Back to Multiple platform build/check report for BioC 3.20:   simplified   long
ABCDEFGHIJKLMNOPQ[R]STUVWXYZ

This page was generated on 2024-10-03 11:46 -0400 (Thu, 03 Oct 2024).

HostnameOSArch (*)R versionInstalled pkgs
teran2Linux (Ubuntu 24.04.1 LTS)x86_644.4.1 (2024-06-14) -- "Race for Your Life" 4461
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.4.1 (2024-06-14) -- "Race for Your Life" 4716
palomino8Windows Server 2022 Datacenterx644.4.1 (2024-06-14 ucrt) -- "Race for Your Life" 4466
lconwaymacOS 12.7.1 Montereyx86_644.4.1 (2024-06-14) -- "Race for Your Life" 4498
kjohnson3macOS 13.6.5 Venturaarm644.4.1 (2024-06-14) -- "Race for Your Life" 4446
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch644.4.1 (2024-06-14) -- "Race for Your Life" 4445
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 1669/2266HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Rcpi 1.41.3  (landing page)
Nan Xiao
Snapshot Date: 2024-10-02 13:40 -0400 (Wed, 02 Oct 2024)
git_url: https://git.bioconductor.org/packages/Rcpi
git_branch: devel
git_last_commit: 704f7d8
git_last_commit_date: 2024-09-09 23:47:27 -0400 (Mon, 09 Sep 2024)
teran2Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
nebbiolo2Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    OK  
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 13.6.5 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 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: 1.41.3
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_1.41.3.tar.gz
StartedAt: 2024-10-02 22:48:30 -0400 (Wed, 02 Oct 2024)
EndedAt: 2024-10-02 22:50:57 -0400 (Wed, 02 Oct 2024)
EllapsedTime: 147.3 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_1.41.3.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/Rcpi.Rcheck’
* using R version 4.4.1 (2024-06-14)
* using platform: x86_64-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 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 ‘1.41.3’
* 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-x86_64/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 4.4.1 (2024-06-14) -- "Race for Your Life"
Copyright (C) 2024 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 
  7.237   0.679   6.940 

Example timings

Rcpi.Rcheck/Rcpi-Ex.timings

nameusersystemelapsed
AA2DACOR0.0020.0020.004
AA3DMoRSE0.0000.0010.001
AAACF0.0000.0010.001
AABLOSUM1000.0010.0010.002
AABLOSUM450.0010.0010.002
AABLOSUM500.0010.0010.001
AABLOSUM620.0000.0010.002
AABLOSUM800.0010.0010.001
AABurden0.0010.0010.003
AACPSA0.0000.0010.001
AAConn0.0010.0010.002
AAConst0.0010.0010.002
AADescAll0.0000.0010.002
AAEdgeAdj0.0000.0010.002
AAEigIdx0.0010.0010.002
AAFGC0.0010.0010.002
AAGETAWAY0.0010.0010.002
AAGeom0.0000.0010.002
AAInfo0.0010.0010.002
AAMOE2D0.0010.0010.001
AAMOE3D0.0010.0010.002
AAMetaInfo0.0010.0010.002
AAMolProp0.0010.0010.001
AAPAM1200.0010.0010.002
AAPAM2500.0010.0010.002
AAPAM300.0010.0010.002
AAPAM400.0010.0010.002
AAPAM700.0000.0010.002
AARDF0.0010.0010.002
AARandic0.0010.0020.002
AATopo0.0000.0010.001
AATopoChg0.0010.0020.002
AAWHIM0.0010.0010.002
AAWalk0.0010.0010.002
AAindex0.0010.0010.001
OptAA3d0.0010.0000.001
acc0.0090.0050.014
calcDrugFPSim000
calcDrugMCSSim0.0040.0040.009
calcParProtGOSim0.0000.0010.001
calcParProtSeqSim0.0070.0040.012
calcTwoProtGOSim0.0010.0000.000
calcTwoProtSeqSim0.0020.0020.003
checkProt0.0010.0010.002
convMolFormat0.0010.0010.001
extractDrugAIO0.0000.0010.001
extractDrugALOGP0.0010.0010.002
extractDrugAminoAcidCount0.0010.0010.001
extractDrugApol0.0010.0010.002
extractDrugAromaticAtomsCount0.0010.0010.001
extractDrugAromaticBondsCount0.0000.0000.001
extractDrugAtomCount0.0010.0000.002
extractDrugAutocorrelationCharge0.0010.0000.001
extractDrugAutocorrelationMass0.0010.0000.001
extractDrugAutocorrelationPolarizability0.0000.0000.001
extractDrugBCUT0.0010.0000.001
extractDrugBPol0.0010.0010.001
extractDrugBondCount0.0010.0010.001
extractDrugCPSA0.0010.0010.001
extractDrugCarbonTypes0.0010.0010.002
extractDrugChiChain0.0010.0010.001
extractDrugChiCluster0.0010.0010.001
extractDrugChiPath0.0010.0000.001
extractDrugChiPathCluster0.0000.0000.001
extractDrugDescOB0.0150.0060.023
extractDrugECI0.0010.0000.001
extractDrugEstate0.0010.0000.002
extractDrugEstateComplete0.0000.0000.001
extractDrugExtended0.0010.0010.001
extractDrugExtendedComplete0.0010.0000.001
extractDrugFMF0.0010.0010.001
extractDrugFragmentComplexity0.0010.0010.002
extractDrugGraph0.0000.0010.001
extractDrugGraphComplete0.0000.0000.001
extractDrugGravitationalIndex0.0010.0000.001
extractDrugHBondAcceptorCount0.0010.0000.001
extractDrugHBondDonorCount0.0010.0000.001
extractDrugHybridization0.0010.0010.002
extractDrugHybridizationComplete0.0010.0010.001
extractDrugHybridizationRatio0.0010.0010.001
extractDrugIPMolecularLearning0.0000.0010.001
extractDrugKR0.0010.0010.001
extractDrugKRComplete0.0010.0010.002
extractDrugKappaShapeIndices0.0000.0000.001
extractDrugKierHallSmarts0.0010.0000.001
extractDrugLargestChain0.0010.0010.002
extractDrugLargestPiSystem0.0000.0000.001
extractDrugLengthOverBreadth0.0010.0000.001
extractDrugLongestAliphaticChain0.0010.0000.001
extractDrugMACCS0.0010.0010.001
extractDrugMACCSComplete0.0010.0010.001
extractDrugMDE0.0010.0000.001
extractDrugMannholdLogP0.0010.0000.001
extractDrugMomentOfInertia0.0010.0010.001
extractDrugOBFP20.0070.0040.011
extractDrugOBFP30.0150.0060.021
extractDrugOBFP40.0070.0030.009
extractDrugOBMACCS0.0090.0040.012
extractDrugPetitjeanNumber0.0010.0000.002
extractDrugPetitjeanShapeIndex0.0010.0000.001
extractDrugPubChem0.0010.0000.001
extractDrugPubChemComplete0.0010.0000.001
extractDrugRotatableBondsCount0.0010.0000.001
extractDrugRuleOfFive0.0010.0010.002
extractDrugShortestPath0.0010.0010.001
extractDrugShortestPathComplete0.0010.0010.001
extractDrugStandard0.0010.0010.002
extractDrugStandardComplete0.0000.0000.001
extractDrugTPSA0.0010.0000.001
extractDrugVABC0.0010.0000.002
extractDrugVAdjMa0.0010.0000.001
extractDrugWHIM0.0000.0000.001
extractDrugWeight0.0010.0010.001
extractDrugWeightedPath0.0010.0010.001
extractDrugWienerNumbers0.0000.0010.002
extractDrugXLogP0.0000.0010.001
extractDrugZagrebIndex0.0010.0010.001
extractPCMBLOSUM0.1140.0070.122
extractPCMDescScales0.0110.0020.013
extractPCMFAScales0.0170.0030.021
extractPCMMDSScales0.0090.0020.013
extractPCMPropScales0.0100.0010.012
extractPCMScales0.0260.0040.030
extractProtAAC0.0030.0010.004
extractProtAPAAC0.8680.0260.901
extractProtCTDC0.0030.0000.004
extractProtCTDD0.0040.0020.006
extractProtCTDT0.0050.0010.006
extractProtCTriad0.0910.0120.105
extractProtDC0.0030.0040.008
extractProtGeary0.1400.0130.154
extractProtMoran0.1180.0100.129
extractProtMoreauBroto0.1280.0100.139
extractProtPAAC0.4090.0100.421
extractProtPSSM0.0010.0010.002
extractProtPSSMAcc0.0010.0010.002
extractProtPSSMFeature0.0020.0010.002
extractProtQSO0.7280.0140.749
extractProtSOCN0.7030.0100.717
extractProtTC0.0330.0810.114
getCPI0.0030.0010.004
getDrug000
getFASTAFromKEGG000
getFASTAFromUniProt000
getMolFromCAS000
getMolFromChEMBL000
getMolFromDrugBank0.0000.0000.001
getMolFromKEGG0.0010.0000.000
getMolFromPubChem000
getPDBFromRCSBPDB000
getPPI0.0030.0010.004
getProt000
getSeqFromKEGG0.0000.0000.001
getSeqFromRCSBPDB0.0000.0010.000
getSeqFromUniProt000
getSmiFromChEMBL000
getSmiFromDrugBank000
getSmiFromKEGG0.0000.0000.001
getSmiFromPubChem0.0000.0010.000
readFASTA0.0010.0000.001
readMolFromSDF0.0020.0010.003
readMolFromSmi0.0010.0010.002
readPDB0.7700.0080.784
searchDrug0.0020.0010.003
segProt0.0020.0020.003