[package - 122i386-quarterly][biology/cytoscape] Failed for cytoscape-3.6.1 in build
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Date: Thu, 10 Jun 2021 01:09:38 UTC
You are receiving this mail as a port that you maintain
is failing to build on the FreeBSD package build server.
Please investigate the failure and submit a PR to fix
build.
Maintainer: yuri@FreeBSD.org
Log URL: http://beefy4.nyi.freebsd.org/data/122i386-quarterly/df576c37a07c/logs/cytoscape-3.6.1.log
Build URL: http://beefy4.nyi.freebsd.org/build.html?mastername=122i386-quarterly&build=df576c37a07c
Log:
=>> Building biology/cytoscape
build started at Thu Jun 10 01:08:28 UTC 2021
port directory: /usr/ports/biology/cytoscape
package name: cytoscape-3.6.1
building for: FreeBSD 122i386-quarterly-job-04 12.2-RELEASE-p8 FreeBSD 12.2-RELEASE-p8 i386
maintained by: yuri@FreeBSD.org
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yuri@FreeBSD.org
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=======================<phase: check-sanity >============================
===> License LGPL21 accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===> cytoscape-3.6.1 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.16.3.txz
[122i386-quarterly-job-04] Installing pkg-1.16.3...
[122i386-quarterly-job-04] Extracting pkg-1.16.3: .......... done
===> cytoscape-3.6.1 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of cytoscape-3.6.1
===========================================================================
=======================<phase: fetch-depends >============================
===========================================================================
=======================<phase: fetch >============================
===> License LGPL21 accepted by the user
===> Fetching all distfiles required by cytoscape-3.6.1 for building
===========================================================================
=======================<phase: checksum >============================
===> License LGPL21 accepted by the user
===> Fetching all distfiles required by cytoscape-3.6.1 for building
=> SHA256 Checksum OK for FreeBSD-cytoscape-3.6.1-maven-repository.tar.gz.
=> SHA256 Checksum OK for cytoscape-cytoscape-3.6.1_GH0.tar.gz.
=> SHA256 Checksum OK for cytoscape-cytoscape-parent-3.6.1_GH0.tar.gz.
=> SHA256 Checksum OK for cytoscape-cytoscape-api-3.6.1_GH0.tar.gz.
=> SHA256 Checksum OK for cytoscape-cytoscape-impl-3.6.1_GH0.tar.gz.
=> SHA256 Checksum OK for cytoscape-cytoscape-support-3.6.1_GH0.tar.gz.
=> SHA256 Checksum OK for cytoscape-cytoscape-gui-distribution-3.6.1_GH0.tar.gz.
=> SHA256 Checksum OK for cytoscape-cytoscape-app-template-3.6.1_GH0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract >============================
===> License LGPL21 accepted by the user
===> Fetching all distfiles required by cytoscape-3.6.1 for building
===> Extracting for cytoscape-3.6.1
=> SHA256 Checksum OK for FreeBSD-cytoscape-3.6.1-maven-repository.tar.gz.
=> SHA256 Checksum OK for cytoscape-cytoscape-3.6.1_GH0.tar.gz.
=> SHA256 Checksum OK for cytoscape-cytoscape-parent-3.6.1_GH0.tar.gz.
=> SHA256 Checksum OK for cytoscape-cytoscape-api-3.6.1_GH0.tar.gz.
=> SHA256 Checksum OK for cytoscape-cytoscape-impl-3.6.1_GH0.tar.gz.
=> SHA256 Checksum OK for cytoscape-cytoscape-support-3.6.1_GH0.tar.gz.
=> SHA256 Checksum OK for cytoscape-cytoscape-gui-distribution-3.6.1_GH0.tar.gz.
=> SHA256 Checksum OK for cytoscape-cytoscape-app-template-3.6.1_GH0.tar.gz.
===========================================================================
=======================<phase: patch-depends >============================
===========================================================================
=======================<phase: patch >============================
===> Patching for cytoscape-3.6.1
===========================================================================
=======================<phase: build-depends >============================
===> cytoscape-3.6.1 depends on executable: mvn - not found
===> Installing existing package /packages/All/maven-3.8.1.txz
<snip>
[INFO] Writing OBR metadata
[INFO]
[INFO] ------------------------------------------------------------------------
[INFO] Skipping Cytoscape GUI-Distribution Integration Test (integration-test)
[INFO] This project has been banned from the build due to previous failures.
[INFO] ------------------------------------------------------------------------
[INFO]
[INFO] ----------------< org.cytoscape.distribution:features >-----------------
[INFO] Building Cytoscape Feature Repository 3.6.1 [27/117]
[INFO] --------------------------------[ pom ]---------------------------------
[INFO]
[INFO] --- maven-resources-plugin:2.6:copy-resources (copy-resources) @ features ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] Copying 1 resource
[INFO]
[INFO] >>> maven-source-plugin:2.4:jar (attach-sources) > generate-sources @ features >>>
[INFO]
[INFO] --- maven-resources-plugin:2.6:copy-resources (copy-resources) @ features ---
[INFO] Using 'UTF-8' encoding to copy filtered resources.
[INFO] Copying 1 resource
[INFO]
[INFO] <<< maven-source-plugin:2.4:jar (attach-sources) < generate-sources @ features <<<
[INFO]
[INFO]
[INFO] --- maven-source-plugin:2.4:jar (attach-sources) @ features ---
[INFO]
[INFO] --- build-helper-maven-plugin:1.7:attach-artifact (attach-artifacts) @ features ---
[INFO]
[INFO] --- maven-install-plugin:2.4:install (default-install) @ features ---
[INFO] Installing /wrkdirs/usr/ports/biology/cytoscape/work/cytoscape-3.6.1/gui-distribution/features/pom.xml to /wrkdirs/usr/ports/biology/cytoscape/work/.m2/repository/org/cytoscape/distribution/features/3.6.1/features-3.6.1.pom
[INFO] Installing /wrkdirs/usr/ports/biology/cytoscape/work/cytoscape-3.6.1/gui-distribution/features/target/features.xml to /wrkdirs/usr/ports/biology/cytoscape/work/.m2/repository/org/cytoscape/distribution/features/3.6.1/features-3.6.1-features.xml
[INFO]
[INFO] ----------------< org.cytoscape.distribution:cytoscape >----------------
[INFO] Building Cytoscape Karaf Distribution 3.6.1 [28/117]
[INFO] --------------------------------[ pom ]---------------------------------
[WARNING] The POM for jline:jline:jar:2.12 is missing, no dependency information available
[WARNING] The POM for org.slf4j:slf4j-api:jar:1.6.6 is missing, no dependency information available
[WARNING] The POM for org.eclipse:org.eclipse.osgi:jar:3.8.2.v20130124-134944 is missing, no dependency information available
[WARNING] The POM for org.jledit:core:jar:0.2.1 is missing, no dependency information available
[INFO]
[INFO] ------------------------------------------------------------------------
[INFO] Skipping Distribution
[INFO] This project has been banned from the build due to previous failures.
[INFO] ------------------------------------------------------------------------
[INFO]
[INFO] -----------------------< org.cytoscape:project >------------------------
[INFO] Building Cytoscape Project POM 3.6.1 [29/117]
[INFO] --------------------------------[ pom ]---------------------------------
[INFO]
[INFO] --- maven-install-plugin:2.4:install (default-install) @ project ---
[INFO] Installing /wrkdirs/usr/ports/biology/cytoscape/work/cytoscape-3.6.1/pom.xml to /wrkdirs/usr/ports/biology/cytoscape/work/.m2/repository/org/cytoscape/project/3.6.1/project-3.6.1.pom
[INFO] ------------------------------------------------------------------------
[INFO] Reactor Summary for Cytoscape Project POM 3.6.1:
[INFO]
[INFO] Basic Cytoscape POM Configuration .................. SUCCESS [ 0.235 s]
[INFO] Cytoscape API Parent Project POM ................... SUCCESS [ 3.197 s]
[INFO] Cytoscape Documentation Taglets .................... FAILURE [ 0.036 s]
[INFO] Cytoscape Event API (event-api) .................... FAILURE [ 0.016 s]
[INFO] Cytoscape Model API (model-api) .................... SKIPPED
[INFO] Cytoscape Service API (service-api) ................ FAILURE [ 0.007 s]
[INFO] Cytoscape View Model API (viewmodel-api) ........... SKIPPED
[INFO] Cytoscape CI API (ci-api) .......................... SUCCESS [ 1.829 s]
[INFO] Cytoscape Work API (work-api) ...................... FAILURE [ 0.007 s]
[INFO] Cytoscape Presentation API (presentation-api) ...... SKIPPED
[INFO] Cytoscape Application API (application-api) ........ SKIPPED
[INFO] Cytoscape Property API (property-api) .............. SKIPPED
[INFO] Cytoscape VizMap API (vizmap-api) .................. SKIPPED
[INFO] Cytoscape Session API (session-api) ................ SKIPPED
[INFO] Cytoscape Filter API (filter-api) .................. SKIPPED
[INFO] Cytoscape IO API (io-api) .......................... SKIPPED
[INFO] Cytoscape Core Task API (core-task-api) ............ SKIPPED
[INFO] Cytoscape Equations API (equations-api) ............ SKIPPED
[INFO] Cytoscape Layout API (layout-api) .................. SKIPPED
[INFO] Cytoscape Groups API (group-api) ................... SKIPPED
[INFO] Cytoscape Groups API (jobs-api) .................... SKIPPED
[INFO] Cytoscape Webservice API (webservice-api) .......... SKIPPED
[INFO] Cytoscape Data Source API (datasource-api) ......... SKIPPED
[INFO] Cytoscape Command Executor API (command-executor-api) SKIPPED
[INFO] Cytoscape App API (app-api) ........................ SKIPPED
[INFO] Cytoscape Work Swing API (work-swing-api) .......... SKIPPED
[INFO] Cytoscape Swing Application API (swing-application-api) SKIPPED
[INFO] Cytoscape VizMap GUI API (vizmap-gui-api) .......... SKIPPED
[INFO] Cytoscape Swing Utility API (swing-util-api) ....... FAILURE [ 0.007 s]
[INFO] Cytoscape Webservice Swing API (webservice-swing-api) SKIPPED
[INFO] Cytoscape Swing App API (swing-app-api) ............ SKIPPED
[INFO] Cytoscape Util API (util-api) ...................... SKIPPED
[INFO] Cytoscape API (api-bundle) ......................... SKIPPED
[INFO] Cytoscape Implementation Parent Project POM ........ SKIPPED
[INFO] Cytoscape Equations Impl (equations-impl) .......... SKIPPED
[INFO] Cytoscape Model Impl Parent (model-impl-parent) .... SKIPPED
[INFO] Cytoscape Model Impl (model-impl) .................. SKIPPED
[INFO] Cytoscape Command Executor Impl (command-executor-impl) SKIPPED
[INFO] Cytoscape Ding Impl Parent (ding-impl) ............. SKIPPED
[INFO] Cytoscape Ding View/Presentation Impl (ding-presentation-impl) SKIPPED
[INFO] Cytoscape View Model Impl Parent (viewmodel-impl-parent) SKIPPED
[INFO] Cytoscape View Model Impl (viewmodel-impl) ......... SKIPPED
[INFO] Cytoscape Groups Impl (group-impl) ................. SKIPPED
[INFO] Cytoscape Event Impl Parent (event-impl-parent) .... SKIPPED
[INFO] Cytoscape Event Impl (event-impl) .................. SKIPPED
[INFO] Cytoscape Filters Impl (filter-impl) ............... SKIPPED
[INFO] Cytoscape Filters 2 Impl (filter2-impl) ............ SKIPPED
[INFO] Cytoscape IO Impl Parent (io-impl-parent) .......... SKIPPED
[INFO] Cytoscape IO Impl (io-impl) ........................ SKIPPED
[INFO] Cytoscape Layout Impl (layout-impl) ................ SKIPPED
[INFO] Cytoscape Ding View/Presentation Impl Performance (ding-impl-performance-debug) SKIPPED
[INFO] Cytoscape Editor Impl (editor-impl) ................ SKIPPED
[INFO] Cytoscape Equation Functions Impl (equations-functions-impl) SKIPPED
[INFO] Cytoscape GraphML Impl (graphml-impl) .............. SKIPPED
[INFO] Cytoscape IO Impl Performance (io-impl-performance) SKIPPED
[INFO] Cytoscape Jobs Impl (jobs-impl) .................... SKIPPED
[INFO] Cytoscape Layout Algorithms Impl (layout-cytoscape-impl) SKIPPED
[INFO] Cytoscape JGraph Layout Impl (layout-jgraph-impl) .. SKIPPED
[INFO] Cytoscape Prefuse Layout Impl (layout-prefuse-impl) SKIPPED
[INFO] Cytoscape Linkout Impl (linkout-impl) .............. SKIPPED
[INFO] Cytoscape Log Swing Impl (log-swing-impl) .......... SKIPPED
[INFO] Cytoscape Manual Layout Impl (manual-layout-impl) .. SKIPPED
[INFO] Cytoscape Model Impl Performance Debug (model-impl-performance-debug) SKIPPED
[INFO] Cytoscape Model Impl Table Performance Debug (model-impl-table-performance-debug) SKIPPED
[INFO] Cytoscape App Impl (app-impl) ...................... SKIPPED
[INFO] Cytoscape Presentation Impl (presentation-impl) .... SKIPPED
[INFO] Cytoscape Property Impl (property-impl) ............ SKIPPED
[INFO] Cytoscape Search Impl (search-impl) ................ SKIPPED
[INFO] Cytoscape Session Impl (session-impl) .............. SKIPPED
[INFO] Cytoscape Swing Utility Impl (swing-util-impl) ..... SKIPPED
[INFO] Cytoscape Swing Application Impl (swing-application-impl) SKIPPED
[INFO] Cytoscape Table Browser Impl (table-browser-impl) .. SKIPPED
[INFO] Cytoscape Table Import Impl (table-import-impl) .... SKIPPED
[INFO] Cytoscape VizMap GUI Core Impl (vizmap-gui-core-impl) SKIPPED
[INFO] Cytoscape VizMap GUI Impl (vizmap-gui-impl) ........ SKIPPED
[INFO] Cytoscape VizMap Impl Parent (vizmap-impl-parent) .. SKIPPED
[INFO] Cytoscape VizMap Impl (vizmap-impl) ................ SKIPPED
[INFO] Cytoscape Webservice Impl (webservice-impl) ........ SKIPPED
[INFO] org.cytoscape.work-headless-impl ................... SKIPPED
[INFO] org.cytoscape.work-impl ............................ SKIPPED
[INFO] Cytoscape Work Swing Impl Parent (work-swing-impl-parent) SKIPPED
[INFO] Cytoscape Work Swing Impl (work-swing-impl) ........ SKIPPED
[INFO] Cytoscape Application Impl (application-impl) ...... SKIPPED
[INFO] Cytoscape Datasource Impl (datasource-impl) ........ SKIPPED
[INFO] Cytoscape Support Parent Project POM ............... SUCCESS [ 0.011 s]
[INFO] Cytoscape Launch Framework ......................... SUCCESS [ 0.010 s]
[INFO] CommandLine Provider ............................... SUCCESS [ 0.369 s]
[INFO] Cytoscape GUI Command Line Parser Impl (gui-cmdline-parser-impl) SKIPPED
[INFO] Cytoscape Edge Bundler Impl (edge-bundler-impl) .... SKIPPED
[INFO] Cytoscape Scripting Impl (scripting-impl) .......... SKIPPED
[INFO] Cytoscape Core Task Impl (core-task-impl) .......... SKIPPED
[INFO] Cytoscape Headless Application Impl (headless-application-impl) SKIPPED
[INFO] org.cytoscape.cy-commons-cli ....................... FAILURE [ 0.007 s]
[INFO] Cytoscape Headless Command Line Parser Impl (headless-cmdline-parser-impl) SKIPPED
[INFO] Cytoscape 3 App Archetypes Parent .................. SUCCESS [ 0.131 s]
[INFO] Cytoscape 3 Archetype - Creates an App providing public API SUCCESS [ 0.270 s]
[INFO] Cytoscape 3 Archetype - Creates an App with a Task . SUCCESS [ 0.030 s]
[INFO] Cytoscape 3 Archetype - Creates a CyAction (menu item) for desktop application SUCCESS [ 0.030 s]
[INFO] Cytoscape 3 Archetype - Creates a Meta-App to install multiple related apps SUCCESS [ 0.028 s]
[INFO] org.cytoscape.integration-test-support ............. FAILURE [ 0.021 s]
[INFO] Launcher ........................................... SUCCESS [ 0.878 s]
[INFO] StartLevel Assembly ................................ SUCCESS [ 0.029 s]
[INFO] Tasks for Testing .................................. SKIPPED
[INFO] Cytoscape Desktop Application Distribution ......... SUCCESS [ 0.006 s]
[INFO] Cytoscape Third-Party Dependencies (third-party) ... FAILURE [ 0.036 s]
[INFO] SplashScreen Launcher .............................. SUCCESS [ 1.599 s]
[INFO] Cytoscape Launcher ................................. FAILURE [ 0.013 s]
[INFO] Splash Updater ..................................... SKIPPED
[INFO] Cytoscape Command Line Provider Implementation ..... SKIPPED
[INFO] Cytoscape Diagnostics .............................. SKIPPED
[INFO] Cytoscape Branding ................................. SUCCESS [ 0.281 s]
[INFO] Cytoscape Application Implementation Metadata ...... SUCCESS [ 0.323 s]
[INFO] Cytoscape GUI-Distribution Integration Test (integration-test) SKIPPED
[INFO] Cytoscape Feature Repository ....................... SUCCESS [ 0.045 s]
[INFO] Cytoscape Karaf Distribution ....................... FAILURE [ 0.078 s]
[INFO] Distribution ....................................... SKIPPED
[INFO] Cytoscape Project POM .............................. SUCCESS [ 0.030 s]
[INFO] ------------------------------------------------------------------------
[INFO] BUILD FAILURE
[INFO] ------------------------------------------------------------------------
[INFO] Total time: 11.315 s
[INFO] Finished at: 2021-06-10T01:09:28Z
[INFO] ------------------------------------------------------------------------
[ERROR] Failed to execute goal on project taglets: Could not resolve dependencies for project org.cytoscape:taglets:jar:3.6.1: Cannot access maven-default-http-blocker (http://0.0.0.0/) in offline mode and the artifact org.mockito:mockito-all:jar:1.8.1 has not been downloaded from it before. -> [Help 1]
[ERROR] Failed to execute goal on project event-api: Could not resolve dependencies for project org.cytoscape:event-api:bundle:3.6.1: Cannot access maven-default-http-blocker (http://0.0.0.0/) in offline mode and the artifact org.mockito:mockito-all:jar:1.10.19 has not been downloaded from it before. -> [Help 1]
[ERROR] Failed to execute goal on project service-api: Could not resolve dependencies for project org.cytoscape:service-api:bundle:3.6.1: Cannot access maven-default-http-blocker (http://0.0.0.0/) in offline mode and the artifact org.mockito:mockito-all:jar:1.10.19 has not been downloaded from it before. -> [Help 1]
[ERROR] Failed to execute goal on project work-api: Could not resolve dependencies for project org.cytoscape:work-api:bundle:3.6.1: Cannot access maven-default-http-blocker (http://0.0.0.0/) in offline mode and the artifact org.mockito:mockito-all:jar:1.10.19 has not been downloaded from it before. -> [Help 1]
[ERROR] Failed to execute goal on project swing-util-api: Could not resolve dependencies for project org.cytoscape:swing-util-api:bundle:3.6.1: Cannot access maven-default-http-blocker (http://0.0.0.0/) in offline mode and the artifact org.mockito:mockito-all:jar:1.10.19 has not been downloaded from it before. -> [Help 1]
[ERROR] Failed to execute goal on project cy-commons-cli: Could not resolve dependencies for project org.cytoscape:cy-commons-cli:bundle:3.6.1: Cannot access maven-default-http-blocker (http://0.0.0.0/) in offline mode and the artifact org.apache.commons:com.springsource.org.apache.commons.lang:jar:2.4.0 has not been downloaded from it before. -> [Help 1]
[ERROR] Failed to execute goal on project integration-test-support: Could not resolve dependencies for project org.cytoscape:integration-test-support:bundle:3.6.1: Cannot access maven-default-http-blocker (http://0.0.0.0/) in offline mode and the artifact org.easymock:easymock:jar:3.0 has not been downloaded from it before. -> [Help 1]
[ERROR] Failed to execute goal on project third-party: Could not resolve dependencies for project org.cytoscape.distribution:third-party:bundle:3.6.1: The following artifacts could not be resolved: cytoscape-temp:l2fprod-common-sheet:jar:7.3, com.lowagie:itext:jar:2.0.8, cytoscape-temp:org.swinglabs.swingx:jar:1.6.1, cytoscape-temp:l2fprod-common-shared:jar:7.3, cytoscape-temp:l2fprod-common-fontchooser:jar:7.3, net.sf.opencsv:opencsv:jar:2.1, cytoscape-sun:jhall:jar:1.0, cytoscape-temp:parallelcolt:jar:0.9.4, org.freehep:freehep-graphicsio:jar:2.4, org.freehep:freehep-graphics2d:jar:2.4, org.freehep:freehep-graphicsbase:jar:2.4, junit:junit:jar:4.10, org.freehep:freehep-graphicsio-ps:jar:2.4, org.freehep:freehep-graphicsio-pdf:jar:2.4, org.freehep:freehep-graphicsio-svg:jar:2.4, org.freehep:freehep-graphicsio-java:jar:2.4, cytoscape-temp:jfree-jfreechart:jar:1.0.13, cytoscape-temp:jfree-jcommon:jar:1.0.15, cytoscape-temp:violinstrings:jar:1.0.2, cytoscape-temp:jigsaw:jar:2.2.6, cyto
scape-temp:stax2-api:jar:3.0.1, cytoscape-temp:staxmate:jar:2.0.0, cytoscape-temp:woodstox-core-lgpl:jar:4.0.5, cytoscape-temp:xstream:jar:1.3.1, cytoscape-temp:collections-generic:jar:4.01, com.google.guava:guava:jar:22.0, psidev.psi.mi:psimitab:jar:1.7.9, psidev.psi.tools:xxindex:jar:0.11, psidev.psi.mi:psi25-xml:jar:1.7.10, com.fasterxml.jackson.core:jackson-core:jar:2.2.2, com.fasterxml.jackson.core:jackson-databind:jar:2.2.2, com.fasterxml.jackson.core:jackson-annotations:jar:2.2.2: Cannot access maven-default-http-blocker (http://0.0.0.0/) in offline mode and the artifact cytoscape-temp:l2fprod-common-sheet:jar:7.3 has not been downloaded from it before. -> [Help 1]
[ERROR] Failed to execute goal on project karaf-launcher: Could not resolve dependencies for project org.cytoscape.distribution:karaf-launcher:jar:3.6.1: Cannot access maven-default-http-blocker (http://0.0.0.0/) in offline mode and the artifact com.apple.developer:AppleJavaExtensions:jar:1.6 has not been downloaded from it before. -> [Help 1]
[ERROR] Failed to execute goal on project cytoscape: Could not resolve dependencies for project org.cytoscape.distribution:cytoscape:pom:3.6.1: Failed to collect dependencies at org.apache.karaf:apache-karaf:tar.gz:3.0.3 -> org.apache.karaf.features:framework:kar:3.0.3 -> org.ops4j.pax.logging:pax-logging-api:jar:1.8.1: Failed to read artifact descriptor for org.ops4j.pax.logging:pax-logging-api:jar:1.8.1: Cannot access maven-default-http-blocker (http://0.0.0.0/) in offline mode and the artifact org.sonatype.oss:oss-parent:pom:9 has not been downloaded from it before. -> [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/DependencyResolutionException
[ERROR]
[ERROR] After correcting the problems, you can resume the build with the command
[ERROR] mvn <args> -rf :taglets
*** Error code 1
Stop.
make: stopped in /usr/ports/biology/cytoscape