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PRIDE-Archive / pride-inspector

PRIDE Inspector is a Java desktop application to visualise and Quality Assessment on Mass Spectrometry data and Proteomics
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mvn install fails with errors #54

Closed wolski closed 8 years ago

wolski commented 8 years ago

just cloned the repo (master commit bf3dd55d6f2dcc8bde0b8c1d2fedb4b64c17a407) and trying to build it. mvn install does not work

PS C:\Users\wolski\prog\pride-inspector> mvn -e install [INFO] Error stacktraces are turned on. [INFO] Scanning for projects... [INFO] [INFO] ------------------------------------------------------------------------ [INFO] Building pride-inspector 2.5.0-SNAPSHOT [INFO] ------------------------------------------------------------------------ [WARNING] The POM for uk.ac.ebi.jmzidml:jmzidentml:jar:1.2.3-SNAPSHOT is missing, no dependency information available [WARNING] The POM for uk.ac.ebi.pride.tools:mzdata-parser:jar:1.2.2-SNAPSHOT is missing, no dependency information available [WARNING] The POM for uk.ac.ebi.pride.jaxb:pride-jaxb:jar:1.0.13-SNAPSHOT is missing, no dependency information available [WARNING] The POM for uk.ac.ebi.pride.utilities:pride-utilities:jar:2.0.5-SNAPSHOT is missing, no dependency information available [WARNING] The POM for uk.ac.ebi.pride.toolsuite:inspector-mzgraph-browser:jar:2.0.2-SNAPSHOT is missing, no dependency information available [WARNING] The POM for uk.ac.ebi.pride.toolsuite:inspector-quality-chart:jar:2.0.3-SNAPSHOT is missing, no dependency information available [WARNING] The POM for uk.ac.ebi.pride.toolsuite:inspector-swing-utils:jar:2.0.2-SNAPSHOT is missing, no dependency information available [WARNING] The POM for uk.ac.ebi.pride.utilities:pride-protein-inference:jar:0.0.5-SNAPSHOT is missing, no dependency information available [WARNING] The POM for com.asperasoft:aspera-faspmanager:jar:2.7.0.42750 is missing, no dependency information available [INFO] ------------------------------------------------------------------------ [INFO] BUILD FAILURE [INFO] ------------------------------------------------------------------------ [INFO] Total time: 0.850s [INFO] Finished at: Wed Nov 18 11:33:53 CET 2015 [INFO] Final Memory: 9M/429M [INFO] ------------------------------------------------------------------------ [ERROR] Failed to execute goal on project pride-inspector: Could not resolve dependencies for project uk.ac.ebi.pride.toolsuite:pride-inspector:jar:2.5.0-SNAPSHOT: The following artifacts could not be resolved: uk.ac.ebi.jmzidml:jmzidentml:jar:1.2.3-SNAPSHOT, uk.ac.ebi.pride.tools:mzdata-parser:jar:1.2.2-SNAPSHOT, uk.a c.ebi.pride.jaxb:pride-jaxb:jar:1.0.13-SNAPSHOT, uk.ac.ebi.pride.toolsuite:inspector-mzgraph-browser:jar:2.0.2-SNAPSHOT, uk.ac.ebi.pride.toolsuite:inspector-quality-chart:jar:2.0.3-SNAPSHOT, uk.ac.ebi.pride.toolsuite:inspector-swing-utils:jar:2.0.2-SNAPSHOT, uk.ac.ebi.pride.utilities:pride-utilities:jar:2.0.5-SNAPSHOT, uk.ac.ebi.pride.utilities:pride-protein-inference:jar:0.0.5-SNAPSHOT, com.asperasoft:aspera-faspmanager:jar:2.7.0.42750: Failure to find uk.ac.ebi.jmzidml:jmzidentml:jar:1.2.3-SNAPSHOT in http://pride-proteome.sourceforge.net/maven2 was cached in the local repository, resolution will not be reattempted until the updat e interval of PRIDE_SourceForge_Maven2_Repository has elapsed or updates are forced -> [Help 1] org.apache.maven.lifecycle.LifecycleExecutionException: Failed to execute goal on project pride-inspector: Could not resolve dependencies for project uk.ac.ebi.pride.toolsuite:pride-inspector:jar:2.5.0-SNAPSHOT: The following artifacts could not be resolved: uk.ac.ebi.jmzidml:jmzidentml:jar:1.2.3-SNAPSHOT, uk.ac.ebi.pr ide.tools:mzdata-parser:jar:1.2.2-SNAPSHOT, uk.ac.ebi.pride.jaxb:pride-jaxb:jar:1.0.13-SNAPSHOT, uk.ac.ebi.pride.toolsuite:inspector-mzgraph-browser:jar:2.0.2-SNAPSHOT, uk.ac.ebi.pride.toolsuite:inspector-quality-chart:jar:2.0.3-SNAPSHOT, uk.ac.ebi.pride.toolsuite:inspector-swing-utils:jar:2.0.2-SNAPSHOT, uk.ac.ebi.pri de.utilities:pride-utilities:jar:2.0.5-SNAPSHOT, uk.ac.ebi.pride.utilities:pride-protein-inference:jar:0.0.5-SNAPSHOT, com.asperasoft:aspera-faspmanager:jar:2.7.0.42750: Failure to find uk.ac.ebi.jmzidml:jmzidentml:jar:1.2.3-SNAPSHOT in http://pride-proteome.sourceforge.net/maven2 was cached in the local repository, re solution will not be reattempted until the update interval of PRIDE_SourceForge_Maven2_Repository has elapsed or updates are forced at org.apache.maven.lifecycle.internal.LifecycleDependencyResolver.getDependencies(LifecycleDependencyResolver.java:210) at org.apache.maven.lifecycle.internal.LifecycleDependencyResolver.resolveProjectDependencies(LifecycleDependencyResolver.java:117) at org.apache.maven.lifecycle.internal.MojoExecutor.ensureDependenciesAreResolved(MojoExecutor.java:258) at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:201) at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:153) at org.apache.maven.lifecycle.internal.MojoExecutor.execute(MojoExecutor.java:145) at org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject(LifecycleModuleBuilder.java:84) at org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject(LifecycleModuleBuilder.java:59) at org.apache.maven.lifecycle.internal.LifecycleStarter.singleThreadedBuild(LifecycleStarter.java:183) at org.apache.maven.lifecycle.internal.LifecycleStarter.execute(LifecycleStarter.java:161) at org.apache.maven.DefaultMaven.doExecute(DefaultMaven.java:320) at org.apache.maven.DefaultMaven.execute(DefaultMaven.java:156) at org.apache.maven.cli.MavenCli.execute(MavenCli.java:537) at org.apache.maven.cli.MavenCli.doMain(MavenCli.java:196) at org.apache.maven.cli.MavenCli.main(MavenCli.java:141) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.lang.reflect.Method.invoke(Method.java:497) at org.codehaus.plexus.classworlds.launcher.Launcher.launchEnhanced(Launcher.java:290) at org.codehaus.plexus.classworlds.launcher.Launcher.launch(Launcher.java:230) at org.codehaus.plexus.classworlds.launcher.Launcher.mainWithExitCode(Launcher.java:409) at org.codehaus.plexus.classworlds.launcher.Launcher.main(Launcher.java:352) Caused by: org.apache.maven.project.DependencyResolutionException: Could not resolve dependencies for project uk.ac.ebi.pride.toolsuite:pride-inspector:jar:2.5.0-SNAPSHOT: The following artifacts could not be resolved: uk.ac.ebi.jmzidml:jmzidentml:jar:1.2.3-SNAPSHOT, uk.ac.ebi.pride.tools:mzdata-parser:jar:1.2.2-SNAPSH OT, uk.ac.ebi.pride.jaxb:pride-jaxb:jar:1.0.13-SNAPSHOT, uk.ac.ebi.pride.toolsuite:inspector-mzgraph-browser:jar:2.0.2-SNAPSHOT, uk.ac.ebi.pride.toolsuite:inspector-quality-chart:jar:2.0.3-SNAPSHOT, uk.ac.ebi.pride.toolsuite:inspector-swing-utils:jar:2.0.2-SNAPSHOT, uk.ac.ebi.pride.utilities:pride-utilities:jar:2.0.5-S NAPSHOT, uk.ac.ebi.pride.utilities:pride-protein-inference:jar:0.0.5-SNAPSHOT, com.asperasoft:aspera-faspmanager:jar:2.7.0.42750: Failure to find uk.ac.ebi.jmzidml:jmzidentml:jar:1.2.3-SNAPSHOT in http://pride-proteome.sourceforge.net/maven2 was cached in the local repository, resolution will not be reattempted until t he update interval of PRIDE_SourceForge_Maven2_Repository has elapsed or updates are forced at org.apache.maven.project.DefaultProjectDependenciesResolver.resolve(DefaultProjectDependenciesResolver.java:189) at org.apache.maven.lifecycle.internal.LifecycleDependencyResolver.getDependencies(LifecycleDependencyResolver.java:185) ... 22 more Caused by: org.sonatype.aether.resolution.DependencyResolutionException: The following artifacts could not be resolved: uk.ac.ebi.jmzidml:jmzidentml:jar:1.2.3-SNAPSHOT, uk.ac.ebi.pride.tools:mzdata-parser:jar:1.2.2-SNAPSHOT, uk.ac.ebi.pride.jaxb:pride-jaxb:jar:1.0.13-SNAPSHOT, uk.ac.ebi.pride.toolsuite:inspector-mzgrap h-browser:jar:2.0.2-SNAPSHOT, uk.ac.ebi.pride.toolsuite:inspector-quality-chart:jar:2.0.3-SNAPSHOT, uk.ac.ebi.pride.toolsuite:inspector-swing-utils:jar:2.0.2-SNAPSHOT, uk.ac.ebi.pride.utilities:pride-utilities:jar:2.0.5-SNAPSHOT, uk.ac.ebi.pride.utilities:pride-protein-inference:jar:0.0.5-SNAPSHOT, com.asperasoft:asper a-faspmanager:jar:2.7.0.42750: Failure to find uk.ac.ebi.jmzidml:jmzidentml:jar:1.2.3-SNAPSHOT in http://pride-proteome.sourceforge.net/maven2 was cached in the local repository, resolution will not be reattempted until the update interval of PRIDE_SourceForge_Maven2_Repository has elapsed or updates are forced at org.sonatype.aether.impl.internal.DefaultRepositorySystem.resolveDependencies(DefaultRepositorySystem.java:375) at org.apache.maven.project.DefaultProjectDependenciesResolver.resolve(DefaultProjectDependenciesResolver.java:183) ... 23 more Caused by: org.sonatype.aether.resolution.ArtifactResolutionException: The following artifacts could not be resolved: uk.ac.ebi.jmzidml:jmzidentml:jar:1.2.3-SNAPSHOT, uk.ac.ebi.pride.tools:mzdata-parser:jar:1.2.2-SNAPSHOT, uk.ac.ebi.pride.jaxb:pride-jaxb:jar:1.0.13-SNAPSHOT, uk.ac.ebi.pride.toolsuite:inspector-mzgraph- browser:jar:2.0.2-SNAPSHOT, uk.ac.ebi.pride.toolsuite:inspector-quality-chart:jar:2.0.3-SNAPSHOT, uk.ac.ebi.pride.toolsuite:inspector-swing-utils:jar:2.0.2-SNAPSHOT, uk.ac.ebi.pride.utilities:pride-utilities:jar:2.0.5-SNAPSHOT, uk.ac.ebi.pride.utilities:pride-protein-inference:jar:0.0.5-SNAPSHOT, com.asperasoft:aspera- faspmanager:jar:2.7.0.42750: Failure to find uk.ac.ebi.jmzidml:jmzidentml:jar:1.2.3-SNAPSHOT in http://pride-proteome.sourceforge.net/maven2 was cached in the local repository, resolution will not be reattempted until the update interval of PRIDE_SourceForge_Maven2_Repository has elapsed or updates are forced at org.sonatype.aether.impl.internal.DefaultArtifactResolver.resolve(DefaultArtifactResolver.java:538) at org.sonatype.aether.impl.internal.DefaultArtifactResolver.resolveArtifacts(DefaultArtifactResolver.java:216) at org.sonatype.aether.impl.internal.DefaultRepositorySystem.resolveDependencies(DefaultRepositorySystem.java:358) ... 24 more Caused by: org.sonatype.aether.transfer.ArtifactNotFoundException: Failure to find uk.ac.ebi.jmzidml:jmzidentml:jar:1.2.3-SNAPSHOT in http://pride-proteome.sourceforge.net/maven2 was cached in the local repository, resolution will not be reattempted until the update interval of PRIDE_SourceForge_Maven2_Repository has e lapsed or updates are forced at org.sonatype.aether.impl.internal.DefaultUpdateCheckManager.newException(DefaultUpdateCheckManager.java:230) at org.sonatype.aether.impl.internal.DefaultUpdateCheckManager.checkArtifact(DefaultUpdateCheckManager.java:204) at org.sonatype.aether.impl.internal.DefaultArtifactResolver.resolve(DefaultArtifactResolver.java:427) ... 26 more [ERROR] [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/DependencyResolutionException

ypriverol commented 8 years ago

@wolski thanks for using inspector, we upload one of the maven dependencies that is not in public repositories https://github.com/PRIDE-Toolsuite/pride-inspector/tree/master/aspera/lib . you can add this maven dependency by downloading it and using this command:

mvn install:install-file -Dfile=<path-to-file> -DgroupId=<group-id> \ -DartifactId=<artifact-id> -Dversion=<version> -Dpackaging=<packaging>

Here some documentation: https://maven.apache.org/guides/mini/guide-3rd-party-jars-local.html