BioC 2.13: CHECK report for stepNorm on moscato1

Package: stepNorm

Version: 1.34.0

Command: rm -rf stepNorm.buildbin-libdir && mkdir stepNorm.buildbin-libdir && D:\biocbld\bbs-2.13-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=stepNorm.buildbin-libdir stepNorm_1.34.0.tar.gz >stepNorm-install.out 2>&1 && D:\biocbld\bbs-2.13-bioc\R\bin\R.exe CMD check --library=stepNorm.buildbin-libdir --install="check:stepNorm-install.out" --force-multiarch --no-vignettes --timings stepNorm_1.34.0.tar.gz && mv stepNorm.buildbin-libdir/* stepNorm.Rcheck/ && rmdir stepNorm.buildbin-libdir

StartedAt: 2014-04-05 07:01:34 -0700 (Sat, 05 Apr 2014)

EndedAt: 2014-04-05 07:06:39 -0700 (Sat, 05 Apr 2014)

EllapsedTime: 304.4 seconds

RetCode: 0

Status:  OK

CheckDir: stepNorm.Rcheck

Warnings: 0

* using log directory 'D:/biocbld/bbs-2.13-bioc/meat/stepNorm.Rcheck'
* using R version 3.0.3 (2014-03-06)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'stepNorm/DESCRIPTION' ... OK
* this is package 'stepNorm' version '1.34.0'
* 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
* 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 ... 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' ... [122s] OK
Examples with CPU or elapsed time > 5s
                user system elapsed
stepWithinNorm 51.42   0.00   51.42
fitWithin      44.40   0.02   44.43
fit2DWithin    22.63   0.03   22.66
** running examples for arch 'x64' ... [124s] OK
Examples with CPU or elapsed time > 5s
                user system elapsed
stepWithinNorm 51.89   0.03   51.92
fitWithin      46.78   0.02   46.83
fit2DWithin    21.70   0.06   21.76
* checking PDF version of manual ... OK

NOTE: There were 2 notes.
See
  'D:/biocbld/bbs-2.13-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_1.34.0.zip
* DONE (stepNorm)

name	user	system	elapsed
calcAIC	0.36	0.00	0.36
calcBIC	0.24	0.00	0.24
fit2DWithin	22.63	0.03	22.66
fitWithin	44.40	0.02	44.43
maCompPlate2	0.03	0.00	0.03
makeStepList	0.08	0.00	0.08
marrayFitClass	0.14	0.00	0.14
seqWithinNorm	0.5	0.0	0.5
stepWithinNorm	51.42	0.00	51.42
withinNorm	0.05	0.01	0.06

name	user	system	elapsed
calcAIC	0.49	0.00	0.49
calcBIC	0.29	0.00	0.29
fit2DWithin	21.70	0.06	21.76
fitWithin	46.78	0.02	46.83
maCompPlate2	0.05	0.00	0.05
makeStepList	0.08	0.00	0.08
marrayFitClass	0.15	0.00	0.15
seqWithinNorm	0.93	0.00	0.93
stepWithinNorm	51.89	0.03	51.92
withinNorm	0.09	0.00	0.09