| Back to Multiple platform build/check report for BioC 3.11 | 
  | 
This page was generated on 2020-10-17 11:59:03 -0400 (Sat, 17 Oct 2020).
| 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 1171/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| NanoStringQCPro 1.20.0 Robert Ziman 
  | malbec2 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | OK | |||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | [ OK ] | OK | 
| Package: NanoStringQCPro | 
| Version: 1.20.0 | 
| 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_1.20.0.tar.gz | 
| StartedAt: 2020-10-17 03:25:46 -0400 (Sat, 17 Oct 2020) | 
| EndedAt: 2020-10-17 03:28:43 -0400 (Sat, 17 Oct 2020) | 
| EllapsedTime: 177.0 seconds | 
| RetCode: 0 | 
| Status: OK | 
| CheckDir: NanoStringQCPro.Rcheck | 
| Warnings: 0 | 
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### Running 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_1.20.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.11-bioc/meat/NanoStringQCPro.Rcheck’
* using R version 4.0.3 (2020-10-10)
* 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 ‘1.20.0’
* 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 16.333  0.563  18.376
* checking PDF version of manual ... OK
* DONE
Status: 2 NOTEs
See
  ‘/Users/biocbuild/bbs-3.11-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 | 0.710 | 0.010 | 0.721 | |
| addCodesetAnnotation | 0.334 | 0.008 | 0.346 | |
| buildCodesetAnnotation | 0.013 | 0.001 | 0.014 | |
| checkRccSet | 0.091 | 0.002 | 0.094 | |
| contentNorm | 0.184 | 0.002 | 0.186 | |
| copyRccSet | 0.022 | 0.002 | 0.025 | |
| getBackground | 0.148 | 0.002 | 0.150 | |
| getBlankLabel | 0.002 | 0.002 | 0.004 | |
| makeQCReport | 16.333 | 0.563 | 18.376 | |
| newRccSet | 0.353 | 0.016 | 0.371 | |
| posCtrlNorm | 0.030 | 0.004 | 0.035 | |
| preprocRccSet | 0.216 | 0.003 | 0.219 | |
| presAbsCall | 0.067 | 0.002 | 0.069 | |
| readCdrDesignData | 0.003 | 0.001 | 0.003 | |
| readRcc | 0.006 | 0.001 | 0.006 | |
| readRlf | 0.005 | 0.000 | 0.006 | |
| subtractBackground | 0.098 | 0.002 | 0.100 | |