bio-old-biofetch-emulator 0.0.0 → 1.0.0

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data/Gemfile

@@ -12,4 +12,5 @@ group :development do
   gem "rdoc"
   gem "jeweler"
   gem "bundler", ">= 1.0.21"
+  gem "test-unit"
 end

data/README.md

@@ -2,9 +2,14 @@
 
 [![Build Status](https://secure.travis-ci.org/ngoto/bioruby-old-biofetch-emulator.png)](http://travis-ci.org/ngoto/bioruby-old-biofetch-emulator)
 
-Full description goes here
+Emulator that emulates Bio::Fetch object in BioRuby as if discontinued
+BioRuby BioFetch server were still alive. It overrides methods and objects
+in Bio::Fetch, and if the old BioRuby BioFetch server's URL is given,
+it intercepts all requests and converts them into existing web services
+such as TogoWS, KEGG REST API, NCBI E-Utilities, and GenomeNet(genome.jp).
 
-Note: this software is under active development!
+Note: this software may fail to work depending on the status of the above
+servers.
 
 ## Installation
 
@@ -18,9 +23,12 @@ gem install bio-old-biofetch-emulator
 require 'bio-old-biofetch-emulator'
 ```
 
+In general, to run existing software using the BioRuby BioFetch server, no
+additional code is needed other than `require 'bio-old-biofetch-emulator'`.
+
 The API doc is online. For more code examples see the test files in
 the source tree.
-        
+
 ## Project home page
 
 Information on the source tree, documentation, examples, issues and
@@ -28,8 +36,6 @@ how to contribute, see
 
   http://github.com/ngoto/bioruby-old-biofetch-emulator
 
-The BioRuby community is on IRC server: irc.freenode.org, channel: #bioruby.
-
 ## Cite
 
 If you use this software, please cite one of

data/VERSION

@@ -1 +1 @@
-0.0.0
+1.0.0

data/lib/bio-old-biofetch-emulator/emulator.rb

@@ -390,7 +390,7 @@ module Bio
       def new_with_old_biofetch_emulator(*arg)
         tmp = self.ancestors
         if (tmp - DONT_OVERRIDE).size == tmp.size then
-          $stderr.puts self
+          #$stderr.puts self
           case arg.size
           when 0
             return Client.new

metadata

@@ -1,14 +1,14 @@
 --- !ruby/object:Gem::Specification
 name: bio-old-biofetch-emulator
 version: !ruby/object:Gem::Version
-  version: 0.0.0
+  version: 1.0.0
 platform: ruby
 authors:
 - Naohisa Goto
 autorequire: 
 bindir: bin
 cert_chain: []
-date: 2014-11-13 00:00:00.000000000 Z
+date: 2016-06-13 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
   name: bio
@@ -80,6 +80,20 @@ dependencies:
     - - ">="
       - !ruby/object:Gem::Version
         version: 1.0.21
+- !ruby/object:Gem::Dependency
+  name: test-unit
+  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'
 description: Emulator that emulates Bio::Fetch object in BioRuby as if old BioRuby
   BioFetch server were still alive. It overrides methods and objects in Bio::Fetch,
   and if the old BioRuby BioFetch server's URL is given, it intercepts all requests
@@ -91,14 +105,12 @@ extensions: []
 extra_rdoc_files:
 - LICENSE.txt
 - README.md
-- README.rdoc
 files:
 - ".document"
 - ".travis.yml"
 - Gemfile
 - LICENSE.txt
 - README.md
-- README.rdoc
 - Rakefile
 - VERSION
 - lib/bio-old-biofetch-emulator.rb
@@ -125,7 +137,7 @@ required_rubygems_version: !ruby/object:Gem::Requirement
       version: '0'
 requirements: []
 rubyforge_project: 
-rubygems_version: 2.2.2
+rubygems_version: 2.4.5.1
 signing_key: 
 specification_version: 4
 summary: Emulates as if old BioRuby BioFetch alives

data/README.rdoc

@@ -1,48 +0,0 @@
-= bio-old-biofetch-emulator
-
-{<img
-src="https://secure.travis-ci.org/ngoto/bioruby-old-biofetch-emulator.png"
-/>}[http://travis-ci.org/#!/ngoto/bioruby-old-biofetch-emulator]
-
-Full description goes here
-
-Note: this software is under active development!
-
-== Installation
-
-        gem install bio-old-biofetch-emulator
-
-== Usage
-
-== Developers
-
-To use the library 
-
-        require 'bio-old-biofetch-emulator'
-
-The API doc is online. For more code examples see also the test files in
-the source tree.
-        
-== Project home page
-
-Information on the source tree, documentation, issues and how to contribute, see
-
-  http://github.com/ngoto/bioruby-old-biofetch-emulator
-
-The BioRuby community is on IRC server: irc.freenode.org, channel: #bioruby.
-
-== Cite
-
-  If you use this software, please cite one of
- 
-* [BioRuby: bioinformatics software for the Ruby programming language](http://dx.doi.org/10.1093/bioinformatics/btq475)
-* [Biogem: an effective tool-based approach for scaling up open source software development in bioinformatics](http://dx.doi.org/10.1093/bioinformatics/bts080)
-
-== Biogems.info
-
-This Biogem is published at http://biogems.info/index.html#bio-old-biofetch-emulator
-
-== Copyright
-
-Copyright (c) 2014 Naohisa Goto. See LICENSE.txt for further details.
-