yeastExpData 0.11.1
R. Gentleman
| Snapshot Date: 2015-04-08 06:15:26 -0700 (Wed, 08 Apr 2015) | | URL: https://hedgehog.fhcrc.org/bioc-data/branches/RELEASE_3_0/experiment/pkgs/yeastExpData | | Last Changed Rev: 3075 / Revision: 3266 | | Last Changed Date: 2014-10-13 14:52:40 -0700 (Mon, 13 Oct 2014) |
| zin1 | Linux (Ubuntu 12.04.4 LTS) / x86_64 | NotNeeded | OK | WARNINGS | |
| moscato1 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | NotNeeded | OK | WARNINGS | OK |
| perceval | Mac OS X Snow Leopard (10.6.8) / x86_64 | NotNeeded | OK | [ WARNINGS ] | OK |
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### Running command:
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### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch yeastExpData_0.11.1.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.0-data-experiment/meat/yeastExpData.Rcheck’
* using R version 3.1.3 (2015-03-09)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘yeastExpData/DESCRIPTION’ ... OK
* this is package ‘yeastExpData’ version ‘0.11.1’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘yeastExpData’ can be installed ... [2s/2s] OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ 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 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 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: abundance actin ambiguous bud bud_neck cell_periphery cytoplasm
early_Golgi endosome ER ER_to_Golgi error gene_name GFP_tagged
GFP_visualized Golgi late_Golgi lipid_particle
localization_summary microtubule missingAbundance mitochondrion
nuclear_periphery nucleolus nucleus orfid peroxisome
punctate_composite spindle_pole TAP_visualized
vacuolar_membrane vacuole yORF
Docs: abundance error gene_name GFP_tagged GFP_visualized
localization_summary orfid TAP_visualized yORF
Data codoc mismatches from documentation object 'proteinProperties':
Variables in data frame 'proteinProperties'
Code: ALA ARG aromaticity ASN ASP cai codonBias cterm CYS fop GLN GLU
GLY gravy HIS ILE length LEU LYS MET molwt nterm PHE pi PRO SER
SGDID THR TRP type TYR VAL yORF
Docs: cai codonBias cterm length molwt nterm pi SGDID yORF
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... WARNING
'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 saved inefficiently:
size ASCII compress
ccyclered.rda 364Kb FALSE none
Note: significantly better compression could be obtained
by using R CMD build --resave-data
old_size new_size compress
ccyclered.rda 364Kb 59Kb xz
fcabundance.rda 110Kb 67Kb xz
gfp.rda 118Kb 60Kb xz
litG.rda 22Kb 8Kb xz
proteinProperties.rda 488Kb 309Kb xz
y2hG.rda 22Kb 9Kb xz
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [3s/3s] 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 vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
WARNING: There were 3 warnings.
NOTE: There was 1 note.
See
‘/Users/biocbuild/bbs-3.0-data-experiment/meat/yeastExpData.Rcheck/00check.log’
for details.