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Package 175/251HostnameOS / ArchBUILDCHECKBUILD BIN
plw 0.99.2
Magnus Astrand
Snapshot Date: 2007-12-11 00:09:07 -0800 (Tue, 11 Dec 2007)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/plw
Last Changed Rev: 29054 / Revision: 29143
Last Changed Date: 2007-12-05 15:29:37 -0800 (Wed, 05 Dec 2007)
lamb1 Linux (SUSE 10.1) / x86_64  OK  OK 
wilson2 Linux (openSUSE 10.3) / x86_64  OK  OK 
wellington Linux (openSUSE 10.3) / i686  OK [ OK ]
liverpool Windows Server 2003 R2 (32-bit) / x64  ERROR  skipped  skipped 
lemming Windows Server 2003 (32-bit) / x64  ERROR  skipped  skipped 
Package: plw
Version: 0.99.2
Command: /home/biocbuild/bbs-2.2-bioc/R/bin/R CMD check plw_0.99.2.tar.gz
StartedAt: 2007-12-11 07:54:14 -0800 (Tue, 11 Dec 2007)
EndedAt: 2007-12-11 07:57:39 -0800 (Tue, 11 Dec 2007)
EllapsedTime: 205.0 seconds
RetCode: 0
Status: OK
CheckDir: plw.Rcheck
Warnings: 0

Command output

* checking for working latex ... OK
* using log directory '/loc/home/biocbuild/bbs-2.2-bioc/meat/plw.Rcheck'
* using R version 2.7.0 Under development (unstable) (2007-12-09 r43632)
* checking for file 'plw/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'plw' version '0.99.2'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'plw' 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 whether the name space 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 ... OK
* 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 data for non-ASCII characters ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable use of $BLAS_LIBS ... OK
* creating plw-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... NOTE
--- running texi2dvi on vignettes
/usr/bin/texi2dvi: Running pdflatex --file-line-error </dev/null '\nonstopmode' '\input' './HowToPLW.tex' ...
Package natbib Warning: Citation `Astrand:2007c' on page 1 undefined on input l
Package natbib Warning: Citation `Astrand:2007c' on page 1 undefined on input l
Package natbib Warning: Citation `Kristiansson:2005' on page 1 undefined on inp
Package natbib Warning: Citation `Kristiansson:2006' on page 1 undefined on inp
Package natbib Warning: Citation `Sjogren:2007' on page 1 undefined on input li
Package natbib Warning: Citation `Astrand:2007b' on page 1 undefined on input l
Package natbib Warning: Citation `Cope:2004' on page 1 undefined on input line 
Package natbib Warning: Citation `Astrand:2007c' on page 3 undefined on input l
Package natbib Warning: Citation `Astrand:2007c' on page 9 undefined on input l
Package natbib Warning: Citation `Callow:2000' on page 9 undefined on input lin
Package natbib Warning: Citation `Callow:2000' on page 9 undefined on input lin
/usr/bin/texi2dvi: Running pdflatex --file-line-error </dev/null '\nonstopmode' '\input' './HowToPLW.tex' ...
* creating plw-manual.tex ... OK
* checking plw-manual.tex ... OK

plw.Rcheck/00install.out:

/loc/home/biocbuild/bbs-2.2-bioc/meat/plw.Rcheck
* Installing *source* package 'plw' ...
** libs
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c SpecialFunctions.c -o SpecialFunctions.o
SpecialFunctions.c: In function ‘getPosteriorMeansAndOdds’:
SpecialFunctions.c:20: warning: unused variable ‘j’
SpecialFunctions.c: In function ‘order_stat_by_index’:
SpecialFunctions.c:565: warning: suggest parentheses around comparison in operand of &
SpecialFunctions.c: In function ‘median_by_index’:
SpecialFunctions.c:594: warning: suggest parentheses around comparison in operand of &
SpecialFunctions.c: In function ‘mad_by_index’:
SpecialFunctions.c:616: warning: suggest parentheses around comparison in operand of &
SpecialFunctions.c: In function ‘mean_by_index’:
SpecialFunctions.c:639: warning: suggest parentheses around comparison in operand of &
SpecialFunctions.c: In function ‘sd_by_index’:
SpecialFunctions.c:662: warning: suggest parentheses around comparison in operand of &
gcc -std=gnu99 -I/home/biocbuild/bbs-2.2-bioc/R/include -I/home/biocbuild/bbs-2.2-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c SpecialOptim.c -o SpecialOptim.o
SpecialOptim.c:10: warning: ‘matrix’ defined but not used
gcc -std=gnu99 -shared -L/usr/local/lib -o plw.so SpecialFunctions.o SpecialOptim.o   -L/home/biocbuild/bbs-2.2-bioc/R/lib -lR
** R
** data
** inst
** preparing package for lazy loading
Loading required package: MASS
Loading required package: affy
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: affyio
Loading required package: preprocessCore
Loading required package: splines
** help
 >>> Building/Updating help pages for package 'plw'
     Formats: text html latex example 
  AffySpikeU95Subset                text    html    latex
  estimateMVbeta                    text    html    latex
  estimateSigma                     text    html    latex
  estimateSigmaMV                   text    html    latex
  estimateSigmaMVbeta               text    html    latex
  getKnots                          text    html    latex
  lmw                               text    html    latex   example
  logitT                            text    html    latex   example
  plw-package                       text    html    latex
  plw                               text    html    latex   example
  scaleParameterPlot                text    html    latex   example
  statByIndex                       text    html    latex   example
  topRankSummary                    text    html    latex   example
  varHistPlot                       text    html    latex   example
** building package indices ...
* DONE (plw)