bel 1.0.1 → 1.1.0

checksums.yaml

@@ -1,7 +1,7 @@
 ---
 SHA1:
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-  data.tar.gz: ad65172e5a69d3274e965339260d1e0550307702
+  metadata.gz: 1aa98c9d68e2e12c4551346143a2e2701785a40c
+  data.tar.gz: 49e614d29258ec3f128c81ef6a45cd34076be45a
 SHA512:
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-  data.tar.gz: 9318c0ff4fcb9b499c400b7466d8a66e7518d77ca72a6f78228e86ab35d2ddf38656fe9fa42a6baebde3a5c3596dc27fb4afcfd1dddba9934299b99217b1aae4
+  metadata.gz: d20ba6c9ef4460e0a2ed7dd64b96961b9a1b37c8c7e3f36b8cbe62b3818c67a8226886ac307d7780cada9949216d9a54add114d7ec28ba69fd14d215cc27828c
+  data.tar.gz: 968d9fc15f9d3f072828daf805cc30811bf4fe23c874391ce794f48de855f82c8485ee0bf41b6b2368e5975b86115d382178ce668d3d1fdece3cd006c443e795

data/.gemspec

@@ -18,6 +18,7 @@ Gem::Specification.new do |spec|
                                     'Nick Bargnesi',
                                     'William Hayes'
                                   ]
+  spec.date                     = %q{2017-01-13}
   spec.email                    = [
                                     'abargnesi@selventa.com',
                                     'ncatlett@selventa.com',
@@ -60,7 +61,7 @@ Gem::Specification.new do |spec|
   spec.extensions              << 'ext/mri/extconf.rb'
   spec.required_ruby_version    = '>= 2.0.0'
 
-  spec.add_runtime_dependency 'bel_parser', '~> 1.0.0'
+  spec.add_runtime_dependency 'bel_parser', '~> 1.1.0'
   spec.add_runtime_dependency 'rdf',        '~> 2.0.0'
   spec.add_runtime_dependency 'rdf-vocab',  '~> 2.0.0'
   spec.add_runtime_dependency 'ffi',        '1.9.8'

data/VERSION

@@ -1 +1 @@
-1.0.1
+1.1.0

data/lib/bel/translator/plugins/jgf/translator.rb

@@ -8,6 +8,7 @@ module BEL::Translator::Plugins
     class JgfTranslator
 
       include ::BEL::Translator
+      include ::BEL::Namespace
 
       def read(data, options = {})
         default_resource_index = options.fetch(:default_resource_index) {
@@ -29,7 +30,7 @@ module BEL::Translator::Plugins
         }
 
         objects.each do |nanopub|
-          unless nanopub.bel_statement.is_a?(::BEL::Nanopub::Statement)
+          unless nanopub.bel_statement.is_a?(BELParser::Expression::Model::Statement)
             nanopub.bel_statement = ::BEL::Nanopub::Nanopub.parse_statement(nanopub)
           end
 
@@ -87,7 +88,7 @@ module BEL::Translator::Plugins
             rel  = 'association' unless rel
 
             bel_statement = ::BEL::Script.parse(
-              "#{source_node} #{rel} #{target_node}\n").select { |obj| obj.is_a? ::BEL::Nanopub::Statement }.first
+              "#{source_node} #{rel} #{target_node}\n").select { |obj| obj.is_a? BELParser::Expression::Model::Statement }.first
           end
         }.compact
 
@@ -98,7 +99,7 @@ module BEL::Translator::Plugins
               ::BEL::Script.parse(
                 "#{id_nodes[id]}\n"
               ).select { |obj|
-                obj.is_a? ::BEL::Nanopub::Statement
+                obj.is_a? BELParser::Expression::Model::Statement
               }.first
             }
           )

metadata

@@ -1,90 +1,90 @@
 --- !ruby/object:Gem::Specification
 name: bel
 version: !ruby/object:Gem::Version
-  version: 1.0.1
+  version: 1.1.0
 platform: ruby
 authors:
 - Anthony Bargnesi
 - Natalie Catlett
 - Nick Bargnesi
 - William Hayes
-autorequire:
+autorequire: 
 bindir: bin
 cert_chain: []
-date: 2016-06-08 00:00:00.000000000 Z
+date: 2017-01-13 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
+  name: bel_parser
   requirement: !ruby/object:Gem::Requirement
     requirements:
     - - "~>"
       - !ruby/object:Gem::Version
-        version: 1.0.0
-  name: bel_parser
-  prerelease: false
+        version: 1.1.0
   type: :runtime
+  prerelease: false
   version_requirements: !ruby/object:Gem::Requirement
     requirements:
     - - "~>"
       - !ruby/object:Gem::Version
-        version: 1.0.0
+        version: 1.1.0
 - !ruby/object:Gem::Dependency
+  name: rdf
   requirement: !ruby/object:Gem::Requirement
     requirements:
     - - "~>"
       - !ruby/object:Gem::Version
         version: 2.0.0
-  name: rdf
-  prerelease: false
   type: :runtime
+  prerelease: false
   version_requirements: !ruby/object:Gem::Requirement
     requirements:
     - - "~>"
       - !ruby/object:Gem::Version
         version: 2.0.0
 - !ruby/object:Gem::Dependency
+  name: rdf-vocab
   requirement: !ruby/object:Gem::Requirement
     requirements:
     - - "~>"
       - !ruby/object:Gem::Version
         version: 2.0.0
-  name: rdf-vocab
-  prerelease: false
   type: :runtime
+  prerelease: false
   version_requirements: !ruby/object:Gem::Requirement
     requirements:
     - - "~>"
       - !ruby/object:Gem::Version
         version: 2.0.0
 - !ruby/object:Gem::Dependency
+  name: ffi
   requirement: !ruby/object:Gem::Requirement
     requirements:
     - - '='
       - !ruby/object:Gem::Version
         version: 1.9.8
-  name: ffi
-  prerelease: false
   type: :runtime
+  prerelease: false
   version_requirements: !ruby/object:Gem::Requirement
     requirements:
     - - '='
       - !ruby/object:Gem::Version
         version: 1.9.8
-description: " The BEL gem allows the reading, writing, and processing of BEL (Biological\
-  \ Expression Language) with a natural DSL. "
+description: " The BEL gem allows the reading, writing, and processing of BEL (Biological
+  Expression Language) with a natural DSL. "
 email:
 - abargnesi@selventa.com
 - ncatlett@selventa.com
 - nbargnesi@selventa.com
 - whayes@selventa.com
 executables:
+- bel_compare.rb
 - bel_summarize.rb
-- bel_upgrade.rb
-- bel_parse.rb
-- bel
 - bel2rdf.rb
-- bel_validate.rb
-- bel_compare.rb
+- bel_parse.rb
 - bel_rdfschema.rb
+- bel_upgrade.rb
+- bel_validate.rb
+- bel
 extensions:
 - ext/mri/extconf.rb
 extra_rdoc_files: []
@@ -249,7 +249,7 @@ homepage: https://github.com/OpenBEL/bel.rb
 licenses:
 - Apache-2.0
 metadata: {}
-post_install_message:
+post_install_message: 
 rdoc_options:
 - "--title"
 - BEL Ruby Documentation
@@ -285,9 +285,9 @@ required_rubygems_version: !ruby/object:Gem::Requirement
     - !ruby/object:Gem::Version
       version: '0'
 requirements: []
-rubyforge_project:
-rubygems_version: 2.6.4
-signing_key:
+rubyforge_project: 
+rubygems_version: 2.6.8
+signing_key: 
 specification_version: 4
 summary: Process BEL with ruby.
 test_files: []