affy 1.31.2
Rafael A. Irizarry
| Snapshot Date: 2011-07-06 19:21:50 -0700 (Wed, 06 Jul 2011) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/affy | | Last Changed Rev: 56151 / Revision: 56603 | | Last Changed Date: 2011-06-13 15:14:15 -0700 (Mon, 13 Jun 2011) |
| wilson2 | Linux (openSUSE 11.4) / x86_64 | OK | OK | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | [ OK ] | OK |
| gewurz | Windows Server 2008 R2 Enterprise (64-bit) / x64 | OK | OK | OK |
| moscato1 | Windows Server 2008 R2 Enterprise (64-bit) / x64 | OK | OK | OK |
| pitt | Mac OS X Leopard (10.5.8) / i386 | OK | OK | OK |
* using log directory 'E:/biocbld/bbs-2.9-bioc/meat/affy.Rcheck'
* using R version 2.14.0 Under development (unstable) (2011-06-03 r56036)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'affy/DESCRIPTION' ... OK
* this is package 'affy' version '1.31.2'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'affy' 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 name space can be loaded with stated dependencies ... OK
* checking whether the name space 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
cleancdfname: no visible binding for global variable 'mapCdfName'
* 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 ... NOTE
'library' or 'require' call not declared from: 'widgetTools'
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable compilation flags in Makevars ... 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' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK
* installing *source* package 'affy' ...
**********************************************
WARNING: this package has a configure script
It probably needs manual configuration
**********************************************
** libs
gcc -I"E:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.9-B/R/include" -DHAVE_ZLIB -I"E:/biocbld/bbs-2.9-bioc/R/library/preprocessCore/include" -O3 -Wall -std=gnu99 -c chipbackground.c -o chipbackground.o
gcc -I"E:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.9-B/R/include" -DHAVE_ZLIB -I"E:/biocbld/bbs-2.9-bioc/R/library/preprocessCore/include" -O3 -Wall -std=gnu99 -c getall_locations.c -o getall_locations.o
gcc -I"E:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.9-B/R/include" -DHAVE_ZLIB -I"E:/biocbld/bbs-2.9-bioc/R/library/preprocessCore/include" -O3 -Wall -std=gnu99 -c mas5calls.c -o mas5calls.o
gcc -I"E:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.9-B/R/include" -DHAVE_ZLIB -I"E:/biocbld/bbs-2.9-bioc/R/library/preprocessCore/include" -O3 -Wall -std=gnu99 -c rma2.c -o rma2.o
gcc -I"E:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/include" -I"E:/biocbld/BBS-2˜1.9-B/R/include" -DHAVE_ZLIB -I"E:/biocbld/bbs-2.9-bioc/R/library/preprocessCore/include" -O3 -Wall -std=gnu99 -c rma_common.c -o rma_common.o
gcc -shared -s -static-libgcc -o affy.dll tmp.def chipbackground.o getall_locations.o mas5calls.o rma2.o rma_common.o -LE:/biocbld/bbs-2.9-bioc/R/library/zlibbioc/libs/i386 -lzlib1bioc -LE:/biocbld/BBS-2˜1.9-B/R/bin/i386 -lR
installing to E:/biocbld/bbs-2.9-bioc/meat/affy.Rcheck/affy/libs/i386
** R
** data
** demo
** inst
** preparing package for lazy loading
Welcome to Bioconductor
Vignettes contain introductory material. To view, type
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")' and for packages 'citation("pkgname")'.
Creating a generic function for "open" from package "base" in package "affy"
Creating a generic function for "close" from package "base" in package "affy"
Creating a generic function for "colnames" from package "base" in package "affy"
Creating a generic function for "barplot" from package "graphics" in package "affy"
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
'affy.Rnw'
'builtinMethods.Rnw'
'customMethods.Rnw'
'vim.Rnw'
** testing if installed package can be loaded
* DONE (affy)