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Package 205/565HostnameOS / ArchBUILDCHECKBUILD BIN
FunciSNP 0.99.0
Simon G. Coetzee
Snapshot Date: 2012-06-20 15:22:40 -0700 (Wed, 20 Jun 2012)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/FunciSNP
Last Changed Rev: 66412 / Revision: 66885
Last Changed Date: 2012-06-04 14:07:39 -0700 (Mon, 04 Jun 2012)
lamb1 Linux (openSUSE 12.1) / x86_64  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
pitt Mac OS X Leopard (10.5.8) / i386  OK [ OK ] OK 
perceval Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: FunciSNP
Version: 0.99.0
Command: /Library/Frameworks/R.framework/Versions/2.15/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch FunciSNP_0.99.0.tar.gz
StartedAt: 2012-06-20 23:57:32 -0700 (Wed, 20 Jun 2012)
EndedAt: 2012-06-21 00:05:55 -0700 (Thu, 21 Jun 2012)
EllapsedTime: 502.6 seconds
RetCode: 0
Status:  OK 
CheckDir: FunciSNP.Rcheck
Warnings: 0

Command output

* using log directory '/Users/biocbuild/bbs-2.11-bioc/meat/FunciSNP.Rcheck'
* using R version 2.15.0 Patched (2012-04-26 r59216)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'FunciSNP/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'FunciSNP' version '0.99.0'
* 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 whether package 'FunciSNP' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level 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 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 ... NOTE
AnnotateSummary: no visible binding for global variable
  'nearest.TSS.distancetoFeature'
AnnotateSummary: no visible binding for global variable 'Intergenic'
AnnotateSummary: no visible binding for global variable 'Promoter'
FunciSNPplot: no visible binding for global variable 'R.squared'
FunciSNPplot: no visible binding for global variable 'r.2'
FunciSNPplot: no visible binding for global variable
  'distance.from.tag'
FunciSNPplot: no visible binding for global variable 'variable'
FunciSNPplot: no visible binding for global variable 'sig'
FunciSNPplot: no visible binding for global variable 'value'
* 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 ... OK
* checking sizes of PDF files under 'inst/doc' ... OK
* checking installed files from 'inst/doc' ... OK
* checking examples ... 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 vignettes ... SKIPPED
* checking PDF version of manual ... OK

NOTE: There was 1 note.
See
  '/Users/biocbuild/bbs-2.11-bioc/meat/FunciSNP.Rcheck/00check.log'
for details.

FunciSNP.Rcheck/00install.out:

* installing *source* package 'FunciSNP' ...
** R
** data
**  moving datasets to lazyload DB
** inst
** preparing package for lazy loading
Warning: replacing previous import 'space' when loading 'IRanges'
** help
*** installing help indices
** building package indices
** installing vignettes
   'FunciSNP_vignette.Rnw' 
** testing if installed package can be loaded
Warning: replacing previous import 'space' when loading 'IRanges'

* DONE (FunciSNP)

FunciSNP.Rcheck/FunciSNP-Ex.timings:

nameusersystemelapsed
CorrelatedSNPs-class0.0010.0010.002
FunciSNP-package2.4470.1362.594
FunciSNPAnnotateSummary0.6860.1180.820
FunciSNPbed0.8000.1310.950
FunciSNPidsFromSummary000
FunciSNPplot2.5710.3953.013
FunciSNPsummaryOverlaps0.7890.1100.911
FunciSNPtable3.3531.1104.508
TSList-class0.0020.0000.002
TagSNP-class0.0010.0010.002
getFSNPs0.4060.1220.537