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This page was generated on 2025-11-20 12:06 -0500 (Thu, 20 Nov 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.2 (2025-10-31) -- "[Not] Part in a Rumble" 4615
merida1macOS 12.7.6 Montereyx86_644.5.2 Patched (2025-11-05 r88990) -- "[Not] Part in a Rumble" 4610
kjohnson1macOS 13.7.5 Venturaarm644.5.2 Patched (2025-11-04 r88984) -- "[Not] Part in a Rumble" 4598
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: 2025-11-17 13:45 -0500 (Mon, 17 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: 2025-11-18 11:31:23 -0500 (Tue, 18 Nov 2025)
EndedAt: 2025-11-18 11:32:21 -0500 (Tue, 18 Nov 2025)
EllapsedTime: 57.5 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 
  2.820   0.198   3.142 

Example timings

Rcpi.Rcheck/Rcpi-Ex.timings

nameusersystemelapsed
AA2DACOR0.0010.0000.001
AA3DMoRSE0.0000.0000.001
AAACF0.0000.0010.001
AABLOSUM1000.0010.0000.001
AABLOSUM450.0000.0000.001
AABLOSUM500.0000.0010.001
AABLOSUM620.0010.0000.001
AABLOSUM800.0000.0010.000
AABurden000
AACPSA0.0000.0010.000
AAConn0.0000.0000.001
AAConst0.0000.0010.001
AADescAll0.0000.0000.001
AAEdgeAdj0.0000.0010.000
AAEigIdx0.0010.0000.000
AAFGC0.0000.0010.000
AAGETAWAY0.0000.0000.001
AAGeom0.0010.0010.001
AAInfo0.0000.0000.001
AAMOE2D0.0000.0010.001
AAMOE3D0.0010.0000.000
AAMetaInfo0.0000.0010.000
AAMolProp0.0000.0000.001
AAPAM1200.0010.0010.001
AAPAM250000
AAPAM300.0000.0010.000
AAPAM400.0010.0000.000
AAPAM700.0000.0010.000
AARDF0.0000.0000.001
AARandic0.0000.0010.001
AATopo0.0000.0000.001
AATopoChg0.0000.0010.001
AAWHIM0.0000.0000.001
AAWalk0.0000.0010.000
AAindex0.0010.0000.000
OptAA3d000
acc0.0030.0020.005
calcDrugFPSim000
calcDrugMCSSim0.0010.0010.002
calcParProtGOSim000
calcParProtSeqSim0.0020.0010.003
calcTwoProtGOSim000
calcTwoProtSeqSim0.0010.0010.000
checkProt000
convMolFormat0.0010.0000.000
extractDrugAIO000
extractDrugALOGP0.0000.0010.000
extractDrugAminoAcidCount0.0010.0000.001
extractDrugApol000
extractDrugAromaticAtomsCount000
extractDrugAromaticBondsCount0.0000.0010.001
extractDrugAtomCount000
extractDrugAutocorrelationCharge0.0000.0000.001
extractDrugAutocorrelationMass000
extractDrugAutocorrelationPolarizability0.0000.0000.001
extractDrugBCUT000
extractDrugBPol0.0010.0000.000
extractDrugBondCount000
extractDrugCPSA000
extractDrugCarbonTypes0.0010.0000.000
extractDrugChiChain000
extractDrugChiCluster0.0000.0000.001
extractDrugChiPath0.0010.0000.000
extractDrugChiPathCluster0.0000.0010.000
extractDrugDescOB0.0050.0010.006
extractDrugECI0.0000.0010.001
extractDrugEstate000
extractDrugEstateComplete000
extractDrugExtended0.0010.0000.001
extractDrugExtendedComplete000
extractDrugFMF000
extractDrugFragmentComplexity0.0010.0000.000
extractDrugGraph000
extractDrugGraphComplete0.0000.0000.001
extractDrugGravitationalIndex000
extractDrugHBondAcceptorCount0.0000.0000.001
extractDrugHBondDonorCount000
extractDrugHybridization0.0000.0010.000
extractDrugHybridizationComplete0.0000.0000.001
extractDrugHybridizationRatio000
extractDrugIPMolecularLearning0.0010.0000.001
extractDrugKR0.0000.0010.000
extractDrugKRComplete0.0000.0000.001
extractDrugKappaShapeIndices0.0010.0000.000
extractDrugKierHallSmarts000
extractDrugLargestChain0.0000.0010.000
extractDrugLargestPiSystem0.0010.0000.000
extractDrugLengthOverBreadth000
extractDrugLongestAliphaticChain000
extractDrugMACCS0.0010.0000.001
extractDrugMACCSComplete000
extractDrugMDE0.0000.0000.001
extractDrugMannholdLogP0.0010.0000.000
extractDrugMomentOfInertia000
extractDrugOBFP20.0020.0000.003
extractDrugOBFP30.0040.0010.005
extractDrugOBFP40.0020.0010.003
extractDrugOBMACCS0.0410.0020.102
extractDrugPetitjeanNumber0.0010.0000.001
extractDrugPetitjeanShapeIndex0.0000.0000.001
extractDrugPubChem0.0010.0000.000
extractDrugPubChemComplete0.0000.0000.001
extractDrugRotatableBondsCount000
extractDrugRuleOfFive0.0010.0000.001
extractDrugShortestPath0.0000.0000.001
extractDrugShortestPathComplete000
extractDrugStandard0.0000.0000.001
extractDrugStandardComplete000
extractDrugTPSA0.0010.0000.000
extractDrugVABC0.0000.0000.001
extractDrugVAdjMa0.0000.0010.000
extractDrugWHIM0.0010.0000.001
extractDrugWeight000
extractDrugWeightedPath000
extractDrugWienerNumbers000
extractDrugXLogP0.0000.0010.000
extractDrugZagrebIndex0.0010.0000.001
extractPCMBLOSUM0.0030.0000.004
extractPCMDescScales0.0040.0010.005
extractPCMFAScales0.0060.0020.007
extractPCMMDSScales0.0040.0010.005
extractPCMPropScales0.0080.0000.008
extractPCMScales0.0060.0010.006
extractProtAAC0.0010.0000.001
extractProtAPAAC0.2650.0060.286
extractProtCTDC0.0010.0010.001
extractProtCTDD0.0020.0000.002
extractProtCTDT0.0020.0000.002
extractProtCTriad0.0320.0040.037
extractProtDC0.0010.0010.003
extractProtGeary0.0410.0030.045
extractProtMoran0.0410.0020.044
extractProtMoreauBroto0.0360.0030.039
extractProtPAAC0.1260.0020.194
extractProtPSSM0.0000.0000.001
extractProtPSSMAcc0.0000.0000.002
extractProtPSSMFeature0.0010.0010.000
extractProtQSO0.2580.0040.364
extractProtSOCN0.2600.0060.321
extractProtTC0.0100.0260.040
getCPI0.0010.0010.001
getDrug000
getFASTAFromKEGG000
getFASTAFromUniProt000
getMolFromCAS000
getMolFromChEMBL0.0000.0000.001
getMolFromDrugBank000
getMolFromKEGG000
getMolFromPubChem000
getPDBFromRCSBPDB000
getPPI0.0000.0010.001
getProt000
getSeqFromKEGG000
getSeqFromRCSBPDB000
getSeqFromUniProt000
getSmiFromChEMBL000
getSmiFromDrugBank0.0000.0010.000
getSmiFromKEGG000
getSmiFromPubChem000
readFASTA0.0010.0000.001
readMolFromSDF0.0010.0010.001
readMolFromSmi000
readPDB0.3610.0040.452
searchDrug0.0020.0000.003
segProt0.0010.0000.002