Back to Multiple platform build/check report for BioC 3.7 |
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This page was generated on 2018-10-17 08:55:31 -0400 (Wed, 17 Oct 2018).
Package 665/1561 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
GUIDEseq 1.10.0 Lihua Julie Zhu
| 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: GUIDEseq |
Version: 1.10.0 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:GUIDEseq.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings GUIDEseq_1.10.0.tar.gz |
StartedAt: 2018-10-16 21:55:56 -0400 (Tue, 16 Oct 2018) |
EndedAt: 2018-10-16 22:01:17 -0400 (Tue, 16 Oct 2018) |
EllapsedTime: 321.2 seconds |
RetCode: 0 |
Status: OK |
CheckDir: GUIDEseq.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:GUIDEseq.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings GUIDEseq_1.10.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.7-bioc/meat/GUIDEseq.Rcheck’ * using R version 3.5.1 Patched (2018-07-12 r74967) * using platform: x86_64-apple-darwin15.6.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘GUIDEseq/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘GUIDEseq’ version ‘1.10.0’ * 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 ‘GUIDEseq’ can be installed ... OK * checking installed package size ... NOTE installed size is 10.9Mb sub-directories of 1Mb or more: extdata 10.5Mb * 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 annotateOffTargets: no visible binding for global variable 'offTarget_Start' annotateOffTargets: no visible global function definition for 'exons' annotateOffTargets: no visible global function definition for 'seqlevelsStyle<-' annotateOffTargets: no visible global function definition for 'genes' annotateOffTargets: no visible global function definition for 'toTable' getPeaks: no visible binding for global variable 'adjusted.p.value' getPeaks: no visible binding for global variable 'SNratio' getUniqueCleavageEvents: no visible binding for global variable 'qwidth.first' getUniqueCleavageEvents: no visible binding for global variable 'qwidth.last' getUniqueCleavageEvents: no visible binding for global variable 'strand.last' getUniqueCleavageEvents: no visible binding for global variable 'strand.first' getUniqueCleavageEvents: no visible binding for global variable 'readName' offTargetAnalysisOfPeakRegions: no visible binding for global variable 'gRNAPlusPAM' offTargetAnalysisOfPeakRegions: no visible binding for global variable 'offTarget' Undefined global functions or variables: SNratio adjusted.p.value exons gRNAPlusPAM genes offTarget offTarget_Start qwidth.first qwidth.last readName seqlevelsStyle<- strand.first strand.last toTable * checking Rd files ... NOTE prepare_Rd: annotateOffTargets.Rd:33-35: Dropping empty section \details prepare_Rd: annotateOffTargets.Rd:43-45: Dropping empty section \references prepare_Rd: createBarcodeFasta.Rd:42-43: Dropping empty section \value prepare_Rd: createBarcodeFasta.Rd:44-46: Dropping empty section \references prepare_Rd: getUsedBarcodes.Rd:39-41: Dropping empty section \references * 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 sizes of PDF files under ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU or elapsed time > 5s user system elapsed annotateOffTargets 14.640 0.386 15.150 GUIDEseqAnalysis 10.935 0.648 11.687 * 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: 3 NOTEs See ‘/Users/biocbuild/bbs-3.7-bioc/meat/GUIDEseq.Rcheck/00check.log’ for details.
GUIDEseq.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL GUIDEseq ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/3.5/Resources/library’ * installing *source* package ‘GUIDEseq’ ... ** R ** data ** 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 * DONE (GUIDEseq)
GUIDEseq.Rcheck/GUIDEseq-Ex.timings
name | user | system | elapsed | |
GUIDEseq-package | 0.003 | 0.000 | 0.003 | |
GUIDEseqAnalysis | 10.935 | 0.648 | 11.687 | |
annotateOffTargets | 14.640 | 0.386 | 15.150 | |
combineOfftargets | 0.041 | 0.002 | 0.045 | |
createBarcodeFasta | 0.030 | 0.001 | 0.032 | |
getPeaks | 0.002 | 0.000 | 0.002 | |
getUniqueCleavageEvents | 0.004 | 0.000 | 0.004 | |
getUsedBarcodes | 0.058 | 0.001 | 0.060 | |
mergePlusMinusPeaks | 0.003 | 0.000 | 0.003 | |
offTargetAnalysisOfPeakRegions | 0.004 | 0.000 | 0.005 | |
peaks.gr | 0.033 | 0.004 | 0.039 | |
uniqueCleavageEvents | 0.057 | 0.002 | 0.059 | |