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BioC experimental data: CHECK report for dsQTL on perceval

This page was generated on 2015-08-22 17:44:46 -0700 (Sat, 22 Aug 2015).

Package 70/246HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
dsQTL 0.7.1
VJ Carey
Snapshot Date: 2015-08-22 06:15:25 -0700 (Sat, 22 Aug 2015)
URL: https://hedgehog.fhcrc.org/bioc-data/trunk/experiment/pkgs/dsQTL
Last Changed Rev: 3333 / Revision: 3391
Last Changed Date: 2015-06-24 13:32:45 -0700 (Wed, 24 Jun 2015)
zin1 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK  OK  OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK [ OK ] OK 

Summary

Package: dsQTL
Version: 0.7.1
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings dsQTL_0.7.1.tar.gz
StartedAt: 2015-08-22 09:09:13 -0700 (Sat, 22 Aug 2015)
EndedAt: 2015-08-22 09:22:19 -0700 (Sat, 22 Aug 2015)
EllapsedTime: 785.5 seconds
RetCode: 0
Status:  OK 
CheckDir: dsQTL.Rcheck
Warnings: 0

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 dsQTL_0.7.1.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.2-data-experiment/meat/dsQTL.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 ‘dsQTL/DESCRIPTION’ ... OK
* this is package ‘dsQTL’ version ‘0.7.1’
* 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 ‘dsQTL’ can be installed ... [37s/65s] OK
* checking installed package size ... NOTE
  installed size is 945.6Mb
  sub-directories of 1Mb or more:
    data   931.7Mb
    parts   13.7Mb
* checking package directory ... OK
* checking ‘build’ 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 ... OK
* 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
getSNPlocs: no visible binding for global variable ‘ch2locs’
getSNPlocs: no visible binding for global variable ‘ch17locs’
SE2ES: no visible global function definition for ‘metadata’
* checking Rd files ... NOTE
prepare_Rd: dsQTL-package.Rd:60-61: Dropping empty section \seealso
* 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 ... OK
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [20s/23s] 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: 4 NOTEs
See
  ‘/Users/biocbuild/bbs-3.2-data-experiment/meat/dsQTL.Rcheck/00check.log’
for details.


dsQTL.Rcheck/00install.out:

* installing *source* package ‘dsQTL’ ...
** R
** data
** inst
** preparing package for lazy loading
Warning: replacing previous import by ‘stats::IQR’ when loading ‘GGBase’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Warning: replacing previous import by ‘stats::IQR’ when loading ‘GGBase’
* DONE (dsQTL)

dsQTL.Rcheck/dsQTL-Ex.timings:

nameusersystemelapsed
dsQTL-package0.0030.0010.004