Alejandro Reyes
| Snapshot Date: 2018-04-11 16:45:18 -0400 (Wed, 11 Apr 2018) |
| URL: https://git.bioconductor.org/packages/DEXSeq |
| Branch: RELEASE_3_6 |
| Last Commit: 59bc2b3 |
| Last Changed Date: 2018-03-28 16:56:28 -0400 (Wed, 28 Mar 2018) |
| Back to Multiple platform build/check report for BioC 3.6 |
|
This page was generated on 2018-04-12 13:20:55 -0400 (Thu, 12 Apr 2018).
| Package 360/1472 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| DEXSeq 1.24.4 Alejandro Reyes
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ WARNINGS ] | OK | | ||||||
| veracruz1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: DEXSeq |
| Version: 1.24.4 |
| Command: rm -rf DEXSeq.buildbin-libdir DEXSeq.Rcheck && mkdir DEXSeq.buildbin-libdir DEXSeq.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=DEXSeq.buildbin-libdir DEXSeq_1.24.4.tar.gz >DEXSeq.Rcheck\00install.out 2>&1 && cp DEXSeq.Rcheck\00install.out DEXSeq-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=DEXSeq.buildbin-libdir --install="check:DEXSeq-install.out" --force-multiarch --no-vignettes --timings DEXSeq_1.24.4.tar.gz |
| StartedAt: 2018-04-11 23:29:55 -0400 (Wed, 11 Apr 2018) |
| EndedAt: 2018-04-11 23:35:23 -0400 (Wed, 11 Apr 2018) |
| EllapsedTime: 328.1 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: DEXSeq.Rcheck |
| Warnings: 1 |
##############################################################################
##############################################################################
###
### Running command:
###
### rm -rf DEXSeq.buildbin-libdir DEXSeq.Rcheck && mkdir DEXSeq.buildbin-libdir DEXSeq.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=DEXSeq.buildbin-libdir DEXSeq_1.24.4.tar.gz >DEXSeq.Rcheck\00install.out 2>&1 && cp DEXSeq.Rcheck\00install.out DEXSeq-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=DEXSeq.buildbin-libdir --install="check:DEXSeq-install.out" --force-multiarch --no-vignettes --timings DEXSeq_1.24.4.tar.gz
###
##############################################################################
##############################################################################
* using log directory 'C:/Users/biocbuild/bbs-3.6-bioc/meat/DEXSeq.Rcheck'
* using R version 3.4.4 (2018-03-15)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'DEXSeq/DESCRIPTION' ... OK
* this is package 'DEXSeq' version '1.24.4'
* checking package namespace information ... OK
* checking package dependencies ... NOTE
Depends: includes the non-default packages:
'BiocParallel' 'Biobase' 'SummarizedExperiment' 'IRanges'
'GenomicRanges' 'DESeq2' 'AnnotationDbi' 'RColorBrewer' 'S4Vectors'
Adding so many packages to the search path is excessive and importing
selectively is preferable.
* 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 'DEXSeq' can be installed ... WARNING
Found the following significant warnings:
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpMnL77p/R.INSTALL24d839ec24ee/DEXSeq/man/methods-gr.Rd:32: missing file link 'findOverlaps'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpMnL77p/R.INSTALL24d839ec24ee/DEXSeq/man/methods-gr.Rd:36: missing file link 'findOverlaps'
See 'C:/Users/biocbuild/bbs-3.6-bioc/meat/DEXSeq.Rcheck/00install.out' for details.
* 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 ... OK
* checking R code for possible problems ... OK
* 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
DEXSeqResults 7.83 0.18 8.15
estimateExonFoldChanges 7.90 0.08 8.00
testForDEU 6.75 0.00 6.75
perGeneQValue 6.19 0.00 6.18
methods-gr 6.05 0.01 6.07
estimateDispersions 5.22 0.02 5.24
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
DEXSeqResults 8.09 0.07 8.15
estimateExonFoldChanges 6.78 0.00 6.78
methods-gr 5.88 0.01 5.89
estimateDispersions 5.36 0.02 5.37
perGeneQValue 5.30 0.00 5.30
testForDEU 5.10 0.00 5.11
* 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, 1 NOTE
See
'C:/Users/biocbuild/bbs-3.6-bioc/meat/DEXSeq.Rcheck/00check.log'
for details.
DEXSeq.Rcheck/00install.out
install for i386
* installing *source* package 'DEXSeq' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
converting help for package 'DEXSeq'
finding HTML links ... done
DEXSeq-defunct html
DEXSeq html
DEXSeqDataSet html
DEXSeqHTML html
DEXSeqResults html
accessors html
counts html
estimateDispersions html
estimateExonFoldChanges html
estimateSizeFactors html
methods-gr html
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpMnL77p/R.INSTALL24d839ec24ee/DEXSeq/man/methods-gr.Rd:32: missing file link 'findOverlaps'
Rd warning: C:/Users/biocbuild/bbs-3.6-bioc/tmpdir/RtmpMnL77p/R.INSTALL24d839ec24ee/DEXSeq/man/methods-gr.Rd:36: missing file link 'findOverlaps'
otherMethods html
perGeneQValue html
plotDEXSeq html
plotDispEsts html
plotMA html
testForDEU html
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'DEXSeq' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'DEXSeq' as DEXSeq_1.24.4.zip
* DONE (DEXSeq)
In R CMD INSTALL
In R CMD INSTALL
|
DEXSeq.Rcheck/examples_i386/DEXSeq-Ex.timings
|
DEXSeq.Rcheck/examples_x64/DEXSeq-Ex.timings
|