ggcyto 1.0.6
Mike Jiang
| 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/ggcyto | | Last Changed Rev: 120920 / Revision: 122332 | | Last Changed Date: 2016-09-13 13:50:59 -0700 (Tue, 13 Sep 2016) |
| zin2 | Linux (Ubuntu 14.04.2 LTS) / x86_64 | OK | OK | OK | |  |
| moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | OK | [ OK ] | OK | |
| oaxaca | Mac OS X Mavericks (10.9.5) / x86_64 | OK | OK | OK | OK | |
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### Running command:
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### rm -rf ggcyto.buildbin-libdir ggcyto.Rcheck && mkdir ggcyto.buildbin-libdir ggcyto.Rcheck && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=ggcyto.buildbin-libdir ggcyto_1.0.6.tar.gz >ggcyto.Rcheck\00install.out 2>&1 && cp ggcyto.Rcheck\00install.out ggcyto-install.out && E:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=ggcyto.buildbin-libdir --install="check:ggcyto-install.out" --force-multiarch --no-vignettes --timings ggcyto_1.0.6.tar.gz
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* using log directory 'E:/biocbld/bbs-3.3-bioc/meat/ggcyto.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 'ggcyto/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'ggcyto' version '1.0.6'
* 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 'ggcyto' can be installed ... OK
* checking installed package size ... OK
* 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
* 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 ... NOTE
Namespace in Imports field not imported from: 'scales'
All declared Imports should be used.
Unexported objects imported by ':::' calls:
'flowWorkspace:::.mergeGates' 'flowWorkspace:::compact'
'flowWorkspace:::fix_y_axis' 'ggplot2:::+.gg' 'ggplot2:::add_group'
'ggplot2:::check_aesthetics' 'ggplot2:::ggplot.data.frame'
'ggplot2:::is.waive' 'ggplot2:::is_calculated_aes'
'ggplot2:::make_scale' 'ggplot2:::plot_clone'
'ggplot2:::print.ggplot' 'ggplot2:::scales_add_defaults'
'ggplot2:::update_theme'
See the note in ?`:::` about the use of this operator.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
.fs2dt: no visible binding for global variable 'name'
add_ggcyto: no visible binding for global variable 'name'
add_ggcyto: no visible binding for global variable 'density'
add_ggcyto: no visible binding for global variable 'axis'
add_ggcyto: no visible binding for global variable 'desc'
add_par: no visible global function definition for 'modifyList'
as.ggplot: no visible binding for global variable 'axis'
as.ggplot: no visible binding for global variable 'name'
autoplot.GatingHierarchy : <anonymous>: no visible global function
definition for 'gray'
fortify.polygonGate : <anonymous>: no visible global function
definition for 'dist'
fortify.polygonGate : <anonymous>: no visible global function
definition for 'approx'
ggcyto.flowSet: no visible binding for global variable 'name'
ggcyto.flowSet: no visible binding for global variable 'axis'
print.ggcyto_GatingLayout: no visible binding for global variable
'name'
Undefined global functions or variables:
approx axis density desc dist gray modifyList name
Consider adding
importFrom("grDevices", "gray")
importFrom("graphics", "axis")
importFrom("stats", "approx", "density", "dist")
importFrom("utils", "modifyList")
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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
autoplot 11.84 0.31 28.24
ggcyto.flowSet 7.22 0.11 11.28
plus-.ggcyto_GatingLayout 6.44 0.00 6.46
geom_gate 3.43 0.04 7.82
ggcyto_flowSet_add 3.14 0.02 5.59
as.ggplot 1.47 0.02 17.60
geom_hvline 0.33 0.00 6.94
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
autoplot 13.88 0.29 22.23
plus-.ggcyto_GatingLayout 8.58 0.05 8.63
ggcyto.flowSet 7.78 0.04 7.81
ggcyto 5.12 0.03 5.15
ggcyto_flowSet_add 2.93 0.04 6.21
* 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-bioc/meat/ggcyto.Rcheck/00check.log'
for details.
install for i386
* installing *source* package 'ggcyto' ...
** R
** 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 'ggcyto' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'ggcyto' as ggcyto_1.0.6.zip
* DONE (ggcyto)