Back to Multiple platform build/check report for BioC 3.7 |
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This page was generated on 2018-10-17 08:37:16 -0400 (Wed, 17 Oct 2018).
Package 428/1561 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
EBSeq 1.20.0 Ning Leng
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | |||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | |||||||
merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK |
Package: EBSeq |
Version: 1.20.0 |
Command: C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:EBSeq.install-out.txt --library=C:\Users\biocbuild\bbs-3.7-bioc\R\library --no-vignettes --timings EBSeq_1.20.0.tar.gz |
StartedAt: 2018-10-17 01:44:22 -0400 (Wed, 17 Oct 2018) |
EndedAt: 2018-10-17 01:46:26 -0400 (Wed, 17 Oct 2018) |
EllapsedTime: 124.2 seconds |
RetCode: 0 |
Status: OK |
CheckDir: EBSeq.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:EBSeq.install-out.txt --library=C:\Users\biocbuild\bbs-3.7-bioc\R\library --no-vignettes --timings EBSeq_1.20.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.7-bioc/meat/EBSeq.Rcheck' * using R version 3.5.1 Patched (2018-07-24 r75005) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'EBSeq/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'EBSeq' version '1.20.0' * 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 'EBSeq' can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking 'build' directory ... OK * checking DESCRIPTION meta-information ... NOTE Malformed Description field: should contain one or more complete sentences. * 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 ... OK * checking R code for possible problems ... NOTE DenNHist: no visible global function definition for 'hist' DenNHist: no visible global function definition for 'lines' DenNHist: no visible global function definition for 'dbeta' DenNHist: no visible global function definition for 'legend' EBMultiTest : <anonymous>: no visible global function definition for 'quantile' EBMultiTest: no visible global function definition for 'quantile' EBMultiTest : <anonymous>: no visible binding for global variable 'var' EBMultiTest: no visible binding for global variable 'var' EBTest : <anonymous>: no visible global function definition for 'quantile' EBTest: no visible global function definition for 'quantile' EBTest: no visible binding for global variable 'var' GetDEResults: no visible binding for global variable 'median' LogN: no visible global function definition for 'optim' LogNMulti: no visible global function definition for 'optim' MedianNorm : <anonymous>: no visible global function definition for 'median' MedianNorm : <anonymous> : <anonymous>: no visible global function definition for 'median' PlotPattern: no visible global function definition for 'par' PlotPattern: no visible global function definition for 'rainbow' PlotPattern: no visible global function definition for 'heatmap' PlotPostVsRawFC: no visible global function definition for 'par' PlotPostVsRawFC: no visible global function definition for 'plot' PlotPostVsRawFC: no visible global function definition for 'abline' PlotPostVsRawFC: no visible global function definition for 'rect' PolyFitPlot: no visible global function definition for 'lm' PolyFitPlot: no visible global function definition for 'smoothScatter' PolyFitPlot: no visible global function definition for 'axis' PolyFitPlot: no visible global function definition for 'lines' QQP: no visible global function definition for 'rbeta' QQP: no visible global function definition for 'qqplot' QQP: no visible global function definition for 'lm' QQP: no visible global function definition for 'abline' QuantileNorm : <anonymous>: no visible global function definition for 'quantile' beta.mom: no visible global function definition for 'var' Undefined global functions or variables: abline axis dbeta heatmap hist legend lines lm median optim par plot qqplot quantile rainbow rbeta rect smoothScatter var Consider adding importFrom("grDevices", "rainbow") importFrom("graphics", "abline", "axis", "hist", "legend", "lines", "par", "plot", "rect", "smoothScatter") importFrom("stats", "dbeta", "heatmap", "lm", "median", "optim", "qqplot", "quantile", "rbeta", "var") 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 files in 'vignettes' ... OK * checking examples ... ** running examples for arch 'i386' ... OK Examples with CPU or elapsed time > 5s user system elapsed GetMultiPP 5.90 0.00 5.90 EBMultiTest 5.78 0.02 5.80 GetMultiFC 5.72 0.00 5.73 ** running examples for arch 'x64' ... OK * 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-3.7-bioc/meat/EBSeq.Rcheck/00check.log' for details.
EBSeq.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/EBSeq_1.20.0.tar.gz && rm -rf EBSeq.buildbin-libdir && mkdir EBSeq.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=EBSeq.buildbin-libdir EBSeq_1.20.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL EBSeq_1.20.0.zip && rm EBSeq_1.20.0.tar.gz EBSeq_1.20.0.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 240k 100 240k 0 0 4160k 0 --:--:-- --:--:-- --:--:-- 4706k install for i386 * installing *source* package 'EBSeq' ... ** R ** data ** demo ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'EBSeq' finding HTML links ... done DenNHist html EBMultiTest html EBSeq_NingLeng-package html EBTest html GeneMat html GetDEResults html GetMultiFC html GetMultiPP html GetNg html GetNormalizedMat html GetPP html GetPPMat html GetPatterns html IsoList html IsoMultiList html Likefun html LikefunMulti html LogN html LogNMulti html MedianNorm html MultiGeneMat html PlotPattern html PlotPostVsRawFC html PolyFitPlot html PostFC html QQP html QuantileNorm html RankNorm html beta.mom html crit_fun html f0 html f1 html ** building package indices ** installing vignettes ** testing if installed package can be loaded In R CMD INSTALL install for x64 * installing *source* package 'EBSeq' ... ** testing if installed package can be loaded * MD5 sums packaged installation of 'EBSeq' as EBSeq_1.20.0.zip * DONE (EBSeq) In R CMD INSTALL In R CMD INSTALL * installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library' package 'EBSeq' successfully unpacked and MD5 sums checked In R CMD INSTALL
EBSeq.Rcheck/examples_i386/EBSeq-Ex.timings
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EBSeq.Rcheck/examples_x64/EBSeq-Ex.timings
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