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This page was generated on 2024-04-17 11:36:48 -0400 (Wed, 17 Apr 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.3.3 (2024-02-29) -- "Angel Food Cake" 4676
palomino4Windows Server 2022 Datacenterx644.3.3 (2024-02-29 ucrt) -- "Angel Food Cake" 4414
merida1macOS 12.7.1 Montereyx86_644.3.3 (2024-02-29) -- "Angel Food Cake" 4437
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 781/2266HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
gDRutils 1.0.0  (landing page)
Arkadiusz Gladki
Snapshot Date: 2024-04-15 14:05:01 -0400 (Mon, 15 Apr 2024)
git_url: https://git.bioconductor.org/packages/gDRutils
git_branch: RELEASE_3_18
git_last_commit: b8a1d96
git_last_commit_date: 2023-10-24 11:49:34 -0400 (Tue, 24 Oct 2023)
nebbiolo2Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    ERROR  
palomino4Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.1 Ventura / arm64see weekly results here

CHECK results for gDRutils on palomino4


To the developers/maintainers of the gDRutils package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/gDRutils.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: gDRutils
Version: 1.0.0
Command: F:\biocbuild\bbs-3.18-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:gDRutils.install-out.txt --library=F:\biocbuild\bbs-3.18-bioc\R\library --no-vignettes --timings gDRutils_1.0.0.tar.gz
StartedAt: 2024-04-16 01:00:33 -0400 (Tue, 16 Apr 2024)
EndedAt: 2024-04-16 01:04:43 -0400 (Tue, 16 Apr 2024)
EllapsedTime: 250.0 seconds
RetCode: 0
Status:   OK  
CheckDir: gDRutils.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.18-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:gDRutils.install-out.txt --library=F:\biocbuild\bbs-3.18-bioc\R\library --no-vignettes --timings gDRutils_1.0.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'F:/biocbuild/bbs-3.18-bioc/meat/gDRutils.Rcheck'
* using R version 4.3.3 (2024-02-29 ucrt)
* using platform: x86_64-w64-mingw32 (64-bit)
* R was compiled by
    gcc.exe (GCC) 12.3.0
    GNU Fortran (GCC) 12.3.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'gDRutils/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'gDRutils' version '1.0.0'
* 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 whether package 'gDRutils' 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 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
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
  Running 'testthat.R'
 OK
* 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: OK


Installation output

gDRutils.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.18-bioc\R\bin\R.exe CMD INSTALL gDRutils
###
##############################################################################
##############################################################################


* installing to library 'F:/biocbuild/bbs-3.18-bioc/R/library'
* installing *source* package 'gDRutils' ...
** 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 (gDRutils)

Tests output

gDRutils.Rcheck/tests/testthat.Rout


R version 4.3.3 (2024-02-29 ucrt) -- "Angel Food Cake"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (64-bit)

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("gDRutils")
> library("testthat")
> 
> test_check("gDRutils")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 461 ]
> 
> proc.time()
   user  system elapsed 
  48.85    1.67   64.64 

Example timings

gDRutils.Rcheck/gDRutils-Ex.timings

nameusersystemelapsed
MAEpply1.280.091.37
SE_metadata0.030.020.04
aggregate_assay0.680.060.75
apply_bumpy_function1.460.161.61
assert_choices000
cap_xc50000
convert_combo_data_to_dt0.670.030.70
convert_mae_assay_to_dt0.090.000.10
convert_mae_to_json0.770.010.78
convert_se_assay_to_dt0.080.000.08
convert_se_to_json0.010.000.01
demote_fields0.360.000.36
df_to_bm_assay0.100.000.09
dot-convert_colData_to_json0.010.000.02
dot-convert_metadata_to_json000
dot-convert_rowData_to_json000
dot-set_constant_fit_params000
dot-set_invalid_fit_params000
extend_normalization_type_name000
fit_curves0.190.050.23
flatten0.010.000.02
gen_synthetic_data0.020.000.02
get_MAE_identifiers0.020.000.01
get_assay_names000
get_combo_assay_names000
get_combo_base_assay_names000
get_combo_col_settings000
get_combo_score_assay_names000
get_default_identifiers000
get_env_assay_names000
get_expect_one_identifiers000
get_experiment_groups000
get_identifiers_dt000
get_idfs_synonyms000
get_iso_colors000
get_non_empty_assays0.050.000.06
get_required_identifiers000
get_synthetic_data0.010.000.02
get_testdata0.070.030.09
headers000
identifiers000
identify_unique_se_metadata_fields000
is_any_exp_empty0.050.000.04
is_exp_empty0.050.000.05
is_mae_empty0.040.000.05
logisticFit0.020.000.01
loop000
mcolData000
merge_SE1.570.001.56
merge_assay0.310.000.31
merge_metadata000
mrowData000
predict_conc_from_efficacy0.010.000.01
predict_efficacy_from_conc000
prettify_flat_metrics000
promote_fields0.220.020.24
refine_coldata000
refine_rowdata0.050.000.04
rename_DFrame0.000.010.02
rename_bumpy0.010.020.03
shorten_normalization_type_name000
split_SE_components0.030.000.03
standardize_mae0.180.000.19
standardize_se0.030.000.03
update_env_idfs_from_mae000
update_idfs_synonyms000
validate_MAE0.060.000.06
validate_SE0.020.000.02
validate_identifiers0.020.000.01
validate_json000
validate_mae_with_schema0.260.060.72
validate_se_assay_name000