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This page was generated on 2025-10-31 12:05 -0400 (Fri, 31 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4901
lconwaymacOS 12.7.6 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4691
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4637
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: 2025-10-30 13:45 -0400 (Thu, 30 Oct 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 -0400 (Wed, 29 Oct 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.6 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


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: 1.46.0
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: 2025-10-30 21:33:51 -0400 (Thu, 30 Oct 2025)
EndedAt: 2025-10-30 21:34:39 -0400 (Thu, 30 Oct 2025)
EllapsedTime: 47.7 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_1.46.0.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 ‘1.46.0’
* 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 4.5.1 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 
  2.404   0.229   2.145 

Example timings

Rcpi.Rcheck/Rcpi-Ex.timings

nameusersystemelapsed
AA2DACOR0.0010.0010.001
AA3DMoRSE0.0010.0000.000
AAACF0.0000.0000.001
AABLOSUM1000.0000.0010.001
AABLOSUM450.0000.0010.001
AABLOSUM500.0000.0000.001
AABLOSUM620.0010.0010.001
AABLOSUM800.0000.0000.001
AABurden0.0000.0010.001
AACPSA0.0010.0010.001
AAConn000
AAConst0.0000.0010.000
AADescAll0.0000.0010.000
AAEdgeAdj0.0010.0000.000
AAEigIdx0.0000.0010.001
AAFGC0.0000.0000.001
AAGETAWAY0.0000.0010.001
AAGeom000
AAInfo0.0000.0010.000
AAMOE2D000
AAMOE3D0.0010.0010.001
AAMetaInfo0.0000.0000.001
AAMolProp0.0000.0010.001
AAPAM1200.0000.0010.000
AAPAM250000
AAPAM300.0000.0010.000
AAPAM400.0000.0000.001
AAPAM700.0010.0000.001
AARDF0.0000.0010.001
AARandic0.0000.0000.001
AATopo0.0000.0010.001
AATopoChg0.0010.0000.000
AAWHIM0.0000.0010.000
AAWalk0.0000.0000.001
AAindex0.0000.0010.001
OptAA3d000
acc0.0030.0020.005
calcDrugFPSim000
calcDrugMCSSim0.0010.0010.003
calcParProtGOSim000
calcParProtSeqSim0.0020.0020.003
calcTwoProtGOSim000
calcTwoProtSeqSim0.0000.0000.001
checkProt0.0010.0010.001
convMolFormat000
extractDrugAIO0.0000.0000.001
extractDrugALOGP0.0010.0000.000
extractDrugAminoAcidCount0.0000.0010.001
extractDrugApol000
extractDrugAromaticAtomsCount0.0000.0000.001
extractDrugAromaticBondsCount000
extractDrugAtomCount0.0000.0010.000
extractDrugAutocorrelationCharge000
extractDrugAutocorrelationMass000
extractDrugAutocorrelationPolarizability000
extractDrugBCUT0.0000.0010.001
extractDrugBPol0.0010.0000.000
extractDrugBondCount0.0000.0000.001
extractDrugCPSA000
extractDrugCarbonTypes0.0000.0010.000
extractDrugChiChain0.0000.0000.001
extractDrugChiCluster000
extractDrugChiPath000
extractDrugChiPathCluster0.0000.0000.001
extractDrugDescOB0.0050.0010.006
extractDrugECI0.0010.0010.001
extractDrugEstate0.0000.0000.001
extractDrugEstateComplete000
extractDrugExtended0.0000.0000.001
extractDrugExtendedComplete0.0000.0010.000
extractDrugFMF0.0000.0000.001
extractDrugFragmentComplexity000
extractDrugGraph0.0010.0000.001
extractDrugGraphComplete0.0000.0000.001
extractDrugGravitationalIndex000
extractDrugHBondAcceptorCount0.0010.0000.001
extractDrugHBondDonorCount000
extractDrugHybridization0.0000.0000.001
extractDrugHybridizationComplete0.0000.0010.000
extractDrugHybridizationRatio0.0000.0000.001
extractDrugIPMolecularLearning000
extractDrugKR0.0000.0000.001
extractDrugKRComplete0.0010.0010.000
extractDrugKappaShapeIndices0.0000.0000.001
extractDrugKierHallSmarts000
extractDrugLargestChain0.0000.0000.001
extractDrugLargestPiSystem000
extractDrugLengthOverBreadth0.0000.0000.001
extractDrugLongestAliphaticChain000
extractDrugMACCS0.0010.0000.000
extractDrugMACCSComplete000
extractDrugMDE0.0000.0010.000
extractDrugMannholdLogP000
extractDrugMomentOfInertia0.0000.0000.001
extractDrugOBFP20.0010.0010.003
extractDrugOBFP30.0030.0020.005
extractDrugOBFP40.0020.0020.004
extractDrugOBMACCS0.0430.0010.044
extractDrugPetitjeanNumber0.0000.0000.001
extractDrugPetitjeanShapeIndex0.0010.0000.001
extractDrugPubChem000
extractDrugPubChemComplete000
extractDrugRotatableBondsCount0.0010.0010.001
extractDrugRuleOfFive000
extractDrugShortestPath0.0000.0000.001
extractDrugShortestPathComplete0.0010.0000.000
extractDrugStandard000
extractDrugStandardComplete000
extractDrugTPSA000
extractDrugVABC000
extractDrugVAdjMa000
extractDrugWHIM0.0000.0000.001
extractDrugWeight0.0010.0000.000
extractDrugWeightedPath0.0000.0000.001
extractDrugWienerNumbers0.0000.0010.000
extractDrugXLogP0.0010.0000.000
extractDrugZagrebIndex000
extractPCMBLOSUM0.0030.0010.004
extractPCMDescScales0.0030.0010.004
extractPCMFAScales0.0050.0010.006
extractPCMMDSScales0.0030.0020.005
extractPCMPropScales0.0100.0030.012
extractPCMScales0.0050.0010.007
extractProtAAC0.0010.0000.001
extractProtAPAAC0.2440.0060.252
extractProtCTDC0.0010.0000.001
extractProtCTDD0.0010.0000.001
extractProtCTDT0.0020.0010.001
extractProtCTriad0.0270.0040.031
extractProtDC0.0010.0010.003
extractProtGeary0.0370.0040.041
extractProtMoran0.0360.0030.040
extractProtMoreauBroto0.0320.0030.034
extractProtPAAC0.1160.0020.118
extractProtPSSM0.0000.0010.001
extractProtPSSMAcc0.0010.0000.000
extractProtPSSMFeature000
extractProtQSO0.2020.0050.208
extractProtSOCN0.2030.0040.206
extractProtTC0.0090.0430.052
getCPI0.0010.0000.001
getDrug000
getFASTAFromKEGG000
getFASTAFromUniProt000
getMolFromCAS000
getMolFromChEMBL000
getMolFromDrugBank000
getMolFromKEGG000
getMolFromPubChem000
getPDBFromRCSBPDB000
getPPI0.0010.0010.001
getProt000
getSeqFromKEGG000
getSeqFromRCSBPDB000
getSeqFromUniProt000
getSmiFromChEMBL0.0010.0010.000
getSmiFromDrugBank000
getSmiFromKEGG000
getSmiFromPubChem000
readFASTA000
readMolFromSDF0.0010.0000.001
readMolFromSmi000
readPDB0.2390.0010.242
searchDrug0.0000.0000.001
segProt0.0010.0000.001