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This page was generated on 2025-10-25 12:06 -0400 (Sat, 25 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
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4658
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 1.45.0  (landing page)
Nan Xiao
Snapshot Date: 2025-10-24 13:45 -0400 (Fri, 24 Oct 2025)
git_url: https://git.bioconductor.org/packages/Rcpi
git_branch: devel
git_last_commit: dba81ab
git_last_commit_date: 2025-04-15 10:29:42 -0400 (Tue, 15 Apr 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
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    NA    NA  


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: 1.45.0
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_1.45.0.tar.gz
StartedAt: 2025-10-24 21:34:26 -0400 (Fri, 24 Oct 2025)
EndedAt: 2025-10-24 21:35:16 -0400 (Fri, 24 Oct 2025)
EllapsedTime: 49.8 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_1.45.0.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 ‘1.45.0’
* 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 ‘1.45.0’
** 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 
  2.546   0.227   2.378 

Example timings

Rcpi.Rcheck/Rcpi-Ex.timings

nameusersystemelapsed
AA2DACOR0.0010.0000.001
AA3DMoRSE0.0000.0000.001
AAACF0.0000.0010.001
AABLOSUM1000.0000.0010.000
AABLOSUM45000
AABLOSUM500.0000.0010.000
AABLOSUM620.0000.0000.001
AABLOSUM800.0000.0010.001
AABurden0.0010.0000.001
AACPSA0.0000.0000.001
AAConn000
AAConst000
AADescAll0.0000.0000.001
AAEdgeAdj0.0000.0000.001
AAEigIdx0.0000.0010.001
AAFGC0.0010.0000.001
AAGETAWAY0.0000.0000.001
AAGeom0.0000.0010.001
AAInfo000
AAMOE2D0.0000.0010.000
AAMOE3D0.0000.0000.001
AAMetaInfo0.0000.0010.001
AAMolProp0.0010.0000.001
AAPAM1200.0000.0000.001
AAPAM2500.0000.0010.001
AAPAM300.0000.0000.001
AAPAM400.0000.0000.001
AAPAM700.0000.0010.000
AARDF000
AARandic0.0010.0010.001
AATopo0.0000.0000.001
AATopoChg0.0000.0010.001
AAWHIM0.0000.0010.001
AAWalk0.0010.0000.001
AAindex0.0000.0010.001
OptAA3d000
acc0.0030.0030.005
calcDrugFPSim000
calcDrugMCSSim0.0010.0010.003
calcParProtGOSim000
calcParProtSeqSim0.0010.0010.004
calcTwoProtGOSim0.0000.0010.000
calcTwoProtSeqSim0.0000.0000.001
checkProt0.0010.0000.001
convMolFormat0.0000.0010.001
extractDrugAIO000
extractDrugALOGP0.0010.0000.001
extractDrugAminoAcidCount0.0000.0010.000
extractDrugApol000
extractDrugAromaticAtomsCount0.0000.0000.001
extractDrugAromaticBondsCount000
extractDrugAtomCount0.0000.0000.001
extractDrugAutocorrelationCharge000
extractDrugAutocorrelationMass0.0010.0000.000
extractDrugAutocorrelationPolarizability0.0000.0010.000
extractDrugBCUT000
extractDrugBPol0.0010.0000.001
extractDrugBondCount000
extractDrugCPSA0.0000.0000.001
extractDrugCarbonTypes000
extractDrugChiChain0.0000.0000.001
extractDrugChiCluster000
extractDrugChiPath0.0000.0010.001
extractDrugChiPathCluster0.0010.0000.000
extractDrugDescOB0.0050.0010.006
extractDrugECI0.0010.0010.000
extractDrugEstate000
extractDrugEstateComplete0.0000.0010.000
extractDrugExtended0.0010.0000.001
extractDrugExtendedComplete0.0000.0000.001
extractDrugFMF000
extractDrugFragmentComplexity0.0000.0000.001
extractDrugGraph000
extractDrugGraphComplete000
extractDrugGravitationalIndex0.0000.0000.001
extractDrugHBondAcceptorCount0.0010.0000.000
extractDrugHBondDonorCount000
extractDrugHybridization000
extractDrugHybridizationComplete000
extractDrugHybridizationRatio000
extractDrugIPMolecularLearning000
extractDrugKR0.0000.0000.001
extractDrugKRComplete0.0010.0000.000
extractDrugKappaShapeIndices0.0000.0010.001
extractDrugKierHallSmarts000
extractDrugLargestChain0.0000.0000.001
extractDrugLargestPiSystem0.0010.0000.000
extractDrugLengthOverBreadth0.0000.0010.000
extractDrugLongestAliphaticChain000
extractDrugMACCS000
extractDrugMACCSComplete000
extractDrugMDE000
extractDrugMannholdLogP000
extractDrugMomentOfInertia0.0010.0000.000
extractDrugOBFP20.0010.0010.003
extractDrugOBFP30.0040.0010.005
extractDrugOBFP40.0020.0010.002
extractDrugOBMACCS0.0400.0020.041
extractDrugPetitjeanNumber0.0010.0000.000
extractDrugPetitjeanShapeIndex0.0000.0000.001
extractDrugPubChem000
extractDrugPubChemComplete0.0010.0000.000
extractDrugRotatableBondsCount0.0000.0000.001
extractDrugRuleOfFive000
extractDrugShortestPath0.0010.0000.001
extractDrugShortestPathComplete000
extractDrugStandard0.0000.0000.001
extractDrugStandardComplete000
extractDrugTPSA0.0000.0010.001
extractDrugVABC000
extractDrugVAdjMa0.0000.0000.001
extractDrugWHIM0.0010.0000.000
extractDrugWeight0.0000.0010.001
extractDrugWeightedPath000
extractDrugWienerNumbers0.0000.0000.001
extractDrugXLogP0.0010.0000.000
extractDrugZagrebIndex000
extractPCMBLOSUM0.0030.0000.004
extractPCMDescScales0.0040.0000.005
extractPCMFAScales0.0050.0020.006
extractPCMMDSScales0.0030.0010.004
extractPCMPropScales0.0070.0010.008
extractPCMScales0.0060.0020.007
extractProtAAC0.0010.0000.001
extractProtAPAAC0.2460.0060.254
extractProtCTDC0.0010.0000.001
extractProtCTDD0.0010.0010.002
extractProtCTDT0.0010.0000.001
extractProtCTriad0.0270.0020.029
extractProtDC0.0010.0020.003
extractProtGeary0.0370.0030.041
extractProtMoran0.0410.0060.048
extractProtMoreauBroto0.0330.0020.036
extractProtPAAC0.1160.0010.117
extractProtPSSM000
extractProtPSSMAcc0.0010.0000.001
extractProtPSSMFeature0.0000.0000.001
extractProtQSO0.2120.0030.215
extractProtSOCN0.2040.0060.210
extractProtTC0.0100.0290.052
getCPI0.0010.0000.001
getDrug000
getFASTAFromKEGG0.0000.0000.001
getFASTAFromUniProt0.0000.0010.000
getMolFromCAS000
getMolFromChEMBL000
getMolFromDrugBank000
getMolFromKEGG000
getMolFromPubChem000
getPDBFromRCSBPDB000
getPPI0.0010.0010.001
getProt000
getSeqFromKEGG000
getSeqFromRCSBPDB000
getSeqFromUniProt000
getSmiFromChEMBL000
getSmiFromDrugBank000
getSmiFromKEGG000
getSmiFromPubChem000
readFASTA0.0000.0000.001
readMolFromSDF0.0010.0010.001
readMolFromSmi0.0000.0000.001
readPDB0.2450.0010.246
searchDrug0.0010.0010.001
segProt0.0010.0000.001