| Back to Multiple platform build/check report for BioC 3.18: simplified long |
|
This page was generated on 2023-11-02 11:41:04 -0400 (Thu, 02 Nov 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 22.04.2 LTS) | x86_64 | 4.3.1 (2023-06-16) -- "Beagle Scouts" | 4729 |
| palomino4 | Windows Server 2022 Datacenter | x64 | 4.3.1 (2023-06-16 ucrt) -- "Beagle Scouts" | 4463 |
| lconway | macOS 12.6.5 Monterey | x86_64 | 4.3.1 Patched (2023-06-17 r84564) -- "Beagle Scouts" | 4478 |
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.3.1 (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 1547/2266 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| Pi 2.14.0 (landing page) Hai Fang
| nebbiolo2 | Linux (Ubuntu 22.04.2 LTS) / x86_64 | OK | OK | WARNINGS | |||||||||
| palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | WARNINGS | OK | |||||||||
| lconway | macOS 12.6.5 Monterey / x86_64 | OK | OK | WARNINGS | OK | |||||||||
| kjohnson1 | macOS 13.6.1 Ventura / arm64 | see weekly results here | ||||||||||||
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | WARNINGS | ||||||||||
|
To the developers/maintainers of the Pi package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/Pi.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. |
| Package: Pi |
| Version: 2.14.0 |
| Command: /home/biocbuild/R/R-4.3.1/bin/R CMD check --install=check:Pi.install-out.txt --library=/home/biocbuild/R/R-4.3.1/site-library --no-vignettes --timings Pi_2.14.0.tar.gz |
| StartedAt: 2023-11-02 13:05:38 -0000 (Thu, 02 Nov 2023) |
| EndedAt: 2023-11-02 13:09:39 -0000 (Thu, 02 Nov 2023) |
| EllapsedTime: 241.5 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: Pi.Rcheck |
| Warnings: 2 |
##############################################################################
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###
### Running command:
###
### /home/biocbuild/R/R-4.3.1/bin/R CMD check --install=check:Pi.install-out.txt --library=/home/biocbuild/R/R-4.3.1/site-library --no-vignettes --timings Pi_2.14.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.18-bioc/meat/Pi.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
gcc (GCC) 10.3.1
GNU Fortran (GCC) 10.3.1
* running under: openEuler 22.03 (LTS-SP1)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘Pi/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘Pi’ version ‘2.14.0’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘Pi’ can be installed ... WARNING
Found the following significant warnings:
Warning: replacing previous import ‘ROCR::plot’ by ‘graphics::plot’ when loading ‘Pi’
See ‘/home/biocbuild/bbs-3.18-bioc/meat/Pi.Rcheck/00install.out’ for details.
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... WARNING
'::' or ':::' import not declared from: 'pbapply'
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: 2 WARNINGs
See
‘/home/biocbuild/bbs-3.18-bioc/meat/Pi.Rcheck/00check.log’
for details.
Pi.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R-4.3.1/bin/R CMD INSTALL Pi ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.3.1/site-library’ * installing *source* package ‘Pi’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading Warning: replacing previous import ‘ROCR::plot’ by ‘graphics::plot’ when loading ‘Pi’ ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location Warning: replacing previous import ‘ROCR::plot’ by ‘graphics::plot’ when loading ‘Pi’ ** testing if installed package can be loaded from final location Warning: replacing previous import ‘ROCR::plot’ by ‘graphics::plot’ when loading ‘Pi’ ** testing if installed package keeps a record of temporary installation path * DONE (Pi)
Pi.Rcheck/Pi-Ex.timings
| name | user | system | elapsed | |
| EG | 0 | 0 | 0 | |
| GS | 0 | 0 | 0 | |
| aOnto | 0 | 0 | 0 | |
| cTarget | 0 | 0 | 0 | |
| dTarget | 0 | 0 | 0 | |
| eGSEA | 0.001 | 0.000 | 0.000 | |
| eTarget | 0 | 0 | 0 | |
| eTerm | 0 | 0 | 0 | |
| iSubg | 0.001 | 0.000 | 0.000 | |
| ls_eTerm | 0 | 0 | 0 | |
| pNode | 0 | 0 | 0 | |
| pPerf | 0.001 | 0.000 | 0.000 | |
| sGS | 0 | 0 | 0 | |
| sTarget | 0 | 0 | 0 | |
| xAggregate | 0.001 | 0.000 | 0.000 | |
| xCheckParallel | 0 | 0 | 0 | |
| xCircos | 0.000 | 0.000 | 0.001 | |
| xColormap | 0.013 | 0.003 | 0.016 | |
| xCombineNet | 0 | 0 | 0 | |
| xContour | 0.037 | 0.000 | 0.036 | |
| xConverter | 0.024 | 0.004 | 0.027 | |
| xCorrelation | 0 | 0 | 0 | |
| xDAGanno | 0 | 0 | 0 | |
| xDefineEQTL | 0.000 | 0.000 | 0.001 | |
| xDefineHIC | 0.001 | 0.000 | 0.000 | |
| xDefineNet | 0 | 0 | 0 | |
| xDefineOntology | 0.000 | 0.000 | 0.001 | |
| xEnrichForest | 0.001 | 0.000 | 0.000 | |
| xEnrichViewer | 0 | 0 | 0 | |
| xEnricher | 0.000 | 0.000 | 0.001 | |
| xEnricherGenes | 0.000 | 0.000 | 0.001 | |
| xGGnetwork | 0.001 | 0.000 | 0.001 | |
| xGR | 0 | 0 | 0 | |
| xGR2nGenes | 0 | 0 | 0 | |
| xGR2xGeneScores | 0 | 0 | 0 | |
| xGR2xGenes | 0.000 | 0.000 | 0.001 | |
| xGRscores | 0.001 | 0.000 | 0.000 | |
| xGRsort | 0 | 0 | 0 | |
| xGSEAbarplot | 0 | 0 | 0 | |
| xGSEAconciser | 0.001 | 0.000 | 0.000 | |
| xGSEAdotplot | 0 | 0 | 0 | |
| xGSsimulator | 0 | 0 | 0 | |
| xGeneID2Symbol | 0 | 0 | 0 | |
| xHeatmap | 0 | 0 | 0 | |
| xLayout | 0.000 | 0.000 | 0.001 | |
| xLiftOver | 0 | 0 | 0 | |
| xMEabf | 0 | 0 | 0 | |
| xMLcaret | 0 | 0 | 0 | |
| xMLcompare | 0 | 0 | 0 | |
| xMLdensity | 0.000 | 0.000 | 0.001 | |
| xMLdotplot | 0 | 0 | 0 | |
| xMLfeatureplot | 0 | 0 | 0 | |
| xMLglmnet | 0 | 0 | 0 | |
| xMLparameters | 0 | 0 | 0 | |
| xMLrandomforest | 0.000 | 0.000 | 0.001 | |
| xMLrename | 0.001 | 0.000 | 0.000 | |
| xMLzoom | 0 | 0 | 0 | |
| xPieplot | 0.000 | 0.000 | 0.001 | |
| xPier | 0.001 | 0.000 | 0.000 | |
| xPierABF | 0 | 0 | 0 | |
| xPierABFheatmap | 0 | 0 | 0 | |
| xPierAnno | 0.000 | 0.000 | 0.001 | |
| xPierCor | 0 | 0 | 0 | |
| xPierCross | 0 | 0 | 0 | |
| xPierEvidence | 0 | 0 | 0 | |
| xPierGRs | 0 | 0 | 0 | |
| xPierGSEA | 0 | 0 | 0 | |
| xPierGenes | 0 | 0 | 0 | |
| xPierMRS | 0 | 0 | 0 | |
| xPierManhattan | 0 | 0 | 0 | |
| xPierMatrix | 0 | 0 | 0 | |
| xPierPathways | 0 | 0 | 0 | |
| xPierROCR | 0 | 0 | 0 | |
| xPierSNPs | 0.000 | 0.000 | 0.001 | |
| xPierSNPsAdv | 0 | 0 | 0 | |
| xPierSNPsAdvABF | 0 | 0 | 0 | |
| xPierSubnet | 0.000 | 0.000 | 0.001 | |
| xPierTrack | 0 | 0 | 0 | |
| xPierTrackAdv | 0.000 | 0.001 | 0.000 | |
| xPredictCompare | 0.000 | 0.000 | 0.001 | |
| xPredictROCR | 0 | 0 | 0 | |
| xRDataLoader | 0 | 0 | 0 | |
| xRWR | 0.000 | 0.000 | 0.001 | |
| xSM2DF | 0.008 | 0.004 | 0.012 | |
| xSNP2cGenes | 0.001 | 0.000 | 0.000 | |
| xSNP2eGenes | 0 | 0 | 0 | |
| xSNP2nGenes | 0 | 0 | 0 | |
| xSNPlocations | 0 | 0 | 0 | |
| xSNPscores | 0 | 0 | 0 | |
| xSparseMatrix | 0.008 | 0.002 | 0.009 | |
| xSubneterGenes | 0.001 | 0.000 | 0.001 | |
| xSymbol2GeneID | 0 | 0 | 0 | |
| xVisEvidence | 0 | 0 | 0 | |
| xVisEvidenceAdv | 0.001 | 0.000 | 0.001 | |
| xVisKernels | 0.013 | 0.007 | 0.021 | |
| xVisNet | 0.000 | 0.000 | 0.001 | |