Back to Multiple platform build/check report for BioC 3.9 |
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This page was generated on 2019-10-16 11:56:19 -0400 (Wed, 16 Oct 2019).
Package 584/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
flowViz 1.48.0 Mike Jiang
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | [ OK ] | |||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | |||||||
celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK |
Package: flowViz |
Version: 1.48.0 |
Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:flowViz.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings flowViz_1.48.0.tar.gz |
StartedAt: 2019-10-16 01:42:42 -0400 (Wed, 16 Oct 2019) |
EndedAt: 2019-10-16 01:44:41 -0400 (Wed, 16 Oct 2019) |
EllapsedTime: 119.4 seconds |
RetCode: 0 |
Status: OK |
CheckDir: flowViz.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:flowViz.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings flowViz_1.48.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/flowViz.Rcheck’ * using R version 3.6.1 (2019-07-05) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘flowViz/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘flowViz’ version ‘1.48.0’ * 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 for sufficient/correct file permissions ... OK * checking whether package ‘flowViz’ can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... NOTE Packages listed in more than one of Depends, Imports, Suggests, Enhances: ‘flowCore’ ‘lattice’ A package should be listed in only one of these fields. * 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 * 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 Unexported objects imported by ':::' calls: ‘lattice:::hist.constructor’ ‘lattice:::updateList’ 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 flowPlot,flowFrame: warning in log(xd, b = 10): partial argument match of 'b' to 'base' flowPlot,flowFrame: warning in log(yd, b = 10): partial argument match of 'b' to 'base' .process_overlay_flowSet :: no visible global function definition for ‘extends’ .xyplot.flowSet: no visible global function definition for ‘as.formula’ panel.densityplot.flowset.stack: no visible binding for global variable ‘rl’ panel.xyplot.flowframe: no visible global function definition for ‘densCols’ panel.xyplot.flowframe.old: no visible global function definition for ‘densCols’ prepanel.densityplot.flowset.stack: no visible global function definition for ‘extends’ contour,flowFrame: no visible global function definition for ‘contourLines’ flowPlot,flowFrame: no visible global function definition for ‘rainbow’ glpoints,filter-flowFrame-missing: no visible binding for global variable ‘parms’ glpoints,filter-flowFrame-missing: no visible binding for global variable ‘strict’ gpoints,quadGate-flowFrame-character: no visible binding for global variable ‘filterResult’ gpolygon,ellipsoidGate-character: no visible binding for global variable ‘fd’ Undefined global functions or variables: as.formula contourLines densCols extends fd filterResult parms rainbow rl strict Consider adding importFrom("grDevices", "contourLines", "densCols", "rainbow") importFrom("methods", "extends") importFrom("stats", "as.formula") to your NAMESPACE file (and ensure that your DESCRIPTION Imports field contains 'methods'). * checking Rd files ... NOTE prepare_Rd: glines-methods.Rd:149-151: Dropping empty section ‘Methods’ prepare_Rd: timeLinePlot.Rd:72-74: Dropping empty section ‘Methods’ * 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’ ... NOTE Files named as vignettes but with no recognized vignette engine: ‘vignettes/densityplot_vs_histogram.Rmd’ (Is a VignetteBuilder field missing?) * checking examples ... OK Examples with CPU or elapsed time > 5s user system elapsed xyplot 12.214 0.092 12.313 densityplot 9.605 0.233 9.838 splom 9.075 0.112 9.187 lattice-methods 8.394 0.072 8.467 timeLinePlot 6.849 0.020 6.869 * checking for unstated dependencies in vignettes ... NOTE '::' or ':::' import not declared from: ‘data.table’ * 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: 6 NOTEs See ‘/home/biocbuild/bbs-3.9-bioc/meat/flowViz.Rcheck/00check.log’ for details.
flowViz.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL flowViz ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’ * installing *source* package ‘flowViz’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ‘filters.Rmd’ ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (flowViz)
flowViz.Rcheck/flowViz-Ex.timings
name | user | system | elapsed | |
contour-methods | 1.031 | 0.048 | 1.079 | |
densityplot | 9.605 | 0.233 | 9.838 | |
ecdfplot | 4.840 | 0.052 | 4.892 | |
flowPlot | 1.279 | 0.048 | 1.327 | |
flowViz-package | 0 | 0 | 0 | |
flowViz.par.get | 1.710 | 0.048 | 1.765 | |
lattice-methods | 8.394 | 0.072 | 8.467 | |
splom | 9.075 | 0.112 | 9.187 | |
timeLinePlot | 6.849 | 0.020 | 6.869 | |
xyplot | 12.214 | 0.092 | 12.313 | |