GLAD 1.12.0
Philippe Hupe
| Snapshot Date: 2008-04-09 12:13:20 -0700 (Wed, 09 Apr 2008) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_1/madman/Rpacks/GLAD | | Last Changed Rev: 27709 / Revision: 30966 | | Last Changed Date: 2007-10-02 17:41:09 -0700 (Tue, 02 Oct 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 |
| pitt | Mac OS X Tiger (10.4.11) / i386 | OK | OK | OK |
* checking for working latex ... OK
* using log directory 'D:/biocbld/bbs-2.1-bioc/meat/GLAD.Rcheck'
* using R version 2.6.2 (2008-02-08)
* checking for file 'GLAD/DESCRIPTION' ... OK
* this is package 'GLAD' version '1.12.0'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'GLAD' can be installed ... 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 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
plotProfile.profileCGH: no visible binding for global variable
'cytoband'
* 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 ... NOTE
S3 methods shown with full name in documentation object 'arrayPersp':
arrayPersp.default arrayPersp.arrayCGH
S3 methods shown with full name in documentation object 'arrayPlot':
arrayPlot.default arrayPlot.arrayCGH
S3 methods shown with full name in documentation object 'as.data.frame.profileCGH':
as.data.frame.profileCGH
S3 methods shown with full name in documentation object 'as.profileCGH':
as.profileCGH.data.frame
S3 methods shown with full name in documentation object 'daglad':
daglad.profileCGH
S3 methods shown with full name in documentation object 'glad':
glad.profileCGH
S3 methods shown with full name in documentation object 'plotProfile':
plotProfile.profileCGH
The \usage entries for S3 methods should use the \method markup and not
their full name.
See the chapter 'Writing R documentation files' in manual 'Writing R
Extensions'.
* 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 GLAD-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating GLAD-manual.tex ... OK
* checking GLAD-manual.tex ... OK
installing R.css in D:/biocbld/bbs-2.1-bioc/meat/GLAD.Rcheck
---------- Making package GLAD ------------
adding build stamp to DESCRIPTION
making DLL ...
making distance.d from distance.c
making glad-function.d from glad-function.c
making hclust.d from hclust.c
making laws.d from laws.c
making glad.d from glad.cpp
gcc-sjlj -std=gnu99 -Id:/biocbld/bbs-2.1-bioc/R/include -O3 -Wall -c distance.c -o distance.o
gcc-sjlj -std=gnu99 -Id:/biocbld/bbs-2.1-bioc/R/include -O3 -Wall -c glad-function.c -o glad-function.o
gcc-sjlj -std=gnu99 -Id:/biocbld/bbs-2.1-bioc/R/include -O3 -Wall -c hclust.c -o hclust.o
gcc-sjlj -std=gnu99 -Id:/biocbld/bbs-2.1-bioc/R/include -O3 -Wall -c laws.c -o laws.o
g++-sjlj -Id:/biocbld/bbs-2.1-bioc/R/include -O2 -Wall -c glad.cpp -o glad.o
glad.cpp: In function 'void detectOutliers(double*, int*, int*, int*, int*, int*, double*, int*)':
glad.cpp:112: warning: comparison between signed and unsigned integer expressions
windres --preprocessor="gcc-sjlj -E -xc -DRC_INVOKED" -I d:/biocbld/bbs-2.1-bioc/R/include -i GLAD_res.rc -o GLAD_res.o
g++-sjlj -shared -s -o GLAD.dll GLAD.def distance.o glad-function.o hclust.o laws.o glad.o GLAD_res.o -Ld:/biocbld/bbs-2.1-bioc/R/bin -lR
... DLL made
installing DLL
installing R files
installing demos
installing inst files
installing data files
installing man source files
installing indices
not zipping data
installing help
>>> Building/Updating help pages for package 'GLAD'
Formats: text html latex example chm
ChrNumeric text html latex example chm
ColorBar text html latex example chm
GLAD-internal text html latex chm
arrayCGH text html latex example chm
arrayPersp text html latex example chm
arrayPlot text html latex example chm
as.data.frame.profileCGH text html latex example chm
as.profileCGH text html latex example chm
bladder text html latex example chm
cytoband text html latex example chm
daglad text html latex example chm
glad text html latex example chm
hclust text html latex example chm
kernel text html latex chm
myPalette text html latex example chm
plotProfile text html latex example chm
profileCGH text html latex example chm
snijders text html latex example chm
tkdaglad text html latex example chm
veltman text html latex example chm
HHC5012: Error: Cannot create a temporary file in your TEMP path.
HHC4016: Warning: Cannot open "x;c:\gs\gs8.51\bin;c:\Program Files\Java\jdk1.5.0_06\bin;c:\program files\imagemagick-6.3.2-q16;c:\Program Files\MySQL\MySQL Server 5.0\bin;c:\Program Files\ggobi".
Microsoft HTML Help Compiler 4.74.8702
Compiling d:\biocbld\bbs-2.1-bioc\meat\GLAD.Rcheck\00_pkg_src\GLAD\chm\GLAD.chm
HHC4016: Warning: Cannot open "x;c:\gs\gs8.51\bin;c:\Program Files\Java\jdk1.5.0_06\bin;c:\program files\imagemagick-6.3.2-q16;c:\Program Files\MySQL\MySQL Server 5.0\bin;c:\Program Files\ggobi".
The following files were not compiled:
preparing package GLAD for lazy loading
Loading required package: aws
Loading required package: tcltk
Loading Tcl/Tk interface ... done
adding MD5 sums
* DONE (GLAD)