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This page was generated on 2025-11-24 12:06 -0500 (Mon, 24 Nov 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4873
merida1macOS 12.7.6 Montereyx86_644.5.2 Patched (2025-11-05 r88990) -- "[Not] Part in a Rumble" 4654
kjohnson1macOS 13.7.5 Venturaarm644.5.2 Patched (2025-11-04 r88984) -- "[Not] Part in a Rumble" 4600
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4668
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: 2025-11-20 15:01 -0500 (Thu, 20 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
merida1macOS 12.7.6 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.7.5 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 kjohnson1

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: 2025-11-22 19:35:47 -0500 (Sat, 22 Nov 2025)
EndedAt: 2025-11-22 19:39:03 -0500 (Sat, 22 Nov 2025)
EllapsedTime: 196.1 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 4.5.2 Patched (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 ‘1.46.0’
* 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 4.5.2 Patched (2025-11-04 r88984) -- "[Not] Part in a Rumble"
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 
  7.620   0.551   9.971 

Example timings

Rcpi.Rcheck/Rcpi-Ex.timings

nameusersystemelapsed
AA2DACOR0.0020.0020.004
AA3DMoRSE0.0010.0020.003
AAACF0.0000.0010.002
AABLOSUM1000.0010.0020.002
AABLOSUM450.0010.0020.002
AABLOSUM500.0010.0010.002
AABLOSUM620.0010.0020.002
AABLOSUM800.0010.0010.003
AABurden0.0010.0010.002
AACPSA0.0000.0010.003
AAConn0.0010.0010.002
AAConst0.0010.0010.002
AADescAll0.0010.0010.002
AAEdgeAdj0.0010.0010.002
AAEigIdx0.0010.0020.002
AAFGC0.0010.0010.002
AAGETAWAY0.0010.0010.002
AAGeom0.0010.0010.002
AAInfo0.0010.0010.004
AAMOE2D0.0000.0010.002
AAMOE3D0.0000.0020.002
AAMetaInfo0.0000.0010.002
AAMolProp0.0010.0020.004
AAPAM1200.0010.0020.002
AAPAM2500.0010.0010.002
AAPAM300.0010.0020.003
AAPAM400.0010.0010.003
AAPAM700.0010.0020.002
AARDF0.0000.0010.002
AARandic0.0000.0010.002
AATopo0.0000.0020.002
AATopoChg0.0000.0010.002
AAWHIM0.0000.0020.002
AAWalk0.0000.0010.002
AAindex0.0000.0010.003
OptAA3d000
acc0.0090.0060.017
calcDrugFPSim0.0000.0000.001
calcDrugMCSSim0.0030.0030.007
calcParProtGOSim000
calcParProtSeqSim0.0050.0030.009
calcTwoProtGOSim0.0000.0000.001
calcTwoProtSeqSim0.0010.0000.003
checkProt0.0010.0000.002
convMolFormat0.0010.0010.002
extractDrugAIO0.0010.0010.004
extractDrugALOGP0.0010.0000.002
extractDrugAminoAcidCount0.0000.0010.001
extractDrugApol0.0000.0000.001
extractDrugAromaticAtomsCount0.0000.0000.001
extractDrugAromaticBondsCount0.0000.0010.001
extractDrugAtomCount0.0000.0000.001
extractDrugAutocorrelationCharge0.0000.0010.001
extractDrugAutocorrelationMass0.0010.0010.002
extractDrugAutocorrelationPolarizability0.0000.0010.001
extractDrugBCUT0.0010.0010.002
extractDrugBPol0.0010.0010.002
extractDrugBondCount0.0010.0010.002
extractDrugCPSA0.0010.0010.002
extractDrugCarbonTypes0.0010.0000.000
extractDrugChiChain0.0010.0000.001
extractDrugChiCluster0.0020.0010.010
extractDrugChiPath0.0010.0010.002
extractDrugChiPathCluster0.0010.0000.002
extractDrugDescOB0.0130.0040.018
extractDrugECI0.0010.0010.001
extractDrugEstate0.0010.0000.001
extractDrugEstateComplete0.0010.0000.002
extractDrugExtended0.0010.0000.001
extractDrugExtendedComplete0.0010.0010.003
extractDrugFMF0.0010.0010.027
extractDrugFragmentComplexity0.0000.0010.001
extractDrugGraph0.0010.0000.001
extractDrugGraphComplete0.0010.0000.001
extractDrugGravitationalIndex0.0010.0010.001
extractDrugHBondAcceptorCount0.0010.0000.001
extractDrugHBondDonorCount0.0010.0000.001
extractDrugHybridization0.0010.0010.001
extractDrugHybridizationComplete0.0010.0000.001
extractDrugHybridizationRatio0.0010.0000.001
extractDrugIPMolecularLearning0.0010.0010.001
extractDrugKR0.0010.0000.001
extractDrugKRComplete0.0010.0000.001
extractDrugKappaShapeIndices0.0010.0010.001
extractDrugKierHallSmarts0.0010.0000.001
extractDrugLargestChain0.0010.0000.001
extractDrugLargestPiSystem0.0010.0010.001
extractDrugLengthOverBreadth0.0010.0000.001
extractDrugLongestAliphaticChain0.0010.0000.001
extractDrugMACCS0.0010.0010.001
extractDrugMACCSComplete0.0010.0000.001
extractDrugMDE0.0010.0010.001
extractDrugMannholdLogP0.0010.0000.001
extractDrugMomentOfInertia0.0010.0000.001
extractDrugOBFP20.0050.0030.008
extractDrugOBFP30.0110.0040.016
extractDrugOBFP40.0070.0030.020
extractDrugOBMACCS0.1290.0050.194
extractDrugPetitjeanNumber0.0010.0000.002
extractDrugPetitjeanShapeIndex0.0010.0010.007
extractDrugPubChem0.0010.0000.001
extractDrugPubChemComplete0.0010.0000.001
extractDrugRotatableBondsCount0.0010.0010.001
extractDrugRuleOfFive0.0010.0000.001
extractDrugShortestPath0.0010.0010.001
extractDrugShortestPathComplete0.0010.0000.001
extractDrugStandard0.0010.0000.001
extractDrugStandardComplete0.0010.0010.001
extractDrugTPSA0.0010.0000.001
extractDrugVABC0.0010.0000.001
extractDrugVAdjMa0.0010.0000.010
extractDrugWHIM0.0010.0010.001
extractDrugWeight0.0000.0000.002
extractDrugWeightedPath0.0010.0000.002
extractDrugWienerNumbers0.0010.0000.001
extractDrugXLogP0.0010.0000.001
extractDrugZagrebIndex0.0010.0010.002
extractPCMBLOSUM0.0110.0020.013
extractPCMDescScales0.0130.0020.019
extractPCMFAScales0.0180.0030.033
extractPCMMDSScales0.0100.0030.013
extractPCMPropScales0.0290.0030.040
extractPCMScales0.0180.0040.033
extractProtAAC0.0030.0010.006
extractProtAPAAC0.7750.0181.039
extractProtCTDC0.0030.0010.005
extractProtCTDD0.0050.0010.006
extractProtCTDT0.0060.0010.014
extractProtCTriad0.0950.0130.183
extractProtDC0.0030.0070.012
extractProtGeary0.1280.0080.187
extractProtMoran0.1240.0110.174
extractProtMoreauBroto0.1090.0080.153
extractProtPAAC0.3730.0060.510
extractProtPSSM0.0020.0010.003
extractProtPSSMAcc0.0010.0010.001
extractProtPSSMFeature0.0010.0010.002
extractProtQSO0.6710.0130.889
extractProtSOCN0.6510.0140.925
extractProtTC0.0300.1000.164
getCPI0.0030.0010.005
getDrug000
getFASTAFromKEGG000
getFASTAFromUniProt0.0000.0000.001
getMolFromCAS0.0000.0000.001
getMolFromChEMBL0.0010.0000.000
getMolFromDrugBank0.0000.0000.001
getMolFromKEGG000
getMolFromPubChem000
getPDBFromRCSBPDB0.0000.0000.001
getPPI0.0030.0020.006
getProt0.0000.0010.001
getSeqFromKEGG000
getSeqFromRCSBPDB0.0000.0010.001
getSeqFromUniProt000
getSmiFromChEMBL0.0010.0000.000
getSmiFromDrugBank000
getSmiFromKEGG000
getSmiFromPubChem000
readFASTA0.0010.0010.002
readMolFromSDF0.0020.0010.003
readMolFromSmi0.0010.0010.001
readPDB0.7880.0071.061
searchDrug0.0020.0000.002
segProt0.0020.0010.003