bel 0.3.2-x64-mingw32 → 0.3.3-x64-mingw32

checksums.yaml

@@ -1,7 +1,7 @@
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data/CHANGELOG.md

@@ -0,0 +1,39 @@
+# Change Log
+All notable changes to bel.rb will be documented in this file. The curated log begins at changes to version 0.3.2.
+
+This project adheres to [Semantic Versioning](http://semver.org/).
+
+## [0.3.3][0.3.3] - 2015-08-07
+### Fixed
+- ResourceIndex integration test causes intermittent timeouts ([Issue #61][61]).
+- Support running on JRuby, including libbel native library ([Issue #68][68]).
+
+## [0.3.2][0.3.2] - 2015-07-31
+### Fixed
+- Allow whitespace (space/tab) within blank lines ([Issue #13][13]).
+- Parse CRLF line terminators (i.e. Windows) when parsing BEL Script ([Issue #21][21]).
+- Allow whitespace before BEL Script records ([Issue #25][25]).
+- Support RDF conversion of unicode string literals ([Issue #40][40]).
+- Support translation from and to RDF ([Issue #51][51]).
+- (Regression) Unable to parse BEL files on Windows ([Issue #59][59]).
+- RDF "hasConcept" property triple is missing namespace ([Issue #64][64]).
+
+### Changed
+- Updates defined namespaces to reflect the [20150611][20150611] resources.
+- Full support for all BEL functions and relationships during RDF conversion.
+
+### Added
+- Development gem dependencies (i.e. byebug, pry, pry-byebug) for debugging.
+
+[0.3.2]:    https://github.com/OpenBEL/bel.rb/compare/0.3.1...0.3.2
+[0.3.3]:    https://github.com/OpenBEL/bel.rb/compare/0.3.2...0.3.3
+[13]:       https://github.com/OpenBEL/bel.rb/issues/13
+[21]:       https://github.com/OpenBEL/bel.rb/issues/21
+[25]:       https://github.com/OpenBEL/bel.rb/issues/25
+[40]:       https://github.com/OpenBEL/bel.rb/issues/40
+[51]:       https://github.com/OpenBEL/bel.rb/issues/51
+[59]:       https://github.com/OpenBEL/bel.rb/issues/59
+[61]:       https://github.com/OpenBEL/bel.rb/issues/61
+[64]:       https://github.com/OpenBEL/bel.rb/issues/64
+[68]:       https://github.com/OpenBEL/bel.rb/issues/68
+[20150611]: http://resource.belframework.org/belframework/20150611/

data/README.md

@@ -63,7 +63,7 @@ executable commands
       upgrade
 
 
-    bel 0.3.2
+    bel 0.3.3
     Copyright (C) 2015 OpenBEL
     Apache License, Version 2.0, January 2004
     http://www.apache.org/licenses/

data/bel.gemspec

@@ -25,9 +25,11 @@ Gem::Specification.new do |spec|
                                     'whayes@selventa.com'
                                   ]
   spec.files                    = [
-                                    Dir.glob("lib/**/*.rb"),
-                                    Dir.glob("ext/**/*.{c,h,def}"),
+                                    Dir.glob('lib/**/*.rb'),
+                                    Dir.glob('ext/**/*.{c,h,def}'),
+                                    Dir.glob('lib/bel/libbel/ext/{java,mingw}/**/*.{so,bundle}'),
                                     __FILE__,
+                                    'CHANGELOG.md',
                                     'LICENSE',
                                     'INSTALL.md',
                                     'INSTALL_RUBY.md',
@@ -63,9 +65,7 @@ Gem::Specification.new do |spec|
   spec.add_development_dependency 'uuid',          '~> 2.3'
 
   # development gems
-  spec.add_development_dependency 'byebug',        '~> 5.0'
   spec.add_development_dependency 'minitest',      '~> 5.7'
-  spec.add_development_dependency 'pry-byebug',    '~> 3.2'
   spec.add_development_dependency 'rake',          '~> 10.4'
   spec.add_development_dependency 'rake-compiler', '~> 0.9'
   spec.add_development_dependency 'rdoc',          '~> 4.2'

data/ext/mri/extconf.rb

@@ -1,8 +1,22 @@
-require 'mkmf'
+if RUBY_PLATFORM =~ /java/i
 
-# if set in environment, set compiler for make
-# example:
-#   CC=gcc-4.8 gem install bel.rb
-RbConfig::MAKEFILE_CONFIG['CC'] = ENV['CC'] if ENV['CC']
+  # Don't do anything when run in JRuby; this allows gem installation to pass.
+  # We need to write a dummy Makefile so that RubyGems doesn't think compilation
+  # failed.
+  File.open('Makefile', 'w') do |f|
+    f.puts "all:"
+    f.puts "\t@true"
+    f.puts "install:"
+    f.puts "\t@true"
+  end
+  exit 0
+else
 
-create_makefile('bel/libbel')
+  require 'mkmf'
+  # if set in environment, set compiler for make
+  # example:
+  #   CC=gcc-4.8 gem install bel.rb
+  RbConfig::MAKEFILE_CONFIG['CC'] = ENV['CC'] if ENV['CC']
+
+  create_makefile('bel/libbel/ext/libbel')
+end

data/lib/bel.rb

@@ -1,7 +1,4 @@
 require_relative 'bel/version'
-require_relative 'bel/libbel.rb'
-require_relative 'bel/parser'
-require_relative 'bel/completion'
 require_relative 'bel/language'
 require_relative 'bel/namespace'
 require_relative 'bel/util'
@@ -13,6 +10,10 @@ require_relative 'bel/format'
 
 require_relative 'bel/script'
 
+require_relative 'bel/libbel.rb'
+require_relative 'bel/parser'
+require_relative 'bel/completion'
+
 include BEL::Language
 include BEL::Namespace
 

data/lib/bel/libbel.rb

@@ -1,200 +1,164 @@
-module LibBEL
+require_relative 'libbel/library_load_error'
+require_relative 'libbel/library_resolver'
 
-  class << self
+module BEL
+  module LibBEL
 
-    def rubinius?
-      defined?(RUBY_ENGINE) && ("rbx" == RUBY_ENGINE)
-    end
+    extend LibraryResolver
 
-    # @api_private
-    # Determines the correct extension path for your ruby version
-    def extension_path(ruby_version = RUBY_VERSION)
-      version =
-        case ruby_version
-        when /^2\.0/
-          '2.0'
-        when /^2\.1/
-          '2.1'
-        when /^2\.2/
-          '2.2'
-        else
-          fail RuntimeError.new("Do not support Ruby #{RUBY_VERSION}.")
-        end
+    class << self
 
-      File.join(File.expand_path(File.dirname(__FILE__)), version)
-    end
+      def rubinius?
+        defined?(RUBY_ENGINE) && ("rbx" == RUBY_ENGINE)
+      end
 
-    # @api_private
-    # Determine FFI constant for this ruby engine.
-    def find_ffi
-      if rubinius?
-        # Use ffi gem instead of rubinius-bundled FFI
-        # Rubinius 2.5.2 does not seem to support FFI::ManagedStruct
-        require "ffi"
-        ::FFI
-      else # mri, jruby, etc
-        require "ffi"
-        ::FFI
+      # @api_private
+      # Determine FFI constant for this ruby engine.
+      def find_ffi
+        if rubinius?
+          # Use ffi gem instead of rubinius-bundled FFI
+          # Rubinius 2.5.2 does not seem to support FFI::ManagedStruct
+          require "ffi"
+          ::FFI
+        else # mri, jruby, etc
+          require "ffi"
+          ::FFI
+        end
       end
-    end
 
-    # @api_private
-    # Extend with the correct ffi implementation.
-    def load_ffi
-      ffi_module = LibBEL::find_ffi
-      extend ffi_module::Library
-      ffi_module
-    end
+      # @api_private
+      # Extend with the correct ffi implementation.
+      def load_ffi
+        ffi_module = BEL::LibBEL::find_ffi
+        extend ffi_module::Library
+        ffi_module
+      end
+
+      # @api_private
+      # Loads the libbel shared library.
+      def load_libBEL
+        ffi_module = find_ffi
+        extend ffi_module::Library
+
+        lib_path = resolve_library('libbel')
 
-    # @api_private
-    # Loads the libbel shared library.
-    def load_libBEL
-      ffi_module = find_ffi
-      extend ffi_module::Library
-
-      # libbel.so:     Linux and MinGW
-      # libbel.bundle: Mac OSX
-      messages = []
-      library_loaded = ['libbel.so', 'libbel.bundle'].map { |library_file|
-        [
-          library_file,
-          File.join(
-            File.expand_path(File.dirname(__FILE__)),
-            library_file
-          )
-        ]
-      }.any? do |library_file, library_path|
-        # Try loading top-level shared library.
         begin
-          ffi_lib library_path
+          ffi_lib lib_path
           true
-        rescue LoadError => exception1
-          # Try loading version-specific shared library.
-          begin
-            ffi_lib File.join(extension_path, library_file)
-            true
-          rescue LoadError => exception2
-            messages << exception1.to_s
-            messages << exception2.to_s
-            false
-          end
+        rescue LoadError => err
+          raise LibraryLoadError.new('libbel', err)
+          false
         end
       end
-
-      if !library_loaded
-        msg = messages.map { |msg| "  #{msg}" }.join("\n")
-        fail LoadError.new("Failed to load libbel library. Details:\n#{msg}")
-      end
     end
-  end
 
-  # Constant holding the FFI module for this ruby engine.
-  FFI = LibBEL::load_ffi
-  LibBEL::load_libBEL
-
-  # typedef enum bel_token_type
-  enum :bel_token_type, [
-    :IDENT,   0,
-    :STRING,
-    :O_PAREN,
-    :C_PAREN,
-    :COLON,
-    :COMMA,
-    :SPACES
-  ]
-
-  enum :bel_ast_node_type, [
-    :BEL_TOKEN, 0,
-    :BEL_VALUE
-  ]
-
-  enum :bel_ast_token_type, [
-    :BEL_TOKEN_STATEMENT, 0,
-    :BEL_TOKEN_SUBJECT,
-    :BEL_TOKEN_OBJECT,
-    :BEL_TOKEN_REL,
-    :BEL_TOKEN_TERM,
-    :BEL_TOKEN_ARG,
-    :BEL_TOKEN_NV
-  ]
-
-  enum :bel_ast_value_type, [
-    :BEL_VALUE_FX, 0,
-    :BEL_VALUE_REL,
-    :BEL_VALUE_PFX,
-    :BEL_VALUE_VAL
-  ]
-
-  require_relative 'libbel/bel_ast_structs'
-  require_relative 'libbel/bel_token'
-  require_relative 'libbel/bel_token_iterator'
-  require_relative 'libbel/bel_token_list'
-
-  # bel ast
-  attach_function :bel_ast_as_string,       [:pointer                                     ], :string
-  attach_function :bel_copy_ast_node,       [:pointer                                     ], :pointer
-  attach_function :bel_free_ast,            [:pointer                                     ], :void
-  attach_function :bel_free_ast_node,       [:pointer                                     ], :void
-  attach_function :bel_new_ast,             [                                             ], :pointer
-  attach_function :bel_new_ast_node_token,  [:bel_ast_token_type                          ], :pointer
-  attach_function :bel_new_ast_node_value,  [:bel_ast_value_type, :string                 ], :pointer
-  attach_function :bel_print_ast,           [:pointer                                     ], :void
-  attach_function :bel_print_ast_node,      [:pointer, :string                            ], :void
-  attach_function :bel_set_value,           [:pointer, :string                            ], :pointer
-
-  # bel token
-  attach_function :bel_new_token,           [:bel_token_type, :pointer, :pointer, :pointer], :pointer
-  attach_function :bel_new_token_iterator,  [:pointer                                     ], :pointer
-  attach_function :bel_new_token_list,      [:int                                         ], :pointer
-  attach_function :bel_print_token,         [:pointer                                     ], :void
-  attach_function :bel_print_token_list,    [:pointer                                     ], :void
-  attach_function :bel_token_iterator_end,  [:pointer                                     ], :int
-  attach_function :bel_token_iterator_get,  [:pointer                                     ], :pointer
-  attach_function :bel_token_iterator_next, [:pointer                                     ], :void
-  attach_function :free_bel_token,          [:pointer                                     ], :void
-  attach_function :free_bel_token_iterator, [:pointer                                     ], :void
-  attach_function :free_bel_token_list,     [:pointer                                     ], :void
-
-  # tokenize
-  attach_function :bel_tokenize_term,       [:string                                      ], :pointer
-
-  # parse
-  attach_function :bel_parse_statement,     [:string                                      ], :pointer
-  attach_function :bel_parse_term,          [:string                                      ], :pointer
-
-  def self.parse_statement(bel_string)
-    LibBEL::BelAst.new(LibBEL::bel_parse_statement(bel_string))
-  end
+    # Constant holding the FFI module for this ruby engine.
+    FFI = BEL::LibBEL::load_ffi
+    BEL::LibBEL::load_libBEL
+
+    # typedef enum bel_token_type
+    enum :bel_token_type, [
+      :IDENT,   0,
+      :STRING,
+      :O_PAREN,
+      :C_PAREN,
+      :COLON,
+      :COMMA,
+      :SPACES
+    ]
+
+    enum :bel_ast_node_type, [
+      :BEL_TOKEN, 0,
+      :BEL_VALUE
+    ]
+
+    enum :bel_ast_token_type, [
+      :BEL_TOKEN_STATEMENT, 0,
+      :BEL_TOKEN_SUBJECT,
+      :BEL_TOKEN_OBJECT,
+      :BEL_TOKEN_REL,
+      :BEL_TOKEN_TERM,
+      :BEL_TOKEN_ARG,
+      :BEL_TOKEN_NV
+    ]
+
+    enum :bel_ast_value_type, [
+      :BEL_VALUE_FX, 0,
+      :BEL_VALUE_REL,
+      :BEL_VALUE_PFX,
+      :BEL_VALUE_VAL
+    ]
+
+    require_relative 'libbel/bel_ast_structs'
+    require_relative 'libbel/bel_token'
+    require_relative 'libbel/bel_token_iterator'
+    require_relative 'libbel/bel_token_list'
+
+    # bel ast
+    attach_function :bel_ast_as_string,       [:pointer                                     ], :string
+    attach_function :bel_copy_ast_node,       [:pointer                                     ], :pointer
+    attach_function :bel_free_ast,            [:pointer                                     ], :void
+    attach_function :bel_free_ast_node,       [:pointer                                     ], :void
+    attach_function :bel_new_ast,             [                                             ], :pointer
+    attach_function :bel_new_ast_node_token,  [:bel_ast_token_type                          ], :pointer
+    attach_function :bel_new_ast_node_value,  [:bel_ast_value_type, :string                 ], :pointer
+    attach_function :bel_print_ast,           [:pointer                                     ], :void
+    attach_function :bel_print_ast_node,      [:pointer, :string                            ], :void
+    attach_function :bel_set_value,           [:pointer, :string                            ], :pointer
+
+    # bel token
+    attach_function :bel_new_token,           [:bel_token_type, :pointer, :pointer, :pointer], :pointer
+    attach_function :bel_new_token_iterator,  [:pointer                                     ], :pointer
+    attach_function :bel_new_token_list,      [:int                                         ], :pointer
+    attach_function :bel_print_token,         [:pointer                                     ], :void
+    attach_function :bel_print_token_list,    [:pointer                                     ], :void
+    attach_function :bel_token_iterator_end,  [:pointer                                     ], :int
+    attach_function :bel_token_iterator_get,  [:pointer                                     ], :pointer
+    attach_function :bel_token_iterator_next, [:pointer                                     ], :void
+    attach_function :free_bel_token,          [:pointer                                     ], :void
+    attach_function :free_bel_token_iterator, [:pointer                                     ], :void
+    attach_function :free_bel_token_list,     [:pointer                                     ], :void
+
+    # tokenize
+    attach_function :bel_tokenize_term,       [:string                                      ], :pointer
+
+    # parse
+    attach_function :bel_parse_statement,     [:string                                      ], :pointer
+    attach_function :bel_parse_term,          [:string                                      ], :pointer
+
+    def self.parse_statement(bel_string)
+      BEL::LibBEL::BelAst.new(BEL::LibBEL::bel_parse_statement(bel_string))
+    end
 
-  def self.parse_term(bel_string)
-    LibBEL::BelAst.new(LibBEL::bel_parse_term(bel_string))
-  end
+    def self.parse_term(bel_string)
+      BEL::LibBEL::BelAst.new(BEL::LibBEL::bel_parse_term(bel_string))
+    end
 
-  def self.tokenize_term(bel_string)
-    LibBEL::BelTokenList.new(self.bel_tokenize_term(bel_string))
-  end
+    def self.tokenize_term(bel_string)
+      BEL::LibBEL::BelTokenList.new(self.bel_tokenize_term(bel_string))
+    end
 
-  def self.copy_ast(bel_ast)
-    copy_root = self.copy_ast_node(bel_ast.root)
-    new_ast   = LibBEL::BelAst.new(LibBEL::bel_new_ast())
-    new_ast.root = copy_root
-    new_ast
-  end
+    def self.copy_ast(bel_ast)
+      copy_root = self.copy_ast_node(bel_ast.root)
+      new_ast   = BEL::LibBEL::BelAst.new(BEL::LibBEL::bel_new_ast())
+      new_ast.root = copy_root
+      new_ast
+    end
 
-  def self.copy_ast_node(bel_ast_node)
-    LibBEL::BelAstNode.new(LibBEL::bel_copy_ast_node(bel_ast_node))
-  end
+    def self.copy_ast_node(bel_ast_node)
+      BEL::LibBEL::BelAstNode.new(BEL::LibBEL::bel_copy_ast_node(bel_ast_node))
+    end
 
-  def self.print_ast(bel_ast)
-    LibBEL::bel_print_ast(bel_ast)
-  end
+    def self.print_ast(bel_ast)
+      BEL::LibBEL::bel_print_ast(bel_ast)
+    end
 
-  def self.print_token(token)
-    self.bel_print_token(token.pointer)
-  end
+    def self.print_token(token)
+      self.bel_print_token(token.pointer)
+    end
 
-  def self.print_token_list(list)
-    self.bel_print_token_list(list.pointer)
+    def self.print_token_list(list)
+      self.bel_print_token_list(list.pointer)
+    end
   end
 end
-