glycobook 0.1.0.alpha.27-java → 0.1.0.alpha.28-java

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Files changed (4) hide show
  1. checksums.yaml +4 -4
  2. data/jar.yml +18 -0
  3. data/lib/wurcsverify.rb +56 -17
  4. metadata +2 -2
checksums.yaml CHANGED
@@ -1,7 +1,7 @@
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  SHA256:
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- metadata.gz: 6272e65de448b555e008b0cf21a3669e8f32a224f655767be5e1a1f1eb3ceeec
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- data.tar.gz: b2592c9d2276fe74935a3b7344540af16c97c08137d54129d0e340da0b17fcc3
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+ metadata.gz: 0ab0fb823f5ea6b6b7bab5498ec7dacba8eb712eee803cfd42812b53e78c6e3b
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+ data.tar.gz: 3b914b777654781379056d9a35c94278d2810c90db16553495632c4da6f21d8e
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  SHA512:
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- metadata.gz: e35c8a97d6e542603d803810c03f67a7357fda07f14d8d62fc3d34fc0d0728b30431d39110db5e2dd68383e8f4c756be64821f79bf3160c1e27fd634a9b2d38d
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- data.tar.gz: a9bc9acdb39e2c8081e214339c66559f5c8cc14f35e0e3dd542df97342b8a4318e94acc67062d290c19158b59a183efef4b7abbc1357c1cf6155fe8a0831b410
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+ metadata.gz: f6f8cd1f6966ff7b4410787203641aa756b5f31a63355329679530ed40f597e8a319dbf37f52d1f1442110e7e0938c437f576f7a552d971bc9fb50c1be97ce17
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+ data.tar.gz: 2438c0d81e3e965937e4f48b3cd8d047f0dbdbeb052f83eaaa05edc5abda3bb07a36b10e69eba3c796fd0e3c6128c73e36755a00db74d663c7f407727be74b35
data/jar.yml CHANGED
@@ -24,6 +24,24 @@ libraries:
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  url: "https://gitlab.com/glycoinfo/wurcsframework/-/package_files/87428121/download"
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  file: "jar/wurcsframework-1.2.14.jar"
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+ - name: wurcsframework-1.2.15
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+ info: "https://gitlab.com/glycoinfo/wurcsframework"
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+ version: 1.2.15
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+ url: "https://gitlab.com/glycoinfo/wurcsframework/-/package_files/110116881/download"
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+ file: "jar/wurcsframework-1.2.15.jar"
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+
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+ - name: wurcsframework-1.2.16
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+ info: "https://gitlab.com/glycoinfo/wurcsframework"
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+ version: 1.2.16
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+ url: "https://gitlab.com/glycoinfo/wurcsframework/-/package_files/119628420/download"
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+ file: "jar/wurcsframework-1.2.16.jar"
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+
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+ - name: wurcsframework-1.3.0
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+ info: "https://gitlab.com/glycoinfo/wurcsframework"
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+ version: 1.3.0
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+ url: "https://gitlab.com/glycoinfo/wurcsframework/-/package_files/125589992/download"
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+ file: "jar/wurcsframework-1.3.0.jar"
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+
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  - name: wurcsframework-1.3.1
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  info: "https://gitlab.com/glycoinfo/wurcsframework"
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  version: 1.3.1
data/lib/wurcsverify.rb CHANGED
@@ -10,11 +10,24 @@ java_import 'java.net.URLClassLoader'
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  java_import 'org.slf4j.Logger'
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  class WurcsVerify
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+
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+ @@gtc_version = "1.2.14"
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+ @@v1215 = "1.2.15"
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+ @@v1216 = "1.2.16"
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+ @@v130 = "1.3.0"
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+ @@v131 = "1.3.1"
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+
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  def initialize
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- @wfw_glytoucan_loader = self.create_custom_classloader("jar/wurcsframework-1.2.14.jar")
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- @wfw_131_loader = self.create_custom_classloader("jar/wurcsframework-1.3.1.jar")
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+ @wfw_glytoucan_loader = self.create_custom_classloader("jar/wurcsframework-" + @@gtc_version + ".jar")
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+ @wfw_v131_loader = self.create_custom_classloader("jar/wurcsframework-" + @@v131 + ".jar")
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+ @wfw_v130_loader = self.create_custom_classloader("jar/wurcsframework-" + @@v130 + ".jar")
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+ @wfw_v1216_loader = self.create_custom_classloader("jar/wurcsframework-" + @@v1216 + ".jar")
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+ @wfw_v1215_loader = self.create_custom_classloader("jar/wurcsframework-" + @@v1215 + ".jar")
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  @validator_glytoucan = java.lang.Class.forName("org.glycoinfo.WURCSFramework.util.validation.WURCSValidator",true,@wfw_glytoucan_loader)
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- @validator_131 = java.lang.Class.forName("org.glycoinfo.WURCSFramework.util.validation.WURCSValidator", true, @wfw_131_loader)
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+ @validator_v131 = java.lang.Class.forName("org.glycoinfo.WURCSFramework.util.validation.WURCSValidator", true, @wfw_v131_loader)
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+ @validator_v130 = java.lang.Class.forName("org.glycoinfo.WURCSFramework.util.validation.WURCSValidator", true, @wfw_v130_loader)
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+ @validator_v1216 = java.lang.Class.forName("org.glycoinfo.WURCSFramework.util.validation.WURCSValidator", true, @wfw_v1216_loader)
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+ @validator_v1215 = java.lang.Class.forName("org.glycoinfo.WURCSFramework.util.validation.WURCSValidator", true, @wfw_v1215_loader)
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  end
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  def create_custom_classloader(jar_path)
@@ -23,34 +36,60 @@ class WurcsVerify
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  URLClassLoader.newInstance([url].to_java(URL), java.lang.Thread.currentThread.getContextClassLoader)
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  end
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- def validatorVerify(w)
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+ def validatorVerify(w,style)
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  v_glytoucan = @validator_glytoucan.new_instance
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  v_glytoucan.start(w)
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- v_131 = @validator_131.new_instance
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+ v_131 = @validator_v131.new_instance
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  v_131.start(w)
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45
 
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- ret = {"1.2.14" => self.dovalidator(v_glytoucan),
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- "1.3.1" => self.dovalidator131(v_131) }
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+ v_130 = @validator_v130.new_instance
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+ v_130.start(w)
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+
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+ v_1216 = @validator_v1216.new_instance
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+ v_1216.start(w)
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+
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+ v_1215 = @validator_v1215.new_instance
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+ v_1215.start(w)
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+
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+ if (style == "v3")
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+ ret = {@@gtc_version => self.dovalidatorv3(v_glytoucan,@@gtc_version),
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+ @@v131 => self.dovalidatorv3(v_131, @@v131),
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+ @@v130 => self.dovalidatorv3(v_130, @@v130),
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+ @@v1215 => self.dovalidatorv3(v_1215, @@v1215),
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+ @@v1216 => self.dovalidatorv3(v_1216, @@v1216)
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+ }
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+ elsif (style == "wfw")
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+ ret = {@@gtc_version => self.dovalidator(v_glytoucan,@@gtc_version),
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+ @@v131 => self.dovalidator(v_131, @@v131),
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+ @@v130 => self.dovalidator(v_130, @@v130),
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+ @@v1215 => self.dovalidator(v_1215, @@v1215),
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+ @@v1216 => self.dovalidator(v_1216, @@v1216)
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+ }
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+ else
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+ pp "strange second paramerters"
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+ end
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  return ret
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  end
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74
 
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- def dovalidator(validator)
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- reports = { "VALIDATOR" => ["WURCSFramework-1.2.14"],
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+ def dovalidatorv3(validator,version)
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+ if validator.getReport().respond_to?(:isStandardized)
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+ flag = validator.getReport().isStandardized()
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+ else
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+ flag = "undef"
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+ end
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+ reports = { "VALIDATOR" => ["WURCSFramework-" + version],
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  "WARNING" => validator.getReport().hasWarning(),
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+
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+ "FLAG" => flag,
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  "ERROR" => validator.getReport().hasError(),
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  "UNVERIFIABLE" => validator.getReport().hasUnverifiable() }
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  return {"message" => reports,
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  "StandardWURCS" => validator.getReport().standard_string(),
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  "RESULTS" => validator.getReport().getResults() }
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  end
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- def dovalidator131(validator)
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- reports = { "VALIDATOR" => ["WURCSFramework-1.3.1"],
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- "WARNING" => validator.getReport().hasWarning(),
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- "ERROR" => validator.getReport().hasError(),
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- "UNVERIFIABLE" => false }
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- return {"message" => reports,
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- "StandardWURCS" => validator.getReport().standard_string(),
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- "RESULTS" => validator.getReport().getResults() }
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+ def dovalidator(validator,version)
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+ return {"VALIDATOR" => ["WURCSFramework-" + version],
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+ "Report" => validator.getReport().getResults()}
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  end
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  end
metadata CHANGED
@@ -1,14 +1,14 @@
1
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  --- !ruby/object:Gem::Specification
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  name: glycobook
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  version: !ruby/object:Gem::Version
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- version: 0.1.0.alpha.27
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+ version: 0.1.0.alpha.28
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  platform: java
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  authors:
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  - Akihiro Fujita
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  autorequire:
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  bindir: bin
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  cert_chain: []
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- date: 2024-05-13 00:00:00.000000000 Z
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+ date: 2024-05-21 00:00:00.000000000 Z
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  dependencies:
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  - !ruby/object:Gem::Dependency
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  requirement: !ruby/object:Gem::Requirement