BioC experimental data: CHECK report for Fletcher2013b on malbec1

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### Running command:
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### /home/biocbuild/bbs-3.4-bioc/R/bin/R CMD check --no-vignettes --timings Fletcher2013b_1.10.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.4-data-experiment/meat/Fletcher2013b.Rcheck’
* using R version 3.3.3 (2017年03月06日)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘Fletcher2013b/DESCRIPTION’ ... OK
* this is package ‘Fletcher2013b’ version ‘1.10.0’
* 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 ‘Fletcher2013b’ can be installed ... OK
* checking installed package size ... NOTE
 installed size is 263.0Mb
 sub-directories of 1Mb or more:
 data 262.0Mb
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Title field: should not end in a period.
* 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
Fletcher2013gsea.regulons: no visible global function definition for
 ‘data’
Fletcher2013gsea.regulons: no visible binding for global variable
 ‘miscellaneous’
Fletcher2013gsea.regulons: no visible binding for global variable
 ‘Exp1limma’
Fletcher2013gsea.regulons: no visible binding for global variable
 ‘Exp2limma’
Fletcher2013gsea.regulons: no visible binding for global variable
 ‘Exp3limma’
Fletcher2013gsea.regulons: no visible global function definition for
 ‘palette’
Fletcher2013pipeline.consensusnet: no visible global function
 definition for ‘data’
Fletcher2013pipeline.consensusnet: no visible binding for global
 variable ‘miscellaneous’
Fletcher2013pipeline.consensusnet: no visible global function
 definition for ‘colorRampPalette’
Fletcher2013pipeline.enrichmap: no visible global function definition
 for ‘data’
Fletcher2013pipeline.enrichmap: no visible binding for global variable
 ‘miscellaneous’
Fletcher2013pipeline.enrichmap: no visible global function definition
 for ‘colorRampPalette’
Fletcher2013pipeline.mra1st: no visible global function definition for
 ‘data’
Fletcher2013pipeline.mra2nd: no visible global function definition for
 ‘data’
Fletcher2013pipeline.mraNormals: no visible global function definition
 for ‘data’
Fletcher2013pipeline.mraTALL: no visible global function definition for
 ‘data’
Fletcher2013pipeline.synergyShadow: no visible global function
 definition for ‘data’
Fletcher2013pipeline.synergyShadow: no visible binding for global
 variable ‘miscellaneous’
Fletcher2013pipeline.synergyShadow: no visible binding for global
 variable ‘Exp1limma’
colorscale1: no visible global function definition for ‘quantile’
colorscale1: no visible global function definition for ‘grey’
colorscale1: no visible global function definition for
 ‘colorRampPalette’
colorscale2: no visible global function definition for ‘quantile’
colorscale2: no visible global function definition for ‘grey’
colorscale2: no visible global function definition for
 ‘colorRampPalette’
plotSynergyShadow: no visible global function definition for ‘data’
plotSynergyShadow: no visible binding for global variable
 ‘miscellaneous’
plotSynergyShadow: no visible global function definition for ‘hclust’
plotSynergyShadow: no visible global function definition for ‘as.dist’
plotSynergyShadow: no visible global function definition for ‘cor’
plotSynergyShadow: no visible global function definition for
 ‘as.dendrogram’
plotSynergyShadow: no visible global function definition for ‘reorder’
plotSynergyShadow: no visible global function definition for
 ‘order.dendrogram’
plotSynergyShadow: no visible global function definition for
 ‘colorRampPalette’
plotleg1: no visible global function definition for ‘pdf’
plotleg1: no visible global function definition for ‘image’
plotleg1: no visible global function definition for ‘axis’
plotleg1: no visible global function definition for ‘box’
plotleg1: no visible global function definition for ‘mtext’
plotleg1: no visible global function definition for ‘dev.off’
plotleg2: no visible global function definition for ‘image’
plotleg2: no visible global function definition for ‘axis’
plotleg2: no visible global function definition for ‘box’
plotleg2: no visible global function definition for ‘mtext’
plotovsysh: no visible global function definition for ‘pdf’
plotovsysh: no visible global function definition for ‘layout’
plotovsysh: no visible global function definition for ‘par’
plotovsysh: no visible global function definition for ‘image’
plotovsysh: no visible global function definition for ‘axis’
plotovsysh: no visible global function definition for ‘box’
plotovsysh: no visible global function definition for ‘mtext’
plotovsysh: no visible global function definition for ‘abline’
plotovsysh: no visible global function definition for ‘dev.off’
Undefined global functions or variables:
 Exp1limma Exp2limma Exp3limma abline as.dendrogram as.dist axis box
 colorRampPalette cor data dev.off grey hclust image layout
 miscellaneous mtext order.dendrogram palette par pdf quantile reorder
Consider adding
 importFrom("grDevices", "colorRampPalette", "dev.off", "grey",
 "palette", "pdf")
 importFrom("graphics", "abline", "axis", "box", "image", "layout",
 "mtext", "par")
 importFrom("stats", "as.dendrogram", "as.dist", "cor", "hclust",
 "order.dendrogram", "quantile", "reorder")
 importFrom("utils", "data")
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 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: 3 NOTEs
See
 ‘/home/biocbuild/bbs-3.4-data-experiment/meat/Fletcher2013b.Rcheck/00check.log’
for details.

* installing *source* package ‘Fletcher2013b’ ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (Fletcher2013b)