Back to Multiple platform build/check report for BioC 3.9 |
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This page was generated on 2019-03-11 11:23:03 -0400 (Mon, 11 Mar 2019).
Package 1181/1676 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
plateCore 1.41.1 Errol Strain
| malbec2 | Linux (Ubuntu 18.04.1 LTS) / x86_64 | OK | OK | WARNINGS | |||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ WARNINGS ] | OK | |||||||
merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | WARNINGS | OK | |||||||
celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | WARNINGS | OK |
Package: plateCore |
Version: 1.41.1 |
Command: C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:plateCore.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings plateCore_1.41.1.tar.gz |
StartedAt: 2019-03-11 05:16:56 -0400 (Mon, 11 Mar 2019) |
EndedAt: 2019-03-11 05:21:01 -0400 (Mon, 11 Mar 2019) |
EllapsedTime: 245.7 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: plateCore.Rcheck |
Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:plateCore.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings plateCore_1.41.1.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.9-bioc/meat/plateCore.Rcheck' * using R Under development (unstable) (2019-01-10 r75962) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'plateCore/DESCRIPTION' ... OK * this is package 'plateCore' version '1.41.1' * 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 'plateCore' 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 * 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 Packages in Depends field not imported from: 'flowViz' 'latticeExtra' 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 panel.xyplot.flowPlate: warning in filterBoundary(filter = filter[[nm]], parameters = c(channel.x.name, channel.y.name), frame = frames[[nm]]): partial argument match of 'filter' to 'filter.object' fixAutoFl,flowPlate: no visible binding for global variable 'Sample.Type' fpbind,flowPlate-flowPlate : <anonymous>: no visible binding for global variable 'name' gutterPlot,flowPlate: no visible global function definition for 'plot' mfiPlot,flowPlate: no visible global function definition for 'plot' plotPlate,flowPlate: no visible global function definition for 'plot' setControlGates,flowPlate: no visible binding for global variable 'Sample.Type' setControlGates,flowPlate: no visible binding for global variable 'Channel' setControlGates,flowPlate : <anonymous>: no visible binding for global variable 'Well.Id' setControlGates,flowPlate : <anonymous>: no visible binding for global variable 'plateName' setControlGates,flowPlate : <anonymous>: no visible binding for global variable 'name' Undefined global functions or variables: Channel Sample.Type Well.Id name plateName plot Consider adding importFrom("graphics", "plot") to your NAMESPACE file. * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... WARNING Undocumented S4 methods: generic '[' and siglist 'flowPlate,ANY,ANY,ANY' All user-level objects in a package (including S4 classes and methods) should have documentation entries. See chapter 'Writing R documentation files' in the 'Writing R Extensions' manual. * 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 mfiPlot-methods 6.83 0.04 6.87 applyControlGates-methods 6.41 0.08 6.48 summaryStats-methods 6.07 0.00 6.06 ** running examples for arch 'x64' ... OK Examples with CPU or elapsed time > 5s user system elapsed summaryStats-methods 5.94 0.00 5.94 mfiPlot-methods 5.13 0.02 5.14 * 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, 3 NOTEs See 'C:/Users/biocbuild/bbs-3.9-bioc/meat/plateCore.Rcheck/00check.log' for details.
plateCore.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/plateCore_1.41.1.tar.gz && rm -rf plateCore.buildbin-libdir && mkdir plateCore.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=plateCore.buildbin-libdir plateCore_1.41.1.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL plateCore_1.41.1.zip && rm plateCore_1.41.1.tar.gz plateCore_1.41.1.zip ### ############################################################################## ############################################################################## % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 100 2301k 100 2301k 0 0 14.8M 0 --:--:-- --:--:-- --:--:-- 15.6M install for i386 * installing *source* package 'plateCore' ... ** R ** data ** byte-compile and prepare package for lazy loading No methods found in package 'flowStats' for request: '%on%' when loading 'plateCore' ** help *** installing help indices converting help for package 'plateCore' finding HTML links ... done Subset-methods html applyControlGates-methods html compensate-methods html compensationSet html densityplot-methods html fixAutoFl-methods html flowPlate-class html finding level-2 HTML links ... done flowPlate-method html fpbind-methods html getGroups-methods html gutterPlot-methods html mfiPlot-methods html on-methods html panel.densityplot.flowPlate html panel.xyplot.flowPlate html pbmcPlate html plateCore-package html plateSet-methods html plotPlate-methods html prepanel.densityplot.flowPlate html prepanel.xyplot.flowPlate html setControlGates-methods html summaryStats-methods html wellAnnotation-methods html xyplot-methods html ** building package indices ** installing vignettes ** testing if installed package can be loaded No methods found in package 'flowStats' for request: '%on%' when loading 'plateCore' install for x64 * installing *source* package 'plateCore' ... ** testing if installed package can be loaded No methods found in package 'flowStats' for request: '%on%' when loading 'plateCore' * MD5 sums packaged installation of 'plateCore' as plateCore_1.41.1.zip * DONE (plateCore) * installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library' package 'plateCore' successfully unpacked and MD5 sums checked
plateCore.Rcheck/examples_i386/plateCore-Ex.timings
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plateCore.Rcheck/examples_x64/plateCore-Ex.timings
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