quorum 0.2.0 → 0.2.1

data/Gemfile.lock

@@ -4,43 +4,42 @@ PATH
     quorum (0.2.0)
       bio-blastxmlparser (~> 1.0.1)
       jquery-rails
-      net-ssh (~> 2.2.1)
-      rails (~> 3.1.0)
+      net-ssh (~> 2.3.0)
+      rails (~> 3.1)
       resque (~> 1.19.0)
       resque-result (~> 1.0.1)
 
 GEM
   remote: http://rubygems.org/
   specs:
-    actionmailer (3.1.3)
-      actionpack (= 3.1.3)
-      mail (~> 2.3.0)
-    actionpack (3.1.3)
-      activemodel (= 3.1.3)
-      activesupport (= 3.1.3)
+    actionmailer (3.2.0)
+      actionpack (= 3.2.0)
+      mail (~> 2.4.0)
+    actionpack (3.2.0)
+      activemodel (= 3.2.0)
+      activesupport (= 3.2.0)
       builder (~> 3.0.0)
       erubis (~> 2.7.0)
-      i18n (~> 0.6)
-      rack (~> 1.3.5)
+      journey (~> 1.0.0)
+      rack (~> 1.4.0)
       rack-cache (~> 1.1)
-      rack-mount (~> 0.8.2)
       rack-test (~> 0.6.1)
-      sprockets (~> 2.0.3)
-    activemodel (3.1.3)
-      activesupport (= 3.1.3)
+      sprockets (~> 2.1.2)
+    activemodel (3.2.0)
+      activesupport (= 3.2.0)
       builder (~> 3.0.0)
-      i18n (~> 0.6)
-    activerecord (3.1.3)
-      activemodel (= 3.1.3)
-      activesupport (= 3.1.3)
-      arel (~> 2.2.1)
+    activerecord (3.2.0)
+      activemodel (= 3.2.0)
+      activesupport (= 3.2.0)
+      arel (~> 3.0.0)
       tzinfo (~> 0.3.29)
-    activeresource (3.1.3)
-      activemodel (= 3.1.3)
-      activesupport (= 3.1.3)
-    activesupport (3.1.3)
+    activeresource (3.2.0)
+      activemodel (= 3.2.0)
+      activesupport (= 3.2.0)
+    activesupport (3.2.0)
+      i18n (~> 0.6)
       multi_json (~> 1.0)
-    arel (2.2.1)
+    arel (3.0.0)
     bio-blastxmlparser (1.0.1)
       bio-logger (>= 1.0.0)
       nokogiri (>= 1.5.0)
@@ -56,54 +55,53 @@ GEM
       xpath (~> 0.1.4)
     childprocess (0.3.0)
       ffi (~> 1.0.6)
-    database_cleaner (0.6.7)
+    database_cleaner (0.7.1)
     diff-lcs (1.1.3)
     erubis (2.7.0)
-    factory_girl (2.1.2)
+    factory_girl (2.5.0)
       activesupport
-    factory_girl_rails (1.2.0)
-      factory_girl (~> 2.1.0)
+    factory_girl_rails (1.6.0)
+      factory_girl (~> 2.5.0)
       railties (>= 3.0.0)
     ffi (1.0.11)
     hike (1.2.1)
     i18n (0.6.0)
-    jquery-rails (1.0.19)
-      railties (~> 3.0)
+    journey (1.0.0)
+    jquery-rails (2.0.0)
+      railties (>= 3.2.0.beta, < 5.0)
       thor (~> 0.14)
     json (1.6.5)
     log4r (1.1.10)
-    mail (2.3.0)
+    mail (2.4.1)
       i18n (>= 0.4.0)
       mime-types (~> 1.16)
       treetop (~> 1.4.8)
     mime-types (1.17.2)
     multi_json (1.0.4)
     mysql2 (0.3.11)
-    net-ssh (2.2.2)
+    net-ssh (2.3.0)
     nokogiri (1.5.0)
     polyglot (0.3.3)
-    rack (1.3.6)
+    rack (1.4.1)
     rack-cache (1.1)
       rack (>= 0.4)
-    rack-mount (0.8.3)
-      rack (>= 1.0.0)
     rack-protection (1.2.0)
       rack
     rack-ssl (1.3.2)
       rack
     rack-test (0.6.1)
       rack (>= 1.0)
-    rails (3.1.3)
-      actionmailer (= 3.1.3)
-      actionpack (= 3.1.3)
-      activerecord (= 3.1.3)
-      activeresource (= 3.1.3)
-      activesupport (= 3.1.3)
+    rails (3.2.0)
+      actionmailer (= 3.2.0)
+      actionpack (= 3.2.0)
+      activerecord (= 3.2.0)
+      activeresource (= 3.2.0)
+      activesupport (= 3.2.0)
       bundler (~> 1.0)
-      railties (= 3.1.3)
-    railties (3.1.3)
-      actionpack (= 3.1.3)
-      activesupport (= 3.1.3)
+      railties (= 3.2.0)
+    railties (3.2.0)
+      actionpack (= 3.2.0)
+      activesupport (= 3.2.0)
       rack-ssl (~> 1.3.2)
       rake (>= 0.8.7)
       rdoc (~> 3.4)
@@ -124,7 +122,7 @@ GEM
     resque-result (1.0.1)
       resque (~> 1.9)
       resque-meta (~> 1.0)
-    resque_spec (0.8.1)
+    resque_spec (0.9.0)
       resque (>= 1.19.0)
       rspec (>= 2.5.0)
     rspec (2.8.0)
@@ -150,7 +148,7 @@ GEM
       rack (~> 1.3, >= 1.3.6)
       rack-protection (~> 1.2)
       tilt (~> 1.3, >= 1.3.3)
-    sprockets (2.0.3)
+    sprockets (2.1.2)
       hike (~> 1.2)
       rack (~> 1.0)
       tilt (~> 1.1, != 1.3.0)
@@ -160,7 +158,7 @@ GEM
       polyglot
       polyglot (>= 0.3.1)
     tzinfo (0.3.31)
-    vegas (0.1.8)
+    vegas (0.1.11)
       rack (>= 1.0.0)
     xpath (0.1.4)
       nokogiri (~> 1.3)
@@ -169,10 +167,10 @@ PLATFORMS
   ruby
 
 DEPENDENCIES
-  capybara (~> 1.1.1)
-  database_cleaner (~> 0.6.7)
-  factory_girl_rails (~> 1.2.0)
-  mysql2
+  capybara (~> 1.1)
+  database_cleaner (~> 0.6)
+  factory_girl_rails (~> 1.2)
+  mysql2 (~> 0.3.11)
   quorum!
-  resque_spec (~> 0.8.1)
+  resque_spec (~> 0.8)
   rspec-rails (~> 2.6)

data/HISTORY.md

@@ -1,3 +1,8 @@
+## 0.2.1 (2012-01-24)
+
+* Rails 3.2 compatible.
+* Bug fix.
+
 ## 0.2.0 (2012-01-20)
 
 * Added link to Download Sequence in detailed report view.

data/README.rdoc

@@ -143,12 +143,12 @@ steps below.
 * Comment out or remove the lines below in 
   "app/views/quorum/jobs/templates/_blast_detailed_report_template.html.erb" 
 
-  \<p class="small">
-    <a id="download_sequence_{{= id }}" 
-     onclick="downloadSequence(<%= @jobs.id %>, {{= id }}, '{{= algo }}', this)">
-     Download Sequence
-    </a>
-  \</p>
+    <p class="small">
+      <a id="download_sequence_{{= id }}" 
+       onclick="downloadSequence(<%= @jobs.id %>, {{= id }}, '{{= algo }}', this)">
+       Download Sequence
+      </a>
+    </p>
 
 === Remote Machine Setup -- Recommended for Production Use
 

data/app/models/quorum/blastn_job.rb

@@ -81,12 +81,12 @@ module Quorum
 
     def set_blast_dbs
       if self.blast_dbs.present?
-        self.blast_dbs = self.blast_dbs.join(';')
+        self.blast_dbs = self.blast_dbs.delete_if { |b| b.empty? }.join(';')
       end
     end
 
     def set_optional_params
-      self.expectation   = "5e-10" if self.expectation.blank?
+      self.expectation   = "5e-20" if self.expectation.blank?
       self.max_score     ||= 25
       self.min_bit_score ||= 0
       unless self.gapped_alignments

data/app/models/quorum/blastp_job.rb

@@ -81,7 +81,7 @@ module Quorum
 
     def set_blast_dbs
       if self.blast_dbs.present?
-        self.blast_dbs = self.blast_dbs.join(';')
+        self.blast_dbs = self.blast_dbs.delete_if { |b| b.empty? }.join(';')
       end
     end
 

data/app/models/quorum/blastx_job.rb

@@ -81,7 +81,7 @@ module Quorum
 
     def set_blast_dbs
       if self.blast_dbs.present?
-        self.blast_dbs = self.blast_dbs.join(';')
+        self.blast_dbs = self.blast_dbs.delete_if { |b| b.empty? }.join(';')
       end
     end
 

data/app/models/quorum/tblastn_job.rb

@@ -81,7 +81,7 @@ module Quorum
 
     def set_blast_dbs
       if self.blast_dbs.present?
-        self.blast_dbs = self.blast_dbs.join(';')
+        self.blast_dbs = self.blast_dbs.delete_if { |b| b.empty? }.join(';')
       end
     end
 

data/lib/generators/templates/blast.rb

@@ -11,7 +11,7 @@ module Quorum
     class Blast
 
       class QuorumJob < ActiveRecord::Base
-        set_table_name "quorum_jobs"
+        self.table_name = "quorum_jobs"
 
         has_one :quorum_blastn_job, 
           :foreign_key => "job_id"
@@ -35,46 +35,46 @@ module Quorum
       end
 
       class QuorumBlastnJob < ActiveRecord::Base
-        set_table_name "quorum_blastn_jobs"
+        self.table_name = "quorum_blastn_jobs"
         belongs_to :quorum_job
         has_many :quorum_blastn_job_reports
       end
 
       class QuorumBlastnJobReport < ActiveRecord::Base
-        set_table_name "quorum_blastn_job_reports"
+        self.table_name = "quorum_blastn_job_reports"
         belongs_to :quorum_blastn_job
       end
 
       class QuorumBlastxJob < ActiveRecord::Base
-        set_table_name "quorum_blastx_jobs"
+        self.table_name = "quorum_blastx_jobs"
         belongs_to :quorum_job
         has_many :quorum_blastx_job_reports
       end
 
       class QuorumBlastxJobReport < ActiveRecord::Base
-        set_table_name "quorum_blastx_job_reports"
+        self.table_name = "quorum_blastx_job_reports"
         belongs_to :quorum_blastx_job
       end
 
       class QuorumTblastnJob < ActiveRecord::Base
-        set_table_name "quorum_tblastn_jobs"
+        self.table_name = "quorum_tblastn_jobs"
         belongs_to :quorum_job
         has_many :quorum_tblastn_job_reports
       end
 
       class QuorumTblastnJobReport < ActiveRecord::Base
-        set_table_name "quorum_tblastn_job_reports"
+        self.table_name = "quorum_tblastn_job_reports"
         belongs_to :quorum_tblastn_job
       end
 
       class QuorumBlastpJob < ActiveRecord::Base
-        set_table_name "quorum_blastp_jobs"
+        self.table_name = "quorum_blastp_jobs"
         belongs_to :quorum_job
         has_many :quorum_blastp_job_reports
       end
 
       class QuorumBlastpJobReport < ActiveRecord::Base
-        set_table_name "quorum_blastp_job_reports"
+        self.table_name = "quorum_blastp_job_reports"
         belongs_to :quorum_blastp_job
       end
 

data/lib/quorum/version.rb

@@ -1,3 +1,3 @@
 module Quorum
-  VERSION = "0.2.0"
+  VERSION = "0.2.1"
 end

data/quorum.gemspec

@@ -15,17 +15,17 @@ Gem::Specification.new do |s|
 
   s.files = `git ls-files`.split(/\n/) 
 
-  s.add_dependency "rails", "~> 3.1.0"
+  s.add_dependency "rails", "~> 3.1"
   s.add_dependency "jquery-rails"
-  s.add_dependency "net-ssh", "~> 2.2.1"
+  s.add_dependency "net-ssh", "~> 2.3.0"
   s.add_dependency "resque", "~> 1.19.0"
   s.add_dependency "resque-result", "~> 1.0.1"
   s.add_dependency "bio-blastxmlparser", "~> 1.0.1"
 
-  s.add_development_dependency "mysql2"
+  s.add_development_dependency "mysql2", "~> 0.3.11"
   s.add_development_dependency "rspec-rails", "~> 2.6"
-  s.add_development_dependency "resque_spec", "~> 0.8.1"
-  s.add_development_dependency "capybara", "~> 1.1.1"
-  s.add_development_dependency "database_cleaner", "~> 0.6.7"
-  s.add_development_dependency "factory_girl_rails", "~> 1.2.0"
+  s.add_development_dependency "resque_spec", "~> 0.8"
+  s.add_development_dependency "capybara", "~> 1.1"
+  s.add_development_dependency "database_cleaner", "~> 0.6"
+  s.add_development_dependency "factory_girl_rails", "~> 1.2"
 end

data/spec/dummy/db/schema.rb

@@ -11,7 +11,7 @@
 #
 # It's strongly recommended to check this file into your version control system.
 
-ActiveRecord::Schema.define(:version => 20120110181717) do
+ActiveRecord::Schema.define(:version => 20120119000561) do
 
   create_table "quorum_blastn_job_reports", :force => true do |t|
     t.string   "query"
@@ -151,18 +151,6 @@ ActiveRecord::Schema.define(:version => 20120110181717) do
     t.datetime "updated_at"
   end
 
-  create_table "quorum_hmmer_job_reports", :force => true do |t|
-  end
-
-  create_table "quorum_hmmer_jobs", :force => true do |t|
-    t.string   "expectation"
-    t.integer  "min_score"
-    t.boolean  "queue"
-    t.integer  "job_id"
-    t.datetime "created_at"
-    t.datetime "updated_at"
-  end
-
   create_table "quorum_jobs", :force => true do |t|
     t.text     "sequence",      :null => false
     t.text     "na_sequence"

data/spec/dummy/quorum/lib/search_tools/blast.rb

@@ -11,7 +11,7 @@ module Quorum
     class Blast
 
       class QuorumJob < ActiveRecord::Base
-        set_table_name "quorum_jobs"
+        self.table_name = "quorum_jobs"
 
         has_one :quorum_blastn_job, 
           :foreign_key => "job_id"
@@ -35,46 +35,46 @@ module Quorum
       end
 
       class QuorumBlastnJob < ActiveRecord::Base
-        set_table_name "quorum_blastn_jobs"
+        self.table_name = "quorum_blastn_jobs"
         belongs_to :quorum_job
         has_many :quorum_blastn_job_reports
       end
 
       class QuorumBlastnJobReport < ActiveRecord::Base
-        set_table_name "quorum_blastn_job_reports"
+        self.table_name = "quorum_blastn_job_reports"
         belongs_to :quorum_blastn_job
       end
 
       class QuorumBlastxJob < ActiveRecord::Base
-        set_table_name "quorum_blastx_jobs"
+        self.table_name = "quorum_blastx_jobs"
         belongs_to :quorum_job
         has_many :quorum_blastx_job_reports
       end
 
       class QuorumBlastxJobReport < ActiveRecord::Base
-        set_table_name "quorum_blastx_job_reports"
+        self.table_name = "quorum_blastx_job_reports"
         belongs_to :quorum_blastx_job
       end
 
       class QuorumTblastnJob < ActiveRecord::Base
-        set_table_name "quorum_tblastn_jobs"
+        self.table_name = "quorum_tblastn_jobs"
         belongs_to :quorum_job
         has_many :quorum_tblastn_job_reports
       end
 
       class QuorumTblastnJobReport < ActiveRecord::Base
-        set_table_name "quorum_tblastn_job_reports"
+        self.table_name = "quorum_tblastn_job_reports"
         belongs_to :quorum_tblastn_job
       end
 
       class QuorumBlastpJob < ActiveRecord::Base
-        set_table_name "quorum_blastp_jobs"
+        self.table_name = "quorum_blastp_jobs"
         belongs_to :quorum_job
         has_many :quorum_blastp_job_reports
       end
 
       class QuorumBlastpJobReport < ActiveRecord::Base
-        set_table_name "quorum_blastp_job_reports"
+        self.table_name = "quorum_blastp_job_reports"
         belongs_to :quorum_blastp_job
       end
 

data/spec/models/blastn_job_spec.rb

@@ -100,4 +100,19 @@ describe Quorum::BlastnJob do
     )
   end
 
+  it "joins blast_dbs on semicolon after save" do
+    @blastn_job.blast_dbs = ["test_1", "test_2"]
+    @blastn_job.save
+    @blastn_job.blast_dbs.should eq("test_1;test_2")
+  end
+
+  it "sets optional params to default values if empty after save" do
+    @blastn_job.save
+    @blastn_job.expectation.should eq("5e-20")
+    @blastn_job.max_score.should eq(25)
+    @blastn_job.min_bit_score.should eq(0)
+    @blastn_job.gap_opening_penalty.should eq(0)
+    @blastn_job.gap_extension_penalty.should eq(0)
+  end
+
 end

data/spec/models/blastp_job_spec.rb

@@ -100,4 +100,19 @@ describe Quorum::BlastpJob do
     )
   end
 
+  it "joins blast_dbs on semicolon after save" do
+    @blastp_job.blast_dbs = ["test_1", "test_2"]
+    @blastp_job.save
+    @blastp_job.blast_dbs.should eq("test_1;test_2")
+  end
+
+  it "sets optional params to default values if empty after save" do
+    @blastp_job.save
+    @blastp_job.expectation.should eq("5e-20")
+    @blastp_job.max_score.should eq(25)
+    @blastp_job.min_bit_score.should eq(0)
+    @blastp_job.gap_opening_penalty.should eq(0)
+    @blastp_job.gap_extension_penalty.should eq(0)
+  end
+
 end

data/spec/models/blastx_job_spec.rb

@@ -100,4 +100,19 @@ describe Quorum::BlastxJob do
     )
   end
 
+  it "joins blast_dbs on semicolon after save" do
+    @blastx_job.blast_dbs = ["test_1", "test_2"]
+    @blastx_job.save
+    @blastx_job.blast_dbs.should eq("test_1;test_2")
+  end
+
+  it "sets optional params to default values if empty after save" do
+    @blastx_job.save
+    @blastx_job.expectation.should eq("5e-20")
+    @blastx_job.max_score.should eq(25)
+    @blastx_job.min_bit_score.should eq(0)
+    @blastx_job.gap_opening_penalty.should eq(0)
+    @blastx_job.gap_extension_penalty.should eq(0)
+  end
+
 end

data/spec/models/job_spec.rb

@@ -29,7 +29,7 @@ describe Quorum::Job do
 
     @job.build_blastn_job
     @job.blastn_job.queue     = true
-    @job.blastn_job.blast_dbs = ["tmp"]
+    @job.blastn_job.blast_dbs = ["test_1", "test_2"]
 
     @job.save!
 

data/spec/models/tblastn_job_spec.rb

@@ -100,4 +100,19 @@ describe Quorum::TblastnJob do
     )
   end
 
+  it "joins blast_dbs on semicolon after save" do
+    @tblastn_job.blast_dbs = ["test_1", "test_2"]
+    @tblastn_job.save
+    @tblastn_job.blast_dbs.should eq("test_1;test_2")
+  end
+
+  it "sets optional params to default values if empty after save" do
+    @tblastn_job.save
+    @tblastn_job.expectation.should eq("5e-20")
+    @tblastn_job.max_score.should eq(25)
+    @tblastn_job.min_bit_score.should eq(0)
+    @tblastn_job.gap_opening_penalty.should eq(0)
+    @tblastn_job.gap_extension_penalty.should eq(0)
+  end
+
 end

metadata

@@ -1,7 +1,7 @@
 --- !ruby/object:Gem::Specification
 name: quorum
 version: !ruby/object:Gem::Version
-  version: 0.2.0
+  version: 0.2.1
   prerelease: 
 platform: ruby
 authors:
@@ -9,22 +9,22 @@ authors:
 autorequire: 
 bindir: bin
 cert_chain: []
-date: 2012-01-20 00:00:00.000000000Z
+date: 2012-01-24 00:00:00.000000000Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: rails
-  requirement: &66807880 !ruby/object:Gem::Requirement
+  requirement: &173460320 !ruby/object:Gem::Requirement
     none: false
     requirements:
     - - ~>
       - !ruby/object:Gem::Version
-        version: 3.1.0
+        version: '3.1'
   type: :runtime
   prerelease: false
-  version_requirements: *66807880
+  version_requirements: *173460320
 - !ruby/object:Gem::Dependency
   name: jquery-rails
-  requirement: &66807340 !ruby/object:Gem::Requirement
+  requirement: &173459900 !ruby/object:Gem::Requirement
     none: false
     requirements:
     - - ! '>='
@@ -32,21 +32,21 @@ dependencies:
         version: '0'
   type: :runtime
   prerelease: false
-  version_requirements: *66807340
+  version_requirements: *173459900
 - !ruby/object:Gem::Dependency
   name: net-ssh
-  requirement: &66806540 !ruby/object:Gem::Requirement
+  requirement: &173424000 !ruby/object:Gem::Requirement
     none: false
     requirements:
     - - ~>
       - !ruby/object:Gem::Version
-        version: 2.2.1
+        version: 2.3.0
   type: :runtime
   prerelease: false
-  version_requirements: *66806540
+  version_requirements: *173424000
 - !ruby/object:Gem::Dependency
   name: resque
-  requirement: &66805840 !ruby/object:Gem::Requirement
+  requirement: &173423420 !ruby/object:Gem::Requirement
     none: false
     requirements:
     - - ~>
@@ -54,10 +54,10 @@ dependencies:
         version: 1.19.0
   type: :runtime
   prerelease: false
-  version_requirements: *66805840
+  version_requirements: *173423420
 - !ruby/object:Gem::Dependency
   name: resque-result
-  requirement: &66805380 !ruby/object:Gem::Requirement
+  requirement: &173422880 !ruby/object:Gem::Requirement
     none: false
     requirements:
     - - ~>
@@ -65,10 +65,10 @@ dependencies:
         version: 1.0.1
   type: :runtime
   prerelease: false
-  version_requirements: *66805380
+  version_requirements: *173422880
 - !ruby/object:Gem::Dependency
   name: bio-blastxmlparser
-  requirement: &66804700 !ruby/object:Gem::Requirement
+  requirement: &173422400 !ruby/object:Gem::Requirement
     none: false
     requirements:
     - - ~>
@@ -76,21 +76,21 @@ dependencies:
         version: 1.0.1
   type: :runtime
   prerelease: false
-  version_requirements: *66804700
+  version_requirements: *173422400
 - !ruby/object:Gem::Dependency
   name: mysql2
-  requirement: &66804300 !ruby/object:Gem::Requirement
+  requirement: &173421860 !ruby/object:Gem::Requirement
     none: false
     requirements:
-    - - ! '>='
+    - - ~>
       - !ruby/object:Gem::Version
-        version: '0'
+        version: 0.3.11
   type: :development
   prerelease: false
-  version_requirements: *66804300
+  version_requirements: *173421860
 - !ruby/object:Gem::Dependency
   name: rspec-rails
-  requirement: &66803760 !ruby/object:Gem::Requirement
+  requirement: &173421000 !ruby/object:Gem::Requirement
     none: false
     requirements:
     - - ~>
@@ -98,51 +98,51 @@ dependencies:
         version: '2.6'
   type: :development
   prerelease: false
-  version_requirements: *66803760
+  version_requirements: *173421000
 - !ruby/object:Gem::Dependency
   name: resque_spec
-  requirement: &66803240 !ruby/object:Gem::Requirement
+  requirement: &173420520 !ruby/object:Gem::Requirement
     none: false
     requirements:
     - - ~>
       - !ruby/object:Gem::Version
-        version: 0.8.1
+        version: '0.8'
   type: :development
   prerelease: false
-  version_requirements: *66803240
+  version_requirements: *173420520
 - !ruby/object:Gem::Dependency
   name: capybara
-  requirement: &66802760 !ruby/object:Gem::Requirement
+  requirement: &173419940 !ruby/object:Gem::Requirement
     none: false
     requirements:
     - - ~>
       - !ruby/object:Gem::Version
-        version: 1.1.1
+        version: '1.1'
   type: :development
   prerelease: false
-  version_requirements: *66802760
+  version_requirements: *173419940
 - !ruby/object:Gem::Dependency
   name: database_cleaner
-  requirement: &66802300 !ruby/object:Gem::Requirement
+  requirement: &173419420 !ruby/object:Gem::Requirement
     none: false
     requirements:
     - - ~>
       - !ruby/object:Gem::Version
-        version: 0.6.7
+        version: '0.6'
   type: :development
   prerelease: false
-  version_requirements: *66802300
+  version_requirements: *173419420
 - !ruby/object:Gem::Dependency
   name: factory_girl_rails
-  requirement: &66801840 !ruby/object:Gem::Requirement
+  requirement: &173418900 !ruby/object:Gem::Requirement
     none: false
     requirements:
     - - ~>
       - !ruby/object:Gem::Version
-        version: 1.2.0
+        version: '1.2'
   type: :development
   prerelease: false
-  version_requirements: *66801840
+  version_requirements: *173418900
 description: Flexible bioinformatics search tool.
 email:
 - kas@ncgr.org
@@ -345,7 +345,7 @@ required_rubygems_version: !ruby/object:Gem::Requirement
       version: '0'
 requirements: []
 rubyforge_project: 
-rubygems_version: 1.8.10
+rubygems_version: 1.8.15
 signing_key: 
 specification_version: 3
 summary: Flexible bioinformatics search tool.