spotSegmentation 1.46.0
Chris Fraley
| Snapshot Date: 2016-10-12 17:20:15 -0700 (Wed, 12 Oct 2016) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_3/madman/Rpacks/spotSegmentation | | Last Changed Rev: 117079 / Revision: 122332 | | Last Changed Date: 2016-05-03 14:20:18 -0700 (Tue, 03 May 2016) |
| zin2 | Linux (Ubuntu 14.04.2 LTS) / x86_64 | NotNeeded | OK | WARNINGS | |  |
| moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | NotNeeded | OK | [ WARNINGS ] | OK | |
| oaxaca | Mac OS X Mavericks (10.9.5) / x86_64 | NotNeeded | OK | WARNINGS | OK | |
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### Running command:
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### rm -rf spotSegmentation.buildbin-libdir spotSegmentation.Rcheck && mkdir spotSegmentation.buildbin-libdir spotSegmentation.Rcheck && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=spotSegmentation.buildbin-libdir spotSegmentation_1.46.0.tar.gz >spotSegmentation.Rcheck\00install.out 2>&1 && cp spotSegmentation.Rcheck\00install.out spotSegmentation-install.out && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=spotSegmentation.buildbin-libdir --install="check:spotSegmentation-install.out" --force-multiarch --no-vignettes --timings spotSegmentation_1.46.0.tar.gz
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* using log directory 'E:/biocbld/bbs-3.3-bioc/meat/spotSegmentation.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 'spotSegmentation/DESCRIPTION' ... OK
* this is package 'spotSegmentation' version '1.46.0'
* 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 whether package 'spotSegmentation' can be installed ... OK
* checking installed package size ... OK
* checking package 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 ... WARNING
Subdirectory 'inst' contains no files.
* 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 ... NOTE
Package in Depends field not imported from: 'mclust'
These packages need to be imported from (in the NAMESPACE file)
for when this namespace is loaded but not attached.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
plot.spotseg : plotSpotImage: no visible global function definition for
'par'
plot.spotseg : plotSpotImage: no visible global function definition for
'image'
plot.spotseg: no visible global function definition for 'postscript'
plotBlockImage: no visible global function definition for 'par'
plotBlockImage: no visible global function definition for 'image'
plotBlockImage: no visible global function definition for 'gray'
spotgrid : spotgridPeaks: no visible global function definition for
'runif'
spotgrid : spotgridPeaks: no visible global function definition for
'embed'
spotgrid: no visible global function definition for 'contour'
spotseg : spotseg1 : plotSpotImage: no visible global function
definition for 'par'
spotseg : spotseg1 : plotSpotImage: no visible global function
definition for 'image'
spotseg : spotseg1: no visible global function definition for
'mclustBIC'
spotseg : spotseg1: no visible global function definition for 'hcE'
spotseg : spotseg1: no visible global function definition for 'frame'
spotseg: no visible global function definition for 'par'
spotseg: no visible global function definition for 'median'
Undefined global functions or variables:
contour embed frame gray hcE image mclustBIC median par postscript
runif
Consider adding
importFrom("grDevices", "gray", "postscript")
importFrom("graphics", "contour", "frame", "image", "par")
importFrom("stats", "embed", "median", "runif")
to your NAMESPACE file.
* checking Rd files ... NOTE
prepare_Rd: plot.spotseg.Rd:23: Dropping empty section \author
prepare_Rd: plotBlockImage.Rd:20: Dropping empty section \author
prepare_Rd: spotgrid.Rd:21: Dropping empty section \details
prepare_Rd: spotgrid.Rd:33: Dropping empty section \note
prepare_Rd: spotgrid.Rd:34: Dropping empty section \author
prepare_Rd: spotseg.Rd:45: Dropping empty section \author
prepare_Rd: summary.spotseg.Rd:27: Dropping empty section \author
* 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
Examples with CPU or elapsed time > 5s
user system elapsed
summary.spotseg 5.09 0 5.09
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
spotseg 5.49 0.00 5.49
summary.spotseg 5.34 0.02 5.42
plot.spotseg 5.01 0.05 5.05
* checking PDF version of manual ... OK
* DONE
Status: 1 WARNING, 3 NOTEs
See
'E:/biocbld/bbs-3.3-bioc/meat/spotSegmentation.Rcheck/00check.log'
for details.
install for i386
* installing *source* package 'spotSegmentation' ...
** R
** data
** 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 'spotSegmentation' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'spotSegmentation' as spotSegmentation_1.46.0.zip
* DONE (spotSegmentation)