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

This page was generated on 2025-09-22 12:06 -0400 (Mon, 22 Sep 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4814
lconwaymacOS 12.7.1 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4603
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4547
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4553
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 1711/2333HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Rcpi 1.45.0  (landing page)
Nan Xiao
Snapshot Date: 2025-09-21 13:45 -0400 (Sun, 21 Sep 2025)
git_url: https://git.bioconductor.org/packages/Rcpi
git_branch: devel
git_last_commit: dba81ab
git_last_commit_date: 2025-04-15 10:29:42 -0400 (Tue, 15 Apr 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 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 kjohnson3

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: 1.45.0
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_1.45.0.tar.gz
StartedAt: 2025-09-21 21:19:11 -0400 (Sun, 21 Sep 2025)
EndedAt: 2025-09-21 21:20:02 -0400 (Sun, 21 Sep 2025)
EllapsedTime: 50.7 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_1.45.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/Rcpi.Rcheck’
* using R version 4.5.1 Patched (2025-09-10 r88807)
* 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 13.7.7
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘Rcpi/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘Rcpi’ version ‘1.45.0’
* 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 ‘1.45.0’
** 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 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root"
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 
  2.323   0.240   2.112 

Example timings

Rcpi.Rcheck/Rcpi-Ex.timings

nameusersystemelapsed
AA2DACOR0.0010.0010.001
AA3DMoRSE0.0010.0010.001
AAACF0.0010.0000.002
AABLOSUM1000.0000.0000.001
AABLOSUM450.0000.0010.001
AABLOSUM500.0000.0000.001
AABLOSUM620.0000.0000.001
AABLOSUM800.0000.0010.000
AABurden0.0010.0000.000
AACPSA0.0000.0010.001
AAConn0.0000.0010.001
AAConst0.0010.0000.001
AADescAll0.0000.0010.000
AAEdgeAdj0.0000.0010.000
AAEigIdx0.0010.0000.000
AAFGC0.0000.0010.000
AAGETAWAY000
AAGeom0.0010.0010.001
AAInfo0.0000.0010.000
AAMOE2D0.0000.0000.001
AAMOE3D0.0010.0010.001
AAMetaInfo000
AAMolProp000
AAPAM1200.0000.0010.000
AAPAM2500.0010.0000.001
AAPAM300.0000.0010.001
AAPAM400.0000.0000.001
AAPAM700.0000.0010.001
AARDF0.0000.0010.001
AARandic0.0000.0000.001
AATopo0.0000.0000.001
AATopoChg0.0000.0010.001
AAWHIM0.0000.0000.001
AAWalk0.0000.0000.001
AAindex0.0010.0010.001
OptAA3d000
acc0.0030.0020.005
calcDrugFPSim000
calcDrugMCSSim0.0010.0010.003
calcParProtGOSim000
calcParProtSeqSim0.0020.0010.004
calcTwoProtGOSim0.0000.0010.000
calcTwoProtSeqSim0.0010.0000.001
checkProt0.0000.0000.001
convMolFormat000
extractDrugAIO000
extractDrugALOGP000
extractDrugAminoAcidCount000
extractDrugApol000
extractDrugAromaticAtomsCount000
extractDrugAromaticBondsCount0.0010.0000.000
extractDrugAtomCount000
extractDrugAutocorrelationCharge000
extractDrugAutocorrelationMass0.0010.0000.001
extractDrugAutocorrelationPolarizability000
extractDrugBCUT000
extractDrugBPol0.0010.0000.001
extractDrugBondCount000
extractDrugCPSA0.0000.0000.001
extractDrugCarbonTypes0.0010.0010.000
extractDrugChiChain0.0000.0000.001
extractDrugChiCluster000
extractDrugChiPath0.0010.0000.000
extractDrugChiPathCluster0.0000.0010.001
extractDrugDescOB0.0050.0010.006
extractDrugECI0.0000.0000.001
extractDrugEstate0.0000.0010.000
extractDrugEstateComplete000
extractDrugExtended000
extractDrugExtendedComplete000
extractDrugFMF0.0000.0010.001
extractDrugFragmentComplexity000
extractDrugGraph0.0000.0000.001
extractDrugGraphComplete000
extractDrugGravitationalIndex0.0000.0000.001
extractDrugHBondAcceptorCount000
extractDrugHBondDonorCount0.0010.0000.000
extractDrugHybridization000
extractDrugHybridizationComplete0.0000.0000.001
extractDrugHybridizationRatio0.0000.0010.000
extractDrugIPMolecularLearning0.0000.0000.001
extractDrugKR0.0000.0000.001
extractDrugKRComplete000
extractDrugKappaShapeIndices0.0000.0010.000
extractDrugKierHallSmarts0.0000.0000.001
extractDrugLargestChain000
extractDrugLargestPiSystem0.0010.0000.001
extractDrugLengthOverBreadth000
extractDrugLongestAliphaticChain000
extractDrugMACCS0.0000.0000.001
extractDrugMACCSComplete0.0000.0010.000
extractDrugMDE0.0000.0000.001
extractDrugMannholdLogP0.0010.0000.003
extractDrugMomentOfInertia000
extractDrugOBFP20.0020.0010.002
extractDrugOBFP30.0040.0010.012
extractDrugOBFP40.0020.0000.003
extractDrugOBMACCS0.0400.0020.051
extractDrugPetitjeanNumber0.0010.0000.000
extractDrugPetitjeanShapeIndex0.0000.0010.000
extractDrugPubChem0.0000.0000.001
extractDrugPubChemComplete000
extractDrugRotatableBondsCount0.0000.0010.002
extractDrugRuleOfFive0.0010.0000.000
extractDrugShortestPath000
extractDrugShortestPathComplete000
extractDrugStandard0.0000.0010.000
extractDrugStandardComplete000
extractDrugTPSA000
extractDrugVABC000
extractDrugVAdjMa0.0010.0010.000
extractDrugWHIM0.0000.0000.001
extractDrugWeight000
extractDrugWeightedPath0.0000.0000.001
extractDrugWienerNumbers0.0000.0010.000
extractDrugXLogP0.0000.0000.001
extractDrugZagrebIndex000
extractPCMBLOSUM0.0040.0010.004
extractPCMDescScales0.0040.0010.004
extractPCMFAScales0.0050.0010.008
extractPCMMDSScales0.0030.0020.004
extractPCMPropScales0.0070.0010.008
extractPCMScales0.0050.0010.007
extractProtAAC0.0010.0010.002
extractProtAPAAC0.2460.0050.257
extractProtCTDC0.0010.0000.001
extractProtCTDD0.0010.0010.002
extractProtCTDT0.0020.0000.002
extractProtCTriad0.0270.0030.030
extractProtDC0.0010.0020.003
extractProtGeary0.0370.0030.040
extractProtMoran0.0370.0030.039
extractProtMoreauBroto0.0340.0040.040
extractProtPAAC0.1170.0030.120
extractProtPSSM000
extractProtPSSMAcc0.0000.0010.000
extractProtPSSMFeature000
extractProtQSO0.2060.0050.213
extractProtSOCN0.2060.0050.210
extractProtTC0.0090.0260.035
getCPI0.0010.0010.001
getDrug000
getFASTAFromKEGG000
getFASTAFromUniProt000
getMolFromCAS0.0000.0010.000
getMolFromChEMBL000
getMolFromDrugBank000
getMolFromKEGG000
getMolFromPubChem000
getPDBFromRCSBPDB000
getPPI0.0010.0000.001
getProt000
getSeqFromKEGG000
getSeqFromRCSBPDB000
getSeqFromUniProt000
getSmiFromChEMBL000
getSmiFromDrugBank000
getSmiFromKEGG000
getSmiFromPubChem000
readFASTA0.0000.0010.001
readMolFromSDF0.0010.0000.001
readMolFromSmi000
readPDB0.2480.0020.251
searchDrug0.0000.0010.001
segProt0.0010.0010.002