CHECK report for flowCyBar on tokay1
This page was generated on 2019-04-13 11:23:44 -0400 (Sat, 13 Apr 2019).
flowCyBar 1.18.1
Joachim Schumann
| Snapshot Date: 2019-04-12 17:01:30 -0400 (Fri, 12 Apr 2019) |
| URL: https://git.bioconductor.org/packages/flowCyBar |
| Branch: RELEASE_3_8 |
| Last Commit: f2ac74c |
| Last Changed Date: 2019-01-04 13:32:06 -0400 (Fri, 04 Jan 2019) |
| malbec1 | Linux (Ubuntu 16.04.6 LTS) / x86_64 | OK | OK | OK | |  |
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | |
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
Summary
Command output
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### Running command:
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### C:\Users\biocbuild\bbs-3.8-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:flowCyBar.install-out.txt --library=C:\Users\biocbuild\bbs-3.8-bioc\R\library --no-vignettes --timings flowCyBar_1.18.1.tar.gz
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* using log directory 'C:/Users/biocbuild/bbs-3.8-bioc/meat/flowCyBar.Rcheck'
* using R version 3.5.3 (2019-03-11)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'flowCyBar/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'flowCyBar' version '1.18.1'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib:
cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES'
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 'flowCyBar' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
* 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
* loading checks for arch 'i386'
** 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
* loading checks for arch 'x64'
** 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
correlation,data.frame : <anonymous>: no visible global function
definition for 'as.dist'
correlation,data.frame : est: no visible global function definition for
'cor.test'
correlation,data.frame : pval: no visible global function definition
for 'cor.test'
correlation,matrix : <anonymous>: no visible global function definition
for 'as.dist'
correlation,matrix : est: no visible global function definition for
'cor.test'
correlation,matrix : pval: no visible global function definition for
'cor.test'
cybar_plot,data.frame-data.frame: no visible global function definition
for 'layout'
cybar_plot,data.frame-data.frame: no visible global function definition
for 'par'
cybar_plot,data.frame-data.frame: no visible global function definition
for 'boxplot'
cybar_plot,data.frame-matrix: no visible global function definition for
'layout'
cybar_plot,data.frame-matrix: no visible global function definition for
'par'
cybar_plot,data.frame-matrix: no visible global function definition for
'boxplot'
cybar_plot,matrix-data.frame: no visible global function definition for
'layout'
cybar_plot,matrix-data.frame: no visible global function definition for
'par'
cybar_plot,matrix-data.frame: no visible global function definition for
'boxplot'
cybar_plot,matrix-matrix: no visible global function definition for
'layout'
cybar_plot,matrix-matrix: no visible global function definition for
'par'
cybar_plot,matrix-matrix: no visible global function definition for
'boxplot'
cybar_plot,missing-data.frame: no visible global function definition
for 'boxplot'
cybar_plot,missing-matrix: no visible global function definition for
'boxplot'
nmds,data.frame: no visible global function definition for 'plot'
nmds,data.frame: no visible global function definition for 'text'
nmds,data.frame: no visible global function definition for 'points'
nmds,data.frame: no visible global function definition for 'legend'
nmds,matrix: no visible global function definition for 'plot'
nmds,matrix: no visible global function definition for 'text'
nmds,matrix: no visible global function definition for 'points'
nmds,matrix: no visible global function definition for 'legend'
normalize,data.frame : <anonymous>: no visible global function
definition for 'head'
normalize,matrix : <anonymous>: no visible global function definition
for 'head'
Undefined global functions or variables:
as.dist boxplot cor.test head layout legend par plot points text
Consider adding
importFrom("graphics", "boxplot", "layout", "legend", "par", "plot",
"points", "text")
importFrom("stats", "as.dist", "cor.test")
importFrom("utils", "head")
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 files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... 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: 2 NOTEs
See
'C:/Users/biocbuild/bbs-3.8-bioc/meat/flowCyBar.Rcheck/00check.log'
for details.
Installation output
flowCyBar.Rcheck/00install.out
Tests output
Example timings
|
flowCyBar.Rcheck/examples_i386/flowCyBar-Ex.timings
|
flowCyBar.Rcheck/examples_x64/flowCyBar-Ex.timings
|