BioC 3.3: CHECK report for stepNorm on windows2.bioconductor.org

Package: stepNorm

Version: 1.43.0

Command: rm -rf stepNorm.buildbin-libdir stepNorm.Rcheck && mkdir stepNorm.buildbin-libdir stepNorm.Rcheck && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=stepNorm.buildbin-libdir stepNorm_1.43.0.tar.gz >stepNorm.Rcheck\00install.out 2>&1 && cp stepNorm.Rcheck\00install.out stepNorm-install.out && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=stepNorm.buildbin-libdir --install="check:stepNorm-install.out" --force-multiarch --no-vignettes --timings stepNorm_1.43.0.tar.gz

StartedAt: 2015-10-27 06:22:05 -0400 (Tue, 27 Oct 2015)

EndedAt: 2015-10-27 06:24:52 -0400 (Tue, 27 Oct 2015)

EllapsedTime: 166.2 seconds

RetCode: 0

Status:  OK

CheckDir: stepNorm.Rcheck

Warnings: 0

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### Running command:
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###   rm -rf stepNorm.buildbin-libdir stepNorm.Rcheck && mkdir stepNorm.buildbin-libdir stepNorm.Rcheck && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=stepNorm.buildbin-libdir stepNorm_1.43.0.tar.gz >stepNorm.Rcheck\00install.out 2>&1 && cp stepNorm.Rcheck\00install.out stepNorm-install.out  && c:\biocbld\bbs-3.3-bioc\R\bin\R.exe CMD check --library=stepNorm.buildbin-libdir --install="check:stepNorm-install.out" --force-multiarch --no-vignettes --timings stepNorm_1.43.0.tar.gz
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* using log directory 'c:/biocbld/bbs-3.3-bioc/meat/stepNorm.Rcheck'
* using R Under development (unstable) (2015-09-22 r69418)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'stepNorm/DESCRIPTION' ... OK
* this is package 'stepNorm' version '1.43.0'
* 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 'stepNorm' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Packages listed in more than one of Depends, Imports, Suggests, Enhances:
  'marray' 'methods'
A package should be listed in only one of these fields.
* 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 ... NOTE
loess2Dfit: warning in loess.control(trace.hat = "approximate",
  iteration = 5, surface = "direct"): partial argument match of
  'iteration' to 'iterations'
loessfit: warning in loess.control(trace.hat = "approximate", iteration
  = 5, surface = "direct"): partial argument match of 'iteration' to
  'iterations'
* 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 examples ...
** running examples for arch 'i386' ... [70s] OK
Examples with CPU or elapsed time > 5s
                user system elapsed
stepWithinNorm 29.65   0.02   29.69
fitWithin      26.60   0.00   26.61
fit2DWithin    11.86   0.02   11.88
** running examples for arch 'x64' ... [63s] OK
Examples with CPU or elapsed time > 5s
                user system elapsed
stepWithinNorm 26.78   0.01   26.79
fitWithin      24.10   0.00   24.10
fit2DWithin    10.72   0.05   10.77
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  'c:/biocbld/bbs-3.3-bioc/meat/stepNorm.Rcheck/00check.log'
for details.

install for i386

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

install for x64

* installing *source* package 'stepNorm' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'stepNorm' as stepNorm_1.43.0.zip
* DONE (stepNorm)

name	user	system	elapsed
calcAIC	0.19	0.00	0.19
calcBIC	0.12	0.00	0.12
fit2DWithin	11.86	0.02	11.88
fitWithin	26.60	0.00	26.61
maCompPlate2	0.05	0.00	0.05
makeStepList	0.06	0.00	0.06
marrayFitClass	0.1	0.0	0.1
seqWithinNorm	0.25	0.01	0.26
stepWithinNorm	29.65	0.02	29.69
withinNorm	0.05	0.00	0.05

name	user	system	elapsed
calcAIC	0.22	0.00	0.22
calcBIC	0.14	0.00	0.14
fit2DWithin	10.72	0.05	10.77
fitWithin	24.1	0.0	24.1
maCompPlate2	0.01	0.00	0.01
makeStepList	0.05	0.00	0.04
marrayFitClass	0.16	0.00	0.16
seqWithinNorm	0.29	0.00	0.30
stepWithinNorm	26.78	0.01	26.79
withinNorm	0.07	0.00	0.07