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This page was generated on 2025-11-28 11:38 -0500 (Fri, 28 Nov 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_64R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences" 4866
lconwaymacOS 12.7.6 Montereyx86_64R Under development (unstable) (2025-10-21 r88958) -- "Unsuffered Consequences" 4614
kjohnson3macOS 13.7.7 Venturaarm64R Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences" 4571
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 1713/2328HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Rcpi 1.47.0  (landing page)
Nan Xiao
Snapshot Date: 2025-11-27 13:40 -0500 (Thu, 27 Nov 2025)
git_url: https://git.bioconductor.org/packages/Rcpi
git_branch: devel
git_last_commit: d010cbe
git_last_commit_date: 2025-10-29 10:18:37 -0500 (Wed, 29 Oct 2025)
nebbiolo1Linux (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: 1.47.0
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_1.47.0.tar.gz
StartedAt: 2025-11-28 04:04:02 -0500 (Fri, 28 Nov 2025)
EndedAt: 2025-11-28 04:06:34 -0500 (Fri, 28 Nov 2025)
EllapsedTime: 152.3 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_1.47.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.23-bioc/meat/Rcpi.Rcheck’
* using R Under development (unstable) (2025-10-21 r88958)
* 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 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 ‘1.47.0’
* 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/4.6-x86_64/Resources/library’
* installing *source* package ‘Rcpi’ ...
** this is package ‘Rcpi’ version ‘1.47.0’
** 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 Under development (unstable) (2025-10-21 r88958) -- "Unsuffered Consequences"
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 
  7.096   0.744   6.929 

Example timings

Rcpi.Rcheck/Rcpi-Ex.timings

nameusersystemelapsed
AA2DACOR0.0020.0020.003
AA3DMoRSE0.0010.0020.002
AAACF0.0010.0020.003
AABLOSUM1000.0010.0020.003
AABLOSUM450.0010.0010.003
AABLOSUM500.0010.0020.002
AABLOSUM620.0010.0010.003
AABLOSUM800.0010.0010.002
AABurden0.0000.0010.002
AACPSA0.0010.0010.003
AAConn0.0000.0010.002
AAConst0.0010.0010.002
AADescAll0.0010.0010.003
AAEdgeAdj0.0010.0010.002
AAEigIdx0.0000.0020.003
AAFGC0.0010.0020.002
AAGETAWAY0.0010.0010.002
AAGeom0.0000.0010.003
AAInfo0.0010.0010.003
AAMOE2D0.0010.0020.002
AAMOE3D0.0000.0010.002
AAMetaInfo0.0010.0020.003
AAMolProp0.0010.0020.002
AAPAM1200.0010.0010.002
AAPAM2500.0010.0020.003
AAPAM300.0010.0020.003
AAPAM400.0010.0010.003
AAPAM700.0010.0020.003
AARDF0.0010.0020.003
AARandic0.0010.0010.003
AATopo0.0000.0010.002
AATopoChg0.0010.0020.003
AAWHIM0.0000.0020.002
AAWalk0.0010.0020.003
AAindex0.0000.0010.002
OptAA3d000
acc0.0260.0050.031
calcDrugFPSim0.0010.0000.000
calcDrugMCSSim0.0050.0050.011
calcParProtGOSim000
calcParProtSeqSim0.0070.0030.011
calcTwoProtGOSim0.0000.0000.001
calcTwoProtSeqSim0.0030.0010.004
checkProt0.0020.0010.002
convMolFormat0.0010.0000.002
extractDrugAIO0.0010.0000.001
extractDrugALOGP0.0010.0000.001
extractDrugAminoAcidCount0.0010.0000.002
extractDrugApol0.0010.0000.001
extractDrugAromaticAtomsCount0.0010.0010.001
extractDrugAromaticBondsCount0.0000.0010.001
extractDrugAtomCount0.0000.0010.001
extractDrugAutocorrelationCharge0.0000.0000.001
extractDrugAutocorrelationMass0.0010.0000.001
extractDrugAutocorrelationPolarizability0.0010.0000.002
extractDrugBCUT0.0000.0000.001
extractDrugBPol0.0010.0010.002
extractDrugBondCount0.0010.0010.001
extractDrugCPSA0.0010.0010.001
extractDrugCarbonTypes0.0000.0010.001
extractDrugChiChain0.0010.0010.001
extractDrugChiCluster0.0010.0000.001
extractDrugChiPath0.0010.0000.001
extractDrugChiPathCluster0.0010.0000.001
extractDrugDescOB0.0070.0050.014
extractDrugECI0.0010.0000.002
extractDrugEstate0.0010.0000.001
extractDrugEstateComplete0.0000.0010.001
extractDrugExtended0.0000.0010.001
extractDrugExtendedComplete0.0000.0000.001
extractDrugFMF0.0010.0000.001
extractDrugFragmentComplexity0.0010.0000.001
extractDrugGraph0.0010.0010.002
extractDrugGraphComplete0.0010.0010.002
extractDrugGravitationalIndex0.0010.0010.002
extractDrugHBondAcceptorCount0.0010.0010.001
extractDrugHBondDonorCount0.0010.0010.002
extractDrugHybridization0.0010.0010.001
extractDrugHybridizationComplete0.0010.0010.001
extractDrugHybridizationRatio0.0010.0010.001
extractDrugIPMolecularLearning0.0000.0010.001
extractDrugKR0.0010.0010.001
extractDrugKRComplete0.0010.0000.001
extractDrugKappaShapeIndices0.0010.0000.001
extractDrugKierHallSmarts0.0010.0000.002
extractDrugLargestChain0.0000.0000.001
extractDrugLargestPiSystem0.0000.0000.001
extractDrugLengthOverBreadth0.0000.0010.001
extractDrugLongestAliphaticChain0.0000.0010.001
extractDrugMACCS0.0010.0000.001
extractDrugMACCSComplete0.0010.0000.002
extractDrugMDE0.0010.0000.001
extractDrugMannholdLogP0.0000.0000.001
extractDrugMomentOfInertia0.0010.0000.002
extractDrugOBFP20.0150.0050.021
extractDrugOBFP30.0080.0040.012
extractDrugOBFP40.0920.0080.100
extractDrugOBMACCS0.0090.0040.013
extractDrugPetitjeanNumber0.0000.0000.001
extractDrugPetitjeanShapeIndex0.0010.0000.002
extractDrugPubChem0.0010.0000.001
extractDrugPubChemComplete0.0010.0000.002
extractDrugRotatableBondsCount0.0000.0000.001
extractDrugRuleOfFive0.0010.0000.002
extractDrugShortestPath0.0010.0000.002
extractDrugShortestPathComplete0.0010.0010.001
extractDrugStandard0.0010.0010.001
extractDrugStandardComplete0.0010.0000.001
extractDrugTPSA0.0010.0000.001
extractDrugVABC0.0000.0000.001
extractDrugVAdjMa0.0010.0000.001
extractDrugWHIM0.0010.0010.001
extractDrugWeight0.0010.0000.001
extractDrugWeightedPath0.0010.0000.001
extractDrugWienerNumbers0.0010.0000.002
extractDrugXLogP0.0010.0010.002
extractDrugZagrebIndex0.0010.0010.001
extractPCMBLOSUM0.0110.0030.014
extractPCMDescScales0.0130.0020.015
extractPCMFAScales0.0260.0070.033
extractPCMMDSScales0.0090.0030.012
extractPCMPropScales0.0120.0010.014
extractPCMScales0.0140.0030.017
extractProtAAC0.0020.0010.002
extractProtAPAAC0.8260.0240.855
extractProtCTDC0.0040.0020.005
extractProtCTDD0.0050.0030.007
extractProtCTDT0.0060.0010.007
extractProtCTriad0.0870.0100.097
extractProtDC0.0030.0040.007
extractProtGeary0.120.010.13
extractProtMoran0.1250.0090.136
extractProtMoreauBroto0.1120.0110.124
extractProtPAAC0.4350.0100.449
extractProtPSSM0.0010.0010.002
extractProtPSSMAcc0.0010.0000.002
extractProtPSSMFeature0.0010.0000.002
extractProtQSO0.7290.0180.753
extractProtSOCN1.0780.0161.107
extractProtTC0.0320.0740.107
getCPI0.0030.0010.003
getDrug000
getFASTAFromKEGG000
getFASTAFromUniProt000
getMolFromCAS000
getMolFromChEMBL0.0000.0010.000
getMolFromDrugBank000
getMolFromKEGG0.0000.0010.000
getMolFromPubChem000
getPDBFromRCSBPDB0.0000.0010.000
getPPI0.0020.0020.004
getProt000
getSeqFromKEGG000
getSeqFromRCSBPDB0.0010.0000.000
getSeqFromUniProt000
getSmiFromChEMBL000
getSmiFromDrugBank0.0000.0000.001
getSmiFromKEGG0.0000.0010.001
getSmiFromPubChem0.0000.0000.001
readFASTA0.0020.0000.002
readMolFromSDF0.0030.0010.004
readMolFromSmi0.0010.0000.001
readPDB0.7690.0100.790
searchDrug0.0020.0010.003
segProt0.0020.0010.004