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This page was generated on 2023-02-27 02:34:42 -0000 (Mon, 27 Feb 2023).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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kunpeng1 | Linux (Ubuntu 22.04.1 LTS) | aarch64 | R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" | 4259 |
Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X |
To the developers/maintainers of the RGMQL package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/RGMQL.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1652/2169 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
RGMQL 1.19.0 (landing page) Simone Pallotta
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) / aarch64 | OK | ERROR | skipped | |||||||||
Package: RGMQL |
Version: 1.19.0 |
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data RGMQL |
StartedAt: 2023-02-23 23:45:16 -0000 (Thu, 23 Feb 2023) |
EndedAt: 2023-02-23 23:46:17 -0000 (Thu, 23 Feb 2023) |
EllapsedTime: 61.1 seconds |
RetCode: 1 |
Status: ERROR |
PackageFile: None |
PackageFileSize: NA |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data RGMQL ### ############################################################################## ############################################################################## * checking for file ‘RGMQL/DESCRIPTION’ ... OK * preparing ‘RGMQL’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘RGMQL-vignette.Rmd’ using rmarkdown Using Spark's default log4j profile: org/apache/spark/log4j-defaults.properties 23/02/23 23:46:15 INFO SparkContext: Running Spark version 2.2.0 WARNING: An illegal reflective access operation has occurred WARNING: Illegal reflective access by org.apache.hadoop.security.authentication.util.KerberosUtil (file:/home/biocbuild/bbs-3.17-bioc/R/library/RGMQLlib/extdata/java/GMQL.jar) to method sun.security.krb5.Config.getInstance() WARNING: Please consider reporting this to the maintainers of org.apache.hadoop.security.authentication.util.KerberosUtil 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 23/02/23 23:46:15 WARN NativeCodeLoader: Unable to load native-hadoop library for your platform... using builtin-java classes where applicable 23/02/23 23:46:15 INFO SparkContext: Submitted application: GMQL-R 23/02/23 23:46:15 INFO SecurityManager: Changing view acls to: biocbuild 23/02/23 23:46:15 INFO SecurityManager: Changing modify acls to: biocbuild 23/02/23 23:46:15 INFO SecurityManager: Changing view acls groups to: 23/02/23 23:46:15 INFO SecurityManager: Changing modify acls groups to: 23/02/23 23:46:15 INFO SecurityManager: SecurityManager: authentication disabled; ui acls disabled; users with view permissions: Set(biocbuild); groups with view permissions: Set(); users with modify permissions: Set(biocbuild); groups with modify permissions: Set() 23/02/23 23:46:16 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address. 23/02/23 23:46:16 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address. 23/02/23 23:46:16 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address. 23/02/23 23:46:16 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address. 23/02/23 23:46:16 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address. 23/02/23 23:46:16 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address. 23/02/23 23:46:16 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address. 23/02/23 23:46:16 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address. 23/02/23 23:46:16 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address. 23/02/23 23:46:16 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address. 23/02/23 23:46:16 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address. 23/02/23 23:46:16 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address. 23/02/23 23:46:16 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address. 23/02/23 23:46:16 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address. 23/02/23 23:46:16 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address. 23/02/23 23:46:16 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address. 23/02/23 23:46:16 ERROR SparkContext: Error initializing SparkContext. java.net.BindException: Cannot assign requested address: Service 'sparkDriver' failed after 16 retries (on a random free port)! Consider explicitly setting the appropriate binding address for the service 'sparkDriver' (for example spark.driver.bindAddress for SparkDriver) to the correct binding address. at java.base/sun.nio.ch.Net.bind0(Native Method) at java.base/sun.nio.ch.Net.bind(Net.java:459) at java.base/sun.nio.ch.Net.bind(Net.java:448) at java.base/sun.nio.ch.ServerSocketChannelImpl.bind(ServerSocketChannelImpl.java:227) at io.netty.channel.socket.nio.NioServerSocketChannel.doBind(NioServerSocketChannel.java:127) at io.netty.channel.AbstractChannel$AbstractUnsafe.bind(AbstractChannel.java:501) at io.netty.channel.DefaultChannelPipeline$HeadContext.bind(DefaultChannelPipeline.java:1218) at io.netty.channel.AbstractChannelHandlerContext.invokeBind(AbstractChannelHandlerContext.java:496) at io.netty.channel.AbstractChannelHandlerContext.bind(AbstractChannelHandlerContext.java:481) at io.netty.channel.DefaultChannelPipeline.bind(DefaultChannelPipeline.java:965) at io.netty.channel.AbstractChannel.bind(AbstractChannel.java:210) at io.netty.bootstrap.AbstractBootstrap$2.run(AbstractBootstrap.java:353) at io.netty.util.concurrent.SingleThreadEventExecutor.runAllTasks(SingleThreadEventExecutor.java:399) at io.netty.channel.nio.NioEventLoop.run(NioEventLoop.java:446) at io.netty.util.concurrent.SingleThreadEventExecutor$2.run(SingleThreadEventExecutor.java:131) at io.netty.util.concurrent.DefaultThreadFactory$DefaultRunnableDecorator.run(DefaultThreadFactory.java:144) at java.base/java.lang.Thread.run(Thread.java:829) 23/02/23 23:46:16 INFO SparkContext: Successfully stopped SparkContext Quitting from lines 250-251 (RGMQL-vignette.Rmd) Error: processing vignette 'RGMQL-vignette.Rmd' failed with diagnostics: java.net.BindException: Cannot assign requested address: Service 'sparkDriver' failed after 16 retries (on a random free port)! Consider explicitly setting the appropriate binding address for the service 'sparkDriver' (for example spark.driver.bindAddress for SparkDriver) to the correct binding address. --- failed re-building ‘RGMQL-vignette.Rmd’ SUMMARY: processing the following file failed: ‘RGMQL-vignette.Rmd’ Error: Vignette re-building failed. Execution halted