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This page was generated on 2024-07-16 11:40 -0400 (Tue, 16 Jul 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.4.1 (2024-06-14) -- "Race for Your Life" 4677
palomino6Windows Server 2022 Datacenterx644.4.1 (2024-06-14 ucrt) -- "Race for Your Life" 4416
lconwaymacOS 12.7.1 Montereyx86_644.4.1 (2024-06-14) -- "Race for Your Life" 4444
kjohnson3macOS 13.6.5 Venturaarm644.4.1 (2024-06-14) -- "Race for Your Life" 4393
palomino8Windows Server 2022 Datacenterx644.4.1 (2024-06-14 ucrt) -- "Race for Your Life" 4373
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 982/2243HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
iCheck 1.35.0  (landing page)
Weiliang Qiu
Snapshot Date: 2024-07-15 14:00 -0400 (Mon, 15 Jul 2024)
git_url: https://git.bioconductor.org/packages/iCheck
git_branch: devel
git_last_commit: ba7c59d
git_last_commit_date: 2024-04-30 10:46:00 -0400 (Tue, 30 Apr 2024)
nebbiolo2Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino6Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  
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
palomino8Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  


CHECK results for iCheck on palomino6

To the developers/maintainers of the iCheck package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/iCheck.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: iCheck
Version: 1.35.0
Command: C:\Users\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:iCheck.install-out.txt --library=C:\Users\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings iCheck_1.35.0.tar.gz
StartedAt: 2024-07-16 00:55:17 -0400 (Tue, 16 Jul 2024)
EndedAt: 2024-07-16 01:01:26 -0400 (Tue, 16 Jul 2024)
EllapsedTime: 368.9 seconds
RetCode: 0
Status:   OK  
CheckDir: iCheck.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:iCheck.install-out.txt --library=C:\Users\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings iCheck_1.35.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.20-bioc/meat/iCheck.Rcheck'
* using R version 4.4.1 (2024-06-14 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 13.2.0
    GNU Fortran (GCC) 13.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'iCheck/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'iCheck' version '1.35.0'
* 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 'iCheck' 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 ... NOTE
checkRd: (-1) R2PlotFunc.Rd:74: Lost braces; missing escapes or markup?
    74 |  'las' numeric in {0,1,2,3}; the style of axis labels.
       |                   ^
checkRd: (-1) genSimData.BayesNormal.Rd:93: Lost braces; missing escapes or markup?
    93 | contains 2 columns: \code{arrayID} (array id) and {memSubj} (subject
       |                                                   ^
checkRd: (-1) lmFitWrapper.Rd:85: Lost braces
    85 | code{pval} (p-values of the tests for the covariate of interest, i.e.
       |     ^
checkRd: (-1) plotCurves.Rd:75: Lost braces; missing escapes or markup?
    75 |  'las' numeric in {0,1,2,3}; the style of axis labels.
       |                   ^
checkRd: (-1) plotQCCurves.Rd:102: Lost braces; missing escapes or markup?
   102 |  'las' numeric in {0,1,2,3}; the style of axis labels.
       |                   ^
checkRd: (-1) plotSamplep95p05.Rd:92: Lost braces; missing escapes or markup?
    92 |  'las' numeric in {0,1,2,3}; the style of axis labels.
       |                   ^
checkRd: (-1) quantilePlot.Rd:78: Lost braces; missing escapes or markup?
    78 |  'las' numeric in {0,1,2,3}; the style of axis labels.
       |                   ^
* 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 sizes of PDF files under 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... 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: 1 NOTE
See
  'C:/Users/biocbuild/bbs-3.20-bioc/meat/iCheck.Rcheck/00check.log'
for details.


Installation output

iCheck.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL iCheck
###
##############################################################################
##############################################################################


* installing to library 'C:/Users/biocbuild/bbs-3.20-bioc/R/library'
* installing *source* package 'iCheck' ...
** using staged installation
** R
** byte-compile and prepare package for lazy loading
No methods found in package 'RSQLite' for request: 'dbListFields' when loading 'lumi'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
No methods found in package 'RSQLite' for request: 'dbListFields' when loading 'lumi'
** testing if installed package can be loaded from final location
No methods found in package 'RSQLite' for request: 'dbListFields' when loading 'lumi'
** testing if installed package keeps a record of temporary installation path
* DONE (iCheck)

Tests output


Example timings

iCheck.Rcheck/iCheck-Ex.timings

nameusersystemelapsed
LumiBatch2Table0.080.000.08
R2PlotFunc0.170.000.17
boxPlots0.190.010.21
densityPlots0.080.000.08
genSimData.BayesNormal0.030.000.03
getPCAFunc0.030.000.03
glmWrapper0.270.020.28
lkhrWrapper0.390.010.41
lmFitPaired0.030.000.03
lmFitWrapper0.060.000.06
pca2DPlot0.060.020.08
pca3DPlot0.030.000.03
plotCurves0.040.000.03
plotQCCurves0.040.000.05
plotSamplep95p050.050.000.04
quantilePlot0.050.000.07
scatterPlots0.060.040.10
sortExpressionSet0.030.000.03