Back to Multiple platform build/check report for BioC 3.14
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This page was generated on 2022-04-13 12:06:29 -0400 (Wed, 13 Apr 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.3 (2022-03-10) -- "One Push-Up" 4324
tokay2Windows Server 2012 R2 Standardx644.1.3 (2022-03-10) -- "One Push-Up" 4077
machv2macOS 10.14.6 Mojavex86_644.1.3 (2022-03-10) -- "One Push-Up" 4137
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

CHECK results for drugTargetInteractions on tokay2


To the developers/maintainers of the drugTargetInteractions package:
- Please 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 How and When does the builder pull? When will my changes propagate? for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 544/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
drugTargetInteractions 1.2.0  (landing page)
Thomas Girke
Snapshot Date: 2022-04-12 01:55:07 -0400 (Tue, 12 Apr 2022)
git_url: https://git.bioconductor.org/packages/drugTargetInteractions
git_branch: RELEASE_3_14
git_last_commit: 0c4904f
git_last_commit_date: 2021-10-26 13:08:09 -0400 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  NO, package depends on 'UniProt.ws' which is not available
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: drugTargetInteractions
Version: 1.2.0
Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:drugTargetInteractions.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings drugTargetInteractions_1.2.0.tar.gz
StartedAt: 2022-04-12 18:54:23 -0400 (Tue, 12 Apr 2022)
EndedAt: 2022-04-12 19:02:59 -0400 (Tue, 12 Apr 2022)
EllapsedTime: 515.5 seconds
RetCode: 0
Status:   OK  
CheckDir: drugTargetInteractions.Rcheck
Warnings: 0

Command output

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###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:drugTargetInteractions.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings drugTargetInteractions_1.2.0.tar.gz
###
##############################################################################
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* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/drugTargetInteractions.Rcheck'
* using R version 4.1.3 (2022-03-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'drugTargetInteractions/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'drugTargetInteractions' version '1.2.0'
* 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 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
* loading checks for arch 'i386'
** 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
* loading checks for arch 'x64'
** 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 ... 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 ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                      user system elapsed
drugTargetAnnotTable 44.95   5.00   52.04
processDrugage       32.75   0.73   33.96
downloadUniChem       2.98   0.80   28.94
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                      user system elapsed
drugTargetAnnotTable 44.14   0.55   44.68
processDrugage       33.74   0.32   34.42
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  'C:/Users/biocbuild/bbs-3.14-bioc/meat/drugTargetInteractions.Rcheck/00check.log'
for details.



Installation output

drugTargetInteractions.Rcheck/00install.out

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/drugTargetInteractions_1.2.0.tar.gz && rm -rf drugTargetInteractions.buildbin-libdir && mkdir drugTargetInteractions.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=drugTargetInteractions.buildbin-libdir drugTargetInteractions_1.2.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL drugTargetInteractions_1.2.0.zip && rm drugTargetInteractions_1.2.0.tar.gz drugTargetInteractions_1.2.0.zip
###
##############################################################################
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  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100  551k  100  551k    0     0  1468k      0 --:--:-- --:--:-- --:--:-- 1470k

install for i386

* installing *source* package 'drugTargetInteractions' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'drugTargetInteractions'
    finding HTML links ... done
    cmpIdMapping                            html  
    downloadChemblDb                        html  
    downloadUniChem                         html  
    drugTargetAnnot                         html  
    drugTargetAnnotTable                    html  
    drugTargetBioactivity                   html  
    drugTargetInteraction-package           html  
    genConfig                               html  
    getDrugTarget                           html  
    getParalogs                             html  
    getSymEnsUp                             html  
    getUniprotIDs                           html  
    finding level-2 HTML links ... done

    processDrugage                          html  
    runDrugTarget_Annot_Bioassay            html  
    transformTTD                            html  
** 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

install for x64

* installing *source* package 'drugTargetInteractions' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'drugTargetInteractions' as drugTargetInteractions_1.2.0.zip
* DONE (drugTargetInteractions)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'drugTargetInteractions' successfully unpacked and MD5 sums checked

Tests output


Example timings

drugTargetInteractions.Rcheck/examples_i386/drugTargetInteractions-Ex.timings

nameusersystemelapsed
cmpIdMapping000
downloadChemblDb000
downloadUniChem 2.98 0.8028.94
drugTargetAnnot0.050.000.42
drugTargetAnnotTable44.95 5.0052.04
drugTargetBioactivity0.140.080.32
genConfig000
getDrugTarget0.030.000.08
getParalogs000
getSymEnsUp1.370.262.11
getUniprotIDs000
processDrugage32.75 0.7333.96
runDrugTarget_Annot_Bioassay0.440.000.43
transformTTD4.050.114.44

drugTargetInteractions.Rcheck/examples_x64/drugTargetInteractions-Ex.timings

nameusersystemelapsed
cmpIdMapping0.010.000.02
downloadChemblDb000
downloadUniChem2.770.213.67
drugTargetAnnot0.010.000.02
drugTargetAnnotTable44.14 0.5544.68
drugTargetBioactivity0.070.000.07
genConfig000
getDrugTarget0.010.000.01
getParalogs000
getSymEnsUp0.820.030.85
getUniprotIDs000
processDrugage33.74 0.3234.42
runDrugTarget_Annot_Bioassay0.390.000.41
transformTTD3.680.063.95