| Back to Multiple platform build/check report for BioC 3.12 |
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This page was generated on 2021-05-06 12:35:55 -0400 (Thu, 06 May 2021).
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To the developers/maintainers of the NanoStringQCPro package: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1199/1974 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| NanoStringQCPro 1.22.0 (landing page) Robert Ziman
| malbec1 | Linux (Ubuntu 18.04.5 LTS) / x86_64 | OK | OK | OK | |||||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |||||||||
| Package: NanoStringQCPro |
| Version: 1.22.0 |
| Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:NanoStringQCPro.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings NanoStringQCPro_1.22.0.tar.gz |
| StartedAt: 2021-05-06 04:07:46 -0400 (Thu, 06 May 2021) |
| EndedAt: 2021-05-06 04:10:16 -0400 (Thu, 06 May 2021) |
| EllapsedTime: 150.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: NanoStringQCPro.Rcheck |
| Warnings: 0 |
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### Running command:
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### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:NanoStringQCPro.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings NanoStringQCPro_1.22.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.12-bioc/meat/NanoStringQCPro.Rcheck’
* using R version 4.0.5 (2021-03-31)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘NanoStringQCPro/DESCRIPTION’ ... OK
* this is package ‘NanoStringQCPro’ version ‘1.22.0’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘NanoStringQCPro’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Package listed in more than one of Depends, Imports, Suggests, Enhances:
‘knitr’
A package should be listed in only one of these fields.
* 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 ... NOTE
centeredSampleClustering: no visible global function definition for
‘png’
centeredSampleClustering: no visible global function definition for
‘dev.off’
countsInBlankSamples_verticalPlot: no visible global function
definition for ‘png’
countsInBlankSamples_verticalPlot: no visible global function
definition for ‘dev.off’
geneClustering: no visible global function definition for ‘png’
geneClustering: no visible global function definition for ‘dev.off’
negCtrlsByLane_verticalPlot: no visible global function definition for
‘png’
negCtrlsByLane_verticalPlot: no visible global function definition for
‘dev.off’
previewPNG: no visible global function definition for ‘png’
previewPNG: no visible global function definition for ‘dev.off’
sampleClustering,RccSet: no visible global function definition for
‘png’
sampleClustering,RccSet: no visible global function definition for
‘dev.off’
Undefined global functions or variables:
dev.off png
Consider adding
importFrom("grDevices", "dev.off", "png")
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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
makeQCReport 13.43 0.294 13.753
* checking PDF version of manual ... OK
* DONE
Status: 2 NOTEs
See
‘/Users/biocbuild/bbs-3.12-bioc/meat/NanoStringQCPro.Rcheck/00check.log’
for details.
NanoStringQCPro.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL NanoStringQCPro ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.0/Resources/library’ * installing *source* package ‘NanoStringQCPro’ ... ** using staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** 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 (NanoStringQCPro)
NanoStringQCPro.Rcheck/NanoStringQCPro-Ex.timings
| name | user | system | elapsed | |
| RccSet-class | 0.471 | 0.009 | 0.481 | |
| addCodesetAnnotation | 0.342 | 0.010 | 0.356 | |
| buildCodesetAnnotation | 0.012 | 0.001 | 0.012 | |
| checkRccSet | 0.076 | 0.002 | 0.077 | |
| contentNorm | 0.143 | 0.003 | 0.147 | |
| copyRccSet | 0.021 | 0.001 | 0.022 | |
| getBackground | 0.099 | 0.002 | 0.102 | |
| getBlankLabel | 0.002 | 0.001 | 0.003 | |
| makeQCReport | 13.430 | 0.294 | 13.753 | |
| newRccSet | 0.320 | 0.022 | 0.343 | |
| posCtrlNorm | 0.022 | 0.002 | 0.025 | |
| preprocRccSet | 0.169 | 0.002 | 0.172 | |
| presAbsCall | 0.055 | 0.002 | 0.057 | |
| readCdrDesignData | 0.002 | 0.000 | 0.002 | |
| readRcc | 0.003 | 0.000 | 0.004 | |
| readRlf | 0.004 | 0.001 | 0.005 | |
| subtractBackground | 0.088 | 0.003 | 0.091 | |