add workflow image to project overview page [fixes SCI-41]

Dockerfile

@@ -2,7 +2,7 @@ FROM rails:4.2.5
 MAINTAINER BioSistemika <info@biosistemika.com>
 
 # additional dependecies
-RUN apt-get update -qq && apt-get install -y default-jre-headless unison sudo --no-install-recommends && rm -rf /var/lib/apt/lists/*
+RUN apt-get update -qq && apt-get install -y default-jre-headless unison sudo graphviz --no-install-recommends && rm -rf /var/lib/apt/lists/*
 
 # heroku tools
 RUN wget -O- https://toolbelt.heroku.com/install-ubuntu.sh | sh

Gemfile

@@ -52,6 +52,7 @@ gem 'aws-sdk', '~> 2.2.8'
 gem 'aws-sdk-v1'
 gem 'delayed_job_active_record'
 gem 'devise-async'
+gem 'ruby-graphviz', '~> 1.2' # Graphviz for rails 
 
 group :development, :test do
   gem 'byebug'

app/controllers/canvas_controller.rb

@@ -231,6 +231,9 @@ class CanvasController < ApplicationController
       end
     end
 
+    # Create workflow image
+    @experiment.generate_workflow_img
+
     flash[:success] = t(
       "experiments.canvas.update.success_flash")
     redirect_to canvas_experiment_path(@experiment)

app/controllers/experiments_controller.rb

@@ -57,12 +57,8 @@ class ExperimentsController < ApplicationController
     if @experiment.save
       flash[:success] = t('experiments.update.success_flash',
                           experiment: @experiment.name)
-<<<<<<< HEAD
-
+                          
       redirect_to canvas_experiment_path(@experiment)
-=======
-      redirect_to project_path(@experiment.project)
->>>>>>> a4ec5585965a7a8e565d7ee9072a26e52ccd9fd3
     else
       flash[:alert] = t('experiments.update.error_flash')
       redirect_to :back

app/models/experiment.rb

@@ -1,3 +1,5 @@
+require 'graphviz'
+
 class Experiment < ActiveRecord::Base
   include ArchivableModel, SearchableModel
 
@@ -11,6 +13,9 @@ class Experiment < ActiveRecord::Base
   has_many :my_module_groups, inverse_of: :experiment, dependent: :destroy
   has_many :report_elements, inverse_of: :experiment, dependent: :destroy
 
+  has_attached_file :workflowimg
+  validates_attachment_content_type :workflowimg, content_type: /\Aimage\/.*\Z/
+
   validates :name,
             presence: true,
             length: { minimum: 4, maximum: 50 },
@@ -195,6 +200,43 @@ class Experiment < ActiveRecord::Base
     return true
   end
 
+  def generate_workflow_img
+    graph = GraphViz.new( :G, type: :digraph, use: :neato  )
+    label = 'T'
+    my_module_groups.each do |group|
+      group.ordered_modules.each_with_index do |my_module, index|
+        if(my_module.outputs.any?)
+          parent = graph.add_nodes("N-#{index}", label: label, shape: 'circle', pos: "#{my_module.x},-#{my_module.y}!")
+          my_module.outputs.each_with_index do |output, i|
+            child_mod = MyModule.find_by_id(output.input_id)
+            child_node = graph.add_nodes("N-O#{child_mod.id}-#{i}", label: label, shape: 'circle', pos: "#{child_mod.x},-#{child_mod.y}!")
+            graph.add_edges(parent, child_node)
+          end
+        elsif(my_module.inputs.any?)
+          parent = graph.add_nodes("N-#{index}", label: label, shape: 'circle', pos: "#{my_module.x},-#{my_module.y}!")
+          my_module.inputs.each_with_index do |input, i|
+            child_mod = MyModule.find_by_id(input.output_id)
+            child_node = graph.add_nodes("N-I#{child_mod.id}-#{i}", label: label, shape: 'circle', pos: "#{child_mod.x},-#{child_mod.y}!")
+            graph.add_edges(child_node, parent)
+          end
+        end
+      end
+    end
+
+    graph[:size] = '5,3'
+    file_location = "/tmp/workflowimg_#{Process.pid}.png"
+    graph.output(png: file_location)
+
+    begin
+      file = File.open(file_location)
+      self.workflowimg = file
+      file.close
+      save!
+    rescue => ex
+      logger.error ex.message
+    end
+  end
+
   private
 
   # Archive all modules. Receives an array of module integer IDs.

app/views/projects/show/_experiment.html.erb

@@ -32,6 +32,9 @@
       </span>
     </div>
     <div class="panel-body">
+      <% if experiment.workflowimg? %>
+        <%= image_tag experiment.workflowimg, class: 'img-responsive center-block' %>
+      <% end %>
       <span>
         <span class="glyphicon glyphicon-calendar" aria-hidden="true"></span>
         <%= localize(experiment.created_at, format: t('time.formats.full_date')) %>

config/routes.rb

@@ -111,7 +111,7 @@ Rails.application.routes.draw do
     get 'users/edit', to: 'user_projects#index_edit'
   end
 
-  resources :experiments, only: :show do
+  resources :experiments do
     member do
       get 'canvas' # Overview/structure for single experiment
       # AJAX-loaded canvas edit mode (from canvas)

db/migrate/20160808083040_add_attachment_workflowimg_to_experiments.rb

@@ -0,0 +1,11 @@
+class AddAttachmentWorkflowimgToExperiments < ActiveRecord::Migration
+  def self.up
+    change_table :experiments do |t|
+      t.attachment :workflowimg
+    end
+  end
+
+  def self.down
+    remove_attachment :experiments, :workflowimg
+  end
+end

db/schema.rb

@@ -11,7 +11,7 @@
 #
 # It's strongly recommended that you check this file into your version control system.
 
-ActiveRecord::Schema.define(version: 20160803082801) do
+ActiveRecord::Schema.define(version: 20160808083040) do
 
   # These are extensions that must be enabled in order to support this database
   enable_extension "plpgsql"
@@ -138,18 +138,22 @@ ActiveRecord::Schema.define(version: 20160803082801) do
   add_index "delayed_jobs", ["queue"], name: "delayed_jobs_queue", using: :btree
 
   create_table "experiments", force: :cascade do |t|
-    t.string   "name",                                null: false
+    t.string   "name",                                     null: false
     t.text     "description"
-    t.integer  "project_id",                          null: false
-    t.integer  "created_by_id",                       null: false
-    t.integer  "last_modified_by_id",                 null: false
-    t.boolean  "archived",            default: false, null: false
+    t.integer  "project_id",                               null: false
+    t.integer  "created_by_id",                            null: false
+    t.integer  "last_modified_by_id",                      null: false
+    t.boolean  "archived",                 default: false, null: false
     t.integer  "archived_by_id"
     t.datetime "archived_on"
     t.integer  "restored_by_id"
     t.datetime "restored_on"
-    t.datetime "created_at",                          null: false
-    t.datetime "updated_at",                          null: false
+    t.datetime "created_at",                               null: false
+    t.datetime "updated_at",                               null: false
+    t.string   "workflowimg_file_name"
+    t.string   "workflowimg_content_type"
+    t.integer  "workflowimg_file_size"
+    t.datetime "workflowimg_updated_at"
   end
 
   add_index "experiments", ["archived_by_id"], name: "index_experiments_on_archived_by_id", using: :btree