bio-blastxmlparser 2.0.3 → 2.0.4

checksums.yaml

@@ -0,0 +1,7 @@
+---
+SHA1:
+  metadata.gz: 9eddc945892ee5205cf8b0033fab646f95b60ff2
+  data.tar.gz: d17192101aae81fda9e5a9d1589b9c84e26648e4
+SHA512:
+  metadata.gz: 3fe3a36bd15b8bb85a7cd2e3b22395d4d40a86f64ab2a2d063d3b9e8fa9c83f638007524a6953b40885cb94bb03c2240fc97fe4ec6aed7f54f81e71d4b8acd1c
+  data.tar.gz: b4596ec7b2a41018d542c8ce266182602f7c69fdc8e85f249e462ede93d7f477cb461102c8489992f9bafb71a9696215446c8b2871c15a9bb46c65ae768d2bb0

data/.travis.yml

@@ -1,8 +1,9 @@
 language: ruby
+sudo: false
 rvm:
   - 1.9.3
   - jruby-19mode # JRuby in 1.9 mode
-  - 2.1.0
+  - 2.2.2
 #   - rbx-19mode
 #  - 1.8.7
 #  - jruby-18mode # JRuby in 1.8 mode

data/Gemfile

@@ -7,8 +7,6 @@ gem "nokogiri"
 # Include everything needed to run rake, tests, features, etc.
 group :development do
   gem "rake"
-  gem "bundler"
-  gem "jeweler", "~> 2.0.1"
   gem "rspec"
   gem "rdoc"
 end

data/README.md

@@ -429,5 +429,5 @@ blastxmlparser is listed at http://biogems.info
 
 ## Copyright
 
-Copyright (c) 2011-2014 Pjotr Prins under the MIT licence.  See LICENSE.txt and http://www.opensource.org/licenses/mit-license.html for further details.
+Copyright (c) 2011-2015 Pjotr Prins under the MIT licence.  See LICENSE.txt and http://www.opensource.org/licenses/mit-license.html for further details.
 

data/Rakefile

@@ -1,28 +1,6 @@
 require 'rubygems'
-require 'bundler'
-begin
-  Bundler.setup(:default, :development)
-rescue Bundler::BundlerError => e
-  $stderr.puts e.message
-  $stderr.puts "Run `bundle install` to install missing gems"
-  exit e.status_code
-end
 require 'rake'
 
-require 'jeweler'
-Jeweler::Tasks.new do |gem|
-  # gem is a Gem::Specification... see http://docs.rubygems.org/read/chapter/20 for more options
-  gem.name = "bio-blastxmlparser"
-  gem.homepage = "http://github.com/pjotrp/blastxmlparser"
-  gem.license = "MIT"
-  gem.summary = %Q{Very fast parallel BLAST XML to RDF/HTML/JSON/YAML/csv transformer}
-  gem.description = %Q{Fast big data BLAST XML parser and library; this libxml2 based version is 50x faster than BioRuby and comes with a nice CLI}
-  gem.email = "pjotr.public01@thebird.nl"
-  gem.authors = ["Pjotr Prins"]
-  gem.required_ruby_version = '>=1.9.2'
-end
-Jeweler::RubygemsDotOrgTasks.new
-
 require 'rspec/core'
 require 'rspec/core/rake_task'
 RSpec::Core::RakeTask.new(:spec) do |spec|

data/VERSION

@@ -1 +1 @@
-2.0.3
+2.0.4

data/bio-blastxmlparser.gemspec

@@ -1,11 +1,8 @@
-# Generated by jeweler
-# DO NOT EDIT THIS FILE DIRECTLY
-# Instead, edit Jeweler::Tasks in Rakefile, and run 'rake gemspec'
 # -*- encoding: utf-8 -*-
 
 Gem::Specification.new do |s|
   s.name = "bio-blastxmlparser"
-  s.version = "2.0.3"
+  s.version = "2.0.4"
 
   s.required_rubygems_version = Gem::Requirement.new(">= 0") if s.respond_to? :required_rubygems_version=
   s.authors = ["Pjotr Prins"]
@@ -22,7 +19,6 @@ Gem::Specification.new do |s|
     ".rspec",
     ".travis.yml",
     "Gemfile",
-    "Gemfile.lock",
     "LICENSE.txt",
     "README.md",
     "Rakefile",
@@ -57,7 +53,6 @@ Gem::Specification.new do |s|
   s.licenses = ["MIT"]
   s.require_paths = ["lib"]
   s.required_ruby_version = Gem::Requirement.new(">= 1.9.2")
-  s.rubygems_version = "1.8.23"
   s.summary = "Very fast parallel BLAST XML to RDF/HTML/JSON/YAML/csv transformer"
 
   if s.respond_to? :specification_version then
@@ -66,28 +61,13 @@ Gem::Specification.new do |s|
     if Gem::Version.new(Gem::VERSION) >= Gem::Version.new('1.2.0') then
       s.add_runtime_dependency(%q<bio-logger>, [">= 0"])
       s.add_runtime_dependency(%q<nokogiri>, [">= 0"])
-      s.add_development_dependency(%q<rake>, [">= 0"])
-      s.add_development_dependency(%q<bundler>, [">= 0"])
-      s.add_development_dependency(%q<jeweler>, ["~> 2.0.1"])
-      s.add_development_dependency(%q<rspec>, [">= 0"])
-      s.add_development_dependency(%q<rdoc>, [">= 0"])
     else
       s.add_dependency(%q<bio-logger>, [">= 0"])
       s.add_dependency(%q<nokogiri>, [">= 0"])
-      s.add_dependency(%q<rake>, [">= 0"])
-      s.add_dependency(%q<bundler>, [">= 0"])
-      s.add_dependency(%q<jeweler>, ["~> 2.0.1"])
-      s.add_dependency(%q<rspec>, [">= 0"])
-      s.add_dependency(%q<rdoc>, [">= 0"])
     end
   else
     s.add_dependency(%q<bio-logger>, [">= 0"])
     s.add_dependency(%q<nokogiri>, [">= 0"])
-    s.add_dependency(%q<rake>, [">= 0"])
-    s.add_dependency(%q<bundler>, [">= 0"])
-    s.add_dependency(%q<jeweler>, ["~> 2.0.1"])
-    s.add_dependency(%q<rspec>, [">= 0"])
-    s.add_dependency(%q<rdoc>, [">= 0"])
   end
 end
 

metadata

@@ -1,8 +1,7 @@
 --- !ruby/object:Gem::Specification
 name: bio-blastxmlparser
 version: !ruby/object:Gem::Version
-  version: 2.0.3
-  prerelease: 
+  version: 2.0.4
 platform: ruby
 authors:
 - Pjotr Prins
@@ -14,113 +13,29 @@ dependencies:
 - !ruby/object:Gem::Dependency
   name: bio-logger
   requirement: !ruby/object:Gem::Requirement
-    none: false
     requirements:
-    - - ! '>='
+    - - ">="
       - !ruby/object:Gem::Version
         version: '0'
   type: :runtime
   prerelease: false
   version_requirements: !ruby/object:Gem::Requirement
-    none: false
     requirements:
-    - - ! '>='
+    - - ">="
       - !ruby/object:Gem::Version
         version: '0'
 - !ruby/object:Gem::Dependency
   name: nokogiri
   requirement: !ruby/object:Gem::Requirement
-    none: false
     requirements:
-    - - ! '>='
+    - - ">="
       - !ruby/object:Gem::Version
         version: '0'
   type: :runtime
   prerelease: false
   version_requirements: !ruby/object:Gem::Requirement
-    none: false
     requirements:
-    - - ! '>='
-      - !ruby/object:Gem::Version
-        version: '0'
-- !ruby/object:Gem::Dependency
-  name: rake
-  requirement: !ruby/object:Gem::Requirement
-    none: false
-    requirements:
-    - - ! '>='
-      - !ruby/object:Gem::Version
-        version: '0'
-  type: :development
-  prerelease: false
-  version_requirements: !ruby/object:Gem::Requirement
-    none: false
-    requirements:
-    - - ! '>='
-      - !ruby/object:Gem::Version
-        version: '0'
-- !ruby/object:Gem::Dependency
-  name: bundler
-  requirement: !ruby/object:Gem::Requirement
-    none: false
-    requirements:
-    - - ! '>='
-      - !ruby/object:Gem::Version
-        version: '0'
-  type: :development
-  prerelease: false
-  version_requirements: !ruby/object:Gem::Requirement
-    none: false
-    requirements:
-    - - ! '>='
-      - !ruby/object:Gem::Version
-        version: '0'
-- !ruby/object:Gem::Dependency
-  name: jeweler
-  requirement: !ruby/object:Gem::Requirement
-    none: false
-    requirements:
-    - - ~>
-      - !ruby/object:Gem::Version
-        version: 2.0.1
-  type: :development
-  prerelease: false
-  version_requirements: !ruby/object:Gem::Requirement
-    none: false
-    requirements:
-    - - ~>
-      - !ruby/object:Gem::Version
-        version: 2.0.1
-- !ruby/object:Gem::Dependency
-  name: rspec
-  requirement: !ruby/object:Gem::Requirement
-    none: false
-    requirements:
-    - - ! '>='
-      - !ruby/object:Gem::Version
-        version: '0'
-  type: :development
-  prerelease: false
-  version_requirements: !ruby/object:Gem::Requirement
-    none: false
-    requirements:
-    - - ! '>='
-      - !ruby/object:Gem::Version
-        version: '0'
-- !ruby/object:Gem::Dependency
-  name: rdoc
-  requirement: !ruby/object:Gem::Requirement
-    none: false
-    requirements:
-    - - ! '>='
-      - !ruby/object:Gem::Version
-        version: '0'
-  type: :development
-  prerelease: false
-  version_requirements: !ruby/object:Gem::Requirement
-    none: false
-    requirements:
-    - - ! '>='
+    - - ">="
       - !ruby/object:Gem::Version
         version: '0'
 description: Fast big data BLAST XML parser and library; this libxml2 based version
@@ -133,11 +48,10 @@ extra_rdoc_files:
 - LICENSE.txt
 - README.md
 files:
-- .document
-- .rspec
-- .travis.yml
+- ".document"
+- ".rspec"
+- ".travis.yml"
 - Gemfile
-- Gemfile.lock
 - LICENSE.txt
 - README.md
 - Rakefile
@@ -170,25 +84,24 @@ files:
 homepage: http://github.com/pjotrp/blastxmlparser
 licenses:
 - MIT
+metadata: {}
 post_install_message: 
 rdoc_options: []
 require_paths:
 - lib
 required_ruby_version: !ruby/object:Gem::Requirement
-  none: false
   requirements:
-  - - ! '>='
+  - - ">="
     - !ruby/object:Gem::Version
       version: 1.9.2
 required_rubygems_version: !ruby/object:Gem::Requirement
-  none: false
   requirements:
-  - - ! '>='
+  - - ">="
     - !ruby/object:Gem::Version
       version: '0'
 requirements: []
 rubyforge_project: 
-rubygems_version: 1.8.23
+rubygems_version: 2.4.5.1
 signing_key: 
 specification_version: 3
 summary: Very fast parallel BLAST XML to RDF/HTML/JSON/YAML/csv transformer

data/Gemfile.lock

@@ -1,72 +0,0 @@
-GEM
-  remote: http://rubygems.org/
-  specs:
-    addressable (2.3.6)
-    bio-logger (1.0.0)
-      log4r (>= 1.1.9)
-    builder (3.2.2)
-    descendants_tracker (0.0.4)
-      thread_safe (~> 0.3, >= 0.3.1)
-    diff-lcs (1.1.3)
-    faraday (0.9.0)
-      multipart-post (>= 1.2, < 3)
-    git (1.2.8)
-    github_api (0.12.1)
-      addressable (~> 2.3)
-      descendants_tracker (~> 0.0.4)
-      faraday (~> 0.8, < 0.10)
-      hashie (>= 3.2)
-      multi_json (>= 1.7.5, < 2.0)
-      nokogiri (~> 1.6.3)
-      oauth2
-    hashie (3.3.1)
-    highline (1.6.21)
-    jeweler (2.0.1)
-      builder
-      bundler (>= 1.0)
-      git (>= 1.2.5)
-      github_api
-      highline (>= 1.6.15)
-      nokogiri (>= 1.5.10)
-      rake
-      rdoc
-    json (1.6.5)
-    jwt (1.0.0)
-    log4r (1.1.9)
-    mini_portile (0.6.0)
-    multi_json (1.10.1)
-    multi_xml (0.5.5)
-    multipart-post (2.0.0)
-    nokogiri (1.6.3.1)
-      mini_portile (= 0.6.0)
-    oauth2 (1.0.0)
-      faraday (>= 0.8, < 0.10)
-      jwt (~> 1.0)
-      multi_json (~> 1.3)
-      multi_xml (~> 0.5)
-      rack (~> 1.2)
-    rack (1.5.2)
-    rake (0.9.2.2)
-    rdoc (3.12)
-      json (~> 1.4)
-    rspec (2.8.0)
-      rspec-core (~> 2.8.0)
-      rspec-expectations (~> 2.8.0)
-      rspec-mocks (~> 2.8.0)
-    rspec-core (2.8.0)
-    rspec-expectations (2.8.0)
-      diff-lcs (~> 1.1.2)
-    rspec-mocks (2.8.0)
-    thread_safe (0.3.4)
-
-PLATFORMS
-  ruby
-
-DEPENDENCIES
-  bio-logger
-  bundler
-  jeweler (~> 2.0.1)
-  nokogiri
-  rake
-  rdoc
-  rspec