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This page was generated on 2024-11-28 15:01 -0500 (Thu, 28 Nov 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences" 4748
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 146/429HostnameOS / ArchINSTALLBUILDCHECK
gDRtestData 1.5.1  (landing page)
Arkadiusz Gladki
Snapshot Date: 2024-11-28 07:30 -0500 (Thu, 28 Nov 2024)
git_url: https://git.bioconductor.org/packages/gDRtestData
git_branch: devel
git_last_commit: 8be652c
git_last_commit_date: 2024-11-06 02:41:09 -0500 (Wed, 06 Nov 2024)
nebbiolo1Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published


CHECK results for gDRtestData on nebbiolo1

To the developers/maintainers of the gDRtestData package:
- 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: gDRtestData
Version: 1.5.1
Command: /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:gDRtestData.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings gDRtestData_1.5.1.tar.gz
StartedAt: 2024-11-28 12:36:52 -0500 (Thu, 28 Nov 2024)
EndedAt: 2024-11-28 12:41:12 -0500 (Thu, 28 Nov 2024)
EllapsedTime: 260.5 seconds
RetCode: 0
Status:   OK  
CheckDir: gDRtestData.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:gDRtestData.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings gDRtestData_1.5.1.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.21-data-experiment/meat/gDRtestData.Rcheck’
* using R Under development (unstable) (2024-10-21 r87258)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0
    GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0
* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* checking for file ‘gDRtestData/DESCRIPTION’ ... OK
* this is package ‘gDRtestData’ version ‘1.5.1’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib:
  cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES'
 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 ‘gDRtestData’ can be installed ... OK
* checking installed package size ... INFO
  installed size is  8.6Mb
  sub-directories of 1Mb or more:
    testdata   8.4Mb
* 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 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 ... 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                    user system elapsed
prepareMergedData 15.504  0.171   15.68
* 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 re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: OK


Installation output

gDRtestData.Rcheck/00install.out

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### Running command:
###
###   /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD INSTALL gDRtestData
###
##############################################################################
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* installing to library ‘/home/biocbuild/bbs-3.21-bioc/R/site-library’
* installing *source* package ‘gDRtestData’ ...
** 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 (gDRtestData)

Tests output

gDRtestData.Rcheck/tests/testthat.Rout


R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu

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(gDRtestData)
> 
> test_check("gDRtestData")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 5 ]
> 
> proc.time()
   user  system elapsed 
  0.567   0.060   0.615 

Example timings

gDRtestData.Rcheck/gDRtestData-Ex.timings

nameusersystemelapsed
add_concentration0.0290.0020.032
add_data_replicates0.0040.0010.004
add_day0_data0.0100.0010.011
cell_lines0.0040.0010.005
create_synthetic_cell_lines0.0030.0010.005
create_synthetic_drugs0.0030.0000.003
drugs0.0030.0000.003
generate_e_inf0.0390.1180.157
generate_ec500.0300.1310.162
generate_hill_coef0.0170.1330.150
generate_response_data0.0230.0000.024
get_test_dataset_paths0.0020.0000.003
prepareCodilutionData0.0320.0010.033
prepareComboMergedData1.0100.0191.030
prepareData1.8100.0831.893
prepareMergedData15.504 0.17115.680