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This page was generated on 2024-12-23 12:05 -0500 (Mon, 23 Dec 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.1 LTS)x86_644.4.2 (2024-10-31) -- "Pile of Leaves" 4744
palomino8Windows Server 2022 Datacenterx644.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" 4487
merida1macOS 12.7.5 Montereyx86_644.4.2 (2024-10-31) -- "Pile of Leaves" 4515
kjohnson1macOS 13.6.6 Venturaarm644.4.2 (2024-10-31) -- "Pile of Leaves" 4467
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 999/2289HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
iCheck 1.36.0  (landing page)
Weiliang Qiu
Snapshot Date: 2024-12-19 13:00 -0500 (Thu, 19 Dec 2024)
git_url: https://git.bioconductor.org/packages/iCheck
git_branch: RELEASE_3_20
git_last_commit: 764040f
git_last_commit_date: 2024-10-29 10:04:12 -0500 (Tue, 29 Oct 2024)
nebbiolo2Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino8Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.5 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.6 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published


CHECK results for iCheck on palomino8

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: 1.36.0
Command: F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:iCheck.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings iCheck_1.36.0.tar.gz
StartedAt: 2024-12-20 02:34:02 -0500 (Fri, 20 Dec 2024)
EndedAt: 2024-12-20 02:40:09 -0500 (Fri, 20 Dec 2024)
EllapsedTime: 367.1 seconds
RetCode: 0
Status:   OK  
CheckDir: iCheck.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:iCheck.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings iCheck_1.36.0.tar.gz
###
##############################################################################
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* using log directory 'F:/biocbuild/bbs-3.20-bioc/meat/iCheck.Rcheck'
* using R version 4.4.2 (2024-10-31 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 13.3.0
    GNU Fortran (GCC) 13.3.0
* 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 '1.36.0'
* 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
  'F:/biocbuild/bbs-3.20-bioc/meat/iCheck.Rcheck/00check.log'
for details.


Installation output

iCheck.Rcheck/00install.out

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


* installing to library 'F:/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
LumiBatch2Table0.100.010.11
R2PlotFunc0.180.020.19
boxPlots0.180.010.20
densityPlots0.10.00.1
genSimData.BayesNormal0.040.000.04
getPCAFunc0.070.000.07
glmWrapper0.460.040.50
lkhrWrapper0.650.030.67
lmFitPaired0.040.010.06
lmFitWrapper0.060.000.06
pca2DPlot0.080.000.08
pca3DPlot0.050.000.05
plotCurves0.050.000.04
plotQCCurves0.040.000.05
plotSamplep95p050.070.000.06
quantilePlot0.040.020.07
scatterPlots0.110.030.14
sortExpressionSet0.050.000.04