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This page was generated on 2025-03-20 12:11 -0400 (Thu, 20 Mar 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.1 LTS)x86_644.4.3 (2025-02-28) -- "Trophy Case" 4756
palomino8Windows Server 2022 Datacenterx644.4.3 (2025-02-28 ucrt) -- "Trophy Case" 4487
merida1macOS 12.7.5 Montereyx86_644.4.3 (2025-02-28) -- "Trophy Case" 4514
kjohnson1macOS 13.6.6 Venturaarm644.4.3 (2025-02-28) -- "Trophy Case" 4441
taishanLinux (openEuler 24.03 LTS)aarch644.4.3 (2025-02-28) -- "Trophy Case" 4406
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 1686/2289HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Rcpi 1.42.0  (landing page)
Nan Xiao
Snapshot Date: 2025-03-17 13:00 -0400 (Mon, 17 Mar 2025)
git_url: https://git.bioconductor.org/packages/Rcpi
git_branch: RELEASE_3_20
git_last_commit: c03a28c
git_last_commit_date: 2024-10-29 09:50:50 -0400 (Tue, 29 Oct 2024)
nebbiolo2Linux (Ubuntu 24.04.1 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
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
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    OK    OK  


CHECK results for Rcpi on kjohnson1

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: 1.42.0
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_1.42.0.tar.gz
StartedAt: 2025-03-19 06:02:54 -0400 (Wed, 19 Mar 2025)
EndedAt: 2025-03-19 06:05:06 -0400 (Wed, 19 Mar 2025)
EllapsedTime: 132.9 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_1.42.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/Rcpi.Rcheck’
* using R version 4.4.3 (2025-02-28)
* using platform: aarch64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Ventura 13.7.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘Rcpi/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘Rcpi’ version ‘1.42.0’
* 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/4.4-arm64/Resources/library’
* installing *source* package ‘Rcpi’ ...
** 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 4.4.3 (2025-02-28) -- "Trophy Case"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-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 
  6.988   0.507   6.567 

Example timings

Rcpi.Rcheck/Rcpi-Ex.timings

nameusersystemelapsed
AA2DACOR0.0020.0020.004
AA3DMoRSE0.0010.0020.002
AAACF0.0010.0020.003
AABLOSUM1000.0010.0010.001
AABLOSUM450.0010.0010.002
AABLOSUM500.0010.0010.001
AABLOSUM620.0010.0020.002
AABLOSUM800.0010.0010.002
AABurden0.0010.0010.002
AACPSA0.0010.0010.002
AAConn0.0010.0010.002
AAConst0.0010.0020.002
AADescAll0.0010.0010.001
AAEdgeAdj0.0010.0020.002
AAEigIdx0.0010.0010.001
AAFGC0.0010.0020.002
AAGETAWAY0.0010.0010.002
AAGeom0.0010.0010.001
AAInfo0.0010.0010.002
AAMOE2D0.0010.0010.002
AAMOE3D0.0010.0010.002
AAMetaInfo0.0010.0010.002
AAMolProp0.0010.0010.002
AAPAM1200.0010.0010.002
AAPAM2500.0010.0010.001
AAPAM300.0010.0020.002
AAPAM400.0010.0010.002
AAPAM700.0010.0010.002
AARDF0.0010.0010.002
AARandic0.0010.0010.002
AATopo0.0010.0010.001
AATopoChg0.0010.0010.002
AAWHIM0.0010.0010.001
AAWalk0.0000.0020.002
AAindex0.0000.0010.002
OptAA3d000
acc0.0090.0050.014
calcDrugFPSim000
calcDrugMCSSim0.0030.0050.008
calcParProtGOSim0.0000.0010.001
calcParProtSeqSim0.0060.0030.009
calcTwoProtGOSim000
calcTwoProtSeqSim0.0010.0010.002
checkProt0.0010.0010.001
convMolFormat0.0010.0000.001
extractDrugAIO0.0010.0000.001
extractDrugALOGP0.0010.0000.001
extractDrugAminoAcidCount0.0000.0000.001
extractDrugApol0.0000.0000.001
extractDrugAromaticAtomsCount0.0000.0000.001
extractDrugAromaticBondsCount0.0000.0010.000
extractDrugAtomCount0.0000.0000.001
extractDrugAutocorrelationCharge0.0010.0010.000
extractDrugAutocorrelationMass0.0010.0000.001
extractDrugAutocorrelationPolarizability0.0010.0010.001
extractDrugBCUT0.0010.0000.001
extractDrugBPol0.0010.0010.001
extractDrugBondCount0.0010.0000.001
extractDrugCPSA0.0010.0000.001
extractDrugCarbonTypes0.0010.0000.001
extractDrugChiChain0.0000.0000.001
extractDrugChiCluster0.0000.0000.001
extractDrugChiPath0.0000.0000.001
extractDrugChiPathCluster0.0000.0010.001
extractDrugDescOB0.0120.0030.016
extractDrugECI0.0010.0000.001
extractDrugEstate0.0010.0010.001
extractDrugEstateComplete0.0010.0000.001
extractDrugExtended0.0000.0000.001
extractDrugExtendedComplete0.0000.0000.001
extractDrugFMF0.0000.0000.001
extractDrugFragmentComplexity0.0000.0000.001
extractDrugGraph0.0000.0000.001
extractDrugGraphComplete0.0010.0010.000
extractDrugGravitationalIndex0.0010.0000.001
extractDrugHBondAcceptorCount0.0010.0010.001
extractDrugHBondDonorCount0.0010.0000.001
extractDrugHybridization0.0010.0010.001
extractDrugHybridizationComplete0.0010.0000.001
extractDrugHybridizationRatio0.0000.0010.001
extractDrugIPMolecularLearning000
extractDrugKR0.0000.0010.001
extractDrugKRComplete0.0000.0000.001
extractDrugKappaShapeIndices0.0010.0000.001
extractDrugKierHallSmarts0.0010.0000.001
extractDrugLargestChain0.0010.0000.001
extractDrugLargestPiSystem0.0010.0000.001
extractDrugLengthOverBreadth0.0010.0000.000
extractDrugLongestAliphaticChain0.0010.0000.001
extractDrugMACCS0.0000.0000.001
extractDrugMACCSComplete0.0000.0010.001
extractDrugMDE0.0000.0000.001
extractDrugMannholdLogP0.0000.0010.001
extractDrugMomentOfInertia0.0010.0000.001
extractDrugOBFP20.0050.0030.007
extractDrugOBFP30.0100.0040.014
extractDrugOBFP40.0050.0030.007
extractDrugOBMACCS0.0050.0020.007
extractDrugPetitjeanNumber0.0010.0000.001
extractDrugPetitjeanShapeIndex0.0010.0000.001
extractDrugPubChem0.0010.0000.001
extractDrugPubChemComplete0.0010.0000.001
extractDrugRotatableBondsCount0.0010.0000.001
extractDrugRuleOfFive0.0010.0010.001
extractDrugShortestPath0.0010.0000.000
extractDrugShortestPathComplete0.0000.0010.001
extractDrugStandard0.0000.0000.001
extractDrugStandardComplete0.0000.0010.001
extractDrugTPSA0.0000.0000.001
extractDrugVABC0.0010.0010.001
extractDrugVAdjMa0.0010.0000.001
extractDrugWHIM0.0010.0000.000
extractDrugWeight0.0010.0000.001
extractDrugWeightedPath0.0010.0000.000
extractDrugWienerNumbers0.0010.0010.001
extractDrugXLogP0.0000.0000.001
extractDrugZagrebIndex0.0000.0010.001
extractPCMBLOSUM0.1130.0030.117
extractPCMDescScales0.0120.0000.014
extractPCMFAScales0.0160.0040.020
extractPCMMDSScales0.0090.0030.012
extractPCMPropScales0.0120.0020.014
extractPCMScales0.0270.0040.031
extractProtAAC0.0020.0010.003
extractProtAPAAC0.7530.0170.770
extractProtCTDC0.0030.0000.004
extractProtCTDD0.0040.0010.006
extractProtCTDT0.0050.0000.005
extractProtCTriad0.0900.0080.098
extractProtDC0.0030.0040.008
extractProtGeary0.1160.0070.123
extractProtMoran0.1050.0070.111
extractProtMoreauBroto0.1110.0060.118
extractProtPAAC0.3700.0080.387
extractProtPSSM0.0020.0000.002
extractProtPSSMAcc0.0010.0000.002
extractProtPSSMFeature0.0010.0010.002
extractProtQSO0.6400.0150.669
extractProtSOCN0.6580.0180.695
extractProtTC0.0290.0710.102
getCPI0.0040.0010.007
getDrug000
getFASTAFromKEGG000
getFASTAFromUniProt000
getMolFromCAS000
getMolFromChEMBL000
getMolFromDrugBank0.0010.0000.000
getMolFromKEGG0.0000.0000.001
getMolFromPubChem000
getPDBFromRCSBPDB000
getPPI0.0020.0020.003
getProt000
getSeqFromKEGG000
getSeqFromRCSBPDB0.0000.0000.001
getSeqFromUniProt000
getSmiFromChEMBL000
getSmiFromDrugBank000
getSmiFromKEGG0.0000.0010.000
getSmiFromPubChem000
readFASTA0.0020.0010.002
readMolFromSDF0.0020.0010.003
readMolFromSmi0.0010.0000.001
readPDB0.7660.0060.775
searchDrug0.0020.0010.002
segProt0.0020.0010.003