Package: RMassBank

Version: 1.2.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch RMassBank_1.2.0.tar.gz

StartedAt: 2013-05-01 10:23:58 -0700 (Wed, 01 May 2013)

EndedAt: 2013-05-01 10:26:17 -0700 (Wed, 01 May 2013)

EllapsedTime: 138.8 seconds

RetCode: 0

Status:  OK

CheckDir: RMassBank.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/RMassBank.Rcheck'
* using R version 3.0.0 Patched (2013-04-08 r62531)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'RMassBank/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'RMassBank' version '1.2.0'
* 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 ... NOTE
Found the following hidden files and directories:
  .BBSoptions
These were most likely included in error. See section 'Package
structure' in the 'Writing R Extensions' manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package 'RMassBank' can be installed ... [13s/15s] OK
* checking installed package size ... OK
* checking package 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
* 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 for unstated 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 examples ... [10s/10s] 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK

NOTE: There was 1 note.
See
  '/Users/biocbuild/bbs-2.12-bioc/meat/RMassBank.Rcheck/00check.log'
for details.

* installing *source* package 'RMassBank' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (RMassBank)

name	user	system	elapsed
RmbDefaultSettings	0.020	0.005	0.040
add.formula	0.016	0.001	0.018
addPeaks	0.004	0.000	0.005
aggregateSpectra	0.010	0.002	0.011
analyzeMsMs	0.006	0.001	0.008
archiveResults	0.011	0.002	0.013
cleanElnoise	0.006	0.000	0.007
compileRecord	0.009	0.001	0.010
createMolfile	0.010	0.001	0.011
dbe	0.139	0.002	0.141
deprofile	0.008	0.003	0.011
exportMassbank	0.006	0.002	0.009
filterLowaccResults	0.007	0.002	0.009
filterMultiplicity	0.005	0.001	0.006
filterPeakSatellites	0.010	0.003	0.013
filterPeaksMultiplicity	0.013	0.003	0.016
findMass	2.568	0.161	2.115
findMsMsHR	0.011	0.001	0.012
findMz	0.009	0.001	0.009
findMz.formula	0.039	0.001	0.041
flatten	0.009	0.002	0.011
formulastring.to.list	0.012	0.002	0.014
gatherCompound	0.009	0.001	0.010
gatherData	0.005	0.001	0.006
getCactus	0.037	0.003	0.582
getCtsRecord	0.027	0.004	0.636
getMolecule	0.127	0.003	0.086
getPcId	0.016	0.001	0.246
is.valid.formula	0.012	0.001	0.014
loadInfolists	0.008	0.001	0.009
loadList	0.008	0.000	0.009
makeMollist	0.010	0.001	0.012
makeRecalibration	0.011	0.002	0.013
mbWorkflow	0.01	0.00	0.01
order.formula	0.010	0.002	0.012
ppm	0.007	0.001	0.009
problematicPeaks	0.008	0.001	0.010
reanalyzeFailpeaks	0.010	0.001	0.012
recalibrate	0.015	0.001	0.017
recalibrate.addMS1data	0.008	0.003	0.011
to.limits.rcdk	0.012	0.002	0.014
toMassbank	0.011	0.002	0.012