Mike Jiang
| Snapshot Date: 2018-04-11 16:45:18 -0400 (Wed, 11 Apr 2018) |
| URL: https://git.bioconductor.org/packages/ggcyto |
| Branch: RELEASE_3_6 |
| Last Commit: 773ee9d |
| Last Changed Date: 2018-04-04 18:26:31 -0400 (Wed, 04 Apr 2018) |
| Back to Multiple platform build/check report for BioC 3.6 |
|
This page was generated on 2018-04-12 13:27:19 -0400 (Thu, 12 Apr 2018).
| Package 583/1472 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| ggcyto 1.6.2 Mike Jiang
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ WARNINGS ] | OK | | ||||||
| veracruz1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: ggcyto |
| Version: 1.6.2 |
| Command: rm -rf ggcyto.buildbin-libdir ggcyto.Rcheck && mkdir ggcyto.buildbin-libdir ggcyto.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=ggcyto.buildbin-libdir ggcyto_1.6.2.tar.gz >ggcyto.Rcheck\00install.out 2>&1 && cp ggcyto.Rcheck\00install.out ggcyto-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=ggcyto.buildbin-libdir --install="check:ggcyto-install.out" --force-multiarch --no-vignettes --timings ggcyto_1.6.2.tar.gz |
| StartedAt: 2018-04-12 00:24:20 -0400 (Thu, 12 Apr 2018) |
| EndedAt: 2018-04-12 00:28:53 -0400 (Thu, 12 Apr 2018) |
| EllapsedTime: 273.3 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: ggcyto.Rcheck |
| Warnings: 1 |
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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-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=ggcyto.buildbin-libdir ggcyto_1.6.2.tar.gz >ggcyto.Rcheck\00install.out 2>&1 && cp ggcyto.Rcheck\00install.out ggcyto-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=ggcyto.buildbin-libdir --install="check:ggcyto-install.out" --force-multiarch --no-vignettes --timings ggcyto_1.6.2.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.6-bioc/meat/ggcyto.Rcheck'
* using R version 3.4.4 (2018-03-15)
* 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 '1.6.2'
* 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 'ggcyto' can be installed ... WARNING
Found the following significant warnings:
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpKoxClL/R.INSTALL1ed43c88f8f/ggcyto/man/marginalFilter.Rd:14: missing file link 'boundaryFilter'
See 'C:/Users/biocbuild/bbs-3.6-bioc/meat/ggcyto.Rcheck/00install.out' for details.
* 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' 'flowWorkspace:::isNegated'
'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 20.06 0.48 20.54
ggcyto.flowSet 7.58 0.11 8.52
plus-.ggcyto_GatingLayout 5.95 0.00 5.95
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
autoplot 19.17 0.57 19.75
ggcyto.flowSet 6.93 0.22 7.14
plus-.ggcyto_GatingLayout 6.03 0.07 6.09
* 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: 1 WARNING, 2 NOTEs
See
'C:/Users/biocbuild/bbs-3.6-bioc/meat/ggcyto.Rcheck/00check.log'
for details.
ggcyto.Rcheck/00install.out
install for i386
* installing *source* package 'ggcyto' ...
** R
** inst
** preparing package for lazy loading
Creating a generic function for '%+%' from package 'ggplot2' in package 'ggcyto'
** help
*** installing help indices
converting help for package 'ggcyto'
finding HTML links ... done
as.ggplot html
autoplot html
finding level-2 HTML links ... done
axis_x_inverse_trans html
compute_stats html
flowCore_asinht_trans html
fortify.ellipsoidGate html
fortify.filterList html
fortify.flowSet html
fortify.polygonGate html
fortify.rectangleGate html
fortify_fs html
geom_gate html
geom_hvline html
geom_overlay html
geom_stats html
getFlowFrame html
ggcyto.GatingSet html
ggcyto html
ggcyto.flowSet html
ggcyto_GatingSet_add html
ggcyto_arrange html
ggcyto_flowSet_add html
ggcyto_par_default html
ggcyto_par_set html
is.ggcyto html
is.ggcyto_flowSet html
is.ggcyto_par html
labs_cyto html
marginalFilter html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpKoxClL/R.INSTALL1ed43c88f8f/ggcyto/man/marginalFilter.Rd:14: missing file link 'boundaryFilter'
merge.quad.gates html
plus-.ggcyto_GatingLayout html
print.ggcyto html
print.ggcyto_GatingLayout html
replace_data html
scale_x_flowCore_fasinh html
scale_x_flowJo_biexp html
scale_x_flowJo_fasinh html
scale_x_logicle html
stat_position html
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'ggcyto' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'ggcyto' as ggcyto_1.6.2.zip
* DONE (ggcyto)
In R CMD INSTALL
In R CMD INSTALL
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ggcyto.Rcheck/examples_i386/ggcyto-Ex.timings
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ggcyto.Rcheck/examples_x64/ggcyto-Ex.timings
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