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This page was generated on 2023-11-02 11:41:10 -0400 (Thu, 02 Nov 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.2 LTS)x86_644.3.1 (2023-06-16) -- "Beagle Scouts" 4729
palomino4Windows Server 2022 Datacenterx644.3.1 (2023-06-16 ucrt) -- "Beagle Scouts" 4463
lconwaymacOS 12.6.5 Montereyx86_644.3.1 Patched (2023-06-17 r84564) -- "Beagle Scouts" 4478
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch644.3.1 (2023-06-16) -- "Beagle Scouts" 4464
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

Package 1732/2266HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
RGMQL 1.22.0  (landing page)
Simone Pallotta
Snapshot Date: 2023-11-01 14:05:06 -0400 (Wed, 01 Nov 2023)
git_url: https://git.bioconductor.org/packages/RGMQL
git_branch: RELEASE_3_18
git_last_commit: b3090bd
git_last_commit_date: 2023-10-24 11:02:04 -0400 (Tue, 24 Oct 2023)
nebbiolo2Linux (Ubuntu 22.04.2 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    OK    ERROR    OK  
lconwaymacOS 12.6.5 Monterey / x86_64... NOT SUPPORTED ...
kjohnson1macOS 13.6.1 Ventura / arm64see weekly results here
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    ERROR  skipped

BUILD results for RGMQL on kunpeng2


To the developers/maintainers of the RGMQL package:
- 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 Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.
- See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host.

raw results

Summary

Package: RGMQL
Version: 1.22.0
Command: /home/biocbuild/R/R-4.3.1/bin/R CMD build --keep-empty-dirs --no-resave-data RGMQL
StartedAt: 2023-11-02 05:10:09 -0000 (Thu, 02 Nov 2023)
EndedAt: 2023-11-02 05:11:14 -0000 (Thu, 02 Nov 2023)
EllapsedTime: 65.1 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R-4.3.1/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
23/11/02 05:11:13 INFO SparkContext: Running Spark version 2.2.0
23/11/02 05:11:13 WARN NativeCodeLoader: Unable to load native-hadoop library for your platform... using builtin-java classes where applicable
23/11/02 05:11:13 INFO SparkContext: Submitted application: GMQL-R
23/11/02 05:11:13 INFO SecurityManager: Changing view acls to: biocbuild
23/11/02 05:11:13 INFO SecurityManager: Changing modify acls to: biocbuild
23/11/02 05:11:13 INFO SecurityManager: Changing view acls groups to: 
23/11/02 05:11:13 INFO SecurityManager: Changing modify acls groups to: 
23/11/02 05:11:13 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()
23/11/02 05:11:13 INFO PlatformDependent: Your platform does not provide complete low-level API for accessing direct buffers reliably. Unless explicitly requested, heap buffer will always be preferred to avoid potential system unstability.
23/11/02 05:11:14 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address.
23/11/02 05:11:14 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address.
23/11/02 05:11:14 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address.
23/11/02 05:11:14 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address.
23/11/02 05:11:14 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address.
23/11/02 05:11:14 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address.
23/11/02 05:11:14 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address.
23/11/02 05:11:14 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address.
23/11/02 05:11:14 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address.
23/11/02 05:11:14 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address.
23/11/02 05:11:14 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address.
23/11/02 05:11:14 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address.
23/11/02 05:11:14 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address.
23/11/02 05:11:14 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address.
23/11/02 05:11:14 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address.
23/11/02 05:11:14 WARN Utils: Service 'sparkDriver' could not bind on a random free port. You may check whether configuring an appropriate binding address.
23/11/02 05:11:14 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:555)
	at java.base/sun.nio.ch.ServerSocketChannelImpl.netBind(ServerSocketChannelImpl.java:337)
	at java.base/sun.nio.ch.ServerSocketChannelImpl.bind(ServerSocketChannelImpl.java:294)
	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:833)
23/11/02 05:11:14 INFO SparkContext: Successfully stopped SparkContext

Quitting from lines 250-251 [init] (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