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This page was generated on 2025-10-23 12:06 -0400 (Thu, 23 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4894
lconwaymacOS 12.7.6 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4684
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4629
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4642
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 1727/2355HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Rcpi 1.45.0  (landing page)
Nan Xiao
Snapshot Date: 2025-10-22 13:45 -0400 (Wed, 22 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    OK    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: 2025-10-22 21:32:02 -0400 (Wed, 22 Oct 2025)
EndedAt: 2025-10-22 21:32:51 -0400 (Wed, 22 Oct 2025)
EllapsedTime: 48.7 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_1.45.0.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 
  2.418   0.242   2.151 

Example timings

Rcpi.Rcheck/Rcpi-Ex.timings

nameusersystemelapsed
AA2DACOR0.0000.0010.001
AA3DMoRSE0.0010.0000.001
AAACF0.0000.0010.001
AABLOSUM1000.0000.0010.001
AABLOSUM450.0000.0000.001
AABLOSUM500.0000.0000.001
AABLOSUM620.0010.0000.000
AABLOSUM800.0000.0010.000
AABurden0.0000.0000.001
AACPSA0.0000.0010.001
AAConn0.0010.0000.001
AAConst0.0000.0010.001
AADescAll0.0000.0010.001
AAEdgeAdj000
AAEigIdx0.0000.0010.000
AAFGC0.0000.0000.001
AAGETAWAY0.0000.0010.001
AAGeom0.0010.0000.001
AAInfo0.0000.0010.000
AAMOE2D000
AAMOE3D0.0000.0010.001
AAMetaInfo0.0010.0000.001
AAMolProp0.0000.0010.001
AAPAM1200.0000.0010.001
AAPAM2500.0000.0000.001
AAPAM300.0000.0010.000
AAPAM40000
AAPAM700.0000.0000.001
AARDF0.0000.0000.001
AARandic0.0000.0000.001
AATopo000
AATopoChg000
AAWHIM0.0010.0010.001
AAWalk0.0000.0000.001
AAindex0.0000.0010.001
OptAA3d000
acc0.0030.0020.005
calcDrugFPSim000
calcDrugMCSSim0.0010.0010.002
calcParProtGOSim000
calcParProtSeqSim0.0010.0000.004
calcTwoProtGOSim000
calcTwoProtSeqSim0.0000.0000.001
checkProt0.0010.0000.001
convMolFormat000
extractDrugAIO0.0010.0000.000
extractDrugALOGP0.0000.0000.001
extractDrugAminoAcidCount000
extractDrugApol0.0010.0000.001
extractDrugAromaticAtomsCount000
extractDrugAromaticBondsCount0.0000.0000.001
extractDrugAtomCount000
extractDrugAutocorrelationCharge000
extractDrugAutocorrelationMass000
extractDrugAutocorrelationPolarizability000
extractDrugBCUT0.0010.0010.001
extractDrugBPol000
extractDrugBondCount000
extractDrugCPSA0.0000.0000.001
extractDrugCarbonTypes0.0000.0010.000
extractDrugChiChain0.0000.0000.001
extractDrugChiCluster0.0010.0000.000
extractDrugChiPath0.0000.0000.001
extractDrugChiPathCluster0.0000.0010.000
extractDrugDescOB0.0060.0010.007
extractDrugECI0.0000.0010.001
extractDrugEstate000
extractDrugEstateComplete0.0000.0000.001
extractDrugExtended000
extractDrugExtendedComplete0.0000.0010.000
extractDrugFMF0.0000.0000.001
extractDrugFragmentComplexity0.0010.0000.000
extractDrugGraph000
extractDrugGraphComplete0.0000.0010.000
extractDrugGravitationalIndex0.0010.0000.000
extractDrugHBondAcceptorCount000
extractDrugHBondDonorCount000
extractDrugHybridization000
extractDrugHybridizationComplete000
extractDrugHybridizationRatio000
extractDrugIPMolecularLearning000
extractDrugKR0.0010.0010.001
extractDrugKRComplete0.0000.0000.001
extractDrugKappaShapeIndices000
extractDrugKierHallSmarts0.0010.0000.000
extractDrugLargestChain0.0000.0000.001
extractDrugLargestPiSystem000
extractDrugLengthOverBreadth0.0010.0000.000
extractDrugLongestAliphaticChain0.0000.0000.001
extractDrugMACCS000
extractDrugMACCSComplete0.0000.0000.001
extractDrugMDE000
extractDrugMannholdLogP000
extractDrugMomentOfInertia0.0000.0010.001
extractDrugOBFP20.0010.0010.002
extractDrugOBFP30.0040.0010.005
extractDrugOBFP40.0020.0010.003
extractDrugOBMACCS0.0420.0030.045
extractDrugPetitjeanNumber0.0000.0000.001
extractDrugPetitjeanShapeIndex000
extractDrugPubChem0.0010.0010.000
extractDrugPubChemComplete000
extractDrugRotatableBondsCount000
extractDrugRuleOfFive0.0010.0000.001
extractDrugShortestPath000
extractDrugShortestPathComplete0.0000.0000.001
extractDrugStandard000
extractDrugStandardComplete0.0010.0000.001
extractDrugTPSA000
extractDrugVABC000
extractDrugVAdjMa0.0010.0000.000
extractDrugWHIM000
extractDrugWeight000
extractDrugWeightedPath000
extractDrugWienerNumbers0.0010.0000.001
extractDrugXLogP0.0000.0010.000
extractDrugZagrebIndex0.0000.0000.001
extractPCMBLOSUM0.0040.0010.004
extractPCMDescScales0.0030.0000.004
extractPCMFAScales0.0040.0020.006
extractPCMMDSScales0.0020.0010.004
extractPCMPropScales0.0070.0010.009
extractPCMScales0.0050.0010.007
extractProtAAC0.0010.0000.001
extractProtAPAAC0.2480.0070.256
extractProtCTDC0.0010.0000.001
extractProtCTDD0.0010.0010.002
extractProtCTDT0.0020.0000.002
extractProtCTriad0.0280.0030.032
extractProtDC0.0010.0020.004
extractProtGeary0.0380.0050.042
extractProtMoran0.0380.0040.042
extractProtMoreauBroto0.0330.0040.037
extractProtPAAC0.1170.0020.119
extractProtPSSM000
extractProtPSSMAcc0.0010.0000.001
extractProtPSSMFeature0.0000.0010.001
extractProtQSO0.2060.0040.222
extractProtSOCN0.2090.0050.213
extractProtTC0.0100.0320.042
getCPI0.0010.0010.002
getDrug000
getFASTAFromKEGG000
getFASTAFromUniProt0.0000.0010.001
getMolFromCAS000
getMolFromChEMBL000
getMolFromDrugBank0.0000.0000.001
getMolFromKEGG000
getMolFromPubChem000
getPDBFromRCSBPDB000
getPPI0.0010.0000.001
getProt000
getSeqFromKEGG000
getSeqFromRCSBPDB000
getSeqFromUniProt000
getSmiFromChEMBL000
getSmiFromDrugBank0.0000.0000.001
getSmiFromKEGG000
getSmiFromPubChem0.0000.0010.000
readFASTA0.0000.0000.001
readMolFromSDF0.0010.0000.001
readMolFromSmi000
readPDB0.2450.0020.253
searchDrug0.0010.0000.001
segProt0.0000.0010.001