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This page was generated on 2025-10-04 12:05 -0400 (Sat, 04 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4853
lconwaymacOS 12.7.1 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4640
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4585
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4576
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 1717/2341HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Rcpi 1.45.0  (landing page)
Nan Xiao
Snapshot Date: 2025-10-03 13:45 -0400 (Fri, 03 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 12.7.1 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    OK  


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: 1.45.0
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: 2025-10-04 00:02:22 -0400 (Sat, 04 Oct 2025)
EndedAt: 2025-10-04 00:04:52 -0400 (Sat, 04 Oct 2025)
EllapsedTime: 150.2 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: 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 Monterey 12.7.6
* 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-x86_64/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: 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 
  6.990   0.658   6.709 

Example timings

Rcpi.Rcheck/Rcpi-Ex.timings

nameusersystemelapsed
AA2DACOR0.0020.0010.003
AA3DMoRSE0.0010.0010.003
AAACF0.0010.0020.003
AABLOSUM1000.0010.0020.003
AABLOSUM450.0010.0010.002
AABLOSUM500.0010.0010.002
AABLOSUM620.0010.0010.002
AABLOSUM800.0010.0010.001
AABurden0.0010.0010.002
AACPSA0.0010.0010.002
AAConn0.0000.0010.003
AAConst0.0010.0010.002
AADescAll0.0000.0010.001
AAEdgeAdj0.0010.0010.002
AAEigIdx0.0010.0010.003
AAFGC0.0010.0010.002
AAGETAWAY0.0010.0010.002
AAGeom0.0010.0010.002
AAInfo0.0010.0010.002
AAMOE2D0.0010.0010.002
AAMOE3D0.0010.0010.002
AAMetaInfo0.0010.0010.002
AAMolProp0.0010.0010.003
AAPAM1200.0000.0010.002
AAPAM2500.0010.0020.002
AAPAM300.0010.0010.002
AAPAM400.0010.0010.003
AAPAM700.0010.0010.002
AARDF0.0010.0020.002
AARandic0.0010.0010.002
AATopo0.0000.0010.002
AATopoChg0.0010.0010.002
AAWHIM0.0000.0020.002
AAWalk0.0010.0010.002
AAindex0.0000.0010.002
OptAA3d000
acc0.0080.0090.016
calcDrugFPSim000
calcDrugMCSSim0.0040.0040.009
calcParProtGOSim0.0000.0010.000
calcParProtSeqSim0.0070.0040.012
calcTwoProtGOSim0.0000.0000.001
calcTwoProtSeqSim0.0020.0020.004
checkProt0.0020.0010.002
convMolFormat0.0010.0000.002
extractDrugAIO0.0000.0000.001
extractDrugALOGP0.0010.0000.001
extractDrugAminoAcidCount0.0010.0010.002
extractDrugApol0.0010.0010.001
extractDrugAromaticAtomsCount0.0010.0010.002
extractDrugAromaticBondsCount0.0010.0010.001
extractDrugAtomCount0.0010.0010.002
extractDrugAutocorrelationCharge0.0010.0010.001
extractDrugAutocorrelationMass0.0010.0010.002
extractDrugAutocorrelationPolarizability0.0010.0010.001
extractDrugBCUT0.0010.0000.002
extractDrugBPol0.0010.0000.002
extractDrugBondCount0.0010.0000.001
extractDrugCPSA0.0010.0010.002
extractDrugCarbonTypes0.0010.0010.002
extractDrugChiChain0.0000.0010.002
extractDrugChiCluster0.0010.0010.001
extractDrugChiPath0.0010.0010.002
extractDrugChiPathCluster0.0010.0000.002
extractDrugDescOB0.0160.0060.022
extractDrugECI0.0020.0010.001
extractDrugEstate0.0010.0010.001
extractDrugEstateComplete0.0010.0010.002
extractDrugExtended0.0010.0010.001
extractDrugExtendedComplete0.0000.0010.002
extractDrugFMF0.0010.0010.002
extractDrugFragmentComplexity0.0010.0010.001
extractDrugGraph0.0000.0010.002
extractDrugGraphComplete0.0010.0010.001
extractDrugGravitationalIndex0.0010.0000.001
extractDrugHBondAcceptorCount0.0010.0000.001
extractDrugHBondDonorCount0.0010.0000.002
extractDrugHybridization0.0010.0000.001
extractDrugHybridizationComplete0.0010.0010.002
extractDrugHybridizationRatio0.0010.0010.001
extractDrugIPMolecularLearning0.0010.0010.001
extractDrugKR0.0010.0010.002
extractDrugKRComplete0.0000.0010.001
extractDrugKappaShapeIndices0.0010.0010.002
extractDrugKierHallSmarts0.0010.0000.001
extractDrugLargestChain0.0010.0000.001
extractDrugLargestPiSystem0.0010.0000.002
extractDrugLengthOverBreadth0.0000.0010.001
extractDrugLongestAliphaticChain0.0010.0010.002
extractDrugMACCS0.0010.0010.002
extractDrugMACCSComplete0.0010.0010.001
extractDrugMDE0.0010.0000.002
extractDrugMannholdLogP0.0010.0010.001
extractDrugMomentOfInertia0.0010.0000.002
extractDrugOBFP20.0070.0030.011
extractDrugOBFP30.0130.0060.021
extractDrugOBFP40.0080.0040.013
extractDrugOBMACCS0.0890.0070.099
extractDrugPetitjeanNumber0.0010.0000.001
extractDrugPetitjeanShapeIndex0.0000.0000.001
extractDrugPubChem0.0010.0000.002
extractDrugPubChemComplete0.0010.0000.001
extractDrugRotatableBondsCount0.0010.0010.001
extractDrugRuleOfFive0.0000.0000.001
extractDrugShortestPath0.0010.0000.001
extractDrugShortestPathComplete0.0010.0000.002
extractDrugStandard0.0010.0010.001
extractDrugStandardComplete0.0010.0010.002
extractDrugTPSA0.0010.0010.001
extractDrugVABC0.0000.0010.001
extractDrugVAdjMa0.0010.0010.002
extractDrugWHIM0.0010.0010.001
extractDrugWeight0.0000.0010.001
extractDrugWeightedPath0.0010.0000.001
extractDrugWienerNumbers0.0010.0000.002
extractDrugXLogP0.0010.0000.001
extractDrugZagrebIndex0.0010.0010.001
extractPCMBLOSUM0.0090.0020.012
extractPCMDescScales0.0120.0020.015
extractPCMFAScales0.0150.0040.019
extractPCMMDSScales0.0110.0030.014
extractPCMPropScales0.0260.0030.027
extractPCMScales0.0150.0030.018
extractProtAAC0.0020.0010.002
extractProtAPAAC0.8800.0240.912
extractProtCTDC0.0020.0010.004
extractProtCTDD0.0050.0020.007
extractProtCTDT0.0040.0010.005
extractProtCTriad0.0930.0100.104
extractProtDC0.0030.0050.008
extractProtGeary0.1230.0110.135
extractProtMoran0.1280.0100.140
extractProtMoreauBroto0.1130.0080.122
extractProtPAAC0.4000.0080.410
extractProtPSSM0.0010.0010.002
extractProtPSSMAcc0.0010.0010.002
extractProtPSSMFeature0.0010.0000.002
extractProtQSO0.7090.0140.735
extractProtSOCN0.7020.0110.719
extractProtTC0.0330.0840.118
getCPI0.0030.0020.005
getDrug0.0000.0010.000
getFASTAFromKEGG000
getFASTAFromUniProt0.0000.0010.000
getMolFromCAS0.0000.0000.001
getMolFromChEMBL000
getMolFromDrugBank0.0010.0000.000
getMolFromKEGG000
getMolFromPubChem0.0000.0010.000
getPDBFromRCSBPDB000
getPPI0.0020.0020.005
getProt000
getSeqFromKEGG000
getSeqFromRCSBPDB0.0000.0010.000
getSeqFromUniProt0.0000.0000.001
getSmiFromChEMBL0.0000.0010.001
getSmiFromDrugBank000
getSmiFromKEGG000
getSmiFromPubChem000
readFASTA0.0010.0010.002
readMolFromSDF0.0020.0020.004
readMolFromSmi0.0010.0010.001
readPDB0.7520.0090.769
searchDrug0.0020.0010.003
segProt0.0030.0020.004