CodonUsage 0.0.1 → 0.0.2

checksums.yaml

@@ -1,7 +1,7 @@
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data/CodonUsage.gemspec

@@ -10,7 +10,7 @@ Gem::Specification.new do |spec|
   spec.email         = ["hotdogcheng@gmail.com"]
   spec.summary       = %q{A ruby gem that parses codon table from http://www.kazusa.or.jp/codon}
   spec.description   = %q{A ruby gem that parses codon table from http://www.kazusa.or.jp/codon and turn it to hash or JSON}
-  spec.homepage      = ""
+  spec.homepage      = "https://github.com/proxhotdog/CodonTable"
   spec.license       = "GPLv3"
 
   spec.files         = `git ls-files -z`.split("\x0")
@@ -19,6 +19,5 @@ Gem::Specification.new do |spec|
   spec.require_paths = ["lib"]
 
   spec.add_development_dependency "bundler", "~> 1.5"
-  spec.add_development_dependency "rake"
   spec.add_development_dependency "rspec", "~> 2.14"
 end

data/README.md

@@ -1,29 +1,17 @@
 # CodonUsage
 A ruby gem that parse Codon Usage table provided by: http://www.kazusa.or.jp/codon/
 
-
-
 ## Installation
-
-Add this line to your application's Gemfile:
-
-    gem 'CodonUsage'
-
-And then execute:
-
-    $ bundle
-
-Or install it yourself as:
-
     $ gem install CodonUsage
 
 ## Usage
-    require "CodonUsage"
-    foo = CodonUsage::KazusaDB.new(aa = "1", species = "9606")
+    require "CodonUsage" # load the gem
+    foo = CodonUsage::KazusaDB.new(aa = "1", species = "9606") # Noted that parameters should be STRING
     p foo.getURL
     p foo.getHash
-    p foo.toJSON
+    p foo.to_json
 
+for species, "9606" is homo sapiens ID.
 
 for aa, it is the codon translation table, default = "1":
 * 1: Standard
@@ -41,7 +29,6 @@ for aa, it is the codon translation table, default = "1":
 * 15: Blepharisma Nuclear Code
 
 
-
 ## Contributing
 
 1. Fork it ( http://github.com/proxhotdog/CodonUsage/fork )

data/lib/CodonUsage/version.rb

@@ -1,3 +1,3 @@
 module CodonUsage
-  VERSION = "0.0.1"
+  VERSION = "0.0.2"
 end

data/spec/CodonUsage_spec.rb

@@ -8,6 +8,8 @@ describe CodonUsage::KazusaDB do
     #let(:dblink) {"http://www.kazusa.or.jp/codon/cgi-bin/showcodon.cgi?species="}
     it "Create object using default args" do
         CodonUsage::KazusaDB.new.getURL.should == "http://www.kazusa.or.jp/codon/cgi-bin/showcodon.cgi?species=9606&aa=1&style=N"
+        p "Human codon preference"
+        p CodonUsage::KazusaDB.new.getHash
     end
     it "#aa 2" do
         CodonUsage::KazusaDB.new(aa: "2").getURL.should == "http://www.kazusa.or.jp/codon/cgi-bin/showcodon.cgi?species=9606&aa=2&style=N"

metadata

@@ -1,7 +1,7 @@
 --- !ruby/object:Gem::Specification
 name: CodonUsage
 version: !ruby/object:Gem::Version
-  version: 0.0.1
+  version: 0.0.2
 platform: ruby
 authors:
 - proxhotdog
@@ -24,20 +24,6 @@ dependencies:
     - - "~>"
       - !ruby/object:Gem::Version
         version: '1.5'
-- !ruby/object:Gem::Dependency
-  name: rake
-  requirement: !ruby/object:Gem::Requirement
-    requirements:
-    - - ">="
-      - !ruby/object:Gem::Version
-        version: '0'
-  type: :development
-  prerelease: false
-  version_requirements: !ruby/object:Gem::Requirement
-    requirements:
-    - - ">="
-      - !ruby/object:Gem::Version
-        version: '0'
 - !ruby/object:Gem::Dependency
   name: rspec
   requirement: !ruby/object:Gem::Requirement
@@ -71,7 +57,7 @@ files:
 - lib/CodonUsage/version.rb
 - spec/CodonUsage_spec.rb
 - spec/spec_helper.rb
-homepage: ''
+homepage: https://github.com/proxhotdog/CodonTable
 licenses:
 - GPLv3
 metadata: {}