snp-search 0.12.0 → 0.14.0

data/Gemfile

@@ -3,8 +3,8 @@ source "http://rubygems.org"
 # Example:
 #   gem "activesupport", ">= 2.3.5"
 
- gem "activerecord"
- gem "bio"
+ gem "activerecord", "~> 3.1.3"
+ gem "bio", "~> 1.4.2"
  gem "slop", "~> 2.4.0"
 
 # Add dependencies to develop your gem here.

data/Gemfile.lock

@@ -1,20 +1,18 @@
 GEM
   remote: http://rubygems.org/
   specs:
-    activemodel (3.1.0)
-      activesupport (= 3.1.0)
-      bcrypt-ruby (~> 3.0.0)
+    activemodel (3.1.3)
+      activesupport (= 3.1.3)
       builder (~> 3.0.0)
       i18n (~> 0.6)
-    activerecord (3.1.0)
-      activemodel (= 3.1.0)
-      activesupport (= 3.1.0)
+    activerecord (3.1.3)
+      activemodel (= 3.1.3)
+      activesupport (= 3.1.3)
       arel (~> 2.2.1)
       tzinfo (~> 0.3.29)
-    activesupport (3.1.0)
+    activesupport (3.1.3)
       multi_json (~> 1.0)
     arel (2.2.1)
-    bcrypt-ruby (3.0.0)
     bio (1.4.2)
     builder (3.0.0)
     diff-lcs (1.1.3)
@@ -24,7 +22,7 @@ GEM
       bundler (~> 1.0)
       git (>= 1.2.5)
       rake
-    multi_json (1.0.3)
+    multi_json (1.0.4)
     rake (0.9.2.2)
     rcov (0.9.11)
     rspec (2.3.0)
@@ -36,14 +34,14 @@ GEM
       diff-lcs (~> 1.1.2)
     rspec-mocks (2.3.0)
     slop (2.4.0)
-    tzinfo (0.3.29)
+    tzinfo (0.3.31)
 
 PLATFORMS
   ruby
 
 DEPENDENCIES
-  activerecord
-  bio
+  activerecord (~> 3.1.3)
+  bio (~> 1.4.2)
   bundler (~> 1.0.0)
   jeweler (~> 1.6.4)
   rcov

data/VERSION

@@ -1 +1 @@
-0.12.0
+0.14.0

data/bin/snp-search

@@ -3,7 +3,7 @@ require 'snp_db_connection'
 require 'snp_db_models'
 require 'snp_db_schema'
 require 'slop'
-
+gem "slop", "~> 2.4.0"
 
 
 opts = Slop.new :help do

data/lib/snp-search.rb

@@ -1,5 +1,6 @@
 require 'rubygems'
 require 'bio'
+gem "bio", "~> 1.4.2"
 require  'snp_db_models'
 #establish_connection
 

data/lib/snp_db_connection.rb

@@ -1,4 +1,4 @@
-require 'active_record'
+gem 'activerecord', "~> 3.1.3" 
 def establish_connection(db_location)
   ActiveRecord::Base.establish_connection(
     :adapter => "sqlite3",

data/snp-search.gemspec

@@ -5,7 +5,7 @@
 
 Gem::Specification.new do |s|
   s.name = "snp-search"
-  s.version = "0.12.0"
+  s.version = "0.14.0"
 
   s.required_rubygems_version = Gem::Requirement.new(">= 0") if s.respond_to? :required_rubygems_version=
   s.authors = ["Ali Al-Shahib", "Anthony Underwood"]
@@ -46,16 +46,16 @@ Gem::Specification.new do |s|
     s.specification_version = 3
 
     if Gem::Version.new(Gem::VERSION) >= Gem::Version.new('1.2.0') then
-      s.add_runtime_dependency(%q<activerecord>, [">= 0"])
-      s.add_runtime_dependency(%q<bio>, [">= 0"])
+      s.add_runtime_dependency(%q<activerecord>, ["~> 3.1.3"])
+      s.add_runtime_dependency(%q<bio>, ["~> 1.4.2"])
       s.add_runtime_dependency(%q<slop>, ["~> 2.4.0"])
       s.add_development_dependency(%q<rspec>, ["~> 2.3.0"])
       s.add_development_dependency(%q<bundler>, ["~> 1.0.0"])
       s.add_development_dependency(%q<jeweler>, ["~> 1.6.4"])
       s.add_development_dependency(%q<rcov>, [">= 0"])
     else
-      s.add_dependency(%q<activerecord>, [">= 0"])
-      s.add_dependency(%q<bio>, [">= 0"])
+      s.add_dependency(%q<activerecord>, ["~> 3.1.3"])
+      s.add_dependency(%q<bio>, ["~> 1.4.2"])
       s.add_dependency(%q<slop>, ["~> 2.4.0"])
       s.add_dependency(%q<rspec>, ["~> 2.3.0"])
       s.add_dependency(%q<bundler>, ["~> 1.0.0"])
@@ -63,8 +63,8 @@ Gem::Specification.new do |s|
       s.add_dependency(%q<rcov>, [">= 0"])
     end
   else
-    s.add_dependency(%q<activerecord>, [">= 0"])
-    s.add_dependency(%q<bio>, [">= 0"])
+    s.add_dependency(%q<activerecord>, ["~> 3.1.3"])
+    s.add_dependency(%q<bio>, ["~> 1.4.2"])
     s.add_dependency(%q<slop>, ["~> 2.4.0"])
     s.add_dependency(%q<rspec>, ["~> 2.3.0"])
     s.add_dependency(%q<bundler>, ["~> 1.0.0"])

metadata

@@ -1,7 +1,7 @@
 --- !ruby/object:Gem::Specification
 name: snp-search
 version: !ruby/object:Gem::Version
-  version: 0.12.0
+  version: 0.14.0
   prerelease: 
 platform: ruby
 authors:
@@ -14,29 +14,29 @@ date: 2011-12-01 00:00:00.000000000Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: activerecord
-  requirement: &2158689280 !ruby/object:Gem::Requirement
+  requirement: &2165029880 !ruby/object:Gem::Requirement
     none: false
     requirements:
-    - - ! '>='
+    - - ~>
       - !ruby/object:Gem::Version
-        version: '0'
+        version: 3.1.3
   type: :runtime
   prerelease: false
-  version_requirements: *2158689280
+  version_requirements: *2165029880
 - !ruby/object:Gem::Dependency
   name: bio
-  requirement: &2158688700 !ruby/object:Gem::Requirement
+  requirement: &2165029380 !ruby/object:Gem::Requirement
     none: false
     requirements:
-    - - ! '>='
+    - - ~>
       - !ruby/object:Gem::Version
-        version: '0'
+        version: 1.4.2
   type: :runtime
   prerelease: false
-  version_requirements: *2158688700
+  version_requirements: *2165029380
 - !ruby/object:Gem::Dependency
   name: slop
-  requirement: &2158688120 !ruby/object:Gem::Requirement
+  requirement: &2165028880 !ruby/object:Gem::Requirement
     none: false
     requirements:
     - - ~>
@@ -44,10 +44,10 @@ dependencies:
         version: 2.4.0
   type: :runtime
   prerelease: false
-  version_requirements: *2158688120
+  version_requirements: *2165028880
 - !ruby/object:Gem::Dependency
   name: rspec
-  requirement: &2158687580 !ruby/object:Gem::Requirement
+  requirement: &2165028360 !ruby/object:Gem::Requirement
     none: false
     requirements:
     - - ~>
@@ -55,10 +55,10 @@ dependencies:
         version: 2.3.0
   type: :development
   prerelease: false
-  version_requirements: *2158687580
+  version_requirements: *2165028360
 - !ruby/object:Gem::Dependency
   name: bundler
-  requirement: &2158687080 !ruby/object:Gem::Requirement
+  requirement: &2165027860 !ruby/object:Gem::Requirement
     none: false
     requirements:
     - - ~>
@@ -66,10 +66,10 @@ dependencies:
         version: 1.0.0
   type: :development
   prerelease: false
-  version_requirements: *2158687080
+  version_requirements: *2165027860
 - !ruby/object:Gem::Dependency
   name: jeweler
-  requirement: &2158686440 !ruby/object:Gem::Requirement
+  requirement: &2165027320 !ruby/object:Gem::Requirement
     none: false
     requirements:
     - - ~>
@@ -77,10 +77,10 @@ dependencies:
         version: 1.6.4
   type: :development
   prerelease: false
-  version_requirements: *2158686440
+  version_requirements: *2165027320
 - !ruby/object:Gem::Dependency
   name: rcov
-  requirement: &2158685860 !ruby/object:Gem::Requirement
+  requirement: &2165026800 !ruby/object:Gem::Requirement
     none: false
     requirements:
     - - ! '>='
@@ -88,7 +88,7 @@ dependencies:
         version: '0'
   type: :development
   prerelease: false
-  version_requirements: *2158685860
+  version_requirements: *2165026800
 description: Use the snp-search toolset to query the SNP database
 email: ali.al-shahib@hpa.org.uk
 executables:
@@ -130,7 +130,7 @@ required_ruby_version: !ruby/object:Gem::Requirement
       version: '0'
       segments:
       - 0
-      hash: 3075832373140561550
+      hash: -3743140301989584855
 required_rubygems_version: !ruby/object:Gem::Requirement
   none: false
   requirements: