Back to Multiple platform build/check report for BioC 3.9 |
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This page was generated on 2019-04-09 11:28:34 -0400 (Tue, 09 Apr 2019).
Package 959/1703 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
methVisual 1.35.0 Arie Zackay
| 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: methVisual |
Version: 1.35.0 |
Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:methVisual.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings methVisual_1.35.0.tar.gz |
StartedAt: 2019-04-09 01:53:05 -0400 (Tue, 09 Apr 2019) |
EndedAt: 2019-04-09 01:54:36 -0400 (Tue, 09 Apr 2019) |
EllapsedTime: 91.1 seconds |
RetCode: 0 |
Status: WARNINGS |
CheckDir: methVisual.Rcheck |
Warnings: 1 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:methVisual.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings methVisual_1.35.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/methVisual.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 ‘methVisual/DESCRIPTION’ ... OK * this is package ‘methVisual’ version ‘1.35.0’ * 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 ‘methVisual’ can be installed ... WARNING Found the following significant warnings: Note: possible error in 'windows(n, lengthData, ': unused argument (rescale = "fixed") See ‘/home/biocbuild/bbs-3.9-bioc/meat/methVisual.Rcheck/00install.out’ for details. Information on the location(s) of code generating the ‘Note’s can be obtained by re-running with environment variable R_KEEP_PKG_SOURCE set to ‘yes’. * 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: ‘Biostrings’ ‘grid’ 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 Packages in Depends field not imported from: ‘gsubfn’ ‘plotrix’ ‘sqldf’ 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 makeDataMethGFF: no visible binding for global variable ‘fn’ plotMatrixSNP: no visible global function definition for ‘color.legend’ Undefined global functions or variables: color.legend fn * 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 ... 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, 3 NOTEs See ‘/home/biocbuild/bbs-3.9-bioc/meat/methVisual.Rcheck/00check.log’ for details.
methVisual.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL methVisual ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’ * installing *source* package ‘methVisual’ ... ** using staged installation ** R ** data ** inst ** byte-compile and prepare package for lazy loading Note: possible error in 'windows(n, lengthData, ': unused argument (rescale = "fixed") ** help *** installing help indices ** building package indices ** installing vignettes ** 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 (methVisual)
methVisual.Rcheck/methVisual-Ex.timings
name | user | system | elapsed | |
Cooccurrence | 0.360 | 0.118 | 0.458 | |
MethAlignNW | 0.946 | 0.100 | 1.057 | |
MethDataInput | 0.021 | 0.000 | 0.021 | |
MethLollipops | 0.013 | 0.000 | 0.012 | |
MethylQC | 0.763 | 0.068 | 0.820 | |
cgInAlign | 0.002 | 0.000 | 0.002 | |
cgMethFinder | 0.001 | 0.000 | 0.001 | |
coversionGenom | 0.001 | 0.000 | 0.001 | |
findNonAligned | 0.000 | 0.003 | 0.003 | |
heatMapMeth | 0.052 | 0.005 | 0.056 | |
makeDataMethGFF | 0.197 | 0.040 | 0.229 | |
makeLocalExpDir | 0.01 | 0.00 | 0.01 | |
makeTabFilePath | 0.007 | 0.000 | 0.060 | |
matrixSNP | 0.117 | 0.085 | 0.191 | |
methCA | 0.016 | 0.000 | 0.016 | |
methData | 0.002 | 0.000 | 0.002 | |
methFisherTest | 0.038 | 0.000 | 0.038 | |
methWhitneyUTest | 0.002 | 0.004 | 0.005 | |
plotAbsMethyl | 0.004 | 0.000 | 0.005 | |
plotMatrixSNP | 0.342 | 0.112 | 0.428 | |
readBisulfFASTA | 0.058 | 0.012 | 0.069 | |
selectRefSeq | 0.009 | 0.004 | 0.012 | |