Back to Multiple platform build/check report for BioC 3.21:   simplified   long
ABCDEFGHIJKLMNOPQ[R]STUVWXYZ

This page was generated on 2024-12-24 11:45 -0500 (Tue, 24 Dec 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" 4754
palomino7Windows Server 2022 Datacenterx64R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences" 4472
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" 4426
kjohnson3macOS 13.7.1 Venturaarm64R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences" 4381
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch64R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences" 4373
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 1674/2274HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Rcpi 1.43.0  (landing page)
Nan Xiao
Snapshot Date: 2024-12-23 13:40 -0500 (Mon, 23 Dec 2024)
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 -0500 (Tue, 29 Oct 2024)
nebbiolo1Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
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 22.03 LTS-SP1) / 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: 2024-12-23 20:55:55 -0500 (Mon, 23 Dec 2024)
EndedAt: 2024-12-23 20:56:44 -0500 (Mon, 23 Dec 2024)
EllapsedTime: 49.7 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) (2024-11-20 r87352)
* 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 ‘1.43.0’
* 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’ ...
** 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) (2024-11-20 r87352) -- "Unsuffered Consequences"
Copyright (C) 2024 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 
  2.525   0.240   2.272 

Example timings

Rcpi.Rcheck/Rcpi-Ex.timings

nameusersystemelapsed
AA2DACOR0.0000.0000.002
AA3DMoRSE0.0010.0000.001
AAACF0.0070.0010.008
AABLOSUM1000.0000.0010.001
AABLOSUM450.0000.0000.001
AABLOSUM500.0010.0010.000
AABLOSUM62000
AABLOSUM800.0000.0000.001
AABurden0.0000.0010.001
AACPSA0.0000.0000.001
AAConn0.0000.0010.001
AAConst0.0000.0000.001
AADescAll0.0010.0000.001
AAEdgeAdj0.0000.0010.001
AAEigIdx0.0000.0010.001
AAFGC0.0010.0000.001
AAGETAWAY0.0000.0010.000
AAGeom000
AAInfo0.0000.0010.001
AAMOE2D0.0010.0000.001
AAMOE3D0.0000.0010.000
AAMetaInfo000
AAMolProp0.0000.0010.001
AAPAM1200.0000.0000.001
AAPAM2500.0000.0010.001
AAPAM30000
AAPAM400.0010.0010.000
AAPAM700.0000.0000.001
AARDF0.0000.0000.001
AARandic000
AATopo0.0000.0000.001
AATopoChg0.0000.0010.001
AAWHIM000
AAWalk0.0010.0010.000
AAindex0.0000.0000.001
OptAA3d000
acc0.0030.0020.005
calcDrugFPSim000
calcDrugMCSSim0.0010.0010.003
calcParProtGOSim0.0010.0000.000
calcParProtSeqSim0.0020.0010.004
calcTwoProtGOSim000
calcTwoProtSeqSim0.0000.0000.001
checkProt0.0000.0000.001
convMolFormat0.0000.0010.001
extractDrugAIO000
extractDrugALOGP0.0000.0000.001
extractDrugAminoAcidCount000
extractDrugApol0.0000.0010.001
extractDrugAromaticAtomsCount0.0010.0000.000
extractDrugAromaticBondsCount0.0000.0000.001
extractDrugAtomCount000
extractDrugAutocorrelationCharge0.0000.0000.001
extractDrugAutocorrelationMass000
extractDrugAutocorrelationPolarizability0.0000.0000.001
extractDrugBCUT000
extractDrugBPol0.0010.0010.000
extractDrugBondCount000
extractDrugCPSA000
extractDrugCarbonTypes0.0010.0000.000
extractDrugChiChain0.0000.0000.001
extractDrugChiCluster000
extractDrugChiPath0.0010.0000.001
extractDrugChiPathCluster0.0000.0010.000
extractDrugDescOB0.0020.0010.003
extractDrugECI0.0000.0000.001
extractDrugEstate0.0000.0000.001
extractDrugEstateComplete0.0000.0010.000
extractDrugExtended000
extractDrugExtendedComplete000
extractDrugFMF0.0010.0000.000
extractDrugFragmentComplexity0.0000.0010.001
extractDrugGraph000
extractDrugGraphComplete0.0010.0000.001
extractDrugGravitationalIndex000
extractDrugHBondAcceptorCount0.0000.0000.001
extractDrugHBondDonorCount000
extractDrugHybridization000
extractDrugHybridizationComplete000
extractDrugHybridizationRatio000
extractDrugIPMolecularLearning0.0010.0000.000
extractDrugKR000
extractDrugKRComplete000
extractDrugKappaShapeIndices000
extractDrugKierHallSmarts0.0010.0000.001
extractDrugLargestChain0.0030.0010.003
extractDrugLargestPiSystem000
extractDrugLengthOverBreadth0.0000.0000.001
extractDrugLongestAliphaticChain000
extractDrugMACCS0.0000.0000.001
extractDrugMACCSComplete000
extractDrugMDE0.0010.0000.001
extractDrugMannholdLogP000
extractDrugMomentOfInertia0.0000.0010.001
extractDrugOBFP20.0020.0000.002
extractDrugOBFP30.0010.0000.003
extractDrugOBFP40.0030.0020.005
extractDrugOBMACCS0.0020.0010.002
extractDrugPetitjeanNumber000
extractDrugPetitjeanShapeIndex0.0010.0000.000
extractDrugPubChem0.0000.0010.000
extractDrugPubChemComplete000
extractDrugRotatableBondsCount000
extractDrugRuleOfFive000
extractDrugShortestPath0.0000.0010.001
extractDrugShortestPathComplete000
extractDrugStandard0.0010.0000.001
extractDrugStandardComplete000
extractDrugTPSA000
extractDrugVABC000
extractDrugVAdjMa000
extractDrugWHIM0.0000.0010.001
extractDrugWeight000
extractDrugWeightedPath0.0010.0000.001
extractDrugWienerNumbers000
extractDrugXLogP0.0000.0010.001
extractDrugZagrebIndex000
extractPCMBLOSUM0.0030.0010.005
extractPCMDescScales0.0040.0000.004
extractPCMFAScales0.0400.0020.041
extractPCMMDSScales0.0040.0010.004
extractPCMPropScales0.0040.0000.005
extractPCMScales0.0060.0010.006
extractProtAAC0.0010.0000.001
extractProtAPAAC0.2480.0060.261
extractProtCTDC0.0000.0000.001
extractProtCTDD0.0010.0010.002
extractProtCTDT0.0020.0000.002
extractProtCTriad0.0280.0020.031
extractProtDC0.0010.0020.002
extractProtGeary0.0380.0030.042
extractProtMoran0.0390.0020.042
extractProtMoreauBroto0.0320.0030.035
extractProtPAAC0.1140.0020.116
extractProtPSSM0.0000.0010.000
extractProtPSSMAcc000
extractProtPSSMFeature0.0000.0000.001
extractProtQSO0.2000.0050.205
extractProtSOCN0.1970.0080.206
extractProtTC0.0090.0600.070
getCPI0.0010.0000.002
getDrug000
getFASTAFromKEGG000
getFASTAFromUniProt000
getMolFromCAS000
getMolFromChEMBL000
getMolFromDrugBank000
getMolFromKEGG000
getMolFromPubChem000
getPDBFromRCSBPDB000
getPPI0.0000.0010.002
getProt000
getSeqFromKEGG000
getSeqFromRCSBPDB000
getSeqFromUniProt0.0000.0010.000
getSmiFromChEMBL000
getSmiFromDrugBank000
getSmiFromKEGG000
getSmiFromPubChem000
readFASTA0.0000.0010.001
readMolFromSDF0.0010.0000.001
readMolFromSmi0.0000.0000.001
readPDB0.2420.0010.244
searchDrug0.0000.0010.001
segProt0.0010.0010.001