Alejandro Reyes
| Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019) |
| URL: https://git.bioconductor.org/packages/DEXSeq |
| Branch: RELEASE_3_9 |
| Last Commit: f25cec3 |
| Last Changed Date: 2019-05-02 11:53:26 -0400 (Thu, 02 May 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-10-16 12:25:14 -0400 (Wed, 16 Oct 2019).
| Package 428/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| DEXSeq 1.30.0 Alejandro Reyes
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: DEXSeq |
| Version: 1.30.0 |
| Command: C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:DEXSeq.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings DEXSeq_1.30.0.tar.gz |
| StartedAt: 2019-10-16 03:13:29 -0400 (Wed, 16 Oct 2019) |
| EndedAt: 2019-10-16 03:20:22 -0400 (Wed, 16 Oct 2019) |
| EllapsedTime: 412.8 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: DEXSeq.Rcheck |
| Warnings: 0 |
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### Running command:
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### C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:DEXSeq.install-out.txt --library=C:\Users\biocbuild\bbs-3.9-bioc\R\library --no-vignettes --timings DEXSeq_1.30.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.9-bioc/meat/DEXSeq.Rcheck'
* using R version 3.6.1 (2019-07-05)
* 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 '1.30.0'
* 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 ... 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
* 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 files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
DEXSeqResults 10.53 0.26 10.84
estimateExonFoldChanges 9.79 0.10 9.89
testForDEU 9.40 0.05 9.45
perGeneQValue 9.41 0.01 9.42
methods-gr 9.41 0.00 9.41
estimateDispersions 8.86 0.00 8.86
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
DEXSeqResults 14.25 0.16 14.42
estimateExonFoldChanges 12.46 0.06 12.53
methods-gr 11.47 0.01 11.48
testForDEU 11.40 0.02 11.43
perGeneQValue 11.32 0.00 11.31
estimateDispersions 9.61 0.03 9.64
* 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 NOTE
See
'C:/Users/biocbuild/bbs-3.9-bioc/meat/DEXSeq.Rcheck/00check.log'
for details.
DEXSeq.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.9/bioc/src/contrib/DEXSeq_1.30.0.tar.gz && rm -rf DEXSeq.buildbin-libdir && mkdir DEXSeq.buildbin-libdir && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=DEXSeq.buildbin-libdir DEXSeq_1.30.0.tar.gz && C:\Users\biocbuild\bbs-3.9-bioc\R\bin\R.exe CMD INSTALL DEXSeq_1.30.0.zip && rm DEXSeq_1.30.0.tar.gz DEXSeq_1.30.0.zip
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% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
0 53855 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
100 53855 100 53855 0 0 106k 0 --:--:-- --:--:-- --:--:-- 108k
install for i386
* installing *source* package 'DEXSeq' ...
** using staged installation
** R
** inst
** byte-compile and prepare 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
otherMethods html
perGeneQValue html
plotDEXSeq html
plotDispEsts html
plotMA html
testForDEU html
** 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
install for x64
* installing *source* package 'DEXSeq' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'DEXSeq' as DEXSeq_1.30.0.zip
* DONE (DEXSeq)
* installing to library 'C:/Users/biocbuild/bbs-3.9-bioc/R/library'
package 'DEXSeq' successfully unpacked and MD5 sums checked
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DEXSeq.Rcheck/examples_i386/DEXSeq-Ex.timings
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DEXSeq.Rcheck/examples_x64/DEXSeq-Ex.timings
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