DmelSGI 1.4.2
Bernd Fischer
| Snapshot Date: 2016-10-08 07:15:25 -0700 (Sat, 08 Oct 2016) | | URL: https://hedgehog.fhcrc.org/bioc-data/branches/RELEASE_3_3/experiment/pkgs/DmelSGI | | Last Changed Rev: 3774 / Revision: 3935 | | Last Changed Date: 2016-05-15 13:23:24 -0700 (Sun, 15 May 2016) |
| zin2 | Linux (Ubuntu 14.04.2 LTS) / x86_64 | NotNeeded | OK | OK | |  |
| moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | NotNeeded | OK | [ OK ] | OK | |
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### Running command:
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### rm -rf DmelSGI.buildbin-libdir DmelSGI.Rcheck && mkdir DmelSGI.buildbin-libdir DmelSGI.Rcheck && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=DmelSGI.buildbin-libdir DmelSGI_1.4.2.tar.gz >DmelSGI.Rcheck\00install.out 2>&1 && cp DmelSGI.Rcheck\00install.out DmelSGI-install.out && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=DmelSGI.buildbin-libdir --install="check:DmelSGI-install.out" --force-multiarch --no-vignettes --timings DmelSGI_1.4.2.tar.gz
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* using log directory 'E:/biocbld/bbs-3.3-data-experiment/meat/DmelSGI.Rcheck'
* using R version 3.3.1 (2016-06-21)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'DmelSGI/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'DmelSGI' version '1.4.2'
* 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 whether package 'DmelSGI' can be installed ... OK
* checking installed package size ... NOTE
installed size is 140.4Mb
sub-directories of 1Mb or more:
Rscripts 1.7Mb
data 137.3Mb
doc 1.2Mb
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... OK
* 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
** checking loading without being on the library search path ... 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 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
callInteractions: no visible global function definition for 'p.adjust'
fitMatrices: no visible global function definition for 'png'
fitMatrices: no visible global function definition for 'dev.off'
makeDall: no visible global function definition for 'mad'
mymedpolish: no visible binding for global variable 'median'
mymedpolish : <anonymous>: no visible binding for global variable
'median'
mymedpolish: no visible global function definition for 'median'
orderDim: no visible global function definition for 'cor'
orderDim: no visible global function definition for 'hclust'
orderDim: no visible global function definition for 'as.dist'
orderSpiderAxis: no visible global function definition for 'dist'
plot2Phenotypes: no visible global function definition for 'layout'
plot2Phenotypes: no visible global function definition for 'par'
plot2Phenotypes: no visible global function definition for 'plot'
plot2Phenotypes: no visible global function definition for 'points'
plot2Phenotypes: no visible global function definition for 'arrows'
plot2Phenotypes: no visible global function definition for 'segments'
plot2Phenotypes: no visible global function definition for 'abline'
plot2Phenotypes: no visible global function definition for 'text'
plotHairballLabels: no visible global function definition for 'text'
plotHairballLabels: no visible global function definition for 'lines'
plotPIdata: no visible global function definition for 'par'
plotPIdata: no visible global function definition for 'plot'
plotPIdata: no visible global function definition for 'abline'
saveHeatmapFile: no visible global function definition for 'png'
saveHeatmapFile: no visible global function definition for 'dev.off'
saveHeatmapFile: no visible global function definition for 'cairo_pdf'
selectByStability: no visible global function definition for 'lm'
selectByStability : <anonymous>: no visible global function definition
for 'cor'
subSampleForStabilitySelectionFct : <anonymous>: no visible global
function definition for 'median'
subSampleForStabilitySelectionFct : <anonymous>: no visible global
function definition for 'mad'
Undefined global functions or variables:
abline arrows as.dist cairo_pdf cor dev.off dist hclust layout lines
lm mad median p.adjust par plot png points segments text
Consider adding
importFrom("grDevices", "cairo_pdf", "dev.off", "png")
importFrom("graphics", "abline", "arrows", "layout", "lines", "par",
"plot", "points", "segments", "text")
importFrom("stats", "as.dist", "cor", "dist", "hclust", "lm", "mad",
"median", "p.adjust")
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 ...
** 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
'E:/biocbld/bbs-3.3-data-experiment/meat/DmelSGI.Rcheck/00check.log'
for details.
install for i386
* installing *source* package 'DmelSGI' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
install for x64
* installing *source* package 'DmelSGI' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'DmelSGI' as DmelSGI_1.4.2.zip
* DONE (DmelSGI)