glycobook 0.1.0.alpha.2-java → 0.1.0.alpha.4-java

checksums.yaml

@@ -1,7 +1,7 @@
 ---
 SHA256:
-  metadata.gz: 828ee3477349e9f414d49c1ea653bf544c8a20bd2c5830d1a50cfa7cae6371fc
-  data.tar.gz: abae8d08d45d3b774ba4d924c8eeee4c2054f275546cd5df0d662ff3e212d4d7
+  metadata.gz: 5a1a2da918b38b7e4488ef5f38896f7c60eeaf4f094e3e00780b2ca0ae3b7a76
+  data.tar.gz: 77f6f11730a392df81a65eeed2675f086ba9bd59e369d5e1527e58187df29006
 SHA512:
-  metadata.gz: 6e0f958c5a1581f3472aa747e13968b375c06840dcefd7e400c10986da802cf083656e8ae6a7900f76e64a354724a61bfe48c282b1db71351a92e61aae947e2e
-  data.tar.gz: d9236bca8f6b023cb3da7410bbe85cdd31b9fe93a34f0dda1cf47602678a43eec1aae9febc42c76b4782ccb0b95d76f28fc26c06a85c9207e66dd698fa966fee
+  metadata.gz: c8fc899d3d5bbb9c2261d91b3a4b7d5ef8ed3011d821b6ebcd919598ed3bcc02ee440a2db2c6a0c407ad92cb0e85a154518d271f91f5761cca825afea4289f33
+  data.tar.gz: '03464685a3ddae7c47744cf9212800be935bf614c5ddb1c9a00b08a86533c7f2c562f91bb726b2f423d25c4b265f1cc473c7c8ff5140f7d813bf4239659a0081'

data/jar.yml

@@ -1,14 +1,13 @@
 ---
-eula: false
 list:
   - url: "https://repo1.maven.org/maven2/org/apache/xmlgraphics/batik-all/1.16/batik-all-1.16.jar"
     file: "jar/batik-all.jar"
   - url: "https://raw.githubusercontent.com/glycoinfo/MavenRepository/master/org/eurocarbdb/glycanbuilder/glycanbuilder2/1.23.1/glycanbuilder2-1.23.1.jar"
     file: "jar/glycanbuilder2.jar"
-  - url: "https://gitlab.com/glycoinfo/wurcsframework/-/package_files/73054558/download"
+  - url: "https://gitlab.com/glycoinfo/wurcsframework/-/package_files/87428121/download"
     file: "jar/wurcsframework.jar"
-  - url: "https://gitlab.com/glycoinfo/wurcsframework/-/package_files/73054558/download"
-    file: "jar/wurcsframework-1.2.13.jar"
+  - url: "https://gitlab.com/glycoinfo/wurcsframework/-/package_files/87428121/download"
+    file: "jar/wurcsframework-1.2.14.jar"
   - url: "https://gitlab.com/glycoinfo/wurcsframework/-/package_files/70458150/download"
     file: "jar/wurcsframework-1.0.1.jar"
   - url: "https://repo1.maven.org/maven2/org/slf4j/slf4j-api/2.0.7/slf4j-api-2.0.7.jar"

data/lib/bookinit.rb

@@ -4,8 +4,9 @@ require 'fileutils'
 require 'yaml'
 
 module BookInit
-
+  
   def self.load_settings(file_path)
+  
     downloads = []
 
     if File.exist?(file_path)
@@ -23,15 +24,23 @@ module BookInit
   end
 
   def self.run
+    puts <<-EOT
+
+Would you like to resolve Java dependencies?(No/yes)
+    EOT
+
+  case gets.chomp
+    when "yes", "YES", "y"
+    when "no", "NO", "n"
+      exit 1
+    else
+      exit 1
+  end
 
 
     # YAMLファイルからdownloads情報をロード
     downloads = load_settings(ENV['HOME'] + "/.glycobook/jar.yml")
-    unless downloads["eula"]
-      puts "please open file:~/.glycobook/jar.yml and edit eula" 
-      exit
-    end
-
+  
     require 'open-uri'
 
     folder_path = File.dirname(__FILE__)+"/jar"

data/lib/glycobook/wurcs_frame_work.rb

@@ -10,7 +10,7 @@ class WurcsFrameWork
     validator = WURCSValidator.new
     validator.start(w)
     reports = {}
-    reports["VALIDATOR"] = ["WURCSFramework-1.2.13"]
+    reports["VALIDATOR"] = ["WURCSFramework-1.2.14"]
     reports["WARNING"] = validator.getReport().hasWarning()
     reports["ERROR"] = validator.getReport().hasError()
     reports["UNVERIFIABLE"] = validator.getReport().hasUnverifiable()

data/lib/wurcsverify.rb

@@ -11,7 +11,7 @@ java_import 'org.slf4j.Logger'
 
 class WurcsVerify
   def initialize
-      @wfw_latest_loader = self.create_custom_classloader("jar/wurcsframework-1.2.13.jar")
+      @wfw_latest_loader = self.create_custom_classloader("jar/wurcsframework-1.2.14.jar")
       @wfw_101_loader = self.create_custom_classloader("jar/wurcsframework-1.0.1.jar")
       @validator_latest = java.lang.Class.forName("org.glycoinfo.WURCSFramework.util.validation.WURCSValidator",true,@wfw_latest_loader)
       @validator_101 = java.lang.Class.forName("org.glycoinfo.WURCSFramework.util.validation.WURCSValidator", true, @wfw_101_loader)

metadata

@@ -1,43 +1,29 @@
 --- !ruby/object:Gem::Specification
 name: glycobook
 version: !ruby/object:Gem::Version
-  version: 0.1.0.alpha.2
+  version: 0.1.0.alpha.4
 platform: java
 authors:
 - Akihiro Fujita
 autorequire:
 bindir: bin
 cert_chain: []
-date: 2023-07-31 00:00:00.000000000 Z
+date: 2023-08-02 00:00:00.000000000 Z
 dependencies:
 - !ruby/object:Gem::Dependency
+  name: java
   requirement: !ruby/object:Gem::Requirement
     requirements:
     - - "~>"
       - !ruby/object:Gem::Version
         version: 0.0.2
-  name: java
-  prerelease: false
   type: :runtime
-  version_requirements: !ruby/object:Gem::Requirement
-    requirements:
-    - - "~>"
-      - !ruby/object:Gem::Version
-        version: 0.0.2
-- !ruby/object:Gem::Dependency
-  requirement: !ruby/object:Gem::Requirement
-    requirements:
-    - - "~>"
-      - !ruby/object:Gem::Version
-        version: 0.8.0
-  name: colorize
   prerelease: false
-  type: :runtime
   version_requirements: !ruby/object:Gem::Requirement
     requirements:
     - - "~>"
       - !ruby/object:Gem::Version
-        version: 0.8.0
+        version: 0.0.2
 description: Glycobook is a JRuby library for glycaninformatics
 email:
 - akihirof0005@gmail.com
@@ -54,10 +40,13 @@ files:
 - lib/glycobook/subsumption.rb
 - lib/glycobook/wurcs_frame_work.rb
 - lib/wurcsverify.rb
-homepage: https://github.com/akihirof0005/glycobook/tree/main
+homepage: https://github.com/akihirof0005/glycobook/blob/main/README.md
 licenses:
 - LGPL-3.0
-metadata: {}
+metadata:
+  source_code_uri: https://github.com/akihirof0005/glycobook
+  homepage_uri: https://github.com/akihirof0005/glycobook/blob/main/README.md
+  changelog_uri: https://github.com/akihirof0005/glycobooks
 post_install_message:
 rdoc_options: []
 require_paths:
@@ -73,7 +62,7 @@ required_rubygems_version: !ruby/object:Gem::Requirement
     - !ruby/object:Gem::Version
       version: 1.3.1
 requirements: []
-rubygems_version: 3.3.25
+rubygems_version: 3.4.17
 signing_key:
 specification_version: 4
 summary: Glycobook is a JRuby library for glycaninformatics