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Package 332/467HostnameOS / ArchBUILDCHECKBUILD BIN
pdInfoBuilder 1.16.0
Benilton Carvalho
Snapshot Date: 2011-10-20 07:20:33 -0700 (Thu, 20 Oct 2011)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_8/madman/Rpacks/pdInfoBuilder
Last Changed Rev: 54808 / Revision: 59457
Last Changed Date: 2011-04-13 18:03:42 -0700 (Wed, 13 Apr 2011)
lamb1 Linux (openSUSE 11.3) / x86_64  OK  WARNINGS 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  WARNINGS  OK 
gewurz Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK [ WARNINGS ] OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK  WARNINGS  OK 

Summary

Package: pdInfoBuilder
Version: 1.16.0
Command: D:\biocbld\bbs-2.8-bioc\R\bin\R.exe CMD check --no-vignettes --timings --no-multiarch pdInfoBuilder_1.16.0.tar.gz
StartedAt: 2011-10-20 15:52:21 -0700 (Thu, 20 Oct 2011)
EndedAt: 2011-10-20 15:54:20 -0700 (Thu, 20 Oct 2011)
EllapsedTime: 119.4 seconds
RetCode: 0
Status:  WARNINGS  
CheckDir: pdInfoBuilder.Rcheck
Warnings: 1

Command output

* using log directory 'D:/biocbld/bbs-2.8-bioc/meat/pdInfoBuilder.Rcheck'
* using R version 2.13.2 (2011-09-30)
* using platform: x86_64-pc-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'pdInfoBuilder/DESCRIPTION' ... OK
* this is package 'pdInfoBuilder' version '1.16.0'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'pdInfoBuilder' 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
* 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
combinePgfClfProbesetsMps: no visible binding for global variable
  'ptype'
parseNgsTrio: no visible binding for global variable 'mismatch'
parseProbeSequenceFile: no visible binding for global variable 'count'
* 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 line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... WARNING
Package vignette(s) without corresponding PDF:
   howto-AffymetrixMapping.Rnw

* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK

WARNING: There was 1 warning, see
  'D:/biocbld/bbs-2.8-bioc/meat/pdInfoBuilder.Rcheck/00check.log'
for details

pdInfoBuilder.Rcheck/00install.out:

* installing *source* package 'pdInfoBuilder' ...
** libs
x86_64-w64-mingw32-gcc -I"D:/biocbld/BBS-2˜1.8-B/R/include"          -O2 -Wall  -std=gnu99 -c pdInfoBuilder.c -o pdInfoBuilder.o
x86_64-w64-mingw32-gcc -shared -s -static-libgcc -o pdInfoBuilder.dll tmp.def pdInfoBuilder.o -LD:/biocbld/BBS-2˜1.8-B/R/bin/x64 -lR
installing to D:/biocbld/bbs-2.8-bioc/meat/pdInfoBuilder.Rcheck/pdInfoBuilder/libs/x64
** R
** inst
** preparing package for lazy loading
================================================================================
Welcome to oligoClasses version 1.14.0
================================================================================
Large dataset support for 'oligo/crlmm': Disabled
     - Load 'ff'
================================================================================
Parallel computing support for 'oligo/crlmm': Disabled
     - Load 'ff'
     - Load 'snow'
     - Use options(cluster=makeCluster(...))
================================================================================
================================================================================
Welcome to oligo version 1.16.2
================================================================================
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded
================================================================================
Welcome to oligoClasses version 1.14.0
================================================================================
Large dataset support for 'oligo/crlmm': Disabled
     - Load 'ff'
================================================================================
Parallel computing support for 'oligo/crlmm': Disabled
     - Load 'ff'
     - Load 'snow'
     - Use options(cluster=makeCluster(...))
================================================================================
================================================================================
Welcome to oligo version 1.16.2
================================================================================

* DONE (pdInfoBuilder)

pdInfoBuilder.Rcheck/pdInfoBuilder-Ex.timings:

nameusersystemelapsed
AffyExpressionPDInfoPkgSeed-class000
AffySNPCNVPDInfoPkgSeed-class000
AffySNPCNVPDInfoPkgSeed2-class000
AffySNPPDInfoPkgSeed-class0.690.010.70
AffySNPPDInfoPkgSeed2-class000
AffySTPDInfoPkgSeed-class000
AffyTilingPDInfoPkgSeed-class000
NgsExpressionPDInfoPkgSeed-class000
NgsTilingPDInfoPkgSeed-class0.010.000.02
NimbleGenPDInfoPkgSeed-class000
makePdInfoPackage000