BioC 3.5: CHECK report for OmicsMarkeR on tokay2

Package: OmicsMarkeR

Version: 1.8.0

Command: rm -rf OmicsMarkeR.buildbin-libdir OmicsMarkeR.Rcheck && mkdir OmicsMarkeR.buildbin-libdir OmicsMarkeR.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=OmicsMarkeR.buildbin-libdir OmicsMarkeR_1.8.0.tar.gz >OmicsMarkeR.Rcheck\00install.out 2>&1 && cp OmicsMarkeR.Rcheck\00install.out OmicsMarkeR-install.out && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=OmicsMarkeR.buildbin-libdir --install="check:OmicsMarkeR-install.out" --force-multiarch --no-vignettes --timings OmicsMarkeR_1.8.0.tar.gz

StartedAt: 2017-08-16 01:42:15 -0400 (Wed, 16 Aug 2017)

EndedAt: 2017-08-16 01:49:24 -0400 (Wed, 16 Aug 2017)

EllapsedTime: 428.5 seconds

RetCode: 0

Status:  OK

CheckDir: OmicsMarkeR.Rcheck

Warnings: 0

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf OmicsMarkeR.buildbin-libdir OmicsMarkeR.Rcheck && mkdir OmicsMarkeR.buildbin-libdir OmicsMarkeR.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=OmicsMarkeR.buildbin-libdir OmicsMarkeR_1.8.0.tar.gz >OmicsMarkeR.Rcheck\00install.out 2>&1 && cp OmicsMarkeR.Rcheck\00install.out OmicsMarkeR-install.out  &&  C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=OmicsMarkeR.buildbin-libdir --install="check:OmicsMarkeR-install.out" --force-multiarch --no-vignettes --timings OmicsMarkeR_1.8.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.5-bioc/meat/OmicsMarkeR.Rcheck'
* using R version 3.4.1 (2017-06-30)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'OmicsMarkeR/DESCRIPTION' ... OK
* this is package 'OmicsMarkeR' version '1.8.0'
* 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 'OmicsMarkeR' 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
** checking loading without being on the library search path ... 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 loading without being on the library search path ... 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
feature.table       12.00   0.05   12.22
perm.class          10.49   0.00   10.49
fs.stability         9.93   0.01    9.95
predictNewClasses    9.49   0.07    9.56
performance.metrics  9.00   0.06    9.06
perm.features        8.46   0.07    8.55
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
                     user system elapsed
fs.stability        13.78   0.00   14.00
feature.table       13.52   0.00   13.51
perm.class          12.94   0.02   13.05
performance.metrics 12.58   0.00   12.59
predictNewClasses   11.64   0.03   11.88
perm.features       10.93   0.04   10.98
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'testthat.R'
 OK
** running tests for arch 'x64' ...
  Running 'testthat.R'
 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: OK

install for i386

* installing *source* package 'OmicsMarkeR' ...
** R
** 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 'OmicsMarkeR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'OmicsMarkeR' as OmicsMarkeR_1.8.0.zip
* DONE (OmicsMarkeR)

name	user	system	elapsed
RPT	0.03	0.00	0.24
aggregation	0.02	0.00	0.01
canberra	0	0	0
canberra_stability	0	0	0
create.corr.matrix	0.07	0.00	0.06
create.discr.matrix	0.15	0.00	0.16
create.random.matrix	0	0	0
denovo.grid	0	0	0
feature.table	12.00	0.05	12.22
fit.only.model	3.84	0.05	3.89
fs.ensembl.stability	0	0	0
fs.stability	9.93	0.01	9.95
jaccard	0	0	0
kuncheva	0	0	0
modelList	0	0	0
ochiai	0	0	0
pairwise.model.stability	0.02	0.00	0.02
pairwise.stability	0.01	0.00	0.01
params	0	0	0
performance.metrics	9.00	0.06	9.06
perm.class	10.49	0.00	10.49
perm.features	8.46	0.07	8.55
pof	0	0	0
predictNewClasses	9.49	0.07	9.56
sorensen	0	0	0
spearman	0.01	0.00	0.01
svmrfeFeatureRanking	0.27	0.00	0.27
svmrfeFeatureRankingForMulticlass	0.12	0.00	0.12

name	user	system	elapsed
RPT	0.03	0.00	0.04
aggregation	0	0	0
canberra	0	0	0
canberra_stability	0	0	0
create.corr.matrix	0.03	0.00	0.03
create.discr.matrix	0.11	0.00	0.11
create.random.matrix	0.01	0.00	0.02
denovo.grid	0	0	0
feature.table	13.52	0.00	13.51
fit.only.model	4.56	0.02	4.58
fs.ensembl.stability	0	0	0
fs.stability	13.78	0.00	14.00
jaccard	0	0	0
kuncheva	0	0	0
modelList	0	0	0
ochiai	0	0	0
pairwise.model.stability	0.02	0.00	0.01
pairwise.stability	0	0	0
params	0	0	0
performance.metrics	12.58	0.00	12.59
perm.class	12.94	0.02	13.05
perm.features	10.93	0.04	10.98
pof	0	0	0
predictNewClasses	11.64	0.03	11.88
sorensen	0	0	0
spearman	0.01	0.00	0.01
svmrfeFeatureRanking	0.56	0.00	0.56
svmrfeFeatureRankingForMulticlass	0.14	0.00	0.16