General update to Ruby 1.9.3, libraries and addition of SCOOP functionality

.gitignore

@@ -1,9 +1,13 @@
 .bundle
 db/*.sqlite3
-log/*.log
+log/*
 tmp/
 .sass-cache/
 .DS_Store
 doc/patient-api
 coverage.data
 coverage/
+.idea
+util/files/
+Provider_Hash.txt
+nagios-nrpe-support/tmp/

.travis.yml

@@ -1,12 +1,11 @@
 language: ruby
 rvm:
-  - 1.9.2
+  - 1.9.3
 branches:
   only:
     - master
-    - develop
+services:
+  - mongodb
 notifications:
-  email:
-    recipients:
-      - [email protected]
-    on_failure: change
+  email: false
+script: bundle exec rake test:units test:functionals test:integration

Gemfile

@@ -1,6 +1,6 @@
-source 'http://rubygems.org'
-#gem 'java-query-gateway', '0.1', :git =>"http://github.com/rdingwell/java-hquery-executor.git", :platforms => :jruby
-gem 'rails', '~> 3.2.1'
+source 'https://rubygems.org'
+
+gem 'rails'
 gem 'jruby-openssl', :platforms => :jruby
 group :assets do
   gem 'sass-rails'
@@ -11,16 +11,19 @@ end
 gem 'daemons'
 gem 'jquery-rails'
 
-gem "mongoid", "~> 2.0"
-gem "bson_ext", "~> 1.3", :platforms => :mri
+gem 'mongoid'
 
-gem 'delayed_job_mongoid', '~> 1.0.8'
+gem 'delayed_job'
+gem 'delayed_job_mongoid'
 
-gem "hquery-patient-api", :git => 'http://github.com/hquery/patientapi.git', :tag => 'V0.3'
-gem "health-data-standards", :git => 'http://github.com/projectcypress/health-data-standards.git', :branch => 'develop'
-gem "hqmf2js", :git => 'http://github.com/hquery/hqmf2js.git', :tag => 'V0.3'
+gem 'hquery-patient-api', :git => 'http://github.com/scoophealth/patientapi.git', :branch => 'master'
+#gem 'hquery-patient-api', path: '../patientapi'
+gem "health-data-standards", :git => 'http://github.com/scoophealth/health-data-standards.git', :branch => 'master'
+#gem 'health-data-standards', path: '../health-data-standards'
+#gem "health-data-standards", :git => 'http://github.com/scoophealth/health-data-standards.git', :branch => 'scoop-develop'
+gem "hqmf2js", :git => 'http://github.com/scoophealth/hqmf2js.git', :branch => 'scoop-develop'
 #gem 'hqmf2js', path: '../hqmf2js'
-gem 'hqmf-parser', :git => 'https://github.com/hquery/hqmf-parser.git', :tag => 'V0.3'
+gem 'hqmf-parser', :git => 'http://github.com/scoophealth/hqmf-parser.git', :branch => 'scoop-develop'
 
 gem 'coderay'
 
@@ -30,14 +33,18 @@ gem 'pry'
 group :test do
 
   # Pretty printed test output
-  gem 'minitest'
+  gem 'minitest', '< 5.0.0'
   gem 'turn', :require => false
   gem 'cover_me', '>= 1.0.0.rc6', :platforms => :ruby
-  gem 'factory_girl', '1.3.3'
+  gem 'factory_girl'
   gem 'awesome_print', :require => 'ap'
   gem 'mocha', :require => false
   gem 'therubyracer', :platforms => :ruby
   gem 'therubyrhino', :platforms => :jruby
 
 end
 
+#group :production do
+#  gem 'thin'
+#end
+