Package: plier

Version: 1.5.0

Command: /loc/biocbuild/1.9d/R/bin/R CMD check plier_1.5.0.tar.gz

RetCode: 1

Time: 46.5 seconds

Status: ERROR

CheckDir: plier.Rcheck

Warnings: NA

* checking for working latex ... OK
* using log directory '/loc/biocbuild/1.9d/Rpacks/plier.Rcheck'
* using R version 2.4.0 Under development (unstable) (2006-06-04 r38279)
* checking for file 'plier/DESCRIPTION' ... OK
* this is package 'plier' version '1.5.0'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'plier' 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 syntax errors ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for library.dynam ... OK
* checking S3 generic/method consistency ... WARNING
Error: package 'affy' could not be loaded
Call sequence:
3: stop(gettextf("package '%s' could not be loaded", pkg), call. = FALSE, 
       domain = NA)
2: .getRequiredPackages2(pkgInfo)
1: library(package, lib.loc = lib.loc, character.only = TRUE, verbose = FALSE)
Execution halted
See section 'Generic functions and methods' of the 'Writing R Extensions'
manual.
* checking replacement functions ... WARNING
Error: package 'affy' could not be loaded
Call sequence:
3: stop(gettextf("package '%s' could not be loaded", pkg), call. = FALSE, 
       domain = NA)
2: .getRequiredPackages2(pkgInfo)
1: library(package, lib.loc = lib.loc, character.only = TRUE, verbose = FALSE)
Execution halted
In R, the argument of a replacement function which corresponds to the right
hand side must be named 'value'.
* checking foreign function calls ... WARNING
Error: package 'affy' could not be loaded
Call sequence:
3: stop(gettextf("package '%s' could not be loaded", pkg), call. = FALSE, 
       domain = NA)
2: .getRequiredPackages2(pkgInfo)
1: library(package, lib.loc = lib.loc, character.only = TRUE, verbose = FALSE)
Execution halted
See section 'System and foreign language interfaces' of the 'Writing R
Extensions' manual.
* checking Rd files ... OK
* checking for missing documentation entries ... ERROR
Error: package 'affy' could not be loaded

* Installing *source* package 'plier' ...
** libs
g++ -I/loc/biocbuild/1.9d/R/include -I/loc/biocbuild/1.9d/R/include  -I/usr/local/include   -fPIC  -g -O2 -Wall -c affyplier.cpp -o affyplier.o
g++ -I/loc/biocbuild/1.9d/R/include -I/loc/biocbuild/1.9d/R/include  -I/usr/local/include   -fPIC  -g -O2 -Wall -c plier_impl.cpp -o plier_impl.o
g++ -I/loc/biocbuild/1.9d/R/include -I/loc/biocbuild/1.9d/R/include  -I/usr/local/include   -fPIC  -g -O2 -Wall -c plieralg.cpp -o plieralg.o
plieralg.cpp: In function `long int NewtonPlier(plier_data*, double&)':
plieralg.cpp:909: warning: 'LogLikelihood' might be used uninitialized in this function
plieralg.cpp: At global scope:
plieralg.cpp:48: warning: 'g_ErrorCode' defined but not used
g++ -I/loc/biocbuild/1.9d/R/include -I/loc/biocbuild/1.9d/R/include  -I/usr/local/include   -fPIC  -g -O2 -Wall -c rwrapper.cpp -o rwrapper.o
g++ -G -L/usr/local/lib -o plier.so affyplier.o plier_impl.o plieralg.o rwrapper.o   
** R
** help
 >>> Building/Updating help pages for package 'plier'
     Formats: text html latex example 
  justPlier                         text    html    latex   example
** building package indices ...
* DONE (plier)