very basic first implementation of dendro

Author: MartinHinz

app/controllers/dendros_controller.rb

@@ -0,0 +1,151 @@
+class DendrosController < ApplicationController
+  include Tabulatable
+  include Pagy::Backend
+
+  load_and_authorize_resource
+  
+  before_action :set_dendro, only: %i[ show edit update destroy ]
+  before_action :set_site, only: [ :new ]
+
+  # GET /dendros or /dendros.json
+  def index
+    @dendros = Dendro.includes(
+      {sample: [
+        :material,
+        :taxon,
+        :context
+      ]},
+      :references
+    )
+
+    # filter
+    unless dendro_params.blank?
+      @dendros = @dendros.where(dendro_params)
+    end
+    
+#    if params[:sample_attributes][:context_attributes][:site_id].present?
+#      @dendros = @dendros.joins(sample: { context: :site }).where(sample:{context:{sites:{id: params[:sample_attributes][:context_attributes][:site_id]}}})
+#    end
+        
+    # order
+    if params.has_key?(:dendros_order_by)
+      order = { params[:dendros_order_by] => params.fetch(:dendros_order, "asc") }
+      @dendros = @dendros.reorder(order)
+    end
+
+    respond_to do |format|
+      format.html {
+        @pagy, @dendros = pagy(@dendros)
+      }
+      format.json
+      format.csv {
+        @dendros = @dendros.select(index_csv_template)
+        render csv: @dendros
+      }
+    end
+  end
+
+  # GET /dendros/1 or /dendros/1.json
+  def show
+  end
+
+  # GET /dendros/new
+  def new
+    @dendro = Dendro.new
+    @dendro.build_sample.build_context(site: @site) # Prebuild the nested structure
+#    @context = @site.contexts.build
+#    @sample = @context.samples.build
+#    @dendro = @sample.dendros.build
+  end
+
+  # GET /dendros/1/edit
+  def edit
+  end
+
+  # POST /dendros or /dendros.json
+  def create
+    @dendro = Dendro.new(dendro_params)
+
+    respond_to do |format|
+      if @dendro.save
+        format.html { redirect_to @dendro, notice: "Dendro was successfully created." }
+        format.json { render :show, status: :created, location: @dendro }
+      else
+        format.html { render :new, status: :unprocessable_entity }
+        format.json { render json: @dendro.errors, status: :unprocessable_entity }
+      end
+    end
+  end
+
+  # PATCH/PUT /dendros/1 or /dendros/1.json
+  def update
+    respond_to do |format|
+      if @dendro.update(dendro_params)
+        format.html { redirect_to @dendro, notice: "Dendro was successfully updated." }
+        format.json { render :show, status: :ok, location: @dendro }
+      else
+        format.html { render :edit, status: :unprocessable_entity }
+        format.json { render json: @dendro.errors, status: :unprocessable_entity }
+      end
+    end
+  end
+
+  # DELETE /dendros/1 or /dendros/1.json
+  def destroy
+    @dendro.destroy
+
+    respond_to do |format|
+      format.html { redirect_to dendros_path, status: :see_other, notice: "Dendro was successfully destroyed." }
+      format.json { head :no_content }
+    end
+  end
+
+  private
+    # Use callbacks to share common setup or constraints between actions.
+    def set_dendro
+      @dendro = Dendro.find(params[:id])
+    end
+    
+    def set_site
+      @site = Site.find(params[:site])
+    end
+
+    # Never trust parameters from the scary internet, only allow the white list through.
+    def dendro_params
+      params.fetch(:dendro, {}).permit(
+      :sample_id,
+      :series_code,
+      :name,
+      :description,
+      :start_year,
+      :end_year,
+      :is_anchored,
+      :offset,
+      :measurements,
+        {sample_attributes: [
+          :id,
+          :material_id,
+          :taxon_id,
+          :context_id,
+          {context_attributes: [
+            :id,
+            :name,
+            :approx_start_time,
+            :approx_end_time,
+            :site_id
+          ]},
+          :position_description,
+          :position_x,
+          :position_y,
+          :position_z,
+          :position_crs
+        ]},
+        sample: [
+          :context_id,
+          contexts: [
+            :site_id
+          ]
+        ]
+      )
+    end
+end

app/controllers/sites_controller.rb

@@ -60,6 +60,12 @@ def show
       order = { params[:c14s_order_by] => params.fetch(:c14s_order, "asc") }
       @c14s = @c14s.reorder(order)
     end
+    
+    @dendros = @site.dendros.includes([:references, sample: [ :material, :taxon, :context ]])
+    if params.has_key?(:dendros_order_by)
+      order = { params[:dendros_order_by] => params.fetch(:dendros_order, "asc") }
+      @dendros = @dendros.reorder(order)
+    end
 
     @typos = @site.typos.includes([:references])
     if params.has_key?(:typos_order_by)
@@ -71,6 +77,7 @@ def show
       format.html {
         @pagy_c14s, @c14s = pagy(@c14s, page_param: :c14s_page)
         @pagy_typos, @typos = pagy(@typos, page_param: :typos_page)
+        @pagy_dendros, @dendros = pagy(@dendros, page_param: :dendros_page)
       }
       format.json
     end

app/helpers/dendros_helper.rb

@@ -0,0 +1,2 @@
+module DendrosHelper
+end

app/models/context.rb

@@ -26,6 +26,7 @@ class Context < ApplicationRecord
   has_many :samples
   has_many :c14s, through: :samples
   has_many :typos, through: :samples
+  has_many :dendros, through: :samples
   has_paper_trail
 
   acts_as_copy_target # enable CSV exports

app/models/dendro.rb

@@ -0,0 +1,49 @@
+# == Schema Information
+#
+# Table name: dendros
+#
+#  id           :bigint           not null, primary key
+#  description  :text
+#  end_year     :integer
+#  is_anchored  :boolean          default(FALSE)
+#  measurements :jsonb            not null
+#  name         :string           not null
+#  offset       :integer
+#  series_code  :string           not null
+#  start_year   :integer
+#  created_at   :datetime         not null
+#  updated_at   :datetime         not null
+#  sample_id    :bigint           not null
+#
+# Indexes
+#
+#  index_dendros_on_measurements  (measurements) USING gin
+#  index_dendros_on_sample_id     (sample_id)
+#  index_dendros_on_series_code   (series_code) UNIQUE
+#
+# Foreign Keys
+#
+#  fk_rails_...  (sample_id => samples.id)
+#
+class Dendro < ApplicationRecord
+  belongs_to :sample
+  accepts_nested_attributes_for :sample, reject_if: :all_blank
+  
+  has_many :citations, as: :citing
+  has_many :references, :through => :citations
+
+  delegate :context, to: :sample
+  delegate :site, to: :sample
+  
+  validates_associated :sample
+  
+  include Versioned
+    
+  def self.label
+    "dendrochronological series"
+  end
+
+  def self.icon
+    "icons/dendro.svg"
+  end
+end

app/models/sample.rb

@@ -41,6 +41,7 @@ class Sample < ApplicationRecord
 
   has_many :c14s
   has_many :typos
+  has_many :dendros
 
   include Versioned
 

app/models/site.rb

@@ -23,6 +23,7 @@ class Site < ApplicationRecord
   has_many :samples, through: :contexts
   has_many :c14s, through: :contexts
   has_many :typos, through: :contexts
+  has_many :dendros, through: :contexts
 
   has_and_belongs_to_many :site_types, optional: true
 
@@ -117,6 +118,10 @@ def n_c14s
   def n_typos
     typos.count
   end
+  
+  def n_dendros
+    typos.count
+  end
 
   def recursive_references
     c14_references = c14s.map(&:references).reduce(:+)

app/views/contexts/_fields.html.erb

@@ -3,4 +3,4 @@
 <div class="row">
   <div class="col"><%= f.number_field :approx_start_time, label: "Dated from", prepend: "c.", append: "cal BP" %></div>
   <div class="col"><%= f.number_field :approx_end_time, label: "Dated to", prepend: "c.", append: "cal BP" %></div>
-</div>
+</div>

app/views/dendros/_dendro.html.erb

@@ -0,0 +1,47 @@
+<div id="<%= dom_id dendro %>">
+  <p>
+    <strong>Sample:</strong>
+    <%= dendro.sample_id %>
+  </p>
+
+  <p>
+    <strong>Series code:</strong>
+    <%= dendro.series_code %>
+  </p>
+
+  <p>
+    <strong>Name:</strong>
+    <%= dendro.name %>
+  </p>
+
+  <p>
+    <strong>Description:</strong>
+    <%= dendro.description %>
+  </p>
+
+  <p>
+    <strong>Start year:</strong>
+    <%= dendro.start_year %>
+  </p>
+
+  <p>
+    <strong>End year:</strong>
+    <%= dendro.end_year %>
+  </p>
+
+  <p>
+    <strong>Is anchored:</strong>
+    <%= dendro.is_anchored %>
+  </p>
+
+  <p>
+    <strong>Offset:</strong>
+    <%= dendro.offset %>
+  </p>
+
+  <p>
+    <strong>Measurements:</strong>
+    <%= dendro.measurements %>
+  </p>
+
+</div>

app/views/dendros/_dendro.json.jbuilder

@@ -0,0 +1,2 @@
+json.extract! dendro, :id, :sample_id, :series_code, :name, :description, :start_year, :end_year, :is_anchored, :offset, :measurements, :created_at, :updated_at
+json.url dendro_url(dendro, format: :json)