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This page was generated on 2025-03-17 11:40 -0400 (Mon, 17 Mar 2025).

HostnameOSArch (*)R versionInstalled pkgs
palomino7Windows Server 2022 Datacenterx64R Under development (unstable) (2025-03-01 r87860 ucrt) -- "Unsuffered Consequences" 4545
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences" 4576
kjohnson3macOS 13.7.1 Venturaarm64R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences" 4528
kunpeng2Linux (openEuler 24.03 LTS)aarch64R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" 4459
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 1699/2313HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Rcpi 1.43.0  (landing page)
Nan Xiao
Snapshot Date: 2025-03-16 13:40 -0400 (Sun, 16 Mar 2025)
git_url: https://git.bioconductor.org/packages/Rcpi
git_branch: devel
git_last_commit: 88f2c1f
git_last_commit_date: 2024-10-29 09:50:50 -0400 (Tue, 29 Oct 2024)
palomino7Windows 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
kunpeng2Linux (openEuler 24.03 LTS) / aarch64  OK    OK    OK  


CHECK results for Rcpi on kjohnson3

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: 1.43.0
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_1.43.0.tar.gz
StartedAt: 2025-03-16 20:59:55 -0400 (Sun, 16 Mar 2025)
EndedAt: 2025-03-16 21:00:44 -0400 (Sun, 16 Mar 2025)
EllapsedTime: 48.7 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_1.43.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.21-bioc/meat/Rcpi.Rcheck’
* using R Under development (unstable) (2025-03-02 r87868)
* using platform: aarch64-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 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 ‘1.43.0’
* 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-arm64/Resources/library’
* installing *source* package ‘Rcpi’ ...
** this is package ‘Rcpi’ version ‘1.43.0’
** 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 Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences"
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 
  2.594   0.251   2.425 

Example timings

Rcpi.Rcheck/Rcpi-Ex.timings

nameusersystemelapsed
AA2DACOR0.0010.0000.001
AA3DMoRSE0.0000.0000.001
AAACF0.0000.0000.001
AABLOSUM1000.0000.0010.001
AABLOSUM450.0000.0010.001
AABLOSUM500.0000.0010.001
AABLOSUM620.0000.0000.001
AABLOSUM800.0000.0010.001
AABurden0.0000.0010.001
AACPSA0.0000.0010.001
AAConn0.0010.0000.001
AAConst0.0000.0000.001
AADescAll0.0000.0010.000
AAEdgeAdj0.0010.0010.000
AAEigIdx000
AAFGC0.0000.0000.001
AAGETAWAY0.0000.0010.001
AAGeom0.0000.0010.001
AAInfo0.0000.0000.001
AAMOE2D0.0000.0000.001
AAMOE3D0.0010.0010.000
AAMetaInfo000
AAMolProp0.0000.0010.000
AAPAM1200.0010.0010.000
AAPAM250000
AAPAM300.0000.0010.001
AAPAM400.0000.0010.001
AAPAM700.0000.0000.001
AARDF0.0000.0010.001
AARandic0.0000.0000.001
AATopo0.0010.0010.001
AATopoChg0.0000.0010.001
AAWHIM0.0000.0000.001
AAWalk0.0000.0010.000
AAindex000
OptAA3d000
acc0.0110.0010.013
calcDrugFPSim000
calcDrugMCSSim0.0010.0010.003
calcParProtGOSim000
calcParProtSeqSim0.0020.0010.003
calcTwoProtGOSim000
calcTwoProtSeqSim0.0010.0000.001
checkProt000
convMolFormat000
extractDrugAIO000
extractDrugALOGP000
extractDrugAminoAcidCount000
extractDrugApol0.0010.0010.000
extractDrugAromaticAtomsCount000
extractDrugAromaticBondsCount000
extractDrugAtomCount000
extractDrugAutocorrelationCharge000
extractDrugAutocorrelationMass000
extractDrugAutocorrelationPolarizability000
extractDrugBCUT0.0010.0000.000
extractDrugBPol000
extractDrugBondCount000
extractDrugCPSA0.0000.0000.001
extractDrugCarbonTypes000
extractDrugChiChain0.0000.0000.001
extractDrugChiCluster000
extractDrugChiPath0.0010.0000.001
extractDrugChiPathCluster000
extractDrugDescOB0.0020.0020.003
extractDrugECI000
extractDrugEstate000
extractDrugEstateComplete0.0010.0000.000
extractDrugExtended0.0000.0010.000
extractDrugExtendedComplete000
extractDrugFMF000
extractDrugFragmentComplexity000
extractDrugGraph000
extractDrugGraphComplete0.0000.0010.000
extractDrugGravitationalIndex0.0010.0000.000
extractDrugHBondAcceptorCount000
extractDrugHBondDonorCount000
extractDrugHybridization0.0000.0000.001
extractDrugHybridizationComplete0.0000.0010.000
extractDrugHybridizationRatio0.0000.0000.001
extractDrugIPMolecularLearning000
extractDrugKR0.0010.0000.000
extractDrugKRComplete000
extractDrugKappaShapeIndices000
extractDrugKierHallSmarts000
extractDrugLargestChain0.0000.0000.001
extractDrugLargestPiSystem000
extractDrugLengthOverBreadth0.0000.0000.001
extractDrugLongestAliphaticChain0.0010.0010.000
extractDrugMACCS0.0000.0000.001
extractDrugMACCSComplete000
extractDrugMDE0.0010.0000.000
extractDrugMannholdLogP000
extractDrugMomentOfInertia000
extractDrugOBFP20.0050.0020.005
extractDrugOBFP30.0020.0010.002
extractDrugOBFP40.0380.0010.040
extractDrugOBMACCS0.0020.0010.003
extractDrugPetitjeanNumber0.0000.0010.001
extractDrugPetitjeanShapeIndex000
extractDrugPubChem0.0010.0000.001
extractDrugPubChemComplete000
extractDrugRotatableBondsCount0.0000.0000.001
extractDrugRuleOfFive0.0010.0010.000
extractDrugShortestPath0.0000.0000.001
extractDrugShortestPathComplete000
extractDrugStandard000
extractDrugStandardComplete0.0010.0000.000
extractDrugTPSA000
extractDrugVABC000
extractDrugVAdjMa000
extractDrugWHIM000
extractDrugWeight000
extractDrugWeightedPath0.0000.0010.000
extractDrugWienerNumbers0.0010.0000.000
extractDrugXLogP000
extractDrugZagrebIndex000
extractPCMBLOSUM0.0030.0010.003
extractPCMDescScales0.0030.0000.004
extractPCMFAScales0.0080.0020.009
extractPCMMDSScales0.0030.0010.004
extractPCMPropScales0.0040.0000.005
extractPCMScales0.0050.0020.006
extractProtAAC0.0010.0000.001
extractProtAPAAC0.2490.0070.256
extractProtCTDC0.0010.0000.001
extractProtCTDD0.0020.0010.001
extractProtCTDT0.0010.0000.002
extractProtCTriad0.0290.0040.032
extractProtDC0.0020.0010.002
extractProtGeary0.0380.0040.042
extractProtMoran0.0390.0040.044
extractProtMoreauBroto0.0340.0030.037
extractProtPAAC0.1140.0010.116
extractProtPSSM0.0000.0000.001
extractProtPSSMAcc000
extractProtPSSMFeature0.0010.0000.001
extractProtQSO0.2020.0040.206
extractProtSOCN0.2030.0040.206
extractProtTC0.0090.0310.040
getCPI0.0010.0010.002
getDrug000
getFASTAFromKEGG0.0000.0010.000
getFASTAFromUniProt0.0000.0000.001
getMolFromCAS000
getMolFromChEMBL000
getMolFromDrugBank000
getMolFromKEGG000
getMolFromPubChem000
getPDBFromRCSBPDB000
getPPI0.0010.0010.002
getProt0.0000.0000.001
getSeqFromKEGG000
getSeqFromRCSBPDB000
getSeqFromUniProt000
getSmiFromChEMBL0.0000.0000.001
getSmiFromDrugBank000
getSmiFromKEGG000
getSmiFromPubChem0.0000.0010.000
readFASTA0.0010.0000.001
readMolFromSDF0.0010.0000.001
readMolFromSmi0.0000.0000.001
readPDB0.2440.0030.247
searchDrug0.0010.0000.002
segProt0.0010.0010.002