:

    class TooManyMethods
      def one; end
      def two; end
      def three; end
      def four; end
    end

    Reek would emit the following warning:

    test.rb -- 1 warning:
      [1]:TooManyMethods has at least 4 methods (TooManyMethods)

    ReceptaclesController#lookup has approx 14 statements
    Open

      def lookup # rubocop:todo Metrics/AbcSize, Metrics/MethodLength

    A method with Too Many Statements is any method that has a large number of lines.

    Too Many Statements warns about any method that has more than 5 statements. Reek's smell detector for Too Many Statements counts +1 for every simple statement in a method and +1 for every statement within a control structure (if, else, case, when, for, while, until, begin, rescue) but it doesn't count the control structure itself.

    So the following method would score +6 in Reek's statement-counting algorithm:

    def parse(arg, argv, &error)
      if !(val = arg) and (argv.empty? or /\A-/ =~ (val = argv[0]))
        return nil, block, nil                                         # +1
      end
      opt = (val = parse_arg(val, &error))[1]                          # +2
      val = conv_arg(*val)                                             # +3
      if opt and !arg
        argv.shift                                                     # +4
      else
        val[0] = nil                                                   # +5
      end
      val                                                              # +6
    end

    (You might argue that the two assigments within the first @if@ should count as statements, and that perhaps the nested assignment should count as +2.)

    ReceptaclesController#close has approx 9 statements
    Open

      def close

    A method with Too Many Statements is any method that has a large number of lines.

    Too Many Statements warns about any method that has more than 5 statements. Reek's smell detector for Too Many Statements counts +1 for every simple statement in a method and +1 for every statement within a control structure (if, else, case, when, for, while, until, begin, rescue) but it doesn't count the control structure itself.

    So the following method would score +6 in Reek's statement-counting algorithm:

    def parse(arg, argv, &error)
      if !(val = arg) and (argv.empty? or /\A-/ =~ (val = argv[0]))
        return nil, block, nil                                         # +1
      end
      opt = (val = parse_arg(val, &error))[1]                          # +2
      val = conv_arg(*val)                                             # +3
      if opt and !arg
        argv.shift                                                     # +4
      else
        val[0] = nil                                                   # +5
      end
      val                                                              # +6
    end

    (You might argue that the two assigments within the first @if@ should count as statements, and that perhaps the nested assignment should count as +2.)

    ReceptaclesController#show has approx 8 statements
    Open

      def show # rubocop:todo Metrics/MethodLength

    A method with Too Many Statements is any method that has a large number of lines.

    Too Many Statements warns about any method that has more than 5 statements. Reek's smell detector for Too Many Statements counts +1 for every simple statement in a method and +1 for every statement within a control structure (if, else, case, when, for, while, until, begin, rescue) but it doesn't count the control structure itself.

    So the following method would score +6 in Reek's statement-counting algorithm:

    def parse(arg, argv, &error)
      if !(val = arg) and (argv.empty? or /\A-/ =~ (val = argv[0]))
        return nil, block, nil                                         # +1
      end
      opt = (val = parse_arg(val, &error))[1]                          # +2
      val = conv_arg(*val)                                             # +3
      if opt and !arg
        argv.shift                                                     # +4
      else
        val[0] = nil                                                   # +5
      end
      val                                                              # +6
    end

    (You might argue that the two assigments within the first @if@ should count as statements, and that perhaps the nested assignment should count as +2.)

    ReceptaclesController has at least 12 instance variables
    Open

    class ReceptaclesController < ApplicationController # rubocop:todo Metrics/ClassLength

    Too Many Instance Variables is a special case of LargeClass.

    Example

    Given this configuration

    TooManyInstanceVariables:
      max_instance_variables: 3

    and this code:

    class TooManyInstanceVariables
      def initialize
        @arg_1 = :dummy
        @arg_2 = :dummy
        @arg_3 = :dummy
        @arg_4 = :dummy
      end
    end

    Reek would emit the following warning:

    test.rb -- 5 warnings:
      [1]:TooManyInstanceVariables has at least 4 instance variables (TooManyInstanceVariables)

    ReceptaclesController#create_request has approx 22 statements
    Open

      def create_request # rubocop:todo Metrics/AbcSize

    A method with Too Many Statements is any method that has a large number of lines.

    Too Many Statements warns about any method that has more than 5 statements. Reek's smell detector for Too Many Statements counts +1 for every simple statement in a method and +1 for every statement within a control structure (if, else, case, when, for, while, until, begin, rescue) but it doesn't count the control structure itself.

    So the following method would score +6 in Reek's statement-counting algorithm:

    def parse(arg, argv, &error)
      if !(val = arg) and (argv.empty? or /\A-/ =~ (val = argv[0]))
        return nil, block, nil                                         # +1
      end
      opt = (val = parse_arg(val, &error))[1]                          # +2
      val = conv_arg(*val)                                             # +3
      if opt and !arg
        argv.shift                                                     # +4
      else
        val[0] = nil                                                   # +5
      end
      val                                                              # +6
    end

    (You might argue that the two assigments within the first @if@ should count as statements, and that perhaps the nested assignment should count as +2.)

    ReceptaclesController tests 'params[:study_id]' at least 3 times
    Open

        if params[:study_id]
          @study = Study.find(params[:study_id])
          @assets = @study.assets_through_aliquots.order(created_at: :desc).page(params[:page])
        else
          @assets = Receptacle.page(params[:page])

    Repeated Conditional is a special case of Simulated Polymorphism. Basically it means you are checking the same value throughout a single class and take decisions based on this.

    Example

    Given

    class RepeatedConditionals
      attr_accessor :switch
    
      def repeat_1
        puts "Repeat 1!" if switch
      end
    
      def repeat_2
        puts "Repeat 2!" if switch
      end
    
      def repeat_3
        puts "Repeat 3!" if switch
      end
    end

    Reek would emit the following warning:

    test.rb -- 4 warnings:
      [5, 9, 13]:RepeatedConditionals tests switch at least 3 times (RepeatedConditional)

    If you get this warning then you are probably not using the right abstraction or even more probable, missing an additional abstraction.

    Method update has a Cognitive Complexity of 7 (exceeds 5 allowed). Consider refactoring.
    Open

      def update # rubocop:todo Metrics/AbcSize, Metrics/MethodLength
        respond_to do |format|
          if @asset.update(asset_params.merge(params.to_unsafe_h.fetch(:lane, {})))
            flash[:notice] = 'Receptacle was successfully updated.'
            if params[:lab_view]
    Severity: Minor
    Found in app/controllers/receptacles_controller.rb - About 35 mins to fix

    Cognitive Complexity

    Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

    A method's cognitive complexity is based on a few simple rules:

    • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
    • Code is considered more complex for each "break in the linear flow of the code"
    • Code is considered more complex when "flow breaking structures are nested"

    Further reading

    Method create_request has a Cognitive Complexity of 7 (exceeds 5 allowed). Consider refactoring.
    Open

      def create_request # rubocop:todo Metrics/AbcSize
        @request_type = RequestType.find(params[:request_type_id])
        @study = Study.find(params[:study_id]) if params[:cross_study_request].blank?
        @project = Project.find(params[:project_id]) if params[:cross_project_request].blank?
    
    
    Severity: Minor
    Found in app/controllers/receptacles_controller.rb - About 35 mins to fix

    Cognitive Complexity

    Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

    A method's cognitive complexity is based on a few simple rules:

    • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
    • Code is considered more complex for each "break in the linear flow of the code"
    • Code is considered more complex when "flow breaking structures are nested"

    Further reading

    ReceptaclesController#create_request calls 'params[:count]' 2 times
    Open

        request_options[:multiplier] = { @request_type.id => params[:count].to_i } if params[:count].present?

    Duplication occurs when two fragments of code look nearly identical, or when two fragments of code have nearly identical effects at some conceptual level.

    Reek implements a check for Duplicate Method Call.

    Example

    Here's a very much simplified and contrived example. The following method will report a warning:

    def double_thing()
      @other.thing + @other.thing
    end

    One quick approach to silence Reek would be to refactor the code thus:

    def double_thing()
      thing = @other.thing
      thing + thing
    end

    A slightly different approach would be to replace all calls of double_thing by calls to @other.double_thing:

    class Other
      def double_thing()
        thing + thing
      end
    end

    The approach you take will depend on balancing other factors in your code.

    ReceptaclesController#create_request calls 'e.message' 2 times
    Open

          flash[:error] = e.message.truncate(2000, separator: ' ')
          format.html { redirect_to new_request_for_current_asset }
          format.json { render json: e.message, status: :unprocessable_entity }

    Duplication occurs when two fragments of code look nearly identical, or when two fragments of code have nearly identical effects at some conceptual level.

    Reek implements a check for Duplicate Method Call.

    Example

    Here's a very much simplified and contrived example. The following method will report a warning:

    def double_thing()
      @other.thing + @other.thing
    end

    One quick approach to silence Reek would be to refactor the code thus:

    def double_thing()
      thing = @other.thing
      thing + thing
    end

    A slightly different approach would be to replace all calls of double_thing by calls to @other.double_thing:

    class Other
      def double_thing()
        thing + thing
      end
    end

    The approach you take will depend on balancing other factors in your code.

    ReceptaclesController#show calls '@asset.aliquots.include_summary' 2 times
    Open

                @asset.aliquots.include_summary # NPG Aliquot Indexing
              else
                @asset.aliquots.include_summary.paginate(page: params[:page], per_page: 384)

    Duplication occurs when two fragments of code look nearly identical, or when two fragments of code have nearly identical effects at some conceptual level.

    Reek implements a check for Duplicate Method Call.

    Example

    Here's a very much simplified and contrived example. The following method will report a warning:

    def double_thing()
      @other.thing + @other.thing
    end

    One quick approach to silence Reek would be to refactor the code thus:

    def double_thing()
      thing = @other.thing
      thing + thing
    end

    A slightly different approach would be to replace all calls of double_thing by calls to @other.double_thing:

    class Other
      def double_thing()
        thing + thing
      end
    end

    The approach you take will depend on balancing other factors in your code.

    ReceptaclesController#create_request calls 'format.html' 2 times
    Open

          format.html { redirect_to receptacle_path(@asset) }
          format.json { render json: submission.requests, status: :created }
        end
      rescue Submission::ProjectValidation::Error, ActiveRecord::RecordNotFound, ActiveRecord::RecordInvalid => e
        respond_to do |format|

    Duplication occurs when two fragments of code look nearly identical, or when two fragments of code have nearly identical effects at some conceptual level.

    Reek implements a check for Duplicate Method Call.

    Example

    Here's a very much simplified and contrived example. The following method will report a warning:

    def double_thing()
      @other.thing + @other.thing
    end

    One quick approach to silence Reek would be to refactor the code thus:

    def double_thing()
      thing = @other.thing
      thing + thing
    end

    A slightly different approach would be to replace all calls of double_thing by calls to @other.double_thing:

    class Other
      def double_thing()
        thing + thing
      end
    end

    The approach you take will depend on balancing other factors in your code.

    ReceptaclesController#lookup calls 'params[:asset]' 4 times
    Open

        return unless params[:asset] && params[:asset][:barcode]
    
        @assets = Labware.with_barcode(params[:asset][:barcode]).limit(50).page(params[:page])
    
        if @assets.size == 1

    Duplication occurs when two fragments of code look nearly identical, or when two fragments of code have nearly identical effects at some conceptual level.

    Reek implements a check for Duplicate Method Call.

    Example

    Here's a very much simplified and contrived example. The following method will report a warning:

    def double_thing()
      @other.thing + @other.thing
    end

    One quick approach to silence Reek would be to refactor the code thus:

    def double_thing()
      thing = @other.thing
      thing + thing
    end

    A slightly different approach would be to replace all calls of double_thing by calls to @other.double_thing:

    class Other
      def double_thing()
        thing + thing
      end
    end

    The approach you take will depend on balancing other factors in your code.

    ReceptaclesController#lookup calls 'format.html' 2 times
    Open

            format.html { render action: 'lookup' }
            format.xml { render xml: @assets.to_xml }
          end
        else
          respond_to do |format|

    Duplication occurs when two fragments of code look nearly identical, or when two fragments of code have nearly identical effects at some conceptual level.

    Reek implements a check for Duplicate Method Call.

    Example

    Here's a very much simplified and contrived example. The following method will report a warning:

    def double_thing()
      @other.thing + @other.thing
    end

    One quick approach to silence Reek would be to refactor the code thus:

    def double_thing()
      thing = @other.thing
      thing + thing
    end

    A slightly different approach would be to replace all calls of double_thing by calls to @other.double_thing:

    class Other
      def double_thing()
        thing + thing
      end
    end

    The approach you take will depend on balancing other factors in your code.

    ReceptaclesController#close calls '@asset.closed' 2 times
    Open

        @asset.closed = !@asset.closed
        @asset.save
        respond_to do |format|
          flash[:notice] = @asset.closed ? "Receptacle #{@asset.name} was closed." : "Receptacle #{@asset.name} was opened."

    Duplication occurs when two fragments of code look nearly identical, or when two fragments of code have nearly identical effects at some conceptual level.

    Reek implements a check for Duplicate Method Call.

    Example

    Here's a very much simplified and contrived example. The following method will report a warning:

    def double_thing()
      @other.thing + @other.thing
    end

    One quick approach to silence Reek would be to refactor the code thus:

    def double_thing()
      thing = @other.thing
      thing + thing
    end

    A slightly different approach would be to replace all calls of double_thing by calls to @other.double_thing:

    class Other
      def double_thing()
        thing + thing
      end
    end

    The approach you take will depend on balancing other factors in your code.

    ReceptaclesController#lookup calls '@assets.to_xml' 2 times
    Open

            format.xml { render xml: @assets.to_xml }
          end
        else
          respond_to do |format|
            format.html { render action: 'index' }

    Duplication occurs when two fragments of code look nearly identical, or when two fragments of code have nearly identical effects at some conceptual level.

    Reek implements a check for Duplicate Method Call.

    Example

    Here's a very much simplified and contrived example. The following method will report a warning:

    def double_thing()
      @other.thing + @other.thing
    end

    One quick approach to silence Reek would be to refactor the code thus:

    def double_thing()
      thing = @other.thing
      thing + thing
    end

    A slightly different approach would be to replace all calls of double_thing by calls to @other.double_thing:

    class Other
      def double_thing()
        thing + thing
      end
    end

    The approach you take will depend on balancing other factors in your code.

    ReceptaclesController#lookup calls 'format.xml' 2 times
    Open

            format.xml { render xml: @assets.to_xml }
          end
        else
          respond_to do |format|
            format.html { render action: 'index' }

    Duplication occurs when two fragments of code look nearly identical, or when two fragments of code have nearly identical effects at some conceptual level.

    Reek implements a check for Duplicate Method Call.

    Example

    Here's a very much simplified and contrived example. The following method will report a warning:

    def double_thing()
      @other.thing + @other.thing
    end

    One quick approach to silence Reek would be to refactor the code thus:

    def double_thing()
      thing = @other.thing
      thing + thing
    end

    A slightly different approach would be to replace all calls of double_thing by calls to @other.double_thing:

    class Other
      def double_thing()
        thing + thing
      end
    end

    The approach you take will depend on balancing other factors in your code.

    ReceptaclesController#lookup calls 'render xml: @assets.to_xml' 2 times
    Open

            format.xml { render xml: @assets.to_xml }
          end
        else
          respond_to do |format|
            format.html { render action: 'index' }

    Duplication occurs when two fragments of code look nearly identical, or when two fragments of code have nearly identical effects at some conceptual level.

    Reek implements a check for Duplicate Method Call.

    Example

    Here's a very much simplified and contrived example. The following method will report a warning:

    def double_thing()
      @other.thing + @other.thing
    end

    One quick approach to silence Reek would be to refactor the code thus:

    def double_thing()
      thing = @other.thing
      thing + thing
    end

    A slightly different approach would be to replace all calls of double_thing by calls to @other.double_thing:

    class Other
      def double_thing()
        thing + thing
      end
    end

    The approach you take will depend on balancing other factors in your code.

    ReceptaclesController#new_request calls '@asset.studies.first' 2 times
    Open

        @study = params[:study_id] ? Study.find(params[:study_id]) : @asset.studies.first
        @project = @asset.projects.first || @asset.studies.first&.projects&.first

    Duplication occurs when two fragments of code look nearly identical, or when two fragments of code have nearly identical effects at some conceptual level.

    Reek implements a check for Duplicate Method Call.

    Example

    Here's a very much simplified and contrived example. The following method will report a warning:

    def double_thing()
      @other.thing + @other.thing
    end

    One quick approach to silence Reek would be to refactor the code thus:

    def double_thing()
      thing = @other.thing
      thing + thing
    end

    A slightly different approach would be to replace all calls of double_thing by calls to @other.double_thing:

    class Other
      def double_thing()
        thing + thing
      end
    end

    The approach you take will depend on balancing other factors in your code.

    ReceptaclesController#show calls '@asset.aliquots' 2 times
    Open

                @asset.aliquots.include_summary # NPG Aliquot Indexing
              else
                @asset.aliquots.include_summary.paginate(page: params[:page], per_page: 384)

    Duplication occurs when two fragments of code look nearly identical, or when two fragments of code have nearly identical effects at some conceptual level.

    Reek implements a check for Duplicate Method Call.

    Example

    Here's a very much simplified and contrived example. The following method will report a warning:

    def double_thing()
      @other.thing + @other.thing
    end

    One quick approach to silence Reek would be to refactor the code thus:

    def double_thing()
      thing = @other.thing
      thing + thing
    end

    A slightly different approach would be to replace all calls of double_thing by calls to @other.double_thing:

    class Other
      def double_thing()
        thing + thing
      end
    end

    The approach you take will depend on balancing other factors in your code.

    ReceptaclesController#new_request calls 'params[:study_id]' 2 times
    Open

        @study = params[:study_id] ? Study.find(params[:study_id]) : @asset.studies.first

    Duplication occurs when two fragments of code look nearly identical, or when two fragments of code have nearly identical effects at some conceptual level.

    Reek implements a check for Duplicate Method Call.

    Example

    Here's a very much simplified and contrived example. The following method will report a warning:

    def double_thing()
      @other.thing + @other.thing
    end

    One quick approach to silence Reek would be to refactor the code thus:

    def double_thing()
      thing = @other.thing
      thing + thing
    end

    A slightly different approach would be to replace all calls of double_thing by calls to @other.double_thing:

    class Other
      def double_thing()
        thing + thing
      end
    end

    The approach you take will depend on balancing other factors in your code.

    ReceptaclesController#update calls 'format.html' 3 times
    Open

              format.html { redirect_to(action: :lab_view, barcode: @asset.human_barcode) }
            else
              format.html { redirect_to(action: :show, id: @asset.id) }
              format.xml { head :ok }
            end

    Duplication occurs when two fragments of code look nearly identical, or when two fragments of code have nearly identical effects at some conceptual level.

    Reek implements a check for Duplicate Method Call.

    Example

    Here's a very much simplified and contrived example. The following method will report a warning:

    def double_thing()
      @other.thing + @other.thing
    end

    One quick approach to silence Reek would be to refactor the code thus:

    def double_thing()
      thing = @other.thing
      thing + thing
    end

    A slightly different approach would be to replace all calls of double_thing by calls to @other.double_thing:

    class Other
      def double_thing()
        thing + thing
      end
    end

    The approach you take will depend on balancing other factors in your code.

    ReceptaclesController#close calls '@asset.name' 2 times
    Open

          flash[:notice] = @asset.closed ? "Receptacle #{@asset.name} was closed." : "Receptacle #{@asset.name} was opened."

    Duplication occurs when two fragments of code look nearly identical, or when two fragments of code have nearly identical effects at some conceptual level.

    Reek implements a check for Duplicate Method Call.

    Example

    Here's a very much simplified and contrived example. The following method will report a warning:

    def double_thing()
      @other.thing + @other.thing
    end

    One quick approach to silence Reek would be to refactor the code thus:

    def double_thing()
      thing = @other.thing
      thing + thing
    end

    A slightly different approach would be to replace all calls of double_thing by calls to @other.double_thing:

    class Other
      def double_thing()
        thing + thing
      end
    end

    The approach you take will depend on balancing other factors in your code.

    ReceptaclesController#index calls 'format.xml' 2 times
    Open

            format.xml { render xml: @study.assets_through_requests.to_xml }
          elsif params[:sample_id]
            format.xml { render xml: Sample.find(params[:sample_id]).assets.to_xml }

    Duplication occurs when two fragments of code look nearly identical, or when two fragments of code have nearly identical effects at some conceptual level.

    Reek implements a check for Duplicate Method Call.

    Example

    Here's a very much simplified and contrived example. The following method will report a warning:

    def double_thing()
      @other.thing + @other.thing
    end

    One quick approach to silence Reek would be to refactor the code thus:

    def double_thing()
      thing = @other.thing
      thing + thing
    end

    A slightly different approach would be to replace all calls of double_thing by calls to @other.double_thing:

    class Other
      def double_thing()
        thing + thing
      end
    end

    The approach you take will depend on balancing other factors in your code.

    ReceptaclesController#lookup calls 'format.xml { render xml: @assets.to_xml }' 2 times
    Open

            format.xml { render xml: @assets.to_xml }
          end
        else
          respond_to do |format|
            format.html { render action: 'index' }

    Duplication occurs when two fragments of code look nearly identical, or when two fragments of code have nearly identical effects at some conceptual level.

    Reek implements a check for Duplicate Method Call.

    Example

    Here's a very much simplified and contrived example. The following method will report a warning:

    def double_thing()
      @other.thing + @other.thing
    end

    One quick approach to silence Reek would be to refactor the code thus:

    def double_thing()
      thing = @other.thing
      thing + thing
    end

    A slightly different approach would be to replace all calls of double_thing by calls to @other.double_thing:

    class Other
      def double_thing()
        thing + thing
      end
    end

    The approach you take will depend on balancing other factors in your code.

    ReceptaclesController#update calls 'format.xml' 2 times
    Open

              format.xml { head :ok }
            end
          else
            format.html { render action: 'edit' }
            format.xml { render xml: @asset.errors, status: :unprocessable_entity }

    Duplication occurs when two fragments of code look nearly identical, or when two fragments of code have nearly identical effects at some conceptual level.

    Reek implements a check for Duplicate Method Call.

    Example

    Here's a very much simplified and contrived example. The following method will report a warning:

    def double_thing()
      @other.thing + @other.thing
    end

    One quick approach to silence Reek would be to refactor the code thus:

    def double_thing()
      thing = @other.thing
      thing + thing
    end

    A slightly different approach would be to replace all calls of double_thing by calls to @other.double_thing:

    class Other
      def double_thing()
        thing + thing
      end
    end

    The approach you take will depend on balancing other factors in your code.

    ReceptaclesController#index calls 'params[:sample_id]' 2 times
    Open

          elsif params[:sample_id]
            format.xml { render xml: Sample.find(params[:sample_id]).assets.to_xml }

    Duplication occurs when two fragments of code look nearly identical, or when two fragments of code have nearly identical effects at some conceptual level.

    Reek implements a check for Duplicate Method Call.

    Example

    Here's a very much simplified and contrived example. The following method will report a warning:

    def double_thing()
      @other.thing + @other.thing
    end

    One quick approach to silence Reek would be to refactor the code thus:

    def double_thing()
      thing = @other.thing
      thing + thing
    end

    A slightly different approach would be to replace all calls of double_thing by calls to @other.double_thing:

    class Other
      def double_thing()
        thing + thing
      end
    end

    The approach you take will depend on balancing other factors in your code.

    ReceptaclesController#index calls 'params[:study_id]' 3 times
    Open

        if params[:study_id]
          @study = Study.find(params[:study_id])
          @assets = @study.assets_through_aliquots.order(created_at: :desc).page(params[:page])
        else
          @assets = Receptacle.page(params[:page])

    Duplication occurs when two fragments of code look nearly identical, or when two fragments of code have nearly identical effects at some conceptual level.

    Reek implements a check for Duplicate Method Call.

    Example

    Here's a very much simplified and contrived example. The following method will report a warning:

    def double_thing()
      @other.thing + @other.thing
    end

    One quick approach to silence Reek would be to refactor the code thus:

    def double_thing()
      thing = @other.thing
      thing + thing
    end

    A slightly different approach would be to replace all calls of double_thing by calls to @other.double_thing:

    class Other
      def double_thing()
        thing + thing
      end
    end

    The approach you take will depend on balancing other factors in your code.

    ReceptaclesController#lookup calls 'params[:asset][:barcode]' 3 times
    Open

        return unless params[:asset] && params[:asset][:barcode]
    
        @assets = Labware.with_barcode(params[:asset][:barcode]).limit(50).page(params[:page])
    
        if @assets.size == 1

    Duplication occurs when two fragments of code look nearly identical, or when two fragments of code have nearly identical effects at some conceptual level.

    Reek implements a check for Duplicate Method Call.

    Example

    Here's a very much simplified and contrived example. The following method will report a warning:

    def double_thing()
      @other.thing + @other.thing
    end

    One quick approach to silence Reek would be to refactor the code thus:

    def double_thing()
      thing = @other.thing
      thing + thing
    end

    A slightly different approach would be to replace all calls of double_thing by calls to @other.double_thing:

    class Other
      def double_thing()
        thing + thing
      end
    end

    The approach you take will depend on balancing other factors in your code.

    ReceptaclesController#new_request calls '@asset.studies' 2 times
    Open

        @study = params[:study_id] ? Study.find(params[:study_id]) : @asset.studies.first
        @project = @asset.projects.first || @asset.studies.first&.projects&.first

    Duplication occurs when two fragments of code look nearly identical, or when two fragments of code have nearly identical effects at some conceptual level.

    Reek implements a check for Duplicate Method Call.

    Example

    Here's a very much simplified and contrived example. The following method will report a warning:

    def double_thing()
      @other.thing + @other.thing
    end

    One quick approach to silence Reek would be to refactor the code thus:

    def double_thing()
      thing = @other.thing
      thing + thing
    end

    A slightly different approach would be to replace all calls of double_thing by calls to @other.double_thing:

    class Other
      def double_thing()
        thing + thing
      end
    end

    The approach you take will depend on balancing other factors in your code.

    ReceptaclesController#print calls '@asset.printable_target' 2 times
    Open

          @printable = @asset.printable_target
          @direct_printing = (@asset.printable_target == @asset)

    Duplication occurs when two fragments of code look nearly identical, or when two fragments of code have nearly identical effects at some conceptual level.

    Reek implements a check for Duplicate Method Call.

    Example

    Here's a very much simplified and contrived example. The following method will report a warning:

    def double_thing()
      @other.thing + @other.thing
    end

    One quick approach to silence Reek would be to refactor the code thus:

    def double_thing()
      thing = @other.thing
      thing + thing
    end

    A slightly different approach would be to replace all calls of double_thing by calls to @other.double_thing:

    class Other
      def double_thing()
        thing + thing
      end
    end

    The approach you take will depend on balancing other factors in your code.

    ReceptaclesController#create_request calls '@request_type.id' 2 times
    Open

        request_options[:multiplier] = { @request_type.id => params[:count].to_i } if params[:count].present?
        submission = Submission.new(priority: params[:priority], name: @study.try(:name), user: current_user)
    
        # Despite its name, this is actually an order.
        resubmission_order =

    Duplication occurs when two fragments of code look nearly identical, or when two fragments of code have nearly identical effects at some conceptual level.

    Reek implements a check for Duplicate Method Call.

    Example

    Here's a very much simplified and contrived example. The following method will report a warning:

    def double_thing()
      @other.thing + @other.thing
    end

    One quick approach to silence Reek would be to refactor the code thus:

    def double_thing()
      thing = @other.thing
      thing + thing
    end

    A slightly different approach would be to replace all calls of double_thing by calls to @other.double_thing:

    class Other
      def double_thing()
        thing + thing
      end
    end

    The approach you take will depend on balancing other factors in your code.

    ReceptaclesController#create_request calls 'format.json' 2 times
    Open

          format.json { render json: submission.requests, status: :created }
        end
      rescue Submission::ProjectValidation::Error, ActiveRecord::RecordNotFound, ActiveRecord::RecordInvalid => e
        respond_to do |format|
          # Using 'flash' instead of 'flash.now' to ensure the message persists after the redirect.

    Duplication occurs when two fragments of code look nearly identical, or when two fragments of code have nearly identical effects at some conceptual level.

    Reek implements a check for Duplicate Method Call.

    Example

    Here's a very much simplified and contrived example. The following method will report a warning:

    def double_thing()
      @other.thing + @other.thing
    end

    One quick approach to silence Reek would be to refactor the code thus:

    def double_thing()
      thing = @other.thing
      thing + thing
    end

    A slightly different approach would be to replace all calls of double_thing by calls to @other.double_thing:

    class Other
      def double_thing()
        thing + thing
      end
    end

    The approach you take will depend on balancing other factors in your code.

    ReceptaclesController#index calls 'params[:page]' 2 times
    Open

          @assets = @study.assets_through_aliquots.order(created_at: :desc).page(params[:page])
        else
          @assets = Receptacle.page(params[:page])

    Duplication occurs when two fragments of code look nearly identical, or when two fragments of code have nearly identical effects at some conceptual level.

    Reek implements a check for Duplicate Method Call.

    Example

    Here's a very much simplified and contrived example. The following method will report a warning:

    def double_thing()
      @other.thing + @other.thing
    end

    One quick approach to silence Reek would be to refactor the code thus:

    def double_thing()
      thing = @other.thing
      thing + thing
    end

    A slightly different approach would be to replace all calls of double_thing by calls to @other.double_thing:

    class Other
      def double_thing()
        thing + thing
      end
    end

    The approach you take will depend on balancing other factors in your code.

    Method lookup has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring.
    Open

      def lookup # rubocop:todo Metrics/AbcSize, Metrics/MethodLength
        return unless params[:asset] && params[:asset][:barcode]
    
        @assets = Labware.with_barcode(params[:asset][:barcode]).limit(50).page(params[:page])
    
    
    Severity: Minor
    Found in app/controllers/receptacles_controller.rb - About 25 mins to fix

    Cognitive Complexity

    Cognitive Complexity is a measure of how difficult a unit of code is to intuitively understand. Unlike Cyclomatic Complexity, which determines how difficult your code will be to test, Cognitive Complexity tells you how difficult your code will be to read and comprehend.

    A method's cognitive complexity is based on a few simple rules:

    • Code is not considered more complex when it uses shorthand that the language provides for collapsing multiple statements into one
    • Code is considered more complex for each "break in the linear flow of the code"
    • Code is considered more complex when "flow breaking structures are nested"

    Further reading

    Complex method ReceptaclesController#new_request (20.9)
    Open

      def new_request
        @request_types = RequestType.standard.active.applicable_for_asset(@asset)
    
        # In rare cases the user links in to the 'new request' page
        # with a specific study specified. In even rarer cases this may

    Flog calculates the ABC score for methods. The ABC score is based on assignments, branches (method calls), and conditions.

    You can read more about ABC metrics or the flog tool

    Complex method ReceptaclesController#show (20.5)
    Open

      def show # rubocop:todo Metrics/MethodLength
        @source_plates = @asset.source_plates
        respond_to do |format|
          format.html do
            @aliquots =

    Flog calculates the ABC score for methods. The ABC score is based on assignments, branches (method calls), and conditions.

    You can read more about ABC metrics or the flog tool

    ReceptaclesController#create_request has the variable name 'e'
    Open

      rescue Submission::ProjectValidation::Error, ActiveRecord::RecordNotFound, ActiveRecord::RecordInvalid => e

    An Uncommunicative Variable Name is a variable name that doesn't communicate its intent well enough.

    Poor names make it hard for the reader to build a mental picture of what's going on in the code. They can also be mis-interpreted; and they hurt the flow of reading, because the reader must slow down to interpret the names.

    Identical blocks of code found in 2 locations. Consider refactoring.
    Open

      def lookup # rubocop:todo Metrics/AbcSize, Metrics/MethodLength
        return unless params[:asset] && params[:asset][:barcode]
    
        @assets = Labware.with_barcode(params[:asset][:barcode]).limit(50).page(params[:page])
    
    
    Severity: Major
    Found in app/controllers/receptacles_controller.rb and 1 other location - About 2 hrs to fix
    app/controllers/labware_controller.rb on lines 125..143

    Duplicated Code

    Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

    Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

    When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

    Tuning

    This issue has a mass of 88.

    We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

    The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

    If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

    See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

    Refactorings

    Further Reading

    Similar blocks of code found in 4 locations. Consider refactoring.
    Open

      def print_labels
        print_job =
          LabelPrinter::PrintJob.new(params[:printer], LabelPrinter::Label::AssetRedirect, printables: params[:printables])
        if print_job.execute
          flash[:notice] = print_job.success
    Severity: Major
    Found in app/controllers/receptacles_controller.rb and 3 other locations - About 35 mins to fix
    app/controllers/assets_controller.rb on lines 49..58
    app/controllers/labware_controller.rb on lines 99..108
    app/controllers/stock_stampers_controller.rb on lines 26..34

    Duplicated Code

    Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

    Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

    When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

    Tuning

    This issue has a mass of 35.

    We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

    The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

    If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

    See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

    Refactorings

    Further Reading

    Similar blocks of code found in 2 locations. Consider refactoring.
    Open

      def print_assets
        print_job = LabelPrinter::PrintJob.new(params[:printer], LabelPrinter::Label::AssetRedirect, printables: @asset)
        if print_job.execute
          flash[:notice] = print_job.success
        else
    Severity: Minor
    Found in app/controllers/receptacles_controller.rb and 1 other location - About 35 mins to fix
    app/controllers/labware_controller.rb on lines 111..118

    Duplicated Code

    Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

    Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

    When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

    Tuning

    This issue has a mass of 34.

    We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

    The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

    If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

    See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

    Refactorings

    Further Reading

    Identical blocks of code found in 2 locations. Consider refactoring.
    Open

            if params[:lab_view]
              format.html { redirect_to(action: :lab_view, barcode: @asset.human_barcode) }
            else
              format.html { redirect_to(action: :show, id: @asset.id) }
              format.xml { head :ok }
    Severity: Minor
    Found in app/controllers/receptacles_controller.rb and 1 other location - About 25 mins to fix
    app/controllers/labware_controller.rb on lines 62..66

    Duplicated Code

    Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

    Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

    When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

    Tuning

    This issue has a mass of 30.

    We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

    The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

    If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

    See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

    Refactorings

    Further Reading

    Similar blocks of code found in 2 locations. Consider refactoring.
    Open

      def print
        if @asset.printable?
          @printable = @asset.printable_target
          @direct_printing = (@asset.printable_target == @asset)
        else
    Severity: Minor
    Found in app/controllers/receptacles_controller.rb and 1 other location - About 15 mins to fix
    app/controllers/labware_controller.rb on lines 89..95

    Duplicated Code

    Duplicated code can lead to software that is hard to understand and difficult to change. The Don't Repeat Yourself (DRY) principle states:

    Every piece of knowledge must have a single, unambiguous, authoritative representation within a system.

    When you violate DRY, bugs and maintenance problems are sure to follow. Duplicated code has a tendency to both continue to replicate and also to diverge (leaving bugs as two similar implementations differ in subtle ways).

    Tuning

    This issue has a mass of 26.

    We set useful threshold defaults for the languages we support but you may want to adjust these settings based on your project guidelines.

    The threshold configuration represents the minimum mass a code block must have to be analyzed for duplication. The lower the threshold, the more fine-grained the comparison.

    If the engine is too easily reporting duplication, try raising the threshold. If you suspect that the engine isn't catching enough duplication, try lowering the threshold. The best setting tends to differ from language to language.

    See codeclimate-duplication's documentation for more information about tuning the mass threshold in your .codeclimate.yml.

    Refactorings

    Further Reading

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