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Package 34/553HostnameOS / ArchBUILDCHECKBUILD BIN
AnnotationDbi 1.18.3
Bioconductor Package Maintainer
Snapshot Date: 2012-09-23 17:01:39 -0700 (Sun, 23 Sep 2012)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_10/madman/Rpacks/AnnotationDbi
Last Changed Rev: 69081 / Revision: 69725
Last Changed Date: 2012-09-05 13:34:10 -0700 (Wed, 05 Sep 2012)
lamb2 Linux (openSUSE 11.4) / x86_64  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK [ OK ] OK 
petty Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: AnnotationDbi
Version: 1.18.3
Command: rm -rf AnnotationDbi.buildbin-libdir && mkdir AnnotationDbi.buildbin-libdir && E:\biocbld\bbs-2.10-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=AnnotationDbi.buildbin-libdir AnnotationDbi_1.18.3.tar.gz >AnnotationDbi-install.out 2>&1 && E:\biocbld\bbs-2.10-bioc\R\bin\R.exe CMD check --library=AnnotationDbi.buildbin-libdir --install="check:AnnotationDbi-install.out" --force-multiarch --no-vignettes --timings AnnotationDbi_1.18.3.tar.gz && mv AnnotationDbi.buildbin-libdir/* AnnotationDbi.Rcheck/ && rmdir AnnotationDbi.buildbin-libdir
StartedAt: 2012-09-23 23:35:43 -0700 (Sun, 23 Sep 2012)
EndedAt: 2012-09-23 23:48:25 -0700 (Sun, 23 Sep 2012)
EllapsedTime: 761.7 seconds
RetCode: 0
Status:  OK  
CheckDir: AnnotationDbi.Rcheck
Warnings: 0

Command output

* using log directory 'E:/biocbld/bbs-2.10-bioc/meat/AnnotationDbi.Rcheck'
* using R version 2.15.1 (2012-06-22)
* 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 '1.18.3'
* 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 'AnnotationDbi' can be installed ... OK
* checking installed package size ... NOTE
  installed size is 10.2Mb
  sub-directories of 1Mb or more:
    AnnDbPkg-templates   4.0Mb
    doc                  1.0Mb
    extdata              3.2Mb
* 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 ... NOTE
File 'AnnotationDbi/R/zzz.R':
  .onLoad calls:
    require("methods", quietly = TRUE)

Package startup functions should not change the search path.
See section 'Good practice' in ?.onAttach.

cleanSrcMap: warning in strsplit(id, split = ";", fix = T): partial
  argument match of 'fix' to 'fixed'
makeBaseMaps: warning in strsplit(eg, split = " /// ", fix = T):
  partial argument match of 'fix' to 'fixed'
.getSubNodeInfo: no visible global function definition for 'Stop'
.valid.metadata.table: no visible binding for global variable
  'DB_TYPE_NAME'
annotMessage: no visible binding for global variable 'pkgName'
createORGANISMSeeds: no visible global function definition for
  'makeAnnDbMapSeeds'
* 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 installed files from 'inst/doc' ... 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 'AnnotationDbi_unit_tests.R'
 OK
** running tests for arch 'x64'
  Running 'AnnotationDbi_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

NOTE: There were 2 notes.
See
  'E:/biocbld/bbs-2.10-bioc/meat/AnnotationDbi.Rcheck/00check.log'
for details.

AnnotationDbi.Rcheck/00install.out:


install for i386

* installing *source* package 'AnnotationDbi' ...
** R
** inst
** preparing package for lazy loading
Creating a generic function for 'toString' from package 'base' in package 'AnnotationDbi'
Creating a generic function for 'rev' from package 'base' in package 'AnnotationDbi'
Creating a generic function for 'subset' from package 'base' in package 'AnnotationDbi'
Creating a generic function for 'as.data.frame' from package 'base' in package 'AnnotationDbi'
Creating a generic function for 'head' from package 'utils' in package 'AnnotationDbi'
Creating a generic function for 'tail' from package 'utils' in package 'AnnotationDbi'
Creating a generic function for 'as.list' from package 'base' in package 'AnnotationDbi'
Creating a generic function for 'ls' from package 'base' in package 'AnnotationDbi'
Creating a generic function for 'eapply' from package 'base' in package 'AnnotationDbi'
Creating a generic function for 'exists' from package 'base' in package 'AnnotationDbi'
Creating a generic function for 'sample' from package 'base' in package 'AnnotationDbi'
** help
*** installing help indices
** building package indices
** installing vignettes
   'AnnotationDbi.Rnw' 
   'IntroToAnnotationPackages.Rnw' 
   'NewSchema.Rnw' 
   'SQLForge.Rnw' 
   'makeProbePackage.Rnw' 
** testing if installed package can be loaded

install for x64

* installing *source* package 'AnnotationDbi' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'AnnotationDbi' as AnnotationDbi_1.18.3.zip

* DONE (AnnotationDbi)