Back to Multiple platform build/check report for BioC 3.17:   simplified   long
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This page was generated on 2023-10-03 11:35:29 -0400 (Tue, 03 Oct 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.2 LTS)x86_644.3.1 (2023-06-16) -- "Beagle Scouts" 4626
palomino3Windows Server 2022 Datacenterx644.3.1 (2023-06-16 ucrt) -- "Beagle Scouts" 4379
merida1macOS 12.6.4 Montereyx86_644.3.1 (2023-06-16) -- "Beagle Scouts" 4395
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 593/2230HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
drugTargetInteractions 1.8.0  (landing page)
Thomas Girke
Snapshot Date: 2023-10-02 14:00:11 -0400 (Mon, 02 Oct 2023)
git_url: https://git.bioconductor.org/packages/drugTargetInteractions
git_branch: RELEASE_3_17
git_last_commit: 8ace133
git_last_commit_date: 2023-04-25 11:27:59 -0400 (Tue, 25 Apr 2023)
nebbiolo1Linux (Ubuntu 22.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino3Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.6.4 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

CHECK results for drugTargetInteractions on nebbiolo1


To the developers/maintainers of the drugTargetInteractions package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/drugTargetInteractions.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: drugTargetInteractions
Version: 1.8.0
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:drugTargetInteractions.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings drugTargetInteractions_1.8.0.tar.gz
StartedAt: 2023-10-02 20:59:25 -0400 (Mon, 02 Oct 2023)
EndedAt: 2023-10-02 21:05:50 -0400 (Mon, 02 Oct 2023)
EllapsedTime: 384.5 seconds
RetCode: 0
Status:   OK  
CheckDir: drugTargetInteractions.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:drugTargetInteractions.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings drugTargetInteractions_1.8.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/drugTargetInteractions.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
    gcc (Ubuntu 11.3.0-1ubuntu1~22.04.1) 11.3.0
    GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04.1) 11.3.0
* running under: Ubuntu 22.04.3 LTS
* using session charset: UTF-8
* checking for file ‘drugTargetInteractions/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘drugTargetInteractions’ version ‘1.8.0’
* 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 ‘drugTargetInteractions’ 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 R 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 loading without being on the library search path ... 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 ... NOTE
.getCacheFile: no visible binding for global variable 'create_time'
getParalogs: no visible global function definition for 'setNames'
Undefined global functions or variables:
  create_time setNames
Consider adding
  importFrom("stats", "setNames")
to your NAMESPACE file.
* 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                       user system elapsed
drugTargetAnnotTable 39.239  2.256  41.502
processDrugage       31.974  1.760  34.489
transformTTD          2.731  0.492   6.666
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ...
  ‘drugTargetInteractions.Rmd’ using ‘UTF-8’... OK
 NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.17-bioc/meat/drugTargetInteractions.Rcheck/00check.log’
for details.



Installation output

drugTargetInteractions.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL drugTargetInteractions
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/site-library’
* installing *source* package ‘drugTargetInteractions’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** 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 (drugTargetInteractions)

Tests output


Example timings

drugTargetInteractions.Rcheck/drugTargetInteractions-Ex.timings

nameusersystemelapsed
cmpIdMapping0.0000.0000.001
downloadChemblDb0.0000.0000.001
downloadUniChem0.8410.0401.780
drugTargetAnnot0.0110.0080.020
drugTargetAnnotTable39.239 2.25641.502
drugTargetBioactivity0.0720.0000.072
genConfig000
getDrugTarget0.0160.0000.017
getParalogs000
getSymEnsUp0.8800.1281.011
getUniprotIDs000
processDrugage31.974 1.76034.489
runDrugTarget_Annot_Bioassay0.3330.0200.353
transformTTD2.7310.4926.666