BioC experimental data: CHECK report for CCl4 on linux2.bioconductor.org

Package: CCl4

Version: 1.9.0

Command: /home/biocbuild/bbs-3.3-bioc/R/bin/R CMD check --no-vignettes --timings CCl4_1.9.0.tar.gz

StartedAt: 2015-10-24 11:52:37 -0400 (Sat, 24 Oct 2015)

EndedAt: 2015-10-24 11:54:11 -0400 (Sat, 24 Oct 2015)

EllapsedTime: 93.8 seconds

RetCode: 0

Status:  WARNINGS

CheckDir: CCl4.Rcheck

Warnings: 1

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.3-bioc/R/bin/R CMD check --no-vignettes --timings CCl4_1.9.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.3-data-experiment/meat/CCl4.Rcheck’
* using R Under development (unstable) (2015-09-09 r69333)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘CCl4/DESCRIPTION’ ... OK
* this is package ‘CCl4’ version ‘1.9.0’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘CCl4’ can be installed ... [1s/1s] OK
* checking installed package size ... NOTE
  installed size is 304.4Mb
  sub-directories of 1Mb or more:
    data      12.0Mb
    extdata  292.2Mb
* 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 ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... WARNING
  
  Note: significantly better compression could be obtained
        by using R CMD build --resave-data
                    old_size new_size compress
  CCl4.RData           9.1Mb    2.1Mb       xz
  CCl4_RGList.RData    2.9Mb    2.0Mb       xz
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [2s/2s] OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘validDataFiles.R’ [1s/1s]
  Comparing ‘validDataFiles.Rout’ to ‘validDataFiles.Rout.save’ ...5,25d4
< Attaching package: 'BiocGenerics'
< 
< The following objects are masked from 'package:parallel':
< 
<     clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
<     clusterExport, clusterMap, parApply, parCapply, parLapply,
<     parLapplyLB, parRapply, parSapply, parSapplyLB
< 
< The following objects are masked from 'package:stats':
< 
<     IQR, mad, xtabs
< 
< The following objects are masked from 'package:base':
< 
<     Filter, Find, Map, Position, Reduce, anyDuplicated, append,
<     as.data.frame, as.vector, cbind, colnames, do.call, duplicated,
<     eval, evalq, get, grep, grepl, intersect, is.unsorted, lapply,
<     lengths, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
<     pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table,
<     tapply, union, unique, unlist, unsplit
< 
28,37c7,9
<     Vignettes contain introductory material; view with
<     'browseVignettes()'. To cite Bioconductor, see
<     'citation("Biobase")', and for packages 'citation("pkgname")'.
< 
< 
< Attaching package: 'limma'
< 
< The following object is masked from 'package:BiocGenerics':
< 
<     plotMA
---
>   Vignettes contain introductory material. To view, type
>   'openVignette()'. To cite Bioconductor, see
>   'citation("Biobase")' and for packages 'citation(pkgname)'.
 [1s/1s] 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 vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING, 1 NOTE
See
  ‘/home/biocbuild/bbs-3.3-data-experiment/meat/CCl4.Rcheck/00check.log’
for details.

* installing *source* package ‘CCl4’ ...
** data
** inst
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (CCl4)

name	user	system	elapsed
CCl4	0.930	0.024	0.954