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BioC experimental data: CHECK report for hgu2beta7 on perceval

This page was generated on 2015-08-22 17:44:36 -0700 (Sat, 22 Aug 2015).

Package 123/246HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
hgu2beta7 1.9.0
Bioconductor Package Maintainer
Snapshot Date: 2015-08-22 06:15:25 -0700 (Sat, 22 Aug 2015)
URL: https://hedgehog.fhcrc.org/bioc-data/trunk/experiment/pkgs/hgu2beta7
Last Changed Rev: 3281 / Revision: 3391
Last Changed Date: 2015-04-16 13:20:43 -0700 (Thu, 16 Apr 2015)
zin1 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  WARNINGS UNNEEDED, same version exists in internal repository
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 

Summary

Package: hgu2beta7
Version: 1.9.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings hgu2beta7_1.9.0.tar.gz
StartedAt: 2015-08-22 09:26:05 -0700 (Sat, 22 Aug 2015)
EndedAt: 2015-08-22 09:27:06 -0700 (Sat, 22 Aug 2015)
EllapsedTime: 60.6 seconds
RetCode: 0
Status:  WARNINGS 
CheckDir: hgu2beta7.Rcheck
Warnings: 3

Command output

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings hgu2beta7_1.9.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.2-data-experiment/meat/hgu2beta7.Rcheck’
* using R version 3.2.2 Patched (2015-08-14 r69078)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘hgu2beta7/DESCRIPTION’ ... OK
* this is package ‘hgu2beta7’ 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 ‘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 ... NOTE
Malformed Description field: should contain one or more complete sentences.
* 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 loading without being on the library search path ... OK
* checking 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 ... NOTE
hgu2beta7: no visible binding for global variable ‘hgu2beta7QC’
* 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 ... [9s/11s] OK
* checking PDF version of manual ... OK
* DONE

Status: 3 WARNINGs, 3 NOTEs
See
  ‘/Users/biocbuild/bbs-3.2-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
hgu2beta7ACCNUM0.4920.0400.628
hgu2beta7CHR0.3600.0040.397
hgu2beta7CHRLENGTHS0.0000.0010.000
hgu2beta7CHRLOC0.1700.0130.231
hgu2beta7ENZYME0.1590.0020.232
hgu2beta7ENZYME2PROBE0.0280.0000.028
hgu2beta7GENENAME0.4380.0080.508
hgu2beta7GO1.1480.0781.448
hgu2beta7GO2ALLPROBES0.5430.0160.663
hgu2beta7GO2PROBE0.0540.0060.059
hgu2beta7GRIF0.1850.0230.249
hgu2beta7LOCUSID0.1340.0030.161
hgu2beta7MAP0.1620.0070.197
hgu2beta7OMIM0.1800.0030.205
hgu2beta7ORGANISM0.0010.0000.001
hgu2beta7PATH0.1810.0020.214
hgu2beta7PATH2PROBE0.0060.0010.009
hgu2beta7PMID0.9040.0241.052
hgu2beta7PMID2PROBE1.6610.0412.006
hgu2beta7REFSEQ0.3170.0210.396
hgu2beta7SUMFUNC0.3740.0420.497
hgu2beta7SYMBOL0.2580.0030.310
hgu2beta7UNIGENE0.3150.0070.377