GlobalAncova 3.5.0
R. Meister
| Snapshot Date: 2007-12-11 00:09:07 -0800 (Tue, 11 Dec 2007) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/GlobalAncova | | Last Changed Rev: 28575 / Revision: 29143 | | Last Changed Date: 2007-11-08 06:29:02 -0800 (Thu, 08 Nov 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 | OK | OK | OK |
| lemming | Windows Server 2003 (32-bit) / x64 | OK | OK | OK |
* checking for working latex ... OK
* using log directory '/loc/home/biocbuild/bbs-2.2-bioc/meat/GlobalAncova.Rcheck'
* using R version 2.7.0 Under development (unstable) (2007-12-09 r43632)
* checking for file 'GlobalAncova/DESCRIPTION' ... OK
* this is package 'GlobalAncova' version '3.5.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'GlobalAncova' 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 GlobalAncova-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' './GlobalAncovaDecomp.tex' ...
LaTeX Warning: Citation `Searle:71' on page 1 undefined on input line 30.
LaTeX Warning: Citation `vV:02' on page 2 undefined on input line 73.
LaTeX Warning: Citation `Groe:06' on page 8 undefined on input line 382.
/usr/bin/texi2dvi: Running pdflatex --file-line-error </dev/null '\nonstopmode' '\input' './GlobalAncovaDecomp.tex' ...
LaTeX Warning: Citation `Searle:71' on page 1 undefined on input line 30.
LaTeX Warning: Citation `vV:02' on page 2 undefined on input line 73.
LaTeX Warning: Citation `Groe:06' on page 8 undefined on input line 382.
/usr/bin/texi2dvi: Running pdflatex --file-line-error </dev/null '\nonstopmode' '\input' './GlobalAncovaDecomp.tex' ...
/usr/bin/texi2dvi: Running pdflatex --file-line-error </dev/null '\nonstopmode' '\input' './GlobalAncova.tex' ...
LaTeX Warning: Citation `GoeMan:07' on page 2 undefined on input line 65.
LaTeX Warning: Citation `Goe:04' on page 3 undefined on input line 115.
LaTeX Warning: Citation `MaMei:05' on page 3 undefined on input line 122.
LaTeX Warning: Citation `Hummel:07' on page 3 undefined on input line 123.
LaTeX Warning: Citation `Gol:99' on page 4 undefined on input line 148.
LaTeX Warning: Citation `Rob:49' on page 5 undefined on input line 217.
LaTeX Warning: Citation `corpcor' on page 5 undefined on input line 223.
LaTeX Warning: Citation `vV:02' on page 8 undefined on input line 434.
LaTeX Warning: Citation `vV:02' on page 10 undefined on input line 532.
LaTeX Warning: Citation `Holm:79' on page 13 undefined on input line 723.
LaTeX Warning: Citation `Mar:76' on page 13 undefined on input line 728.
LaTeX Warning: Citation `Mar:76' on page 14 undefined on input line 775.
LaTeX Warning: Citation `GoeMan:07' on page 16 undefined on input line 883.
LaTeX Warning: Citation `Holm:79' on page 16 undefined on input line 883.
LaTeX Warning: Citation `Mar:76' on page 16 undefined on input line 883.
/usr/bin/texi2dvi: Running pdflatex --file-line-error </dev/null '\nonstopmode' '\input' './GlobalAncova.tex' ...
LaTeX Warning: Citation `GoeMan:07' on page 2 undefined on input line 65.
LaTeX Warning: Citation `Goe:04' on page 3 undefined on input line 115.
LaTeX Warning: Citation `MaMei:05' on page 3 undefined on input line 122.
LaTeX Warning: Citation `Hummel:07' on page 3 undefined on input line 123.
LaTeX Warning: Citation `Gol:99' on page 4 undefined on input line 148.
LaTeX Warning: Citation `Rob:49' on page 5 undefined on input line 217.
LaTeX Warning: Citation `corpcor' on page 5 undefined on input line 223.
LaTeX Warning: Citation `vV:02' on page 8 undefined on input line 434.
LaTeX Warning: Citation `vV:02' on page 10 undefined on input line 532.
LaTeX Warning: Citation `Holm:79' on page 13 undefined on input line 723.
LaTeX Warning: Citation `Mar:76' on page 13 undefined on input line 728.
LaTeX Warning: Citation `Mar:76' on page 14 undefined on input line 775.
LaTeX Warning: Citation `GoeMan:07' on page 16 undefined on input line 883.
LaTeX Warning: Citation `Holm:79' on page 16 undefined on input line 883.
LaTeX Warning: Citation `Mar:76' on page 16 undefined on input line 883.
/usr/bin/texi2dvi: Running pdflatex --file-line-error </dev/null '\nonstopmode' '\input' './GlobalAncova.tex' ...
* creating GlobalAncova-manual.tex ... OK
* checking GlobalAncova-manual.tex ... OK
/loc/home/biocbuild/bbs-2.2-bioc/meat/GlobalAncova.Rcheck
* Installing *source* package 'GlobalAncova' ...
** 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 GlobalAncova.c -o GlobalAncova.o
GlobalAncova.c: In function ‘permut’:
GlobalAncova.c:268: warning: ‘ord_perm’ may be used uninitialized in this function
GlobalAncova.c: In function ‘permut_withFperm’:
GlobalAncova.c:166: warning: ‘ord_perm’ may be used uninitialized in this function
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 ludcmp.c -o ludcmp.o
ludcmp.c:232:24: warning: no newline at end of file
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 matrix.c -o matrix.o
gcc -std=gnu99 -shared -L/usr/local/lib -o GlobalAncova.so GlobalAncova.o ludcmp.o matrix.o -L/home/biocbuild/bbs-2.2-bioc/R/lib -lR
** R
** data
** inst
** preparing package for lazy loading
Loading required package: corpcor
Loading required package: globaltest
Loading required package: multtest
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: survival
Loading required package: splines
Loading required package: AnnotationDbi
Loading required package: DBI
Loading required package: RSQLite
Loading required package: annotate
Loading required package: xtable
** help
>>> Building/Updating help pages for package 'GlobalAncova'
Formats: text html latex example
GAGO text html latex example
GlobalAncova-methods text html latex
GlobalAncova text html latex example
GlobalAncova.closed-methods text html latex
GlobalAncova.closed text html latex
GlobalAncova.decomp text html latex example
Plot.all text html latex example
Plot.genes-methods text html latex
Plot.genes text html latex example
Plot.sequential text html latex example
Plot.subjects-methods text html latex
Plot.subjects text html latex example
colon.normal text html latex example
colon.pheno text html latex example
colon.tumour text html latex example
pair.compare text html latex example
pathways text html latex example
phenodata text html latex example
vantVeer text html latex example
** building package indices ...
* DONE (GlobalAncova)