Package: yeastExpData

Version: 0.9.17

Command: /home/biocbuild/bbs-2.8-bioc/R/bin/R CMD check --no-vignettes --timings yeastExpData_0.9.17.tar.gz

StartedAt: 2011-10-19 01:20:52 -0700 (Wed, 19 Oct 2011)

EndedAt: 2011-10-19 01:21:02 -0700 (Wed, 19 Oct 2011)

EllapsedTime: 9.5 seconds

RetCode: 0

Status:  WARNINGS

CheckDir: yeastExpData.Rcheck

Warnings: 2

* using log directory ‘/loc/home/biocbuild/bbs-2.8-data-experiment/meat/yeastExpData.Rcheck’
* using R version 2.13.2 (2011-09-30)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* 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 installed package size ... 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 for unstated dependencies in examples ... NOTE
'library' or 'require' call not declared from: lattice
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... WARNING
  Warning: large data file(s) saved inefficiently:
                 size ASCII compress
  ccyclered.rda 364Kb FALSE     none
* checking examples ... OK
* checking for unstated dependencies in vignettes ... NOTE
'library' or 'require' call not declared from: Rgraphviz
* 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

WARNING: There were 2 warnings, see
  ‘/loc/home/biocbuild/bbs-2.8-data-experiment/meat/yeastExpData.Rcheck/00check.log’
for details

* 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	0.008	0.000	0.010
fcabundance	0.060	0.004	0.063
gfp	0.396	0.008	0.419
litG	0.016	0.000	0.017
nPdist	0.004	0.000	0.001
proteinProperties	0.408	0.008	0.415