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Installation Issue: " Source option 5 is no longer supported. Use 6 or later." #26

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cphillips3 opened this issue Jun 3, 2019 · 1 comment
Open

Installation Issue: " Source option 5 is no longer supported. Use 6 or later." #26

cphillips3 opened this issue Jun 3, 2019 · 1 comment

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@cphillips3
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Hello,

On running ./install.sh, I get the following error message:

Downloading additional resources
Not in a git repository.
Starting mobster build...
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$1
WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations
WARNING: All illegal access operations will be denied in a future release
[INFO] Scanning for projects...
[INFO]
[INFO] ------------------------------------------------------------------------
[INFO] Building MobileInsertions 0.2.4
[INFO] ------------------------------------------------------------------------
[INFO]
[INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ MobileInsertions ---
[INFO] ------------------------------------------------------------------------
[INFO] BUILD SUCCESS
[INFO] ------------------------------------------------------------------------
[INFO] Total time: 0.598 s
[INFO] Finished at: 2019-06-03T08:56:17-04:00
[INFO] Final Memory: 6M/24M
[INFO] ------------------------------------------------------------------------
WARNING: An illegal reflective access operation has occurred
WARNING: Illegal reflective access by com.google.inject.internal.cglib.core.$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$1
WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations
WARNING: All illegal access operations will be denied in a future release
[INFO] Scanning for projects...
[INFO]
[INFO] ------------------------------------------------------------------------
[INFO] Building Maven Stub Project (No POM) 1
[INFO] ------------------------------------------------------------------------
[INFO]
[INFO] --- maven-install-plugin:2.5.2:install-file (default-cli) @ standalone-pom ---
[INFO] Installing /home/cphillips/mobster-0.2.4.1/lib/jar/java-yield-1.0-SLIMJAR.jar to /home/cphillips/.m2/repository/java-yield/java-yield/1.0-SLIMJAR/java-yield-1.0-SLIMJAR.jar
[INFO] ------------------------------------------------------------------------
[INFO] BUILD SUCCESS
[INFO] ------------------------------------------------------------------------
[INFO] Total time: 0.738 s
[INFO] Finished at: 2019-06-03T08:56:19-04:00
[INFO] Final Memory: 7M/30M
[INFO] ------------------------------------------------------------------------
WARNING: An illegal reflective access operation has occurred
WARNING: Illegal reflective access by com.google.inject.internal.cglib.core.$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$1
WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations
WARNING: All illegal access operations will be denied in a future release
[INFO] Scanning for projects...
[INFO]
[INFO] ------------------------------------------------------------------------
[INFO] Building Maven Stub Project (No POM) 1
[INFO] ------------------------------------------------------------------------
[INFO]
[INFO] --- maven-install-plugin:2.5.2:install-file (default-cli) @ standalone-pom ---
[INFO] pom.xml not found in picard-1.113.jar
[INFO] Installing /home/cphillips/mobster-0.2.4.1/lib/jar/picard-1.113.jar to /home/cphillips/.m2/repository/net/sf/picard/picard/1.113/picard-1.113.jar
[INFO] ------------------------------------------------------------------------
[INFO] BUILD SUCCESS
[INFO] ------------------------------------------------------------------------
[INFO] Total time: 0.519 s
[INFO] Finished at: 2019-06-03T08:56:21-04:00
[INFO] Final Memory: 7M/27M
[INFO] ------------------------------------------------------------------------
WARNING: An illegal reflective access operation has occurred
WARNING: Illegal reflective access by com.google.inject.internal.cglib.core.$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$1
WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations
WARNING: All illegal access operations will be denied in a future release
[INFO] Scanning for projects...
[INFO]
[INFO] ------------------------------------------------------------------------
[INFO] Building Maven Stub Project (No POM) 1
[INFO] ------------------------------------------------------------------------
[INFO]
[INFO] --- maven-install-plugin:2.5.2:install-file (default-cli) @ standalone-pom ---
[INFO] pom.xml not found in samtools-1.113.jar
[INFO] Installing /home/cphillips/mobster-0.2.4.1/lib/jar/samtools-1.113.jar to /home/cphillips/.m2/repository/net/sf/samtools/samtools/1.113/samtools-1.113.jar
[INFO] ------------------------------------------------------------------------
[INFO] BUILD SUCCESS
[INFO] ------------------------------------------------------------------------
[INFO] Total time: 0.483 s
[INFO] Finished at: 2019-06-03T08:56:24-04:00
[INFO] Final Memory: 7M/30M
[INFO] ------------------------------------------------------------------------
WARNING: An illegal reflective access operation has occurred
WARNING: Illegal reflective access by com.google.inject.internal.cglib.core.$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] ------------------------------------------------------------------------
[INFO] Building MobileInsertions 0.2.4
[INFO] ------------------------------------------------------------------------
[INFO]
[INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ MobileInsertions ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] Copying 1 resource
[INFO]
[INFO] --- maven-compiler-plugin:3.2:compile (default-compile) @ MobileInsertions ---
Downloading: https://repo.maven.apache.org/maven2/org/codehaus/plexus/plexus-compiler-api/2.4/plexus-compiler-api-2.4.pom
Downloaded: https://repo.maven.apache.org/maven2/org/codehaus/plexus/plexus-compiler-api/2.4/plexus-compiler-api-2.4.pom (865 B at 1.1 KB/sec)
Downloading: https://repo.maven.apache.org/maven2/org/codehaus/plexus/plexus-compiler/2.4/plexus-compiler-2.4.pom
Downloaded: https://repo.maven.apache.org/maven2/org/codehaus/plexus/plexus-compiler/2.4/plexus-compiler-2.4.pom (6 KB at 112.4 KB/sec)
Downloading: https://repo.maven.apache.org/maven2/org/codehaus/plexus/plexus-utils/3.0.10/plexus-utils-3.0.10.pom
Downloaded: https://repo.maven.apache.org/maven2/org/codehaus/plexus/plexus-utils/3.0.10/plexus-utils-3.0.10.pom (4 KB at 78.7 KB/sec)
Downloading: https://repo.maven.apache.org/maven2/org/codehaus/plexus/plexus/3.3/plexus-3.3.pom
Downloaded: https://repo.maven.apache.org/maven2/org/codehaus/plexus/plexus/3.3/plexus-3.3.pom (20 KB at 347.0 KB/sec)
Downloading: https://repo.maven.apache.org/maven2/org/codehaus/plexus/plexus-compiler-manager/2.4/plexus-compiler-manager-2.4.pom
Downloaded: https://repo.maven.apache.org/maven2/org/codehaus/plexus/plexus-compiler-manager/2.4/plexus-compiler-manager-2.4.pom (690 B at 18.2 KB/sec)
Downloading: https://repo.maven.apache.org/maven2/org/codehaus/plexus/plexus-compiler-javac/2.4/plexus-compiler-javac-2.4.pom
Downloaded: https://repo.maven.apache.org/maven2/org/codehaus/plexus/plexus-compiler-javac/2.4/plexus-compiler-javac-2.4.pom (769 B at 20.3 KB/sec)
Downloading: https://repo.maven.apache.org/maven2/org/codehaus/plexus/plexus-compilers/2.4/plexus-compilers-2.4.pom
Downloaded: https://repo.maven.apache.org/maven2/org/codehaus/plexus/plexus-compilers/2.4/plexus-compilers-2.4.pom (2 KB at 35.1 KB/sec)
Downloading: https://repo.maven.apache.org/maven2/org/codehaus/plexus/plexus-compiler-api/2.4/plexus-compiler-api-2.4.jar
Downloading: https://repo.maven.apache.org/maven2/org/codehaus/plexus/plexus-compiler-manager/2.4/plexus-compiler-manager-2.4.jar
Downloading: https://repo.maven.apache.org/maven2/org/codehaus/plexus/plexus-compiler-javac/2.4/plexus-compiler-javac-2.4.jar
Downloaded: https://repo.maven.apache.org/maven2/org/codehaus/plexus/plexus-compiler-api/2.4/plexus-compiler-api-2.4.jar (25 KB at 485.5 KB/sec)
Downloaded: https://repo.maven.apache.org/maven2/org/codehaus/plexus/plexus-compiler-manager/2.4/plexus-compiler-manager-2.4.jar (5 KB at 49.5 KB/sec)
Downloaded: https://repo.maven.apache.org/maven2/org/codehaus/plexus/plexus-compiler-javac/2.4/plexus-compiler-javac-2.4.jar (19 KB at 179.7 KB/sec)
[INFO] Changes detected - recompiling the module!
[INFO] Compiling 66 source files to /home/cphillips/mobster-0.2.4.1/target/classes
[INFO] -------------------------------------------------------------
[ERROR] COMPILATION ERROR :
[INFO] -------------------------------------------------------------
[ERROR] Source option 5 is no longer supported. Use 6 or later.
[ERROR] Target option 1.5 is no longer supported. Use 1.6 or later.
[INFO] 2 errors
[INFO] -------------------------------------------------------------
[INFO] ------------------------------------------------------------------------
[INFO] BUILD FAILURE
[INFO] ------------------------------------------------------------------------
[INFO] Total time: 4.249 s
[INFO] Finished at: 2019-06-03T08:56:29-04:00
[INFO] Final Memory: 13M/47M
[INFO] ------------------------------------------------------------------------
[ERROR] Failed to execute goal org.apache.maven.plugins:maven-compiler-plugin:3.2:compile (default-compile) on project MobileInsertions: Compilation failure: Compilation failure:
[ERROR] Source option 5 is no longer supported. Use 6 or later.
[ERROR] Target option 1.5 is no longer supported. Use 1.6 or later.
[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
fatal: Not a git repository (or any of the parent directories): .git
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] ------------------------------------------------------------------------
[INFO] Building MobileInsertions 0.2.4
[INFO] ------------------------------------------------------------------------
[INFO]
[INFO] --- maven-resources-plugin:2.6:resources (default-resources) @ MobileInsertions ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] Copying 1 resource
[INFO]
[INFO] --- maven-compiler-plugin:3.2:compile (default-compile) @ MobileInsertions ---
[INFO] Changes detected - recompiling the module!
[INFO] Compiling 66 source files to /home/cphillips/mobster-0.2.4.1/target/classes
[INFO] -------------------------------------------------------------
[ERROR] COMPILATION ERROR :
[INFO] -------------------------------------------------------------
[ERROR] Source option 5 is no longer supported. Use 6 or later.
[ERROR] Target option 1.5 is no longer supported. Use 1.6 or later.
[INFO] 2 errors
[INFO] -------------------------------------------------------------
[INFO] ------------------------------------------------------------------------
[INFO] BUILD FAILURE
[INFO] ------------------------------------------------------------------------
[INFO] Total time: 1.234 s
[INFO] Finished at: 2019-06-03T08:56:32-04:00
[INFO] Final Memory: 10M/40M
[INFO] ------------------------------------------------------------------------
[ERROR] Failed to execute goal org.apache.maven.plugins:maven-compiler-plugin:3.2:compile (default-compile) on project MobileInsertions: Compilation failure: Compilation failure:
[ERROR] Source option 5 is no longer supported. Use 6 or later.
[ERROR] Target option 1.5 is no longer supported. Use 1.6 or later.
[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

This seems to be relatively common issue with maven (see jflex-de/jflex#400), and the suggested fix is to change the source and target options in the appropriate pom file.

The issue is I can't seem to find the right location in mobster's pom file to change this. Any ideas on how to fix this?

Thank you!
Charly
@jyhehir
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jyhehir commented Jun 6, 2019 via email

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@jyhehir @cphillips3