Back to Multiple platform build/check report for BioC 3.23:   simplified   long
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This page was generated on 2025-12-20 11:35 -0500 (Sat, 20 Dec 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_64R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences" 4875
kjohnson3macOS 13.7.7 Venturaarm64R Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences" 4593
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 1716/2332HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Rcpi 1.47.0  (landing page)
Nan Xiao
Snapshot Date: 2025-12-19 13:40 -0500 (Fri, 19 Dec 2025)
git_url: https://git.bioconductor.org/packages/Rcpi
git_branch: devel
git_last_commit: d010cbe
git_last_commit_date: 2025-10-29 10:18:37 -0500 (Wed, 29 Oct 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  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


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: 1.47.0
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_1.47.0.tar.gz
StartedAt: 2025-12-19 21:37:31 -0500 (Fri, 19 Dec 2025)
EndedAt: 2025-12-19 21:38:27 -0500 (Fri, 19 Dec 2025)
EllapsedTime: 55.9 seconds
RetCode: 0
Status:   OK  
CheckDir: Rcpi.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### 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_1.47.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.23-bioc/meat/Rcpi.Rcheck’
* using R Under development (unstable) (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 ‘1.47.0’
* 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/4.6-arm64/Resources/library’
* installing *source* package ‘Rcpi’ ...
** this is package ‘Rcpi’ version ‘1.47.0’
** 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 Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences"
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 
  2.737   0.301   2.535 

Example timings

Rcpi.Rcheck/Rcpi-Ex.timings

nameusersystemelapsed
AA2DACOR0.0000.0010.002
AA3DMoRSE0.0000.0010.001
AAACF0.0000.0010.001
AABLOSUM1000.0000.0010.001
AABLOSUM450.0000.0010.000
AABLOSUM500.0010.0010.000
AABLOSUM62000
AABLOSUM800.0000.0010.000
AABurden0.0010.0010.000
AACPSA000
AAConn0.0000.0000.001
AAConst0.0000.0000.001
AADescAll0.0000.0000.001
AAEdgeAdj0.0000.0000.001
AAEigIdx0.0000.0010.001
AAFGC0.0010.0010.001
AAGETAWAY0.0000.0010.000
AAGeom0.0000.0010.000
AAInfo0.0010.0010.001
AAMOE2D0.0000.0010.001
AAMOE3D0.0000.0010.001
AAMetaInfo0.0010.0000.001
AAMolProp0.0000.0000.001
AAPAM1200.0000.0000.001
AAPAM2500.0000.0010.002
AAPAM300.0000.0010.001
AAPAM400.0000.0000.001
AAPAM700.0010.0010.001
AARDF0.0000.0010.001
AARandic0.0000.0000.002
AATopo0.0010.0000.001
AATopoChg0.0000.0010.002
AAWHIM0.0000.0010.001
AAWalk0.0010.0010.001
AAindex0.0000.0010.001
OptAA3d000
acc0.0110.0050.017
calcDrugFPSim0.0000.0010.000
calcDrugMCSSim0.0020.0010.002
calcParProtGOSim000
calcParProtSeqSim0.0020.0010.003
calcTwoProtGOSim000
calcTwoProtSeqSim0.0010.0010.001
checkProt0.0000.0000.001
convMolFormat0.0010.0010.001
extractDrugAIO0.0000.0000.001
extractDrugALOGP000
extractDrugAminoAcidCount0.0010.0000.000
extractDrugApol000
extractDrugAromaticAtomsCount000
extractDrugAromaticBondsCount0.0000.0010.000
extractDrugAtomCount000
extractDrugAutocorrelationCharge0.0000.0000.001
extractDrugAutocorrelationMass0.0000.0000.001
extractDrugAutocorrelationPolarizability0.0000.0000.001
extractDrugBCUT000
extractDrugBPol0.0010.0000.000
extractDrugBondCount0.0000.0010.001
extractDrugCPSA0.0000.0000.001
extractDrugCarbonTypes0.0010.0000.000
extractDrugChiChain000
extractDrugChiCluster0.0000.0000.001
extractDrugChiPath0.0010.0010.001
extractDrugChiPathCluster0.0000.0000.001
extractDrugDescOB0.0020.0010.003
extractDrugECI000
extractDrugEstate0.0010.0000.000
extractDrugEstateComplete0.0000.0010.001
extractDrugExtended0.0000.0000.001
extractDrugExtendedComplete0.0010.0000.000
extractDrugFMF0.0000.0010.001
extractDrugFragmentComplexity000
extractDrugGraph0.0000.0000.001
extractDrugGraphComplete000
extractDrugGravitationalIndex000
extractDrugHBondAcceptorCount0.0000.0000.001
extractDrugHBondDonorCount0.0010.0000.001
extractDrugHybridization000
extractDrugHybridizationComplete000
extractDrugHybridizationRatio0.0010.0000.001
extractDrugIPMolecularLearning000
extractDrugKR000
extractDrugKRComplete000
extractDrugKappaShapeIndices000
extractDrugKierHallSmarts0.0000.0000.001
extractDrugLargestChain000
extractDrugLargestPiSystem0.0010.0010.001
extractDrugLengthOverBreadth0.0000.0000.001
extractDrugLongestAliphaticChain0.0010.0010.001
extractDrugMACCS0.0000.0000.001
extractDrugMACCSComplete000
extractDrugMDE0.0010.0000.000
extractDrugMannholdLogP0.0000.0000.001
extractDrugMomentOfInertia0.0000.0010.001
extractDrugOBFP20.0040.0020.006
extractDrugOBFP30.0020.0010.003
extractDrugOBFP40.0390.0010.040
extractDrugOBMACCS0.0020.0000.002
extractDrugPetitjeanNumber000
extractDrugPetitjeanShapeIndex000
extractDrugPubChem0.0010.0000.000
extractDrugPubChemComplete0.0000.0000.001
extractDrugRotatableBondsCount000
extractDrugRuleOfFive0.0000.0000.001
extractDrugShortestPath0.0010.0000.000
extractDrugShortestPathComplete0.0000.0000.001
extractDrugStandard0.0000.0010.000
extractDrugStandardComplete000
extractDrugTPSA000
extractDrugVABC000
extractDrugVAdjMa000
extractDrugWHIM0.0010.0010.000
extractDrugWeight000
extractDrugWeightedPath000
extractDrugWienerNumbers000
extractDrugXLogP0.0010.0000.000
extractDrugZagrebIndex000
extractPCMBLOSUM0.0040.0000.004
extractPCMDescScales0.0040.0010.005
extractPCMFAScales0.0080.0010.010
extractPCMMDSScales0.0030.0000.004
extractPCMPropScales0.0050.0000.005
extractPCMScales0.0050.0020.006
extractProtAAC0.0010.0000.001
extractProtAPAAC0.2630.0070.289
extractProtCTDC0.0010.0010.001
extractProtCTDD0.0010.0010.002
extractProtCTDT0.0020.0000.001
extractProtCTriad0.0270.0050.032
extractProtDC0.0010.0050.005
extractProtGeary0.0390.0030.042
extractProtMoran0.0440.0070.052
extractProtMoreauBroto0.0450.0050.056
extractProtPAAC0.1330.0040.151
extractProtPSSM0.0000.0010.000
extractProtPSSMAcc0.0010.0000.000
extractProtPSSMFeature0.0000.0000.001
extractProtQSO0.2400.0070.250
extractProtSOCN0.2090.0050.214
extractProtTC0.0100.0530.065
getCPI0.0010.0000.002
getDrug000
getFASTAFromKEGG000
getFASTAFromUniProt000
getMolFromCAS000
getMolFromChEMBL000
getMolFromDrugBank000
getMolFromKEGG000
getMolFromPubChem000
getPDBFromRCSBPDB0.0000.0010.000
getPPI0.0010.0000.005
getProt000
getSeqFromKEGG000
getSeqFromRCSBPDB000
getSeqFromUniProt000
getSmiFromChEMBL000
getSmiFromDrugBank0.0000.0010.001
getSmiFromKEGG000
getSmiFromPubChem000
readFASTA0.0010.0000.001
readMolFromSDF0.0000.0010.002
readMolFromSmi000
readPDB0.2620.0020.272
searchDrug0.0010.0010.001
segProt0.0010.0000.001