gnparser 0.1.0

checksums.yaml

@@ -0,0 +1,7 @@
+---
+SHA256:
+  metadata.gz: 3de92fedd5756bac2008b9c19d5bae808c06c9c0378cebe8043cd55bd51f92d2
+  data.tar.gz: f7bd1e0560c55c017264db2c31a4c2a24795c665b81a3be734a72f57791d224b
+SHA512:
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data/.byebug_history

@@ -0,0 +1,16 @@
+q
+res.next
+q
+res.next
+res
+q
+res.each {|r| puts r}
+res.next
+p res
+q
+res.next
+res
+c
+q
+puts res.next
+res

data/.rspec

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+--format progress
+--color
+--require spec_helper

data/.rubocop.yml

@@ -0,0 +1,10 @@
+AllCops:
+  TargetRubyVersion: 2.5
+  Exclude:
+    - 'lib/gnparser_pb.rb'
+    - 'lib/gnparser_services_pb.rb'
+Style/StringLiterals:
+  EnforcedStyle: single_quotes
+Metrics/BlockLength:
+  Exclude:
+    - 'spec/**/*'

data/.vscode/settings.json

@@ -0,0 +1,10 @@
+{
+  "spellright.language": [
+    "en_US"
+  ],
+  "spellright.documentTypes": [
+    "markdown",
+    "latex",
+    "plaintext"
+  ]
+}

data/CHANGELOG.md

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+# Changelog
+
+## Unreleased
+
+
+## [v0.1.0]
+
+- Add [#1]: connect to gRPC server of `gnparser` (Go version).
+
+## Footnotes
+
+This document follows [changelog guidelines]
+
+[v0.1.0]: https://gitlab.com/gnames/gnparser_rb/tree/v0.1.0
+
+[#1]: https://gitlab.com/gnames/gnparser_rb/issues/1
+
+
+[changelog guidelines]: https://github.com/olivierlacan/keep-a-changelog

data/Gemfile

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+# frozen_string_literal: true
+
+source 'https://rubygems.org'
+
+gemspec

data/Gemfile.lock

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+PATH
+  remote: .
+  specs:
+    gnparser (0.1.0)
+
+GEM
+  remote: https://rubygems.org/
+  specs:
+    ast (2.4.0)
+    byebug (10.0.2)
+    diff-lcs (1.3)
+    google-protobuf (3.6.1-x86_64-linux)
+    googleapis-common-protos-types (1.0.2)
+      google-protobuf (~> 3.0)
+    grpc (1.16.0-x86_64-linux)
+      google-protobuf (~> 3.1)
+      googleapis-common-protos-types (~> 1.0.0)
+    grpc-tools (1.16.0)
+    jaro_winkler (1.5.1)
+    parallel (1.12.1)
+    parser (2.5.1.2)
+      ast (~> 2.4.0)
+    powerpack (0.1.2)
+    rainbow (3.0.0)
+    rake (12.3.1)
+    rspec (3.8.0)
+      rspec-core (~> 3.8.0)
+      rspec-expectations (~> 3.8.0)
+      rspec-mocks (~> 3.8.0)
+    rspec-core (3.8.0)
+      rspec-support (~> 3.8.0)
+    rspec-expectations (3.8.2)
+      diff-lcs (>= 1.2.0, < 2.0)
+      rspec-support (~> 3.8.0)
+    rspec-mocks (3.8.0)
+      diff-lcs (>= 1.2.0, < 2.0)
+      rspec-support (~> 3.8.0)
+    rspec-support (3.8.0)
+    rubocop (0.60.0)
+      jaro_winkler (~> 1.5.1)
+      parallel (~> 1.10)
+      parser (>= 2.5, != 2.5.1.1)
+      powerpack (~> 0.1)
+      rainbow (>= 2.2.2, < 4.0)
+      ruby-progressbar (~> 1.7)
+      unicode-display_width (~> 1.4.0)
+    ruby-progressbar (1.10.0)
+    unicode-display_width (1.4.0)
+
+PLATFORMS
+  ruby
+
+DEPENDENCIES
+  bundler (~> 1.16)
+  byebug (~> 10.0)
+  gnparser!
+  grpc (~> 1.15)
+  grpc-tools (~> 1.15)
+  rake (~> 12.3)
+  rspec (~> 3.8)
+  rubocop (~> 0.59)
+
+BUNDLED WITH
+   1.16.4

data/LICENSE

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+MIT License
+
+Copyright (c) 2018 Global Names
+
+Permission is hereby granted, free of charge, to any person obtaining a copy
+of this software and associated documentation files (the "Software"), to deal
+in the Software without restriction, including without limitation the rights
+to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
+copies of the Software, and to permit persons to whom the Software is
+furnished to do so, subject to the following conditions:
+
+The above copyright notice and this permission notice shall be included in all
+copies or substantial portions of the Software.
+
+THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
+SOFTWARE.

data/README.md

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+# gnparser_rb
+
+gRPC client to [gnparser] project
+
+## Overview
+
+``gnparser_rb`` is a Ruby gem that allows to parse scientific names extremely
+fast using remote method calls to [gnparser].
+
+[gnparser]: https://gitlab.com/gogna/gnparser

data/Rakefile

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+# frozen_string_literal: true
+
+require 'rubygems'
+require 'bundler'
+require 'bundler/gem_tasks'
+
+begin
+  Bundler.setup(:default, :development)
+rescue Bundler::BundlerError => e
+  warn e.message
+  warn 'Run `bundle install` to install missing gems'
+  exit e.status_code
+end
+require 'rake'
+
+require 'rspec/core'
+require 'rspec/core/rake_task'
+RSpec::Core::RakeTask.new(:spec) do |spec|
+  spec.pattern = FileList['spec/**/*_spec.rb']
+end
+
+RSpec::Core::RakeTask.new(:rcov) do |spec|
+  spec.pattern = 'spec/**/*_spec.rb'
+  spec.rcov = true
+end
+
+task :grpc do
+  cmd = 'grpc_tools_ruby_protoc ' \
+    '-I $GOPATH/src/gitlab.com/gogna/gnparser/grpc ' \
+        '--ruby_out=lib --grpc_out=lib ' \
+        '$GOPATH/src/gitlab.com/gogna/gnparser/grpc/gnparser.proto'
+  puts cmd
+  `#{cmd}`
+end
+
+require 'rubocop/rake_task'
+RuboCop::RakeTask.new
+
+task default: %i[rubocop grpc spec]

data/gnparser_rb.gemspec

@@ -0,0 +1,31 @@
+# frozen_string_literal: true
+
+$LOAD_PATH.push File.expand_path('lib', __dir__)
+
+require 'gnparser_rb/version'
+
+Gem::Specification.new do |gem|
+  gem.name = 'gnparser'
+  gem.homepage = 'http://gitlab.com/gnames/gnparser_rb'
+  gem.version = GNparser::VERSION
+  gem.authors = ['Dmitry Mozzherin']
+  gem.license = 'MIT'
+  gem.summary = 'Scientific name parser'
+  gem.description = %(The gem parses scientific names into semantic elements
+                     using gRPC of gnparser app written in Go.)
+  gem.email = 'dmozzherin@gmail.com'
+
+  gem.files         = `git ls-files -z`
+                      .split("\x0")
+                      .reject { |f| f.match(%r{^(test|spec|features)/}) }
+
+  gem.require_paths = ['lib']
+  gem.required_ruby_version = '~> 2.5'
+  gem.add_development_dependency 'bundler', '~> 1.16'
+  gem.add_development_dependency 'byebug', '~> 10.0'
+  gem.add_development_dependency 'grpc', '~> 1.15'
+  gem.add_development_dependency 'grpc-tools', '~> 1.15'
+  gem.add_development_dependency 'rake', '~> 12.3'
+  gem.add_development_dependency 'rspec', '~> 3.8'
+  gem.add_development_dependency 'rubocop', '~> 0.59'
+end

data/lib/gnparser_pb.rb

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+# Generated by the protocol buffer compiler.  DO NOT EDIT!
+# source: gnparser.proto
+
+require 'google/protobuf'
+
+Google::Protobuf::DescriptorPool.generated_pool.build do
+  add_message "grpc.Version" do
+    optional :value, :string, 1
+    optional :build_time, :string, 2
+  end
+  add_message "grpc.Void" do
+  end
+  add_message "grpc.Input" do
+    oneof :content do
+      optional :format, :enum, 1, "grpc.Format"
+      optional :name, :string, 2
+    end
+  end
+  add_message "grpc.Name" do
+    optional :parsed, :bool, 1
+    optional :quality, :int32, 2
+    optional :verbatim, :string, 3
+    optional :normalized, :string, 4
+    optional :canonical_simple, :string, 5
+    optional :canonical_full, :string, 6
+    optional :genus, :message, 7, "grpc.Entry"
+    optional :subgenus, :message, 8, "grpc.Entry"
+    optional :species, :message, 9, "grpc.Entry"
+    optional :subspicies, :message, 10, "grpc.Entry"
+    optional :variety, :message, 11, "grpc.Entry"
+    optional :form, :message, 12, "grpc.Entry"
+  end
+  add_message "grpc.Entry" do
+    optional :value, :string, 1
+    optional :norm_value, :string, 2
+    optional :position, :message, 3, "grpc.Pos"
+    optional :authors, :string, 4
+    optional :year, :string, 5
+    optional :score, :string, 6
+  end
+  add_message "grpc.Pos" do
+    optional :start, :int32, 1
+    optional :end, :int32, 2
+  end
+  add_message "grpc.Output" do
+    optional :value, :string, 1
+    optional :error, :string, 2
+  end
+  add_enum "grpc.Format" do
+    value :Compact, 0
+    value :Pretty, 1
+    value :Simple, 2
+    value :Debug, 3
+  end
+end
+
+module Grpc
+  Version = Google::Protobuf::DescriptorPool.generated_pool.lookup("grpc.Version").msgclass
+  Void = Google::Protobuf::DescriptorPool.generated_pool.lookup("grpc.Void").msgclass
+  Input = Google::Protobuf::DescriptorPool.generated_pool.lookup("grpc.Input").msgclass
+  Name = Google::Protobuf::DescriptorPool.generated_pool.lookup("grpc.Name").msgclass
+  Entry = Google::Protobuf::DescriptorPool.generated_pool.lookup("grpc.Entry").msgclass
+  Pos = Google::Protobuf::DescriptorPool.generated_pool.lookup("grpc.Pos").msgclass
+  Output = Google::Protobuf::DescriptorPool.generated_pool.lookup("grpc.Output").msgclass
+  Format = Google::Protobuf::DescriptorPool.generated_pool.lookup("grpc.Format").enummodule
+end

data/lib/gnparser_rb/client.rb

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+# frozen_string_literal: true
+
+module GNparser
+  FORMATS = {
+    compact: Grpc::Format::Compact,
+    pretty: Grpc::Format::Pretty,
+    simple: Grpc::Format::Simple,
+    debug: Grpc::Format::Debug
+  }.freeze
+  # Gnfinder::Client connects to gnfinder server
+  class Client
+    def initialize(host = '0.0.0.0', port = '8778')
+      @stub = Grpc::GNparser::Stub.new("#{host}:#{port}",
+                                       :this_channel_is_insecure)
+    end
+
+    def version
+      @stub.ver(Grpc::Void.new)
+    end
+
+    def parse(name, format = :compact)
+      enum = InputEnum.new([name], format)
+      @stub.parse(enum.each_item).next
+    end
+
+    def parse_ary(ary, format = :compact)
+      enum = InputEnum.new(ary, format)
+      @stub.parse(enum.each_item)
+    end
+
+    def parse_file(path, format = :compact)
+      f = File.open(path)
+      enum = InputEnum.new(f, format)
+      @stub.parse(enum.each_item)
+    end
+
+  end
+
+  # InputEnum yields names one after another
+  class InputEnum
+    def initialize(iter, format = nil)
+      @iter = iter
+      @format = format
+    end
+
+    def each_item
+      return enum_for(:each_item) unless block_given?
+
+      yield input_format if @format
+
+      @iter.each do |l|
+        input = Grpc::Input.new
+        input.name = l.strip
+        yield input
+      end
+    end
+
+    private
+
+    def input_format
+      frm = find_format
+      @format = nil
+      input = Grpc::Input.new
+      input.format = frm
+      input
+    end
+
+    def find_format
+      format = @format.to_sym
+      if FORMATS.key?(format)
+        FORMATS[format]
+      else
+        FORMATS[:compact]
+      end
+    end
+  end
+end

data/lib/gnparser_rb/version.rb

@@ -0,0 +1,10 @@
+# frozen_string_literal: true
+
+# GNparser is a namespace module for gnparser_rb gem.
+module GNparser
+  VERSION = '0.1.0'
+
+  def self.version
+    VERSION
+  end
+end

data/lib/gnparser_rb.rb

@@ -0,0 +1,11 @@
+# frozen_string_literal: true
+
+require 'json'
+require_relative 'gnparser_rb/version'
+require_relative 'gnparser_pb.rb'
+require_relative 'gnparser_services_pb.rb'
+require_relative 'gnparser_rb/client'
+
+# GNparser is a namespace module for gnparser_rb gem.
+module GNparser
+end

data/lib/gnparser_services_pb.rb

@@ -0,0 +1,23 @@
+# Generated by the protocol buffer compiler.  DO NOT EDIT!
+# Source: gnparser.proto for package 'grpc'
+
+require 'grpc'
+require 'gnparser_pb'
+
+module Grpc
+  module GNparser
+    class Service
+
+      include GRPC::GenericService
+
+      self.marshal_class_method = :encode
+      self.unmarshal_class_method = :decode
+      self.service_name = 'grpc.GNparser'
+
+      rpc :Ver, Void, Version
+      rpc :Parse, stream(Input), stream(Output)
+    end
+
+    Stub = Service.rpc_stub_class
+  end
+end

metadata

@@ -0,0 +1,159 @@
+--- !ruby/object:Gem::Specification
+name: gnparser
+version: !ruby/object:Gem::Version
+  version: 0.1.0
+platform: ruby
+authors:
+- Dmitry Mozzherin
+autorequire: 
+bindir: bin
+cert_chain: []
+date: 2019-01-15 00:00:00.000000000 Z
+dependencies:
+- !ruby/object:Gem::Dependency
+  name: bundler
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '1.16'
+  type: :development
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '1.16'
+- !ruby/object:Gem::Dependency
+  name: byebug
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '10.0'
+  type: :development
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '10.0'
+- !ruby/object:Gem::Dependency
+  name: grpc
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '1.15'
+  type: :development
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '1.15'
+- !ruby/object:Gem::Dependency
+  name: grpc-tools
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '1.15'
+  type: :development
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '1.15'
+- !ruby/object:Gem::Dependency
+  name: rake
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '12.3'
+  type: :development
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '12.3'
+- !ruby/object:Gem::Dependency
+  name: rspec
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '3.8'
+  type: :development
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '3.8'
+- !ruby/object:Gem::Dependency
+  name: rubocop
+  requirement: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '0.59'
+  type: :development
+  prerelease: false
+  version_requirements: !ruby/object:Gem::Requirement
+    requirements:
+    - - "~>"
+      - !ruby/object:Gem::Version
+        version: '0.59'
+description: |-
+  The gem parses scientific names into semantic elements
+                       using gRPC of gnparser app written in Go.
+email: dmozzherin@gmail.com
+executables: []
+extensions: []
+extra_rdoc_files: []
+files:
+- ".byebug_history"
+- ".rspec"
+- ".rubocop.yml"
+- ".vscode/settings.json"
+- CHANGELOG.md
+- Gemfile
+- Gemfile.lock
+- LICENSE
+- README.md
+- Rakefile
+- gnparser_rb.gemspec
+- lib/gnparser_pb.rb
+- lib/gnparser_rb.rb
+- lib/gnparser_rb/client.rb
+- lib/gnparser_rb/version.rb
+- lib/gnparser_services_pb.rb
+homepage: http://gitlab.com/gnames/gnparser_rb
+licenses:
+- MIT
+metadata: {}
+post_install_message: 
+rdoc_options: []
+require_paths:
+- lib
+required_ruby_version: !ruby/object:Gem::Requirement
+  requirements:
+  - - "~>"
+    - !ruby/object:Gem::Version
+      version: '2.5'
+required_rubygems_version: !ruby/object:Gem::Requirement
+  requirements:
+  - - ">="
+    - !ruby/object:Gem::Version
+      version: '0'
+requirements: []
+rubyforge_project: 
+rubygems_version: 2.7.6
+signing_key: 
+specification_version: 4
+summary: Scientific name parser
+test_files: []