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BioC experimental data: CHECK report for hgu2beta7 on george2

This page was generated on 2013-10-08 16:07:04 -0700 (Tue, 08 Oct 2013).

Package 78/156HostnameOS / ArchBUILDCHECKBUILD BIN
hgu2beta7 1.2.8
Bioconductor Package Maintainer
Snapshot Date: 2013-10-08 10:15:19 -0700 (Tue, 08 Oct 2013)
URL: https://hedgehog.fhcrc.org/bioc-data/trunk/experiment/pkgs/hgu2beta7
Last Changed Rev: 2317 / Revision: 2510
Last Changed Date: 2013-04-03 15:11:40 -0700 (Wed, 03 Apr 2013)
george2 Linux (Ubuntu 12.04.1 LTS) / x86_64  OK [ WARNINGS ]
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  WARNINGS  OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK  WARNINGS  OK 

Summary

Package: hgu2beta7
Version: 1.2.8
Command: /home/biocbuild/bbs-2.12-bioc/R/bin/R CMD check --no-vignettes --timings hgu2beta7_1.2.8.tar.gz
StartedAt: 2013-10-08 12:54:17 -0700 (Tue, 08 Oct 2013)
EndedAt: 2013-10-08 12:56:01 -0700 (Tue, 08 Oct 2013)
EllapsedTime: 104.0 seconds
RetCode: 0
Status:  WARNINGS 
CheckDir: hgu2beta7.Rcheck
Warnings: 3

Command output

* using log directory ‘/home/biocbuild/bbs-2.12-data-experiment/meat/hgu2beta7.Rcheck’
* using R version 3.0.1 (2013-05-16)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘hgu2beta7/DESCRIPTION’ ... OK
* this is package ‘hgu2beta7’ version ‘1.2.8’
* 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 ‘hgu2beta7’ can be installed ... [1s/2s] OK
* checking installed package size ... NOTE
  installed size is  7.0Mb
  sub-directories of 1Mb or more:
    data   6.9Mb
* 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 ... WARNING
Subdirectory ‘data’ contains no data sets.
* 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 ... WARNING
‘library’ or ‘require’ call not declared from: ‘annotate’
* checking contents of ‘data’ directory ... WARNING
Files not of a type allowed in a ‘data’ directory:
  ‘Rdata.rdb’ ‘Rdata.rds’ ‘Rdata.rdx’
Please use e.g. ‘inst/extdata’ for non-R data files
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... [20s/21s] OK
* checking PDF version of manual ... OK

WARNING: There were 3 warnings.
NOTE: There was 1 note.
See
  ‘/home/biocbuild/bbs-2.12-data-experiment/meat/hgu2beta7.Rcheck/00check.log’
for details.

hgu2beta7.Rcheck/00install.out:

* installing *source* package ‘hgu2beta7’ ...
** R
** data
*** moving datasets to lazyload DB
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded
* DONE (hgu2beta7)

hgu2beta7.Rcheck/hgu2beta7-Ex.timings:

nameusersystemelapsed
hgu2beta7ACCNUM0.8960.0360.966
hgu2beta7CHR0.5680.0000.568
hgu2beta7CHRLENGTHS0.0760.0000.076
hgu2beta7CHRLOC0.8000.0040.807
hgu2beta7ENZYME0.4760.0040.480
hgu2beta7ENZYME2PROBE0.10.00.1
hgu2beta7GENENAME0.4160.0280.503
hgu2beta7GO4.4280.1444.930
hgu2beta7GO2ALLPROBES1.5480.0641.665
hgu2beta7GO2PROBE0.1240.0120.139
hgu2beta7GRIF0.2080.0000.214
hgu2beta7LOCUSID0.2160.0000.221
hgu2beta7MAP0.2480.0000.250
hgu2beta7OMIM0.7000.0120.726
hgu2beta7ORGANISM0.0000.0000.004
hgu2beta7PATH0.2120.0000.216
hgu2beta7PATH2PROBE0.0400.0000.041
hgu2beta7PMID0.3840.0040.394
hgu2beta7PMID2PROBE2.8280.0562.955
hgu2beta7REFSEQ1.5370.0001.549
hgu2beta7SUMFUNC0.6320.0120.643
hgu2beta7SYMBOL0.3760.0040.379
hgu2beta7UNIGENE0.4320.0040.436