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This page was generated on 2025-08-28 11:40 -0400 (Thu, 28 Aug 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4824
merida1macOS 12.7.5 Montereyx86_644.5.1 RC (2025-06-05 r88288) -- "Great Square Root" 4604
kjohnson1macOS 13.6.6 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4545
kunpeng2Linux (openEuler 24.03 LTS)aarch64R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" 4579
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 1.44.0  (landing page)
Nan Xiao
Snapshot Date: 2025-08-25 13:40 -0400 (Mon, 25 Aug 2025)
git_url: https://git.bioconductor.org/packages/Rcpi
git_branch: RELEASE_3_21
git_last_commit: a5056ba
git_last_commit_date: 2025-04-15 10:29:42 -0400 (Tue, 15 Apr 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.5 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.6 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
kunpeng2Linux (openEuler 24.03 LTS) / aarch64  OK    OK    OK  


CHECK results for Rcpi on merida1

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: 1.44.0
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_1.44.0.tar.gz
StartedAt: 2025-08-26 08:31:57 -0400 (Tue, 26 Aug 2025)
EndedAt: 2025-08-26 08:36:23 -0400 (Tue, 26 Aug 2025)
EllapsedTime: 265.7 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_1.44.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.21-bioc/meat/Rcpi.Rcheck’
* using R version 4.5.1 RC (2025-06-05 r88288)
* 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 ‘1.44.0’
* 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 ‘1.44.0’
** 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 RC (2025-06-05 r88288) -- "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 
 12.799   0.971  12.982 

Example timings

Rcpi.Rcheck/Rcpi-Ex.timings

nameusersystemelapsed
AA2DACOR0.0030.0030.005
AA3DMoRSE0.0010.0020.004
AAACF0.0020.0020.005
AABLOSUM1000.0010.0030.004
AABLOSUM450.0020.0020.004
AABLOSUM500.0010.0020.003
AABLOSUM620.0010.0010.003
AABLOSUM800.0020.0020.003
AABurden0.0010.0020.006
AACPSA0.0020.0020.004
AAConn0.0010.0020.004
AAConst0.0020.0020.004
AADescAll0.0010.0020.003
AAEdgeAdj0.0020.0030.005
AAEigIdx0.0010.0030.004
AAFGC0.0020.0020.005
AAGETAWAY0.0010.0020.004
AAGeom0.0020.0020.005
AAInfo0.0020.0020.004
AAMOE2D0.0010.0020.003
AAMOE3D0.0020.0020.004
AAMetaInfo0.0010.0020.005
AAMolProp0.0020.0020.003
AAPAM1200.0010.0020.004
AAPAM2500.0020.0020.004
AAPAM300.0010.0020.004
AAPAM400.0010.0020.003
AAPAM700.0020.0020.004
AARDF0.0010.0020.005
AARandic0.0020.0020.004
AATopo0.0010.0020.003
AATopoChg0.0020.0020.003
AAWHIM0.0010.0020.003
AAWalk0.0010.0020.003
AAindex0.0020.0020.004
OptAA3d0.0000.0010.000
acc0.0170.0170.037
calcDrugFPSim0.0010.0010.001
calcDrugMCSSim0.0060.0070.014
calcParProtGOSim0.0010.0010.001
calcParProtSeqSim0.0100.0040.016
calcTwoProtGOSim0.0010.0000.002
calcTwoProtSeqSim0.0030.0020.006
checkProt0.0030.0010.004
convMolFormat0.0020.0020.003
extractDrugAIO0.0010.0010.002
extractDrugALOGP0.0020.0010.002
extractDrugAminoAcidCount0.0010.0000.002
extractDrugApol0.0010.0010.003
extractDrugAromaticAtomsCount0.0020.0010.002
extractDrugAromaticBondsCount0.0010.0010.002
extractDrugAtomCount0.0010.0010.002
extractDrugAutocorrelationCharge0.0020.0000.002
extractDrugAutocorrelationMass0.0010.0010.003
extractDrugAutocorrelationPolarizability0.0020.0010.003
extractDrugBCUT0.0010.0010.003
extractDrugBPol0.0020.0010.002
extractDrugBondCount0.0010.0000.002
extractDrugCPSA0.0010.0010.002
extractDrugCarbonTypes0.0020.0010.002
extractDrugChiChain0.0010.0010.002
extractDrugChiCluster0.0020.0010.002
extractDrugChiPath0.0010.0000.002
extractDrugChiPathCluster0.0020.0010.002
extractDrugDescOB0.0100.0060.018
extractDrugECI0.0020.0010.002
extractDrugEstate0.0010.0000.002
extractDrugEstateComplete0.0020.0010.003
extractDrugExtended0.0010.0000.002
extractDrugExtendedComplete0.0010.0010.004
extractDrugFMF0.0010.0010.003
extractDrugFragmentComplexity0.0010.0010.003
extractDrugGraph0.0020.0000.002
extractDrugGraphComplete0.0010.0010.002
extractDrugGravitationalIndex0.0020.0010.003
extractDrugHBondAcceptorCount0.0010.0010.002
extractDrugHBondDonorCount0.0010.0010.002
extractDrugHybridization0.0020.0010.002
extractDrugHybridizationComplete0.0010.0010.002
extractDrugHybridizationRatio0.0010.0010.002
extractDrugIPMolecularLearning0.0020.0000.002
extractDrugKR0.0020.0010.002
extractDrugKRComplete0.0010.0010.002
extractDrugKappaShapeIndices0.0020.0010.002
extractDrugKierHallSmarts0.0020.0000.002
extractDrugLargestChain0.0010.0010.002
extractDrugLargestPiSystem0.0020.0000.002
extractDrugLengthOverBreadth0.0010.0010.002
extractDrugLongestAliphaticChain0.0010.0010.002
extractDrugMACCS0.0020.0010.002
extractDrugMACCSComplete0.0010.0010.002
extractDrugMDE0.0010.0000.002
extractDrugMannholdLogP0.0020.0010.003
extractDrugMomentOfInertia0.0010.0000.002
extractDrugOBFP20.0290.0090.039
extractDrugOBFP30.0110.0050.016
extractDrugOBFP40.0110.0060.020
extractDrugOBMACCS0.0110.0060.017
extractDrugPetitjeanNumber0.0020.0010.002
extractDrugPetitjeanShapeIndex0.0010.0010.002
extractDrugPubChem0.0010.0010.002
extractDrugPubChemComplete0.0020.0000.002
extractDrugRotatableBondsCount0.0010.0010.002
extractDrugRuleOfFive0.0010.0010.002
extractDrugShortestPath0.0010.0010.003
extractDrugShortestPathComplete0.0020.0010.003
extractDrugStandard0.0010.0010.003
extractDrugStandardComplete0.0020.0010.002
extractDrugTPSA0.0020.0010.002
extractDrugVABC0.0010.0010.002
extractDrugVAdjMa0.0010.0000.002
extractDrugWHIM0.0020.0010.003
extractDrugWeight0.0010.0010.002
extractDrugWeightedPath0.0020.0010.002
extractDrugWienerNumbers0.0010.0010.002
extractDrugXLogP0.0010.0010.002
extractDrugZagrebIndex0.0010.0000.002
extractPCMBLOSUM0.1040.0100.114
extractPCMDescScales0.0200.0040.024
extractPCMFAScales0.0280.0070.035
extractPCMMDSScales0.0170.0050.022
extractPCMPropScales0.0190.0030.023
extractPCMScales0.0310.0060.037
extractProtAAC0.0030.0020.005
extractProtAPAAC1.7910.0702.073
extractProtCTDC0.0040.0020.006
extractProtCTDD0.0080.0050.018
extractProtCTDT0.0090.0010.013
extractProtCTriad0.1850.0250.246
extractProtDC0.0070.0150.026
extractProtGeary0.2900.0250.334
extractProtMoran0.3010.0260.355
extractProtMoreauBroto0.2860.0230.339
extractProtPAAC1.1770.0181.267
extractProtPSSM0.0020.0010.003
extractProtPSSMAcc0.0020.0010.004
extractProtPSSMFeature0.0020.0010.003
extractProtQSO2.2080.0352.396
extractProtSOCN2.1600.0172.353
extractProtTC0.0910.2480.426
getCPI0.0050.0040.008
getDrug0.0000.0010.001
getFASTAFromKEGG0.0000.0010.001
getFASTAFromUniProt0.0000.0010.001
getMolFromCAS000
getMolFromChEMBL000
getMolFromDrugBank000
getMolFromKEGG000
getMolFromPubChem000
getPDBFromRCSBPDB000
getPPI0.0060.0050.012
getProt0.0000.0010.000
getSeqFromKEGG0.0000.0010.000
getSeqFromRCSBPDB0.0000.0010.001
getSeqFromUniProt0.0000.0000.001
getSmiFromChEMBL0.0000.0000.001
getSmiFromDrugBank0.0000.0010.001
getSmiFromKEGG0.0000.0010.001
getSmiFromPubChem0.0000.0010.001
readFASTA0.0020.0020.004
readMolFromSDF0.0040.0020.006
readMolFromSmi0.0010.0010.002
readPDB1.5450.0101.579
searchDrug0.0020.0010.004
segProt0.0040.0040.008