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This page was generated on 2025-06-13 12:09 -0400 (Fri, 13 Jun 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.2 LTS)x86_644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4797
palomino8Windows Server 2022 Datacenterx644.5.0 (2025-04-11 ucrt) -- "How About a Twenty-Six" 4538
lconwaymacOS 12.7.1 Montereyx86_644.5.0 Patched (2025-04-21 r88169) -- "How About a Twenty-Six" 4571
kjohnson3macOS 13.7.1 Venturaarm644.5.0 Patched (2025-04-21 r88169) -- "How About a Twenty-Six" 4515
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4483
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 1695/2309HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Rcpi 1.45.0  (landing page)
Nan Xiao
Snapshot Date: 2025-06-12 13:25 -0400 (Thu, 12 Jun 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
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: 2025-06-12 22:59:36 -0400 (Thu, 12 Jun 2025)
EndedAt: 2025-06-12 23:01:59 -0400 (Thu, 12 Jun 2025)
EllapsedTime: 142.5 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_1.45.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/Rcpi.Rcheck’
* using R version 4.5.0 Patched (2025-04-21 r88169)
* 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 4.5.0 Patched (2025-04-21 r88169) -- "How About a Twenty-Six"
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 
  6.864   0.664   6.568 

Example timings

Rcpi.Rcheck/Rcpi-Ex.timings

nameusersystemelapsed
AA2DACOR0.0020.0020.004
AA3DMoRSE0.0010.0010.003
AAACF0.0010.0020.002
AABLOSUM1000.0010.0020.002
AABLOSUM450.0010.0010.001
AABLOSUM500.0000.0020.002
AABLOSUM620.0010.0010.002
AABLOSUM800.0000.0010.002
AABurden0.0010.0010.003
AACPSA0.0010.0010.001
AAConn0.0010.0010.002
AAConst0.0010.0010.003
AADescAll0.0010.0010.002
AAEdgeAdj0.0010.0010.002
AAEigIdx0.0020.0010.003
AAFGC0.0010.0020.002
AAGETAWAY0.0000.0010.002
AAGeom0.0010.0010.002
AAInfo0.0010.0020.002
AAMOE2D0.0010.0010.002
AAMOE3D0.0000.0010.002
AAMetaInfo0.0010.0010.002
AAMolProp0.0010.0010.002
AAPAM1200.0000.0010.002
AAPAM2500.0010.0010.003
AAPAM300.0010.0010.002
AAPAM400.0010.0010.002
AAPAM700.0010.0010.002
AARDF0.0000.0010.002
AARandic0.0010.0010.002
AATopo0.0010.0010.002
AATopoChg0.0010.0010.002
AAWHIM0.0010.0010.001
AAWalk0.0010.0010.002
AAindex0.0000.0000.001
OptAA3d000
acc0.0080.0060.014
calcDrugFPSim000
calcDrugMCSSim0.0040.0030.008
calcParProtGOSim0.0010.0000.000
calcParProtSeqSim0.0060.0040.010
calcTwoProtGOSim000
calcTwoProtSeqSim0.0020.0020.003
checkProt0.0010.0010.002
convMolFormat0.0010.0010.001
extractDrugAIO0.0010.0010.002
extractDrugALOGP0.0010.0010.001
extractDrugAminoAcidCount0.0010.0010.002
extractDrugApol0.0010.0010.001
extractDrugAromaticAtomsCount0.0000.0000.001
extractDrugAromaticBondsCount0.0010.0000.002
extractDrugAtomCount0.0010.0000.001
extractDrugAutocorrelationCharge0.0000.0000.001
extractDrugAutocorrelationMass0.0010.0000.002
extractDrugAutocorrelationPolarizability0.0010.0000.001
extractDrugBCUT0.0000.0000.001
extractDrugBPol0.0010.0000.001
extractDrugBondCount0.0010.0000.002
extractDrugCPSA0.0000.0000.001
extractDrugCarbonTypes0.0000.0000.001
extractDrugChiChain0.0000.0010.002
extractDrugChiCluster0.0000.0010.001
extractDrugChiPath0.0010.0010.002
extractDrugChiPathCluster0.0010.0010.001
extractDrugDescOB0.0080.0040.013
extractDrugECI0.0010.0010.001
extractDrugEstate0.0010.0010.002
extractDrugEstateComplete0.0010.0010.001
extractDrugExtended0.0010.0010.002
extractDrugExtendedComplete0.0010.0010.001
extractDrugFMF0.0010.0010.002
extractDrugFragmentComplexity0.0010.0010.001
extractDrugGraph0.0010.0000.001
extractDrugGraphComplete0.0010.0000.002
extractDrugGravitationalIndex0.0010.0000.001
extractDrugHBondAcceptorCount0.0010.0000.001
extractDrugHBondDonorCount0.0010.0000.002
extractDrugHybridization0.0000.0000.001
extractDrugHybridizationComplete0.0010.0000.001
extractDrugHybridizationRatio0.0010.0000.002
extractDrugIPMolecularLearning0.0000.0000.001
extractDrugKR0.0010.0010.001
extractDrugKRComplete0.0010.0010.001
extractDrugKappaShapeIndices0.0010.0010.002
extractDrugKierHallSmarts0.0010.0010.001
extractDrugLargestChain0.0010.0010.002
extractDrugLargestPiSystem0.0010.0010.001
extractDrugLengthOverBreadth0.0010.0000.002
extractDrugLongestAliphaticChain0.0010.0010.001
extractDrugMACCS0.0010.0000.001
extractDrugMACCSComplete0.0000.0000.002
extractDrugMDE0.0010.0010.001
extractDrugMannholdLogP0.0010.0010.001
extractDrugMomentOfInertia0.0000.0000.002
extractDrugOBFP20.0210.0050.029
extractDrugOBFP30.0070.0040.011
extractDrugOBFP40.0070.0040.010
extractDrugOBMACCS0.0070.0040.011
extractDrugPetitjeanNumber0.0010.0000.002
extractDrugPetitjeanShapeIndex0.0010.0000.001
extractDrugPubChem0.0010.0000.001
extractDrugPubChemComplete0.0010.0000.002
extractDrugRotatableBondsCount0.0010.0000.001
extractDrugRuleOfFive0.0010.0000.002
extractDrugShortestPath0.0000.0000.002
extractDrugShortestPathComplete0.0010.0000.002
extractDrugStandard0.0000.0000.001
extractDrugStandardComplete0.0010.0000.001
extractDrugTPSA0.0000.0010.001
extractDrugVABC0.0000.0000.001
extractDrugVAdjMa0.0010.0000.001
extractDrugWHIM0.0010.0000.001
extractDrugWeight0.0010.0000.001
extractDrugWeightedPath0.0010.0010.002
extractDrugWienerNumbers0.0010.0010.001
extractDrugXLogP0.0010.0000.000
extractDrugZagrebIndex0.0000.0000.001
extractPCMBLOSUM0.0940.0080.102
extractPCMDescScales0.0110.0010.012
extractPCMFAScales0.0170.0040.022
extractPCMMDSScales0.0100.0030.013
extractPCMPropScales0.0120.0020.014
extractPCMScales0.0160.0030.019
extractProtAAC0.0030.0010.003
extractProtAPAAC0.8420.0310.878
extractProtCTDC0.0020.0020.003
extractProtCTDD0.0040.0020.006
extractProtCTDT0.0040.0020.006
extractProtCTriad0.0810.0090.091
extractProtDC0.0030.0050.009
extractProtGeary0.1220.0100.134
extractProtMoran0.1240.0100.136
extractProtMoreauBroto0.1160.0090.126
extractProtPAAC0.4020.0100.414
extractProtPSSM0.0010.0010.001
extractProtPSSMAcc0.0010.0010.002
extractProtPSSMFeature0.0010.0010.002
extractProtQSO0.7230.0140.742
extractProtSOCN0.6440.0100.658
extractProtTC0.0320.0820.115
getCPI0.0030.0010.004
getDrug000
getFASTAFromKEGG000
getFASTAFromUniProt0.0010.0000.000
getMolFromCAS0.0000.0000.001
getMolFromChEMBL0.0000.0000.001
getMolFromDrugBank000
getMolFromKEGG0.0000.0010.000
getMolFromPubChem000
getPDBFromRCSBPDB000
getPPI0.0030.0010.003
getProt000
getSeqFromKEGG000
getSeqFromRCSBPDB000
getSeqFromUniProt000
getSmiFromChEMBL000
getSmiFromDrugBank0.0010.0000.000
getSmiFromKEGG000
getSmiFromPubChem000
readFASTA0.0010.0010.002
readMolFromSDF0.0030.0010.003
readMolFromSmi0.0010.0000.001
readPDB0.7450.0080.759
searchDrug0.0020.0010.003
segProt0.0020.0020.004