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This page was generated on 2025-11-04 12:04 -0500 (Tue, 04 Nov 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4902
lconwaymacOS 12.7.6 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4692
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4638
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: 2025-11-03 13:45 -0500 (Mon, 03 Nov 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
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 lconway

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: 2025-11-03 23:38:49 -0500 (Mon, 03 Nov 2025)
EndedAt: 2025-11-03 23:41:17 -0500 (Mon, 03 Nov 2025)
EllapsedTime: 147.6 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: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Monterey 12.7.6
* 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-x86_64/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: x86_64-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 
  6.835   0.640   6.564 

Example timings

Rcpi.Rcheck/Rcpi-Ex.timings

nameusersystemelapsed
AA2DACOR0.0020.0010.003
AA3DMoRSE0.0010.0010.003
AAACF0.0000.0010.002
AABLOSUM1000.0010.0010.002
AABLOSUM450.0010.0010.001
AABLOSUM500.0010.0010.002
AABLOSUM620.0000.0010.002
AABLOSUM800.0010.0010.001
AABurden0.0010.0010.002
AACPSA0.0010.0000.001
AAConn0.0010.0000.001
AAConst0.0000.0010.002
AADescAll0.0000.0010.002
AAEdgeAdj0.0000.0010.001
AAEigIdx0.0000.0010.001
AAFGC0.0000.0010.002
AAGETAWAY0.0010.0020.002
AAGeom0.0010.0010.002
AAInfo0.0010.0010.003
AAMOE2D0.0010.0010.002
AAMOE3D0.0010.0010.001
AAMetaInfo0.0000.0000.002
AAMolProp0.0000.0010.001
AAPAM1200.0010.0010.003
AAPAM2500.0000.0010.002
AAPAM300.0000.0010.001
AAPAM400.0010.0010.002
AAPAM700.0010.0010.002
AARDF0.0010.0010.002
AARandic0.0000.0010.001
AATopo0.0000.0000.001
AATopoChg0.0010.0010.002
AAWHIM0.0010.0010.002
AAWalk0.0010.0010.002
AAindex0.0010.0010.002
OptAA3d000
acc0.0100.0090.019
calcDrugFPSim000
calcDrugMCSSim0.0050.0050.011
calcParProtGOSim0.0000.0000.001
calcParProtSeqSim0.0080.0030.012
calcTwoProtGOSim0.0000.0010.000
calcTwoProtSeqSim0.0020.0020.006
checkProt0.0010.0010.003
convMolFormat0.0010.0010.001
extractDrugAIO0.0010.0010.001
extractDrugALOGP0.0000.0010.001
extractDrugAminoAcidCount0.0010.0010.001
extractDrugApol0.0010.0010.001
extractDrugAromaticAtomsCount0.0010.0010.002
extractDrugAromaticBondsCount0.0010.0010.001
extractDrugAtomCount0.0010.0000.001
extractDrugAutocorrelationCharge0.0010.0000.001
extractDrugAutocorrelationMass0.0010.0010.002
extractDrugAutocorrelationPolarizability0.0010.0010.001
extractDrugBCUT0.0010.0000.001
extractDrugBPol0.0010.0000.002
extractDrugBondCount0.0010.0000.001
extractDrugCPSA0.0000.0000.001
extractDrugCarbonTypes0.0010.0010.002
extractDrugChiChain0.0010.0010.001
extractDrugChiCluster0.0010.0010.002
extractDrugChiPath0.0010.0010.001
extractDrugChiPathCluster0.0000.0000.002
extractDrugDescOB0.0150.0070.023
extractDrugECI0.0020.0000.003
extractDrugEstate0.0010.0000.001
extractDrugEstateComplete0.0010.0000.001
extractDrugExtended0.0010.0010.002
extractDrugExtendedComplete0.0010.0000.001
extractDrugFMF0.0010.0000.002
extractDrugFragmentComplexity0.0000.0000.001
extractDrugGraph0.0010.0010.001
extractDrugGraphComplete0.0010.0000.002
extractDrugGravitationalIndex0.0010.0000.001
extractDrugHBondAcceptorCount0.0010.0000.002
extractDrugHBondDonorCount0.0010.0000.001
extractDrugHybridization0.0010.0010.002
extractDrugHybridizationComplete0.0010.0000.001
extractDrugHybridizationRatio0.0010.0000.002
extractDrugIPMolecularLearning0.0010.0000.001
extractDrugKR0.0010.0000.001
extractDrugKRComplete0.0010.0010.001
extractDrugKappaShapeIndices0.0000.0010.001
extractDrugKierHallSmarts0.0010.0010.001
extractDrugLargestChain0.0010.0010.001
extractDrugLargestPiSystem0.0010.0000.001
extractDrugLengthOverBreadth0.0000.0000.002
extractDrugLongestAliphaticChain0.0010.0000.001
extractDrugMACCS0.0010.0000.001
extractDrugMACCSComplete0.0010.0010.001
extractDrugMDE0.0000.0010.001
extractDrugMannholdLogP0.0000.0000.001
extractDrugMomentOfInertia0.0000.0010.001
extractDrugOBFP20.0070.0040.011
extractDrugOBFP30.0130.0070.020
extractDrugOBFP40.0080.0040.012
extractDrugOBMACCS0.0970.0080.105
extractDrugPetitjeanNumber0.0020.0010.001
extractDrugPetitjeanShapeIndex0.0010.0000.001
extractDrugPubChem0.0010.0000.001
extractDrugPubChemComplete0.0010.0000.002
extractDrugRotatableBondsCount0.0010.0000.002
extractDrugRuleOfFive0.0010.0000.001
extractDrugShortestPath0.0010.0000.002
extractDrugShortestPathComplete0.0010.0010.002
extractDrugStandard0.0000.0000.001
extractDrugStandardComplete0.0010.0010.001
extractDrugTPSA0.0010.0010.001
extractDrugVABC0.0010.0010.002
extractDrugVAdjMa0.0010.0010.001
extractDrugWHIM0.0010.0010.002
extractDrugWeight0.0010.0010.001
extractDrugWeightedPath0.0010.0010.002
extractDrugWienerNumbers0.0000.0010.001
extractDrugXLogP0.0000.0010.002
extractDrugZagrebIndex0.0010.0010.001
extractPCMBLOSUM0.0090.0020.011
extractPCMDescScales0.0110.0010.013
extractPCMFAScales0.0180.0040.022
extractPCMMDSScales0.0090.0030.013
extractPCMPropScales0.0200.0030.023
extractPCMScales0.0170.0030.020
extractProtAAC0.0020.0000.002
extractProtAPAAC0.8520.0270.891
extractProtCTDC0.0020.0010.004
extractProtCTDD0.0040.0020.007
extractProtCTDT0.0040.0010.005
extractProtCTriad0.1110.0100.122
extractProtDC0.0030.0040.006
extractProtGeary0.1350.0170.155
extractProtMoran0.1410.0190.172
extractProtMoreauBroto0.1250.0150.141
extractProtPAAC0.4320.0100.449
extractProtPSSM0.0010.0010.002
extractProtPSSMAcc0.0010.0010.002
extractProtPSSMFeature0.0010.0010.001
extractProtQSO0.6530.0110.669
extractProtSOCN0.6030.0090.619
extractProtTC0.0290.0760.106
getCPI0.0030.0020.005
getDrug0.0010.0010.001
getFASTAFromKEGG000
getFASTAFromUniProt0.0000.0000.001
getMolFromCAS0.0010.0000.000
getMolFromChEMBL000
getMolFromDrugBank0.0010.0000.000
getMolFromKEGG000
getMolFromPubChem0.0000.0000.001
getPDBFromRCSBPDB0.0000.0010.001
getPPI0.0020.0020.005
getProt000
getSeqFromKEGG0.0010.0000.000
getSeqFromRCSBPDB000
getSeqFromUniProt0.0000.0000.001
getSmiFromChEMBL000
getSmiFromDrugBank000
getSmiFromKEGG000
getSmiFromPubChem000
readFASTA0.0010.0010.002
readMolFromSDF0.0020.0010.003
readMolFromSmi0.0010.0000.002
readPDB0.6830.0070.694
searchDrug0.0010.0010.002
segProt0.0010.0010.003