BioC 3.2: CHECK report for EBSeq on windows1.bioconductor.org

Package: EBSeq

Version: 1.10.0

Command: rm -rf EBSeq.buildbin-libdir EBSeq.Rcheck && mkdir EBSeq.buildbin-libdir EBSeq.Rcheck && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=EBSeq.buildbin-libdir EBSeq_1.10.0.tar.gz >EBSeq.Rcheck\00install.out 2>&1 && cp EBSeq.Rcheck\00install.out EBSeq-install.out && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=EBSeq.buildbin-libdir --install="check:EBSeq-install.out" --force-multiarch --no-vignettes --timings EBSeq_1.10.0.tar.gz

StartedAt: 2015-10-27 01:27:30 -0400 (Tue, 27 Oct 2015)

EndedAt: 2015-10-27 01:28:49 -0400 (Tue, 27 Oct 2015)

EllapsedTime: 78.8 seconds

RetCode: 0

Status:  OK

CheckDir: EBSeq.Rcheck

Warnings: 0

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### Running command:
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###   rm -rf EBSeq.buildbin-libdir EBSeq.Rcheck && mkdir EBSeq.buildbin-libdir EBSeq.Rcheck && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=EBSeq.buildbin-libdir EBSeq_1.10.0.tar.gz >EBSeq.Rcheck\00install.out 2>&1 && cp EBSeq.Rcheck\00install.out EBSeq-install.out  && C:\biocbld\bbs-3.2-bioc\R\bin\R.exe CMD check --library=EBSeq.buildbin-libdir --install="check:EBSeq-install.out" --force-multiarch --no-vignettes --timings EBSeq_1.10.0.tar.gz
###
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* using log directory 'C:/biocbld/bbs-3.2-bioc/meat/EBSeq.Rcheck'
* using R version 3.2.2 Patched (2015-08-16 r69094)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'EBSeq/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'EBSeq' version '1.10.0'
* 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 whether package 'EBSeq' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
* 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... [24s] OK
** running examples for arch 'x64' ... [25s] OK
Examples with CPU or elapsed time > 5s
            user system elapsed
EBMultiTest 5.14      0    5.14
* 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:/biocbld/bbs-3.2-bioc/meat/EBSeq.Rcheck/00check.log'
for details.

install for i386

* installing *source* package 'EBSeq' ...
** R
** data
** demo
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'EBSeq' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'EBSeq' as EBSeq_1.10.0.zip
* DONE (EBSeq)

name	user	system	elapsed
DenNHist	3.03	0.00	3.03
EBMultiTest	4.14	0.00	4.14
EBSeq_NingLeng-package	0.45	0.00	0.45
EBTest	0.39	0.00	0.39
GeneMat	0	0	0
GetDEResults	0.48	0.00	0.48
GetMultiFC	4.20	0.00	4.21
GetMultiPP	4.55	0.01	4.56
GetNg	0	0	0
GetNormalizedMat	0.02	0.00	0.02
GetPP	0.43	0.00	0.43
GetPPMat	0.58	0.00	0.58
GetPatterns	0	0	0
IsoList	0	0	0
IsoMultiList	0.02	0.00	0.02
Likefun	0	0	0
LikefunMulti	0	0	0
LogN	0	0	0
LogNMulti	0	0	0
MedianNorm	0	0	0
MultiGeneMat	0.00	0.02	0.01
PlotPattern	0	0	0
PlotPostVsRawFC	0.94	0.00	0.94
PolyFitPlot	0.01	0.00	0.02
PostFC	0.59	0.00	0.59
QQP	3.3	0.0	3.3
QuantileNorm	0.00	0.02	0.01
RankNorm	0.02	0.00	0.02
beta.mom	0	0	0
crit_fun	0.78	0.00	0.78
f0	0	0	0
f1	0	0	0

name	user	system	elapsed
DenNHist	2.69	0.03	2.71
EBMultiTest	5.14	0.00	5.14
EBSeq_NingLeng-package	0.41	0.00	0.41
EBTest	0.42	0.00	0.42
GeneMat	0	0	0
GetDEResults	0.37	0.00	0.37
GetMultiFC	4.90	0.00	4.89
GetMultiPP	4.59	0.02	4.61
GetNg	0.01	0.00	0.02
GetNormalizedMat	0.02	0.00	0.02
GetPP	0.56	0.00	0.56
GetPPMat	0.92	0.00	0.92
GetPatterns	0	0	0
IsoList	0	0	0
IsoMultiList	0.02	0.00	0.02
Likefun	0	0	0
LikefunMulti	0	0	0
LogN	0	0	0
LogNMulti	0	0	0
MedianNorm	0	0	0
MultiGeneMat	0	0	0
PlotPattern	0.01	0.00	0.02
PlotPostVsRawFC	0.81	0.00	0.81
PolyFitPlot	0.02	0.00	0.01
PostFC	0.55	0.00	0.55
QQP	2.57	0.00	2.58
QuantileNorm	0	0	0
RankNorm	0.02	0.00	0.02
beta.mom	0	0	0
crit_fun	0.66	0.00	0.66
f0	0	0	0
f1	0	0	0