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  1. IGB
  2. IGBF-3310

Investigate com.google.guava error

        Details

          Description

          Situation: Unable to resolve com.google.guava. Guava was updated in the pom to Bundle-Version: 31.1.0.jre. However, Guava is unable to be resolved. The package com.google.common.util.concurrent.internal is in every error line that also mentions Guava. The com.google.common.util.concurrent.internal package is set as an Import-Package in the Guava manifest.

          14:49:00.226 [main] ERROR com.affymetrix.main.OSGiHandler - Unable to resolve com.google.guava [35](R 35.0): missing requirement [com.google.guava [35](R 35.0)] osgi.wiring.package; (&(osgi.wiring.package=com.google.common.util.concurrent.internal)(version>=1.0.0)(!(version>=2.0.0))) Unresolved requirements: [[com.google.guava [35](R 35.0)] osgi.wiring.package; (&(osgi.wiring.package=com.google.common.util.concurrent.internal)(version>=1.0.0)(!(version>=2.0.0)))]

          Task: Determine why this error is appearing, if it can be fixed then update this ticket as needed.

            Attachments

              Issue Links

              relates to

              Task - A task that needs to be done. IGBF-3349 Remove guava (google) upper bound version requirement for ProtAnnot

              • Blocker - Blocks development and/or testing work, production could not run.
              • Closed

              Task - A task that needs to be done. IGBF-3275 Investigate the OSGI wiring issue

              • Major - Major loss of function.
              • Closed

                Activity

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                nfreese Nowlan Freese added a comment -

                guava manifest:

                Manifest-Version: 1.0
Automatic-Module-Name: com.google.common
Bnd-LastModified: 1646083102234
Build-Jdk: 11.0.12
Built-By: cpovirk
Bundle-Description: Guava is a suite of core and expanded libraries that
  include    utility classes, Google's collections, I/O classes, and    
 much more.
Bundle-DocURL: https://github.com/google/guava/
Bundle-License: http://www.apache.org/licenses/LICENSE-2.0.txt
Bundle-ManifestVersion: 2
Bundle-Name: Guava: Google Core Libraries for Java
Bundle-SymbolicName: com.google.guava
Bundle-Version: 31.1.0.jre
Created-By: Apache Maven Bundle Plugin
Export-Package: com.google.common.annotations;version="31.1.0",com.googl
 e.common.base;version="31.1.0";uses:="javax.annotation",com.google.comm
 on.cache;version="31.1.0";uses:="com.google.common.base,com.google.comm
 on.collect,com.google.common.util.concurrent,javax.annotation",com.goog
 le.common.collect;version="31.1.0";uses:="com.google.common.base,javax.
 annotation",com.google.common.escape;version="31.1.0";uses:="com.google
 .common.base,javax.annotation",com.google.common.eventbus;version="31.1
 .0",com.google.common.graph;version="31.1.0";uses:="com.google.common.c
 ollect,javax.annotation",com.google.common.hash;version="31.1.0";uses:=
 "com.google.common.base,javax.annotation",com.google.common.html;versio
 n="31.1.0";uses:="com.google.common.escape",com.google.common.io;versio
 n="31.1.0";uses:="com.google.common.base,com.google.common.collect,com.
 google.common.graph,com.google.common.hash,javax.annotation",com.google
 .common.math;version="31.1.0";uses:="javax.annotation",com.google.commo
 n.net;version="31.1.0";uses:="com.google.common.base,com.google.common.
 collect,com.google.common.escape,javax.annotation",com.google.common.pr
 imitives;version="31.1.0";uses:="com.google.common.base,javax.annotatio
 n",com.google.common.reflect;version="31.1.0";uses:="com.google.common.
 collect,com.google.common.io,javax.annotation",com.google.common.util.c
 oncurrent;version="31.1.0";uses:="com.google.common.base,com.google.com
 mon.collect,com.google.common.util.concurrent.internal,javax.annotation
 ",com.google.common.xml;version="31.1.0";uses:="com.google.common.escap
 e"
Import-Package: com.google.common.util.concurrent.internal;version="[1.0
 ,2)",javax.annotation;resolution:=optional;version="[3.0,4)",javax.cryp
 to;resolution:=optional,javax.crypto.spec;resolution:=optional,sun.misc
 ;resolution:=optional
Require-Capability: osgi.ee;filter:="(&(osgi.ee=JavaSE)(version=1.8))"
Tool: Bnd-2.3.0.201405100607
                Show
                nfreese Nowlan Freese added a comment - guava manifest: Manifest-Version: 1.0 Automatic-Module-Name: com.google.common Bnd-LastModified: 1646083102234 Build-Jdk: 11.0.12 Built-By: cpovirk Bundle-Description: Guava is a suite of core and expanded libraries that include utility classes, Google's collections, I/O classes, and much more. Bundle-DocURL: https: //github.com/google/guava/ Bundle-License: http: //www.apache.org/licenses/LICENSE-2.0.txt Bundle-ManifestVersion: 2 Bundle-Name: Guava: Google Core Libraries for Java Bundle-SymbolicName: com.google.guava Bundle-Version: 31.1.0.jre Created-By: Apache Maven Bundle Plugin Export-Package: com.google.common.annotations;version= "31.1.0" ,com.googl e.common.base;version= "31.1.0" ;uses:= "javax.annotation" ,com.google.comm on.cache;version= "31.1.0" ;uses:="com.google.common.base,com.google.comm on.collect,com.google.common.util.concurrent,javax.annotation",com.goog le.common.collect;version= "31.1.0" ;uses:="com.google.common.base,javax. annotation ",com.google.common.escape;version=" 31.1.0 ";uses:=" com.google .common.base,javax.annotation ",com.google.common.eventbus;version=" 31.1 .0 ",com.google.common.graph;version=" 31.1.0 ";uses:=" com.google.common.c ollect,javax.annotation ",com.google.common.hash;version=" 31.1.0";uses:= "com.google.common.base,javax.annotation" ,com.google.common.html;versio n= "31.1.0" ;uses:= "com.google.common.escape" ,com.google.common.io;versio n= "31.1.0" ;uses:="com.google.common.base,com.google.common.collect,com. google.common.graph,com.google.common.hash,javax.annotation",com.google .common.math;version= "31.1.0" ;uses:= "javax.annotation" ,com.google.commo n.net;version= "31.1.0" ;uses:="com.google.common.base,com.google.common. collect,com.google.common.escape,javax.annotation",com.google.common.pr imitives;version= "31.1.0" ;uses:="com.google.common.base,javax.annotatio n ",com.google.common.reflect;version=" 31.1.0 ";uses:=" com.google.common. collect,com.google.common.io,javax.annotation",com.google.common.util.c oncurrent;version= "31.1.0" ;uses:="com.google.common.base,com.google.com mon.collect,com.google.common.util.concurrent.internal,javax.annotation ",com.google.common.xml;version=" 31.1.0 ";uses:=" com.google.common.escap e" Import-Package: com.google.common.util.concurrent.internal;version="[1.0 ,2) ",javax.annotation;resolution:=optional;version=" [3.0,4)",javax.cryp to;resolution:=optional,javax.crypto.spec;resolution:=optional,sun.misc ;resolution:=optional Require-Capability: osgi.ee;filter:= "(&(osgi.ee=JavaSE)(version=1.8))" Tool: Bnd-2.3.0.201405100607
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                nfreese Nowlan Freese added a comment - - edited

                It looks like there are additional requirements for using guava versions >= 27.01:

                Backing guava down to version 27.0-jre removes the guava errors, but this version does have reported vulnerabilities.

                Show
                nfreese Nowlan Freese added a comment - - edited It looks like there are additional requirements for using guava versions >= 27.01: Guava documentation Discussion about additional requirements for guava here and here OpenCast updating guava Backing guava down to version 27.0-jre removes the guava errors, but this version does have reported vulnerabilities.
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                nfreese Nowlan Freese added a comment -

                In order to update the guava version to 31.1-jre we needed to also add the guava dependency failureaccess. Adding the failureaccess artifact to the project pom and the main pom worked correctly for the IGBF-3275 branch on Java 11.

                I also tested updating guava on the IGB master branch. IGB built and ran correctly.

                Show
                nfreese Nowlan Freese added a comment - In order to update the guava version to 31.1-jre we needed to also add the guava dependency failureaccess . Adding the failureaccess artifact to the project pom and the main pom worked correctly for the IGBF-3275 branch on Java 11. Java 11 commit: https://bitbucket.org/nfreese/nowlanfork-igb/commits/083548ee69a98176dfde7090eee186f2890b3b09 To test, pull latest changes from my IGBF-3275 branch, build IGB (mvn clean install) and then run the jar, there should be no errors related to com.google.guava. I also tested updating guava on the IGB master branch. IGB built and ran correctly. Java 8 commit: https://bitbucket.org/nfreese/nowlanfork-igb/commits/f2c177b645efbdfaa040901ca775238b4b8c57c3 To test, download my IGBF-3310 installer , install and run IGB, and look for IGB to run correctly with no errors in the log.
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                ann.loraine Ann Loraine added a comment -

                Downloaded and installed 3310 installer as advised. Opened latest human genome and observed no errors in log.

                Moving to "ready for PR"

                Show
                ann.loraine Ann Loraine added a comment - Downloaded and installed 3310 installer as advised. Opened latest human genome and observed no errors in log. Moving to "ready for PR"
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                nfreese Nowlan Freese added a comment -

                Pull request: https://bitbucket.org/lorainelab/integrated-genome-browser/pull-requests/925

                Show
                nfreese Nowlan Freese added a comment - Pull request: https://bitbucket.org/lorainelab/integrated-genome-browser/pull-requests/925
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                ann.loraine Ann Loraine added a comment -

                Master branch installers are built and deployed to the downloads section of the team repository.
                Ready for testing.

                Show
                ann.loraine Ann Loraine added a comment - Master branch installers are built and deployed to the downloads section of the team repository. Ready for testing.

                  People

                  • Assignee:
                    nfreese Nowlan Freese
                    Reporter:
                    nfreese Nowlan Freese
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                    Dates

                    • Created:
                      Updated:
                      Resolved: