BioC 2.1: CHECK report for makePlatformDesign on churchill

* checking for working latex ... OK
* using log directory '/loc/biocbuild/bbs-2.1-bioc/meat/makePlatformDesign.Rcheck'
* using R version 2.6.0 Under development (unstable) (2007-06-03 r41797)
* checking for file 'makePlatformDesign/DESCRIPTION' ... OK
* this is package 'makePlatformDesign' version '1.1.1'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'makePlatformDesign' can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... 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 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
makePDpackage.old: possible error in makeSNPenv(filename, seqfile,
  annotfile, textCDF): unused argument(s) (textCDF)
readndfplex: no visible binding for global variable 'PROBE_CLASS'
readndfplex: no visible binding for global variable 'PROBE_CLASS'
writePackage: no visible binding for global variable 'verbose'
* checking Rd files ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking for CRLF line endings in C/C++/Fortran sources/headers ... OK
* checking for portable use of $BLAS_LIBS ... OK
* creating makePlatformDesign-Ex.R ... OK
* checking examples ... OK
* creating makePlatformDesign-manual.tex ... OK
* checking makePlatformDesign-manual.tex ... OK

* Installing *source* package 'makePlatformDesign' ...
** libs
gcc -std=gnu99 -I/loc/biocbuild/bbs-2.1-bioc/R/include -I/loc/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fPIC  -g -O2 -Wall -c main.c -o main.o
main.c: In function 'strstr_with_pmormm':
main.c:70: warning: suggest parentheses around assignment used as truth value
main.c:89: warning: suggest parentheses around assignment used as truth value
main.c: In function 'MP_matchprobes':
main.c:113: warning: 'rvpos' may be used uninitialized in this function
gcc -std=gnu99 -I/loc/biocbuild/bbs-2.1-bioc/R/include -I/loc/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fPIC  -g -O2 -Wall -c strutils.c -o strutils.o
strutils.c: In function 'MP_longestConsecutive':
strutils.c:263: warning: format '%ld' expects type 'long int', but argument 3 has type 'size_t'
gcc -std=gnu99 -G -L/usr/local/lib -o makePlatformDesign.so main.o strutils.o   -L/loc/biocbuild/bbs-2.1-bioc/R/lib -lR
** R
** inst
** preparing package for lazy loading
Loading required package: affyio
Loading required package: oligo
Loading required package: Biobase
Loading required package: tools

Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'openVignette()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation(pkgname)'.

Loading required package: splines
Loading required package: RSQLite
Loading required package: DBI
Loading required package: BufferedMatrix
Loading required package: BufferedMatrixMethods
Loading required package: preprocessCore
This is the oligo package
** help
 >>> Building/Updating help pages for package 'makePlatformDesign'
     Formats: text html latex example 
  makePDpackage                     text    html    latex   example
  makePlatformDesign-internal       text    html    latex
** building package indices ...
* DONE (makePlatformDesign)

Package 129/238	Hostname	OS	Arch	BUILD	CHECK	BUILD BIN
makePlatformDesign 1.1.1 Benilton Carvalho Last Changed Date: 2007-06-10 10:22:32 -0700 Last Changed Rev: 25301	lamb1	Linux (SUSE 10.1)	x86_64	OK	OK
	wellington	Linux (SUSE 9.2)	i686	OK	OK
	churchill	Solaris 2.9	sparc	OK	[ OK ]
	lemming	Windows Server 2003 (32-bit)	x64	OK	OK	skipped

makePlatformDesign

1.1.1

Command output