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This page was generated on 2024-07-24 11:41 -0400 (Wed, 24 Jul 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.4.1 (2024-06-14) -- "Race for Your Life" 4688
palomino8Windows Server 2022 Datacenterx644.4.1 (2024-06-14 ucrt) -- "Race for Your Life" 4284
lconwaymacOS 12.7.1 Montereyx86_644.4.1 (2024-06-14) -- "Race for Your Life" 4455
kjohnson3macOS 13.6.5 Venturaarm644.4.1 (2024-06-14) -- "Race for Your Life" 4404
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 1659/2248HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Rcpi 1.41.1  (landing page)
Nan Xiao
Snapshot Date: 2024-07-23 14:00 -0400 (Tue, 23 Jul 2024)
git_url: https://git.bioconductor.org/packages/Rcpi
git_branch: devel
git_last_commit: d311940
git_last_commit_date: 2024-07-20 23:14:10 -0400 (Sat, 20 Jul 2024)
nebbiolo2Linux (Ubuntu 22.04.3 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 13.6.5 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published


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: 1.41.1
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_1.41.1.tar.gz
StartedAt: 2024-07-23 23:40:13 -0400 (Tue, 23 Jul 2024)
EndedAt: 2024-07-23 23:42:47 -0400 (Tue, 23 Jul 2024)
EllapsedTime: 153.9 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_1.41.1.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 12.7.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘Rcpi/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘Rcpi’ version ‘1.41.1’
* 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 
  7.515   0.697   7.192 

Example timings

Rcpi.Rcheck/Rcpi-Ex.timings

nameusersystemelapsed
AA2DACOR0.0020.0030.005
AA3DMoRSE0.0010.0020.002
AAACF0.0010.0020.004
AABLOSUM1000.0010.0020.008
AABLOSUM450.0010.0020.003
AABLOSUM500.0010.0020.002
AABLOSUM620.0010.0020.002
AABLOSUM800.0010.0020.002
AABurden0.0010.0010.002
AACPSA0.0010.0010.002
AAConn0.0010.0020.003
AAConst0.0010.0010.002
AADescAll0.0010.0020.003
AAEdgeAdj0.0010.0020.003
AAEigIdx0.0010.0010.002
AAFGC0.0010.0010.002
AAGETAWAY0.0010.0010.002
AAGeom0.0010.0010.002
AAInfo0.0010.0020.002
AAMOE2D0.0010.0010.002
AAMOE3D0.0010.0010.006
AAMetaInfo0.0010.0010.002
AAMolProp0.0010.0020.002
AAPAM1200.0010.0020.003
AAPAM2500.0010.0020.003
AAPAM300.0010.0020.004
AAPAM400.0010.0020.003
AAPAM700.0010.0020.002
AARDF0.0010.0020.003
AARandic0.0010.0020.003
AATopo0.0010.0010.002
AATopoChg0.0010.0020.003
AAWHIM0.0010.0010.003
AAWalk0.0010.0010.002
AAindex0.0010.0010.003
OptAA3d0.0000.0010.001
acc0.0090.0150.026
calcDrugFPSim000
calcDrugMCSSim0.0190.0060.026
calcParProtGOSim0.0000.0010.000
calcParProtSeqSim0.0070.0040.014
calcTwoProtGOSim0.0000.0000.001
calcTwoProtSeqSim0.0030.0020.004
checkProt0.0020.0010.003
convMolFormat0.0010.0010.002
extractDrugAIO0.0010.0000.001
extractDrugALOGP0.0010.0010.001
extractDrugAminoAcidCount0.0010.0000.001
extractDrugApol0.0010.0010.002
extractDrugAromaticAtomsCount0.0010.0000.001
extractDrugAromaticBondsCount0.0010.0010.001
extractDrugAtomCount0.0010.0010.002
extractDrugAutocorrelationCharge0.0010.0010.002
extractDrugAutocorrelationMass0.0010.0010.002
extractDrugAutocorrelationPolarizability0.0010.0010.002
extractDrugBCUT0.0010.0010.005
extractDrugBPol0.0010.0010.002
extractDrugBondCount0.0010.0010.002
extractDrugCPSA0.0010.0010.001
extractDrugCarbonTypes0.0010.0010.002
extractDrugChiChain0.0010.0010.003
extractDrugChiCluster0.0010.0000.002
extractDrugChiPath0.0010.0010.002
extractDrugChiPathCluster0.0010.0000.002
extractDrugDescOB0.0080.0050.016
extractDrugECI0.0010.0010.002
extractDrugEstate0.0010.0000.002
extractDrugEstateComplete0.0010.0010.003
extractDrugExtended0.0010.0010.002
extractDrugExtendedComplete0.0010.0010.001
extractDrugFMF0.0010.0010.001
extractDrugFragmentComplexity0.0010.0010.002
extractDrugGraph0.0010.0010.002
extractDrugGraphComplete0.0010.0010.002
extractDrugGravitationalIndex0.0010.0010.001
extractDrugHBondAcceptorCount0.0010.0000.001
extractDrugHBondDonorCount0.0010.0010.002
extractDrugHybridization0.0010.0010.002
extractDrugHybridizationComplete0.0010.0010.007
extractDrugHybridizationRatio0.0010.0010.003
extractDrugIPMolecularLearning0.0010.0000.002
extractDrugKR0.0010.0010.002
extractDrugKRComplete0.0010.0000.002
extractDrugKappaShapeIndices0.0010.0010.002
extractDrugKierHallSmarts0.0010.0000.004
extractDrugLargestChain0.0010.0010.002
extractDrugLargestPiSystem0.0010.0010.002
extractDrugLengthOverBreadth0.0010.0000.002
extractDrugLongestAliphaticChain0.0010.0010.001
extractDrugMACCS0.0010.0010.001
extractDrugMACCSComplete0.0000.0000.002
extractDrugMDE0.0010.0010.001
extractDrugMannholdLogP0.0010.0010.002
extractDrugMomentOfInertia0.0010.0010.002
extractDrugOBFP20.0070.0040.012
extractDrugOBFP30.0140.0070.021
extractDrugOBFP40.0080.0040.015
extractDrugOBMACCS0.0140.0080.022
extractDrugPetitjeanNumber0.0010.0010.002
extractDrugPetitjeanShapeIndex0.0010.0000.001
extractDrugPubChem0.0000.0010.001
extractDrugPubChemComplete0.0010.0010.001
extractDrugRotatableBondsCount0.0000.0010.002
extractDrugRuleOfFive0.0010.0000.001
extractDrugShortestPath0.0010.0000.002
extractDrugShortestPathComplete0.0010.0000.002
extractDrugStandard0.0010.0010.001
extractDrugStandardComplete0.0000.0010.002
extractDrugTPSA0.0010.0000.002
extractDrugVABC0.0000.0010.001
extractDrugVAdjMa0.0010.0000.002
extractDrugWHIM0.0010.0010.002
extractDrugWeight0.0000.0010.002
extractDrugWeightedPath0.0010.0010.002
extractDrugWienerNumbers0.0010.0000.002
extractDrugXLogP0.0010.0010.003
extractDrugZagrebIndex0.0000.0010.002
extractPCMBLOSUM0.0110.0030.015
extractPCMDescScales0.0140.0020.016
extractPCMFAScales0.0180.0050.022
extractPCMMDSScales0.0100.0030.013
extractPCMPropScales0.0990.0050.105
extractPCMScales0.0180.0030.022
extractProtAAC0.0020.0010.003
extractProtAPAAC0.9000.0340.941
extractProtCTDC0.0020.0020.004
extractProtCTDD0.0050.0040.009
extractProtCTDT0.0050.0010.008
extractProtCTriad0.1120.0160.130
extractProtDC0.0040.0100.013
extractProtGeary0.1480.0180.167
extractProtMoran0.1510.0170.173
extractProtMoreauBroto0.1300.0160.154
extractProtPAAC0.4680.0100.484
extractProtPSSM0.0010.0010.006
extractProtPSSMAcc0.0010.0010.003
extractProtPSSMFeature0.0010.0010.006
extractProtQSO0.8220.0170.849
extractProtSOCN0.7650.0120.788
extractProtTC0.0370.0960.134
getCPI0.0030.0010.004
getDrug0.0010.0010.000
getFASTAFromKEGG000
getFASTAFromUniProt0.0000.0010.000
getMolFromCAS000
getMolFromChEMBL000
getMolFromDrugBank000
getMolFromKEGG000
getMolFromPubChem000
getPDBFromRCSBPDB0.0000.0010.000
getPPI0.0030.0020.005
getProt000
getSeqFromKEGG000
getSeqFromRCSBPDB000
getSeqFromUniProt000
getSmiFromChEMBL000
getSmiFromDrugBank0.0000.0000.001
getSmiFromKEGG000
getSmiFromPubChem000
readFASTA0.0010.0010.003
readMolFromSDF0.0020.0020.004
readMolFromSmi0.0010.0010.001
readPDB0.8250.0100.844
searchDrug0.0020.0010.004
segProt0.0020.0020.004