Package: yeastExpData

Version: 0.9.17

Command: /Library/Frameworks/R.framework/Versions/2.11/Resources/bin/R CMD check --no-vignettes --timings yeastExpData_0.9.17.tar.gz

StartedAt: 2010-09-24 04:14:12 -0700 (Fri, 24 Sep 2010)

EndedAt: 2010-09-24 04:14:51 -0700 (Fri, 24 Sep 2010)

EllapsedTime: 38.9 seconds

RetCode: 0

Status:  WARNINGS

CheckDir: yeastExpData.Rcheck

Warnings: 1

* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.6-data-experiment/meat/yeastExpData.Rcheck'
* using R version 2.11.1 Patched (2010-05-31 r52167)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'yeastExpData/DESCRIPTION' ... OK
* this is package 'yeastExpData' version '0.9.17'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'yeastExpData' can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking index information ... OK
* checking package subdirectories ... 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 Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... WARNING
Data codoc mismatches from documentation object 'gfp':
Variables in data frame 'gfp'
  Code: ER ER_to_Golgi GFP_tagged GFP_visualized Golgi TAP_visualized
        abundance actin ambiguous bud bud_neck cell_periphery cytoplasm
        early_Golgi endosome error gene_name late_Golgi lipid_particle
        localization_summary microtubule missingAbundance mitochondrion
        nuclear_periphery nucleolus nucleus orfid peroxisome
        punctate_composite spindle_pole vacuolar_membrane vacuole yORF
  Docs: GFP_tagged GFP_visualized TAP_visualized abundance error
        gene_name localization_summary orfid yORF

Data codoc mismatches from documentation object 'proteinProperties':
Variables in data frame 'proteinProperties'
  Code: ALA ARG ASN ASP CYS GLN GLU GLY HIS ILE LEU LYS MET PHE PRO SER
        SGDID THR TRP TYR VAL aromaticity cai codonBias cterm fop gravy
        length molwt nterm pi type yORF
  Docs: SGDID cai codonBias cterm length molwt nterm pi yORF

* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking data for non-ASCII characters ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK

WARNING: There was 1 warning, see
  /Users/biocbuild/bbs-2.6-data-experiment/meat/yeastExpData.Rcheck/00check.log
for details

* install options are ' --no-html'

* installing *source* package ‘yeastExpData’ ...
** data
** inst
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (yeastExpData)

name	user	system	elapsed
ccyclered	0.017	0.002	0.065
fcabundance	0.100	0.008	0.256
gfp	0.582	0.035	1.515
litG	0.078	0.003	0.205
nPdist	0.002	0.001	0.009
proteinProperties	0.621	0.080	1.936