Back to Multiple platform build/check report for BioC 3.9 |
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This page was generated on 2019-04-09 11:38:46 -0400 (Tue, 09 Apr 2019).
Package 175/1703 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
blima 1.17.0 Vojtěch Kulvait
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | [ WARNINGS ] | ![]() | ||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | ![]() | ||||||
celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | WARNINGS | OK | ![]() | ||||||
merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | WARNINGS | OK |
Package: blima |
Version: 1.17.0 |
Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:blima.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings blima_1.17.0.tar.gz |
StartedAt: 2019-04-08 23:05:57 -0400 (Mon, 08 Apr 2019) |
EndedAt: 2019-04-08 23:07:38 -0400 (Mon, 08 Apr 2019) |
EllapsedTime: 100.8 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: blima.Rcheck |
Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:blima.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings blima_1.17.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/blima.Rcheck’ * using R Under development (unstable) (2019-03-18 r76245) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘blima/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘blima’ version ‘1.17.0’ * package encoding: UTF-8 * 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 ‘blima’ 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 * 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 nonParametricEstimator: no visible global function definition for ‘var’ performXieCorrection: no visible global function definition for ‘dnorm’ performXieCorrection: no visible global function definition for ‘pnorm’ vstFromLumi: no visible global function definition for ‘lm’ vstFromLumi: no visible global function definition for ‘predict’ Undefined global functions or variables: dnorm lm pnorm predict var Consider adding importFrom("stats", "dnorm", "lm", "pnorm", "predict", "var") to your NAMESPACE file. * checking Rd files ... WARNING checkRd: (5) interpolateSortedVectorRcpp_.Rd:0-21: Must have a \description * 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 line endings in C/C++/Fortran sources/headers ... OK * checking compiled code ... NOTE Note: information on .o files is not available * checking files in ‘vignettes’ ... OK * checking examples ... 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: 1 WARNING, 2 NOTEs See ‘/home/biocbuild/bbs-3.9-bioc/meat/blima.Rcheck/00check.log’ for details.
blima.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL blima ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’ * installing *source* package ‘blima’ ... ** using staged installation ** libs g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG -I"/home/biocbuild/bbs-3.9-bioc/R/library/Rcpp/include" -I/usr/local/include -fpic -g -O2 -Wall -c interpolateSortedVector.cpp -o interpolateSortedVector.o g++ -std=gnu++11 -shared -L/home/biocbuild/bbs-3.9-bioc/R/lib -L/usr/local/lib -o blima.so RcppExports.o interpolateSortedVector.o -L/home/biocbuild/bbs-3.9-bioc/R/lib -lR installing to /home/biocbuild/bbs-3.9-bioc/R/library/00LOCK-blima/00new/blima/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (blima)
blima.Rcheck/blima-Ex.timings
name | user | system | elapsed | |
bacgroundCorrect | 0.01 | 0.00 | 0.03 | |
backgroundChannelSubtract | 0.007 | 0.000 | 0.008 | |
chipArrayStatistics | 0.007 | 0.000 | 0.007 | |
createSummarizedMatrix | 0.373 | 0.008 | 0.436 | |
doProbeTTests | 0.124 | 0.004 | 0.128 | |
doTTests | 0.127 | 0.003 | 0.131 | |
log2TransformPositive | 0.116 | 0.000 | 0.116 | |
nonPositiveCorrect | 0.015 | 0.000 | 0.015 | |
plotBackgroundImageAfterCorrection | 0.012 | 0.000 | 0.012 | |
plotBackgroundImageBeforeCorrection | 0.012 | 0.000 | 0.012 | |
quantileNormalize | 0.012 | 0.000 | 0.012 | |
selectedChannelTransform | 0.011 | 0.000 | 0.011 | |
varianceBeadStabilise | 0.014 | 0.000 | 0.014 | |
writeBackgroundImages | 0.004 | 0.002 | 0.007 | |
xieBacgroundCorrect | 0.012 | 0.000 | 0.012 | |