Back to Multiple platform build/check report for BioC 3.22:   simplified   long
ABCDEFGHIJKLMNOPQ[R]STUVWXYZ

This page was generated on 2025-12-15 12:08 -0500 (Mon, 15 Dec 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4882
merida1macOS 12.7.6 Montereyx86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4673
kjohnson1macOS 13.7.5 Venturaarm644.5.2 Patched (2025-11-04 r88984) -- "[Not] Part in a Rumble" 4607
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4671
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 1733/2361HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Rcpi 1.46.0  (landing page)
Nan Xiao
Snapshot Date: 2025-12-11 13:45 -0500 (Thu, 11 Dec 2025)
git_url: https://git.bioconductor.org/packages/Rcpi
git_branch: RELEASE_3_22
git_last_commit: c114c2a
git_last_commit_date: 2025-10-29 10:18:37 -0500 (Wed, 29 Oct 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.6 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.7.5 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    OK    OK  


CHECK results for Rcpi on kjohnson1

To the developers/maintainers of the Rcpi package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/Rcpi.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.

raw results


Summary

Package: Rcpi
Version: 1.46.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:Rcpi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings Rcpi_1.46.0.tar.gz
StartedAt: 2025-12-13 20:09:53 -0500 (Sat, 13 Dec 2025)
EndedAt: 2025-12-13 20:13:10 -0500 (Sat, 13 Dec 2025)
EllapsedTime: 196.3 seconds
RetCode: 0
Status:   OK  
CheckDir: Rcpi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:Rcpi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings Rcpi_1.46.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/Rcpi.Rcheck’
* using R version 4.5.2 Patched (2025-11-04 r88984)
* using platform: aarch64-apple-darwin20
* R was compiled by
    Apple clang version 16.0.0 (clang-1600.0.26.6)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Ventura 13.7.8
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘Rcpi/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘Rcpi’ version ‘1.46.0’
* package encoding: UTF-8
* 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 ‘Rcpi’ can be installed ... OK
* 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 code 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 dependencies in R code ... OK
* 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK


Installation output

Rcpi.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL Rcpi
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library’
* installing *source* package ‘Rcpi’ ...
** this is package ‘Rcpi’ version ‘1.46.0’
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (Rcpi)

Tests output

Rcpi.Rcheck/tests/testthat.Rout


R version 4.5.2 Patched (2025-11-04 r88984) -- "[Not] Part in a Rumble"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(testthat)
> library(Rcpi)

> 
> test_check("Rcpi")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 22 ]
> 
> proc.time()
   user  system elapsed 
  7.666   0.543   9.746 

Example timings

Rcpi.Rcheck/Rcpi-Ex.timings

nameusersystemelapsed
AA2DACOR0.0020.0020.006
AA3DMoRSE0.0010.0020.003
AAACF0.0010.0010.003
AABLOSUM1000.0010.0010.002
AABLOSUM450.0010.0010.002
AABLOSUM500.0000.0010.002
AABLOSUM620.0000.0010.002
AABLOSUM800.0000.0010.002
AABurden0.0010.0010.002
AACPSA0.0020.0020.026
AAConn0.0010.0020.016
AAConst0.0000.0020.002
AADescAll0.0010.0010.002
AAEdgeAdj0.0010.0010.002
AAEigIdx0.0010.0010.002
AAFGC0.0010.0010.002
AAGETAWAY0.0010.0020.013
AAGeom0.0010.0020.002
AAInfo0.0010.0020.003
AAMOE2D0.0010.0010.002
AAMOE3D0.0010.0020.003
AAMetaInfo0.0010.0020.003
AAMolProp0.0010.0010.004
AAPAM1200.0010.0020.005
AAPAM2500.0010.0020.006
AAPAM300.0010.0010.003
AAPAM400.0010.0010.003
AAPAM700.0010.0010.003
AARDF0.0010.0010.003
AARandic0.0010.0010.002
AATopo0.0000.0020.002
AATopoChg0.0000.0020.002
AAWHIM0.0000.0020.002
AAWalk0.0000.0010.002
AAindex0.0000.0010.002
OptAA3d000
acc0.0090.0060.015
calcDrugFPSim000
calcDrugMCSSim0.0030.0030.008
calcParProtGOSim000
calcParProtSeqSim0.0060.0020.009
calcTwoProtGOSim0.0010.0010.000
calcTwoProtSeqSim0.0020.0010.003
checkProt0.0010.0000.002
convMolFormat0.0000.0000.002
extractDrugAIO0.0000.0010.001
extractDrugALOGP0.0000.0000.001
extractDrugAminoAcidCount0.0000.0000.001
extractDrugApol0.0020.0010.033
extractDrugAromaticAtomsCount0.0010.0010.002
extractDrugAromaticBondsCount0.0010.0010.001
extractDrugAtomCount0.0010.0000.001
extractDrugAutocorrelationCharge0.0010.0000.001
extractDrugAutocorrelationMass0.0010.0010.001
extractDrugAutocorrelationPolarizability0.0010.0000.001
extractDrugBCUT0.0010.0000.001
extractDrugBPol0.0010.0010.001
extractDrugBondCount0.0010.0000.001
extractDrugCPSA0.0010.0000.001
extractDrugCarbonTypes0.0010.0000.001
extractDrugChiChain0.0010.0000.001
extractDrugChiCluster0.0010.0000.001
extractDrugChiPath0.0010.0000.001
extractDrugChiPathCluster0.0010.0010.001
extractDrugDescOB0.0140.0050.019
extractDrugECI0.0020.0000.002
extractDrugEstate0.0010.0000.002
extractDrugEstateComplete0.0010.0000.001
extractDrugExtended0.0010.0010.009
extractDrugExtendedComplete0.0010.0010.001
extractDrugFMF0.0010.0010.004
extractDrugFragmentComplexity0.0010.0010.002
extractDrugGraph0.0010.0010.002
extractDrugGraphComplete0.0010.0010.002
extractDrugGravitationalIndex0.0000.0000.001
extractDrugHBondAcceptorCount0.0010.0000.001
extractDrugHBondDonorCount0.0010.0010.001
extractDrugHybridization0.0010.0000.001
extractDrugHybridizationComplete0.0010.0000.001
extractDrugHybridizationRatio0.0010.0000.002
extractDrugIPMolecularLearning0.0010.0010.001
extractDrugKR0.0010.0000.001
extractDrugKRComplete0.0010.0000.001
extractDrugKappaShapeIndices0.0010.0010.002
extractDrugKierHallSmarts0.0010.0010.001
extractDrugLargestChain0.0010.0000.001
extractDrugLargestPiSystem0.0010.0000.001
extractDrugLengthOverBreadth0.0010.0010.001
extractDrugLongestAliphaticChain0.0010.0000.001
extractDrugMACCS0.0010.0000.001
extractDrugMACCSComplete0.0010.0000.001
extractDrugMDE0.0010.0000.001
extractDrugMannholdLogP0.0000.0010.001
extractDrugMomentOfInertia0.0000.0000.001
extractDrugOBFP20.0050.0030.008
extractDrugOBFP30.0110.0040.014
extractDrugOBFP40.0060.0020.007
extractDrugOBMACCS0.1190.0040.165
extractDrugPetitjeanNumber0.0020.0000.003
extractDrugPetitjeanShapeIndex0.0010.0000.001
extractDrugPubChem0.0010.0000.002
extractDrugPubChemComplete0.0010.0000.002
extractDrugRotatableBondsCount0.0010.0000.001
extractDrugRuleOfFive0.0010.0010.001
extractDrugShortestPath0.0000.0000.001
extractDrugShortestPathComplete0.0010.0000.004
extractDrugStandard0.0010.0000.001
extractDrugStandardComplete0.0010.0000.002
extractDrugTPSA0.0010.0000.004
extractDrugVABC0.0010.0010.004
extractDrugVAdjMa0.0010.0000.002
extractDrugWHIM0.0010.0010.001
extractDrugWeight0.0010.0000.001
extractDrugWeightedPath0.0010.0000.001
extractDrugWienerNumbers0.0010.0000.001
extractDrugXLogP0.0010.0000.001
extractDrugZagrebIndex0.0010.0010.001
extractPCMBLOSUM0.0110.0020.013
extractPCMDescScales0.0140.0020.024
extractPCMFAScales0.0170.0040.025
extractPCMMDSScales0.0110.0040.027
extractPCMPropScales0.0210.0020.023
extractPCMScales0.0190.0030.047
extractProtAAC0.0040.0020.009
extractProtAPAAC0.7730.0211.032
extractProtCTDC0.0030.0000.004
extractProtCTDD0.0050.0020.006
extractProtCTDT0.0060.0020.014
extractProtCTriad0.0940.0090.139
extractProtDC0.0030.0040.008
extractProtGeary0.1230.0080.177
extractProtMoran0.1260.0100.189
extractProtMoreauBroto0.1110.0090.146
extractProtPAAC0.3750.0060.503
extractProtPSSM0.0020.0010.002
extractProtPSSMAcc0.0020.0010.004
extractProtPSSMFeature0.0020.0000.002
extractProtQSO0.6760.0160.896
extractProtSOCN0.6530.0141.092
extractProtTC0.0300.1060.161
getCPI0.0030.0010.004
getDrug000
getFASTAFromKEGG000
getFASTAFromUniProt000
getMolFromCAS0.0010.0000.000
getMolFromChEMBL000
getMolFromDrugBank0.0010.0000.000
getMolFromKEGG0.0000.0010.000
getMolFromPubChem000
getPDBFromRCSBPDB000
getPPI0.0030.0020.005
getProt0.0010.0000.001
getSeqFromKEGG000
getSeqFromRCSBPDB000
getSeqFromUniProt000
getSmiFromChEMBL000
getSmiFromDrugBank000
getSmiFromKEGG0.0000.0000.001
getSmiFromPubChem000
readFASTA0.0010.0000.002
readMolFromSDF0.0030.0010.007
readMolFromSmi0.0010.0000.001
readPDB0.7940.0061.007
searchDrug0.0020.0000.003
segProt0.0020.0010.004