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This page was generated on 2025-12-22 11:35 -0500 (Mon, 22 Dec 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_64R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences" 4878
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: 2025-12-21 13:40 -0500 (Sun, 21 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: 2025-12-21 21:39:42 -0500 (Sun, 21 Dec 2025)
EndedAt: 2025-12-21 21:40:37 -0500 (Sun, 21 Dec 2025)
EllapsedTime: 55.8 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 
  2.632   0.271   2.413 

Example timings

Rcpi.Rcheck/Rcpi-Ex.timings

nameusersystemelapsed
AA2DACOR0.0010.0020.003
AA3DMoRSE0.0010.0010.001
AAACF0.0010.0010.001
AABLOSUM1000.0000.0000.001
AABLOSUM450.0000.0010.001
AABLOSUM500.0010.0000.001
AABLOSUM620.0000.0010.000
AABLOSUM80000
AABurden0.0000.0010.001
AACPSA0.0010.0000.001
AAConn0.0000.0000.001
AAConst0.0000.0010.001
AADescAll0.0000.0000.001
AAEdgeAdj0.0000.0010.001
AAEigIdx0.0000.0010.001
AAFGC0.0000.0010.001
AAGETAWAY0.0010.0000.001
AAGeom0.0000.0010.000
AAInfo000
AAMOE2D0.0000.0010.000
AAMOE3D0.0000.0010.000
AAMetaInfo0.0000.0000.001
AAMolProp0.0000.0010.001
AAPAM1200.0010.0000.001
AAPAM2500.0000.0010.001
AAPAM30000
AAPAM400.0000.0010.000
AAPAM700.0000.0010.000
AARDF000
AARandic0.0000.0010.001
AATopo0.0010.0010.001
AATopoChg0.0000.0000.001
AAWHIM000
AAWalk0.0010.0010.001
AAindex0.0000.0010.000
OptAA3d000
acc0.0100.0040.019
calcDrugFPSim000
calcDrugMCSSim0.0010.0010.003
calcParProtGOSim000
calcParProtSeqSim0.0020.0010.004
calcTwoProtGOSim0.0000.0010.000
calcTwoProtSeqSim0.0010.0000.001
checkProt0.0000.0000.001
convMolFormat0.0010.0000.001
extractDrugAIO000
extractDrugALOGP0.0000.0000.001
extractDrugAminoAcidCount0.0010.0000.000
extractDrugApol000
extractDrugAromaticAtomsCount0.0000.0000.001
extractDrugAromaticBondsCount0.0000.0010.000
extractDrugAtomCount0.0000.0000.001
extractDrugAutocorrelationCharge000
extractDrugAutocorrelationMass0.0000.0000.001
extractDrugAutocorrelationPolarizability0.0010.0010.001
extractDrugBCUT000
extractDrugBPol000
extractDrugBondCount0.0010.0010.001
extractDrugCPSA000
extractDrugCarbonTypes0.0000.0000.001
extractDrugChiChain0.0010.0010.000
extractDrugChiCluster000
extractDrugChiPath0.0000.0000.001
extractDrugChiPathCluster0.0010.0010.000
extractDrugDescOB0.0010.0010.003
extractDrugECI0.0010.0000.000
extractDrugEstate000
extractDrugEstateComplete0.0000.0000.001
extractDrugExtended0.0010.0000.000
extractDrugExtendedComplete000
extractDrugFMF0.0000.0000.001
extractDrugFragmentComplexity000
extractDrugGraph0.0000.0010.000
extractDrugGraphComplete0.0000.0000.001
extractDrugGravitationalIndex000
extractDrugHBondAcceptorCount0.0010.0000.001
extractDrugHBondDonorCount000
extractDrugHybridization0.0000.0000.001
extractDrugHybridizationComplete0.0010.0000.000
extractDrugHybridizationRatio0.0000.0000.001
extractDrugIPMolecularLearning000
extractDrugKR0.0000.0000.001
extractDrugKRComplete0.0010.0000.000
extractDrugKappaShapeIndices0.0000.0000.001
extractDrugKierHallSmarts000
extractDrugLargestChain0.0010.0010.001
extractDrugLargestPiSystem000
extractDrugLengthOverBreadth000
extractDrugLongestAliphaticChain000
extractDrugMACCS0.0010.0000.000
extractDrugMACCSComplete000
extractDrugMDE000
extractDrugMannholdLogP000
extractDrugMomentOfInertia000
extractDrugOBFP20.0040.0020.008
extractDrugOBFP30.0020.0010.003
extractDrugOBFP40.0410.0020.045
extractDrugOBMACCS0.0020.0010.002
extractDrugPetitjeanNumber0.0010.0000.000
extractDrugPetitjeanShapeIndex000
extractDrugPubChem000
extractDrugPubChemComplete0.0010.0000.000
extractDrugRotatableBondsCount000
extractDrugRuleOfFive0.0000.0000.001
extractDrugShortestPath0.0000.0010.000
extractDrugShortestPathComplete000
extractDrugStandard0.0000.0000.001
extractDrugStandardComplete0.0000.0010.000
extractDrugTPSA0.0010.0000.000
extractDrugVABC000
extractDrugVAdjMa000
extractDrugWHIM000
extractDrugWeight000
extractDrugWeightedPath000
extractDrugWienerNumbers0.0000.0000.001
extractDrugXLogP0.0010.0000.000
extractDrugZagrebIndex0.0000.0000.001
extractPCMBLOSUM0.0030.0010.004
extractPCMDescScales0.0030.0000.004
extractPCMFAScales0.0070.0020.009
extractPCMMDSScales0.0030.0010.004
extractPCMPropScales0.0030.0000.004
extractPCMScales0.0040.0010.006
extractProtAAC0.0000.0000.001
extractProtAPAAC0.2580.0070.272
extractProtCTDC0.0010.0010.001
extractProtCTDD0.0010.0000.002
extractProtCTDT0.0020.0010.002
extractProtCTriad0.0280.0040.033
extractProtDC0.0010.0020.004
extractProtGeary0.0370.0040.044
extractProtMoran0.0460.0080.056
extractProtMoreauBroto0.0350.0030.039
extractProtPAAC0.1240.0040.133
extractProtPSSM0.0010.0000.000
extractProtPSSMAcc0.0000.0000.001
extractProtPSSMFeature0.0000.0010.000
extractProtQSO0.2170.0050.227
extractProtSOCN0.2160.0120.233
extractProtTC0.0100.0380.069
getCPI0.0010.0000.002
getDrug000
getFASTAFromKEGG000
getFASTAFromUniProt000
getMolFromCAS000
getMolFromChEMBL0.0000.0000.001
getMolFromDrugBank0.0000.0010.000
getMolFromKEGG000
getMolFromPubChem0.0000.0000.001
getPDBFromRCSBPDB000
getPPI0.0010.0010.002
getProt000
getSeqFromKEGG000
getSeqFromRCSBPDB000
getSeqFromUniProt0.0000.0010.000
getSmiFromChEMBL000
getSmiFromDrugBank000
getSmiFromKEGG000
getSmiFromPubChem000
readFASTA0.0010.0010.001
readMolFromSDF0.0000.0000.001
readMolFromSmi0.0000.0000.001
readPDB0.2590.0030.264
searchDrug0.0010.0010.001
segProt0.0010.0000.001