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This page was generated on 2025-08-09 12:09 -0400 (Sat, 09 Aug 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.2 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4818
palomino8Windows Server 2022 Datacenterx644.5.1 (2025-06-13 ucrt) -- "Great Square Root" 4553
lconwaymacOS 12.7.1 Montereyx86_644.5.1 (2025-06-13) -- "Great Square Root" 4595
kjohnson3macOS 13.7.1 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4537
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 1699/2317HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Rcpi 1.45.0  (landing page)
Nan Xiao
Snapshot Date: 2025-08-08 13:45 -0400 (Fri, 08 Aug 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 24.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino8Windows Server 2022 Datacenter / x64  OK    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 13.7.1 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: 1.45.0
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: 2025-08-08 23:25:37 -0400 (Fri, 08 Aug 2025)
EndedAt: 2025-08-08 23:28:04 -0400 (Fri, 08 Aug 2025)
EllapsedTime: 146.1 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 (2025-06-13)
* 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 (2025-06-13) -- "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 
  6.938   0.629   6.667 

Example timings

Rcpi.Rcheck/Rcpi-Ex.timings

nameusersystemelapsed
AA2DACOR0.0020.0010.004
AA3DMoRSE0.0010.0010.002
AAACF0.0010.0010.001
AABLOSUM1000.0000.0010.001
AABLOSUM450.0010.0010.002
AABLOSUM500.0010.0010.001
AABLOSUM620.0010.0010.002
AABLOSUM800.0010.0010.002
AABurden0.0010.0010.002
AACPSA0.0010.0010.002
AAConn0.0010.0010.003
AAConst0.0010.0010.001
AADescAll0.0010.0010.002
AAEdgeAdj0.0000.0010.002
AAEigIdx0.0000.0020.002
AAFGC0.0010.0010.002
AAGETAWAY0.0010.0010.001
AAGeom0.0000.0010.002
AAInfo0.0010.0010.002
AAMOE2D0.0010.0010.002
AAMOE3D0.0010.0010.002
AAMetaInfo0.0000.0010.002
AAMolProp0.0010.0010.001
AAPAM1200.0010.0010.002
AAPAM2500.0010.0010.002
AAPAM300.0000.0010.002
AAPAM400.0010.0020.002
AAPAM700.0010.0010.002
AARDF0.0010.0010.002
AARandic0.0010.0010.002
AATopo0.0010.0010.002
AATopoChg0.0000.0010.002
AAWHIM0.0010.0010.002
AAWalk0.0010.0010.002
AAindex0.0010.0010.002
OptAA3d0.0000.0010.000
acc0.0080.0080.016
calcDrugFPSim000
calcDrugMCSSim0.0050.0040.009
calcParProtGOSim0.0000.0000.001
calcParProtSeqSim0.0060.0040.011
calcTwoProtGOSim0.0010.0000.000
calcTwoProtSeqSim0.0020.0010.003
checkProt0.0010.0010.002
convMolFormat0.0010.0000.001
extractDrugAIO0.0000.0000.002
extractDrugALOGP0.0010.0010.001
extractDrugAminoAcidCount0.0010.0010.002
extractDrugApol0.0010.0010.001
extractDrugAromaticAtomsCount0.0010.0010.001
extractDrugAromaticBondsCount0.0010.0010.002
extractDrugAtomCount0.0010.0000.001
extractDrugAutocorrelationCharge0.0010.0010.002
extractDrugAutocorrelationMass0.0000.0010.001
extractDrugAutocorrelationPolarizability0.0010.0010.002
extractDrugBCUT0.0010.0010.001
extractDrugBPol0.0000.0010.001
extractDrugBondCount0.0000.0010.001
extractDrugCPSA0.0000.0000.002
extractDrugCarbonTypes0.0010.0010.001
extractDrugChiChain0.0010.0010.001
extractDrugChiCluster0.0000.0010.001
extractDrugChiPath0.0010.0010.002
extractDrugChiPathCluster0.0010.0010.001
extractDrugDescOB0.0160.0080.024
extractDrugECI0.0020.0010.002
extractDrugEstate0.0010.0010.002
extractDrugEstateComplete0.0000.0000.001
extractDrugExtended0.0010.0000.002
extractDrugExtendedComplete0.0010.0000.001
extractDrugFMF0.0010.0010.001
extractDrugFragmentComplexity0.0000.0010.001
extractDrugGraph0.0010.0010.002
extractDrugGraphComplete0.0010.0010.001
extractDrugGravitationalIndex0.0010.0010.001
extractDrugHBondAcceptorCount0.0010.0010.002
extractDrugHBondDonorCount0.0010.0010.001
extractDrugHybridization0.0010.0000.001
extractDrugHybridizationComplete0.0010.0000.002
extractDrugHybridizationRatio0.0010.0000.001
extractDrugIPMolecularLearning0.0010.0010.002
extractDrugKR0.0000.0010.001
extractDrugKRComplete0.0000.0010.001
extractDrugKappaShapeIndices0.0010.0010.001
extractDrugKierHallSmarts0.0010.0000.002
extractDrugLargestChain0.0010.0010.002
extractDrugLargestPiSystem0.0010.0010.001
extractDrugLengthOverBreadth0.0010.0000.001
extractDrugLongestAliphaticChain0.0000.0000.001
extractDrugMACCS0.0000.0010.002
extractDrugMACCSComplete0.0010.0010.001
extractDrugMDE0.0010.0010.001
extractDrugMannholdLogP0.0010.0010.001
extractDrugMomentOfInertia0.0010.0000.001
extractDrugOBFP20.0070.0030.010
extractDrugOBFP30.0120.0040.017
extractDrugOBFP40.0080.0040.012
extractDrugOBMACCS0.0950.0080.104
extractDrugPetitjeanNumber0.0010.0010.001
extractDrugPetitjeanShapeIndex0.0010.0010.001
extractDrugPubChem0.0010.0010.002
extractDrugPubChemComplete0.0010.0010.001
extractDrugRotatableBondsCount0.0000.0010.001
extractDrugRuleOfFive0.0010.0010.001
extractDrugShortestPath0.0010.0010.002
extractDrugShortestPathComplete0.0010.0010.001
extractDrugStandard0.0010.0010.001
extractDrugStandardComplete0.0010.0010.001
extractDrugTPSA0.0000.0010.001
extractDrugVABC0.0010.0010.001
extractDrugVAdjMa0.0010.0010.001
extractDrugWHIM0.0000.0010.001
extractDrugWeight0.0010.0010.002
extractDrugWeightedPath0.0010.0010.001
extractDrugWienerNumbers0.0010.0010.001
extractDrugXLogP0.0010.0010.001
extractDrugZagrebIndex0.0010.0010.002
extractPCMBLOSUM0.0100.0030.012
extractPCMDescScales0.0120.0020.014
extractPCMFAScales0.0180.0050.022
extractPCMMDSScales0.0110.0030.015
extractPCMPropScales0.0270.0030.032
extractPCMScales0.0160.0030.019
extractProtAAC0.0020.0010.004
extractProtAPAAC0.8300.0230.863
extractProtCTDC0.0030.0010.004
extractProtCTDD0.0050.0030.007
extractProtCTDT0.0040.0010.005
extractProtCTriad0.0900.0100.101
extractProtDC0.0030.0040.007
extractProtGeary0.1250.0100.136
extractProtMoran0.1200.0090.131
extractProtMoreauBroto0.1040.0080.114
extractProtPAAC0.3910.0070.402
extractProtPSSM0.0010.0010.002
extractProtPSSMAcc0.0010.0000.001
extractProtPSSMFeature0.0010.0010.002
extractProtQSO0.6930.0150.714
extractProtSOCN0.7550.0120.775
extractProtTC0.0350.0880.124
getCPI0.0020.0010.004
getDrug000
getFASTAFromKEGG000
getFASTAFromUniProt000
getMolFromCAS000
getMolFromChEMBL0.0000.0000.001
getMolFromDrugBank0.0000.0000.001
getMolFromKEGG000
getMolFromPubChem000
getPDBFromRCSBPDB000
getPPI0.0030.0020.005
getProt000
getSeqFromKEGG0.0010.0010.001
getSeqFromRCSBPDB0.0000.0000.001
getSeqFromUniProt0.0010.0000.000
getSmiFromChEMBL0.0000.0000.001
getSmiFromDrugBank0.0000.0010.001
getSmiFromKEGG0.0000.0000.001
getSmiFromPubChem0.0000.0010.000
readFASTA0.0010.0010.001
readMolFromSDF0.0020.0010.004
readMolFromSmi0.0010.0000.001
readPDB0.7720.0080.787
searchDrug0.0010.0020.003
segProt0.0030.0020.004