Package: VariantAnnotation

Version: 1.0.5

Command: rm -rf VariantAnnotation.buildbin-libdir && mkdir VariantAnnotation.buildbin-libdir && D:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=VariantAnnotation.buildbin-libdir VariantAnnotation_1.0.5.tar.gz >VariantAnnotation-install.out 2>&1 && D:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD check --library=VariantAnnotation.buildbin-libdir --install="check:VariantAnnotation-install.out" --force-multiarch --no-vignettes --timings VariantAnnotation_1.0.5.tar.gz && mv VariantAnnotation.buildbin-libdir/* VariantAnnotation.Rcheck/ && rmdir VariantAnnotation.buildbin-libdir

StartedAt: 2012-03-24 03:13:01 -0700 (Sat, 24 Mar 2012)

EndedAt: 2012-03-24 03:23:28 -0700 (Sat, 24 Mar 2012)

EllapsedTime: 626.7 seconds

RetCode: 0

Status:  OK

CheckDir: VariantAnnotation.Rcheck

Warnings: 0

* using log directory 'D:/biocbld/bbs-2.9-bioc/meat/VariantAnnotation.Rcheck'
* using R version 2.14.2 (2012-02-29)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'VariantAnnotation/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'VariantAnnotation' version '1.0.5'
* 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 'VariantAnnotation' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking for portable file names ... 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
* loading checks for arch 'i386'
** 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
* loading checks for arch 'x64'
** 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 ... OK
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* checking for unstated dependencies in tests ... OK
* checking tests ...
** running tests for arch 'i386'
  Running 'VariantAnnotation_unit_tests.R'
 OK
** running tests for arch 'x64'
  Running 'VariantAnnotation_unit_tests.R'
 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

install for i386

* installing *source* package 'VariantAnnotation' ...
** R
** data
** inst
** preparing package for lazy loading
Warning: replacing previous import 'as.list' when loading 'AnnotationDbi'
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   'VariantAnnotation.Rnw' 
** testing if installed package can be loaded
Warning message:
replacing previous import 'as.list' when loading 'AnnotationDbi' 

add DLL for x64

* installing *source* package 'VariantAnnotation' ...
** testing if installed package can be loaded
Warning message:
replacing previous import 'as.list' when loading 'AnnotationDbi' 
* MD5 sums
packaged installation of 'VariantAnnotation' as VariantAnnotation_1.0.5.zip

* DONE (VariantAnnotation)