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Problem compiling the plugin #1

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fanavarro opened this issue Apr 27, 2022 · 0 comments
Open

Problem compiling the plugin #1

fanavarro opened this issue Apr 27, 2022 · 0 comments

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@fanavarro
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Hi, first of all, thanks for sharing this plugin, I think it is very useful for integrating shapes in protege ontology editor.
I am trying to follow the instructions from the readme file but, when I try to generate the jar, I get the following error from maven (it seems that it cant find javafx stuff):

[INFO] Scanning for projects...
[INFO] 
[INFO] ------------< edu.stanford.protege:protege.plugin.examples >------------
[INFO] Building Protege Plugin Examples 2.0.0-SNAPSHOT
[INFO] -------------------------------[ bundle ]-------------------------------
[INFO] 
[INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ protege.plugin.examples ---
[INFO] Deleting /home/fabad/Proyectos_java/protegeShEx/target
[INFO] 
[INFO] --- maven-resources-plugin:3.2.0:resources (default-resources) @ protege.plugin.examples ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] Using 'UTF-8' encoding to copy filtered properties files.
[INFO] Copying 3 resources
[INFO] 
[INFO] --- maven-compiler-plugin:3.3:compile (default-compile) @ protege.plugin.examples ---
[INFO] Changes detected - recompiling the module!
[INFO] Compiling 4 source files to /home/fabad/Proyectos_java/protegeShEx/target/classes
[INFO] -------------------------------------------------------------
[ERROR] COMPILATION ERROR : 
[INFO] -------------------------------------------------------------
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[17,26] package javafx.application does not exist
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[18,26] package javafx.embed.swing does not exist
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[19,20] package javafx.scene does not exist
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[20,27] package javafx.scene.layout does not exist
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[21,24] package javafx.scene.web does not exist
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[22,24] package javafx.scene.web does not exist
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[28,24] cannot find symbol
  symbol:   class WebView
  location: class edu.stanford.bmir.protege.examples.view.YASHE
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[29,24] cannot find symbol
  symbol:   class JFXPanel
  location: class edu.stanford.bmir.protege.examples.view.YASHE
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[31,24] cannot find symbol
  symbol:   class WebEngine
  location: class edu.stanford.bmir.protege.examples.view.YASHE
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[60,29] cannot find symbol
  symbol:   class JFXPanel
  location: class edu.stanford.bmir.protege.examples.view.YASHE
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[66,17] cannot find symbol
  symbol:   class Scene
  location: class edu.stanford.bmir.protege.examples.view.YASHE
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[36,31] cannot find symbol
  symbol:   class JFXPanel
  location: class edu.stanford.bmir.protege.examples.view.YASHE
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[52,17] cannot find symbol
  symbol:   variable Platform
  location: class edu.stanford.bmir.protege.examples.view.YASHE
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[62,17] cannot find symbol
  symbol:   class Scene
  location: class edu.stanford.bmir.protege.examples.view.YASHE
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[68,17] cannot find symbol
  symbol:   class StackPane
  location: class edu.stanford.bmir.protege.examples.view.YASHE
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[68,39] cannot find symbol
  symbol:   class StackPane
  location: class edu.stanford.bmir.protege.examples.view.YASHE
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[70,17] cannot find symbol
  symbol:   class Scene
  location: class edu.stanford.bmir.protege.examples.view.YASHE
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[70,35] cannot find symbol
  symbol:   class Scene
  location: class edu.stanford.bmir.protege.examples.view.YASHE
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[71,31] cannot find symbol
  symbol:   class WebView
  location: class edu.stanford.bmir.protege.examples.view.YASHE
[INFO] 19 errors 
[INFO] -------------------------------------------------------------
[INFO] ------------------------------------------------------------------------
[INFO] BUILD FAILURE
[INFO] ------------------------------------------------------------------------
[INFO] Total time:  1.678 s
[INFO] Finished at: 2022-04-27T15:43:14+02:00
[INFO] ------------------------------------------------------------------------
[ERROR] Failed to execute goal org.apache.maven.plugins:maven-compiler-plugin:3.3:compile (default-compile) on project protege.plugin.examples: Compilation failure: Compilation failure: 
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[17,26] package javafx.application does not exist
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[18,26] package javafx.embed.swing does not exist
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[19,20] package javafx.scene does not exist
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[20,27] package javafx.scene.layout does not exist
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[21,24] package javafx.scene.web does not exist
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[22,24] package javafx.scene.web does not exist
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[28,24] cannot find symbol
[ERROR]   symbol:   class WebView
[ERROR]   location: class edu.stanford.bmir.protege.examples.view.YASHE
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[29,24] cannot find symbol
[ERROR]   symbol:   class JFXPanel
[ERROR]   location: class edu.stanford.bmir.protege.examples.view.YASHE
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[31,24] cannot find symbol
[ERROR]   symbol:   class WebEngine
[ERROR]   location: class edu.stanford.bmir.protege.examples.view.YASHE
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[60,29] cannot find symbol
[ERROR]   symbol:   class JFXPanel
[ERROR]   location: class edu.stanford.bmir.protege.examples.view.YASHE
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[66,17] cannot find symbol
[ERROR]   symbol:   class Scene
[ERROR]   location: class edu.stanford.bmir.protege.examples.view.YASHE
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[36,31] cannot find symbol
[ERROR]   symbol:   class JFXPanel
[ERROR]   location: class edu.stanford.bmir.protege.examples.view.YASHE
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[52,17] cannot find symbol
[ERROR]   symbol:   variable Platform
[ERROR]   location: class edu.stanford.bmir.protege.examples.view.YASHE
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[62,17] cannot find symbol
[ERROR]   symbol:   class Scene
[ERROR]   location: class edu.stanford.bmir.protege.examples.view.YASHE
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[68,17] cannot find symbol
[ERROR]   symbol:   class StackPane
[ERROR]   location: class edu.stanford.bmir.protege.examples.view.YASHE
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[68,39] cannot find symbol
[ERROR]   symbol:   class StackPane
[ERROR]   location: class edu.stanford.bmir.protege.examples.view.YASHE
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[70,17] cannot find symbol
[ERROR]   symbol:   class Scene
[ERROR]   location: class edu.stanford.bmir.protege.examples.view.YASHE
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[70,35] cannot find symbol
[ERROR]   symbol:   class Scene
[ERROR]   location: class edu.stanford.bmir.protege.examples.view.YASHE
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[71,31] cannot find symbol
[ERROR]   symbol:   class WebView
[ERROR]   location: class edu.stanford.bmir.protege.examples.view.YASHE
[ERROR] -> [Help 1]
[ERROR] 
[ERROR] To see the full stack trace of the errors, re-run Maven with the -e switch.
[ERROR] Re-run Maven using the -X switch to enable full debug logging.
[ERROR] 
[ERROR] For more information about the errors and possible solutions, please read the following articles:
[ERROR] [Help 1] http://cwiki.apache.org/confluence/display/MAVEN/MojoFailureException

I am using maven with java version 1.8.0_312 (openjdk).
I have tried to replace the javafx dependence by the following ones in the pom file:

		<dependency>
			<groupId>org.openjfx</groupId>
			<artifactId>javafx-controls</artifactId>
			<version>11</version>
		</dependency>
		<dependency>
			<groupId>org.openjfx</groupId>
			<artifactId>javafx-web</artifactId>
			<version>11</version>
		</dependency>
		<dependency>
			<groupId>org.openjfx</groupId>
			<artifactId>javafx-fxml</artifactId>
			<version>11</version>
		</dependency>
		<dependency>
			<groupId>org.openjfx</groupId>
			<artifactId>javafx-swing</artifactId>
			<version>11</version>
		</dependency>

But the, I get the following maven error (seems to be that I have to use java 11):

[INFO] Scanning for projects...
[INFO] 
[INFO] ------------< edu.stanford.protege:protege.plugin.examples >------------
[INFO] Building Protege Plugin Examples 2.0.0-SNAPSHOT
[INFO] -------------------------------[ bundle ]-------------------------------
[INFO] 
[INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ protege.plugin.examples ---
[INFO] Deleting /home/fabad/Proyectos_java/protegeShEx/target
[INFO] 
[INFO] --- maven-resources-plugin:3.2.0:resources (default-resources) @ protege.plugin.examples ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] Using 'UTF-8' encoding to copy filtered properties files.
[INFO] Copying 3 resources
[INFO] 
[INFO] --- maven-compiler-plugin:3.3:compile (default-compile) @ protege.plugin.examples ---
[INFO] Changes detected - recompiling the module!
[INFO] Compiling 4 source files to /home/fabad/Proyectos_java/protegeShEx/target/classes
[INFO] -------------------------------------------------------------
[ERROR] COMPILATION ERROR : 
[INFO] -------------------------------------------------------------
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[17,26] cannot access javafx.application.Platform
  bad class file: /home/fabad/.m2/repository/org/openjfx/javafx-graphics/11/javafx-graphics-11-linux.jar(javafx/application/Platform.class)
    class file has wrong version 54.0, should be 52.0
    Please remove or make sure it appears in the correct subdirectory of the classpath.
[INFO] 1 error
[INFO] -------------------------------------------------------------
[INFO] ------------------------------------------------------------------------
[INFO] BUILD FAILURE
[INFO] ------------------------------------------------------------------------
[INFO] Total time:  1.539 s
[INFO] Finished at: 2022-04-27T15:54:04+02:00
[INFO] ------------------------------------------------------------------------
[ERROR] Failed to execute goal org.apache.maven.plugins:maven-compiler-plugin:3.3:compile (default-compile) on project protege.plugin.examples: Compilation failure
[ERROR] /home/fabad/Proyectos_java/protegeShEx/src/main/java/edu/stanford/bmir/protege/examples/view/YASHE.java:[17,26] cannot access javafx.application.Platform
[ERROR]   bad class file: /home/fabad/.m2/repository/org/openjfx/javafx-graphics/11/javafx-graphics-11-linux.jar(javafx/application/Platform.class)
[ERROR]     class file has wrong version 54.0, should be 52.0
[ERROR]     Please remove or make sure it appears in the correct subdirectory of the classpath.
[ERROR] 
[ERROR] -> [Help 1]
[ERROR] 
[ERROR] To see the full stack trace of the errors, re-run Maven with the -e switch.
[ERROR] Re-run Maven using the -X switch to enable full debug logging.
[ERROR] 
[ERROR] For more information about the errors and possible solutions, please read the following articles:
[ERROR] [Help 1] http://cwiki.apache.org/confluence/display/MAVEN/MojoFailureException

After this, I changed to oracle java 11, but then I get the following error:

WARNING: An illegal reflective access operation has occurred
WARNING: Illegal reflective access by com.google.inject.internal.cglib.core.$ReflectUtils$1 (file:/usr/share/maven/lib/guice.jar) to method java.lang.ClassLoader.defineClass(java.lang.String,byte[],int,int,java.security.ProtectionDomain)
WARNING: Please consider reporting this to the maintainers of com.google.inject.internal.cglib.core.$ReflectUtils$1
WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations
WARNING: All illegal access operations will be denied in a future release
[INFO] Scanning for projects...
[INFO] 
[INFO] ------------< edu.stanford.protege:protege.plugin.examples >------------
[INFO] Building Protege Plugin Examples 2.0.0-SNAPSHOT
[INFO] -------------------------------[ bundle ]-------------------------------
[INFO] 
[INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ protege.plugin.examples ---
[INFO] Deleting /home/fabad/Proyectos_java/protegeShEx/target
[INFO] 
[INFO] --- maven-resources-plugin:3.2.0:resources (default-resources) @ protege.plugin.examples ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] Using 'UTF-8' encoding to copy filtered properties files.
[INFO] Copying 3 resources
[INFO] 
[INFO] --- maven-compiler-plugin:3.3:compile (default-compile) @ protege.plugin.examples ---
[INFO] Changes detected - recompiling the module!
[INFO] Compiling 4 source files to /home/fabad/Proyectos_java/protegeShEx/target/classes
[INFO] 
[INFO] --- maven-resources-plugin:3.2.0:resources (default-resources) @ protege.plugin.examples ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] Using 'UTF-8' encoding to copy filtered properties files.
[INFO] Copying 3 resources
[INFO] 
[INFO] --- maven-compiler-plugin:3.3:compile (default-compile) @ protege.plugin.examples ---
[INFO] Changes detected - recompiling the module!
[INFO] Compiling 4 source files to /home/fabad/Proyectos_java/protegeShEx/target/classes
[INFO] 
[INFO] --- maven-resources-plugin:3.2.0:testResources (default-testResources) @ protege.plugin.examples ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] Using 'UTF-8' encoding to copy filtered properties files.
[INFO] skip non existing resourceDirectory /home/fabad/Proyectos_java/protegeShEx/src/test/resources
[INFO] 
[INFO] --- maven-compiler-plugin:3.3:testCompile (default-testCompile) @ protege.plugin.examples ---
[INFO] No sources to compile
[INFO] 
[INFO] --- maven-surefire-plugin:3.0.0-M6:test (default-test) @ protege.plugin.examples ---
[INFO] No tests to run.
[INFO] 
[INFO] --- maven-bundle-plugin:3.0.0:bundle (default-bundle) @ protege.plugin.examples ---
[WARNING] Bundle edu.stanford.protege:protege.plugin.examples:bundle:2.0.0-SNAPSHOT : Bundle-Activator org.protege.editor.owl.ProtegeOWL is being imported into the bundle rather than being contained inside it. This is usually a bundle packaging error
[ERROR] Bundle edu.stanford.protege:protege.plugin.examples:bundle:2.0.0-SNAPSHOT : Input file does not exist: /src/main/java/edu/stanford/bmir/protege/examples/view/index.html
[ERROR] Bundle edu.stanford.protege:protege.plugin.examples:bundle:2.0.0-SNAPSHOT : Input file does not exist: /src/main/java/edu/stanford/bmir/protege/examples/view/src/main.js
[ERROR] Bundle edu.stanford.protege:protege.plugin.examples:bundle:2.0.0-SNAPSHOT : Input file does not exist: /src/main/java/edu/stanford/bmir/protege/examples/view/css/style.css
[ERROR] Bundle edu.stanford.protege:protege.plugin.examples:bundle:2.0.0-SNAPSHOT : Input file does not exist: /src/main/java/edu/stanford/bmir/protege/examples/view/lib/yashe.bundled.min.js
[ERROR] Bundle edu.stanford.protege:protege.plugin.examples:bundle:2.0.0-SNAPSHOT : Input file does not exist: /src/main/java/edu/stanford/bmir/protege/examples/view/lib/yate.bundled.min.js
[ERROR] Bundle edu.stanford.protege:protege.plugin.examples:bundle:2.0.0-SNAPSHOT : Input file does not exist: /src/main/java/edu/stanford/bmir/protege/examples/view/lib/yasme.bundled.min.js
[ERROR] Bundle edu.stanford.protege:protege.plugin.examples:bundle:2.0.0-SNAPSHOT : Input file does not exist: /src/main/java/edu/stanford/bmir/protege/examples/view/lib/yashe.min.css
[ERROR] Bundle edu.stanford.protege:protege.plugin.examples:bundle:2.0.0-SNAPSHOT : Input file does not exist: /src/main/java/edu/stanford/bmir/protege/examples/view/lib/yate.min.css
[ERROR] Bundle edu.stanford.protege:protege.plugin.examples:bundle:2.0.0-SNAPSHOT : Input file does not exist: /src/main/java/edu/stanford/bmir/protege/examples/view/lib/yasme.min.css
[ERROR] Error(s) found in bundle configuration
[INFO] ------------------------------------------------------------------------
[INFO] BUILD FAILURE
[INFO] ------------------------------------------------------------------------
[INFO] Total time:  3.136 s
[INFO] Finished at: 2022-04-27T16:02:37+02:00
[INFO] ------------------------------------------------------------------------
[ERROR] Failed to execute goal org.apache.felix:maven-bundle-plugin:3.0.0:bundle (default-bundle) on project protege.plugin.examples: Error(s) found in bundle configuration -> [Help 1]
[ERROR] 
[ERROR] To see the full stack trace of the errors, re-run Maven with the -e switch.
[ERROR] Re-run Maven using the -X switch to enable full debug logging.
[ERROR] 
[ERROR] For more information about the errors and possible solutions, please read the following articles:
[ERROR] [Help 1] http://cwiki.apache.org/confluence/display/MAVEN/MojoExecutionException

I dont know what to do at this point. I have checked that I have the files that maven tells that do not exist. Any clue about this? Additionally I would suggest to provide the resulting jar as a release so that users do not have to compile by themselves.
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@fanavarro