flowCyBar 1.12.0
Joachim Schumann
| Snapshot Date: 2017-08-15 17:17:57 -0400 (Tue, 15 Aug 2017) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_5/madman/Rpacks/flowCyBar | | Last Changed Rev: 129126 / Revision: 131943 | | Last Changed Date: 2017-04-24 15:25:24 -0400 (Mon, 24 Apr 2017) |
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | NotNeeded | OK | OK | |  |
| tokay2 | Windows Server 2012 R2 Standard / x64 | NotNeeded | OK | OK | OK | |
| veracruz2 | OS X 10.11.6 El Capitan / x86_64 | NotNeeded | OK | [ OK ] | OK | |
##############################################################################
##############################################################################
###
### Running command:
###
### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings flowCyBar_1.12.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.5-bioc/meat/flowCyBar.Rcheck’
* using R version 3.4.1 (2017-06-30)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘flowCyBar/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘flowCyBar’ version ‘1.12.0’
* package encoding: UTF-8
* 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 ‘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
* 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 loading without being on the library search path ... 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 sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... 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
‘/Users/biocbuild/bbs-3.5-bioc/meat/flowCyBar.Rcheck/00check.log’
for details.