Package: AnnotationDbi

Version: 1.14.1

Command: E:\biocbld\bbs-2.8-bioc\R\bin\R.exe CMD check --no-vignettes --timings --no-multiarch AnnotationDbi_1.14.1.tar.gz

StartedAt: 2011-10-20 13:58:09 -0700 (Thu, 20 Oct 2011)

EndedAt: 2011-10-20 14:03:34 -0700 (Thu, 20 Oct 2011)

EllapsedTime: 324.3 seconds

RetCode: 0

Status:  OK

CheckDir: AnnotationDbi.Rcheck

Warnings: 0

* using log directory 'E:/biocbld/bbs-2.8-bioc/meat/AnnotationDbi.Rcheck'
* using R version 2.13.2 (2011-09-30)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'AnnotationDbi/DESCRIPTION' ... OK
* this is package 'AnnotationDbi' version '1.14.1'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'AnnotationDbi' can be installed ... OK
* checking installed package size ... NOTE
  installed size is  9.3Mb
  sub-directories of 1Mb or more:
    AnnDbPkg-templates   3.7Mb
    extdata              3.1Mb
* 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
* 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
.getSubNodeInfo: no visible global function definition for 'Stop'
annotMessage: no visible binding for global variable 'pkgName'
* 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 examples ... OK
* checking for unstated dependencies in vignettes ... NOTE
'library' or 'require' call not declared from: org.Hs.eg.db
* 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

* installing *source* package 'AnnotationDbi' ...
** R
** inst
** preparing package for lazy loading
Creating a new generic function for "toString" in "AnnotationDbi"
Creating a new generic function for "rev" in "AnnotationDbi"
Creating a new generic function for "colnames" in "AnnotationDbi"
Creating a new generic function for "subset" in "AnnotationDbi"
Creating a new generic function for "head" in "AnnotationDbi"
Creating a new generic function for "tail" in "AnnotationDbi"
Creating a new generic function for "nrow" in "AnnotationDbi"
Creating a new generic function for "ncol" in "AnnotationDbi"
Creating a new generic function for "as.list" in "AnnotationDbi"
Creating a new generic function for "ls" in "AnnotationDbi"
Creating a new generic function for "mget" in "AnnotationDbi"
Creating a new generic function for "eapply" in "AnnotationDbi"
Creating a new generic function for "get" in "AnnotationDbi"
Creating a new generic function for "exists" in "AnnotationDbi"
Creating a new generic function for "sample" in "AnnotationDbi"
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (AnnotationDbi)

name	user	system	elapsed
AnnDbBimap-envirAPI	1.16	0.17	1.41
AnnDbObj-class	0.31	0.00	0.31
AnnDbPkg-checker	145.81	4.13	177.84
AnnDbPkg-maker	0.04	0.00	0.05
Bimap-direction	8.09	0.39	8.49
Bimap-keys	2.72	0.03	2.76
Bimap-toTable	4.07	0.03	4.20
Bimap	4.27	0.24	4.51
BimapFiltering	0.70	0.01	0.74
BimapFormatting	1.74	0.00	1.74
GOFrame	7.79	4.46	13.64
GOTerms-class	0	0	0
KEGGFrame	0.89	0.01	0.91
NCBI_getters	0	0	0
available.db0pkgs	0.06	0.02	0.64
createSimpleBimap	0.49	0.01	0.54
getProbeDataAffy	0	0	0
getProbeData_1lq	0	0	0
inpIDMapper	0	0	0
makeProbePackage	10.58	0.10	13.75
make_eg_to_go_map	0.61	0.00	0.63
print.probetable	1.75	0.01	1.77
sqlForge-makeCHIPDB	0	0	0
sqlForge-popDB	0.00	0.02	0.01
sqlForge-wrapDBPackages	0	0	0
toSQLStringSet	0	0	0
unlist2	0.58	0.01	0.64