Back to Multiple platform build/check report for BioC 3.11 |
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This page was generated on 2020-10-17 11:57:57 -0400 (Sat, 17 Oct 2020).
TO THE DEVELOPERS/MAINTAINERS OF THE trio PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1835/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
trio 3.26.0 Holger Schwender
| malbec2 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | OK | |||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | NA | |||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK |
Package: trio |
Version: 3.26.0 |
Command: C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:trio.install-out.txt --library=C:\Users\biocbuild\bbs-3.11-bioc\R\library --no-vignettes --timings trio_3.26.0.tar.gz |
StartedAt: 2020-10-17 09:00:40 -0400 (Sat, 17 Oct 2020) |
EndedAt: 2020-10-17 09:06:16 -0400 (Sat, 17 Oct 2020) |
EllapsedTime: 335.8 seconds |
RetCode: 0 |
Status: OK |
CheckDir: trio.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:trio.install-out.txt --library=C:\Users\biocbuild\bbs-3.11-bioc\R\library --no-vignettes --timings trio_3.26.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.11-bioc/meat/trio.Rcheck' * using R version 4.0.3 (2020-10-10) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'trio/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'trio' version '3.26.0' * 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 whether package 'trio' 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 ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... NOTE Foreign function call to a different package: .C("clogreg", ..., PACKAGE = "LogicReg") See chapter 'System and foreign language interfaces' in the 'Writing R Extensions' manual. * checking R code for possible problems ... NOTE .onAttach: no visible global function definition for 'winMenuAdd' .onAttach: no visible global function definition for 'winMenuAddItem' Undefined global functions or variables: winMenuAdd winMenuAddItem Consider adding importFrom("utils", "winMenuAdd", "winMenuAddItem") 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 contents of 'data' directory ... OK * checking data for non-ASCII characters ... OK * checking data for ASCII and uncompressed saves ... OK * checking installed files from 'inst/doc' ... OK * checking files in 'vignettes' ... OK * checking examples ... ** running examples for arch 'i386' ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed print.trioFS 10.90 0.23 11.14 trio.permTest 10.15 0.04 17.07 trioFS 9.05 0.13 9.17 colGxGPerms 7.45 0.05 8.47 plot.trioLR 5.90 0.24 6.58 ** running examples for arch 'x64' ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed trioFS 11.46 0.14 15.83 print.trioFS 10.35 0.14 11.11 trio.permTest 10.32 0.11 11.98 colGxGPerms 7.17 0.02 7.24 plot.trioLR 6.78 0.19 8.01 print.trioLR 4.70 0.02 8.64 * 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-3.11-bioc/meat/trio.Rcheck/00check.log' for details.
trio.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/trio_3.26.0.tar.gz && rm -rf trio.buildbin-libdir && mkdir trio.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=trio.buildbin-libdir trio_3.26.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL trio_3.26.0.zip && rm trio_3.26.0.tar.gz trio_3.26.0.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 725k 100 725k 0 0 10.4M 0 --:--:-- --:--:-- --:--:-- 11.8M install for i386 * installing *source* package 'trio' ... ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'trio' finding HTML links ... done allelicTDT html colEMlrt html colGxE html colGxGPerms html colPOlrt html colTDTmaxTest html colTDTsam html findLDblocks html getLD html getMatPseudo html lrControl html ped2geno html plot.LDblocks html plot.getLD html plot.trioLR html poly4root html print.colGxE html print.trioFS html print.trioLR html probTDT html read.pedfile html removeSNPs html scoreTDT html tdt html tdtGxG html trio.check html trio.data html trio.permTest html trio.power html trio.prepare html trio.sim html trioFS html trioLR html vcf2geno html ** building package indices ** installing vignettes 'trio.Rnw' ** 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 install for x64 * installing *source* package 'trio' ... ** testing if installed package can be loaded * MD5 sums packaged installation of 'trio' as trio_3.26.0.zip * DONE (trio) * installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library' package 'trio' successfully unpacked and MD5 sums checked
trio.Rcheck/examples_i386/trio-Ex.timings
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trio.Rcheck/examples_x64/trio-Ex.timings
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