ggcyto 1.2.3
Mike Jiang
| Snapshot Date: 2017-04-14 17:17:13 -0400 (Fri, 14 Apr 2017) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_4/madman/Rpacks/ggcyto | | Last Changed Rev: 127542 / Revision: 128728 | | Last Changed Date: 2017-03-20 19:08:02 -0400 (Mon, 20 Mar 2017) |
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | |  |
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | |
| morelia | 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 && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=ggcyto.buildbin-libdir ggcyto_1.2.3.tar.gz >ggcyto.Rcheck\00install.out 2>&1 && cp ggcyto.Rcheck\00install.out ggcyto-install.out && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD check --library=ggcyto.buildbin-libdir --install="check:ggcyto-install.out" --force-multiarch --no-vignettes --timings ggcyto_1.2.3.tar.gz
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* using log directory 'C:/Users/biocbuild/bbs-3.4-bioc/meat/ggcyto.Rcheck'
* using R version 3.3.3 (2017-03-06)
* 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 '1.2.3'
* 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'
autoplot.GatingSetList: no visible global function definition for
'getS3method'
autoplot.ncdfFlowList: no visible global function definition for
'getS3method'
density_fr_all : <anonymous>: no visible global function definition for
'gray'
fortify.GatingSetList: no visible global function definition for
'getS3method'
fortify.ncdfFlowList: no visible global function definition for
'getS3method'
fortify.polygonGate : <anonymous>: no visible global function
definition for 'dist'
fortify.polygonGate : <anonymous>: no visible global function
definition for 'approx'
fortify_fs.GatingSetList: no visible global function definition for
'getS3method'
getFlowFrame.GatingSetList: no visible global function definition for
'getS3method'
getFlowFrame.ncdfFlowList: no visible global function definition for
'getS3method'
ggcyto.GatingSetList: no visible global function definition for
'getS3method'
ggcyto.flowSet: no visible binding for global variable 'name'
ggcyto.flowSet: no visible binding for global variable 'axis'
ggcyto.ncdfFlowList: no visible global function definition for
'getS3method'
ggcyto_arrange: no visible binding for global variable 'name'
Undefined global functions or variables:
approx axis density desc dist getS3method gray modifyList name
Consider adding
importFrom("grDevices", "gray")
importFrom("graphics", "axis")
importFrom("stats", "approx", "density", "dist")
importFrom("utils", "getS3method", "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 10.39 0.30 10.69
ggcyto.flowSet 5.14 0.14 5.28
plus-.ggcyto_GatingLayout 5.07 0.01 5.08
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
autoplot 17.48 0.48 17.97
plus-.ggcyto_GatingLayout 6.92 0.00 6.92
ggcyto.flowSet 6.39 0.00 6.39
ggcyto 5.11 0.02 5.13
* 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
'C:/Users/biocbuild/bbs-3.4-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_1.2.3.zip
* DONE (ggcyto)