flowClust 1.8.1
Raphael Gottardo
| Bioconductor Changelog | | Snapshot Date: 2009-04-18 11:27:48 -0700 (Sat, 18 Apr 2009) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_3/madman/Rpacks/flowClust | | Last Changed Rev: 37108 / Revision: 38965 | | Last Changed Date: 2009-02-03 15:13:48 -0800 (Tue, 03 Feb 2009) |
| wilson2 | Linux (openSUSE 11.1) / x86_64 | OK | OK | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | OK | OK |
| pitt | Mac OS X Tiger (10.4.11) / i386 | OK | OK | OK |
| pelham | Mac OS X Leopard (10.5.6) / i386 | OK | [ OK ] | OK |
* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.3-bioc/meat/flowClust.Rcheck'
* using R version 2.8.1 Patched (2009-03-18 r48200)
* using session charset: ASCII
* checking for file 'flowClust/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'flowClust' version '1.8.1'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'flowClust' 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 compilation flags in Makevars ... OK
* checking for portable use of $BLAS_LIBS ... OK
* creating flowClust-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating flowClust-manual.tex ... OK
* checking flowClust-manual.tex using pdflatex ... OK
* Installing *source* package 'flowClust' ...
checking for pkg-config... /usr/local/bin/pkg-config
checking pkg-config is at least version 0.9.0... yes
checking for GSL... yes
configure: creating ./config.status
config.status: creating src/Makevars
** libs
** arch - i386
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.8/Resources/include -I/Library/Frameworks/R.framework/Versions/2.8/Resources/include/i386 -I/usr/local/include -fPIC -g -O2 -Wall -c BoxCox.c -o BoxCox.o
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.8/Resources/include -I/Library/Frameworks/R.framework/Versions/2.8/Resources/include/i386 -I/usr/local/include -fPIC -g -O2 -Wall -c flowClust.c -o flowClust.o
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.8/Resources/include -I/Library/Frameworks/R.framework/Versions/2.8/Resources/include/i386 -I/usr/local/include -fPIC -g -O2 -Wall -c flowClustGaussian.c -o flowClustGaussian.o
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.8/Resources/include -I/Library/Frameworks/R.framework/Versions/2.8/Resources/include/i386 -I/usr/local/include -fPIC -g -O2 -Wall -c ranMVNT.c -o ranMVNT.o
gcc-4.2 -arch i386 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o flowClust.so BoxCox.o flowClust.o flowClustGaussian.o ranMVNT.o -L/usr/local/lib -lgsl -lgslcblas -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
** R
** data
** inst
** preparing package for lazy loading
Loading required package: mnormt
Loading required package: mclust
by using mclust, you accept the license agreement in the LICENSE file
and at http://www.stat.washington.edu/mclust/license.txt
Loading required package: ellipse
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: flowCore
Loading required package: rrcov
Loading required package: robustbase
Loading required package: pcaPP
Loading required package: mvtnorm
pcaPP 0.1-1 loaded
Scalable Robust Estimators with High Breakdown Point (version 0.5-01)
Loading required package: feature
Loading required package: KernSmooth
KernSmooth 2.22 installed
Copyright M. P. Wand 1997
Loading required package: rpanel
Loading required package: tcltk
Loading Tcl/Tk interface ... done
Package `rpanel', version 1.0-5
type help(rpanel) for summary information
Loading required package: ks
Attaching package: 'flowCore'
The following object(s) are masked from package:stats :
alias,
filter
Warning in .findOrCopyClass(class2, classDef2, where, "subclass") :
Class "Ulist" is defined (with package slot "rrcov") but no metadata object found to revise subclass information---not exported? Making a copy in package "flowClust"
Warning in .findOrCopyClass(class2, classDef2, where, "subclass") :
Class "Uvector" is defined (with package slot "rrcov") but no metadata object found to revise subclass information---not exported? Making a copy in package "flowClust"
** help
>>> Building/Updating help pages for package 'flowClust'
Formats: text html latex example
Map text html latex example
SimulateMixture text html latex example
Subset text html latex
box text html latex example
density text html latex example
dmvt text html latex
flowClust-internal text html latex
flowClust-package text html latex
flowClust text html latex example
hist text html latex example
miscellaneous text html latex example
plot.flowClust text html latex example
plot.flowCore text html latex
plot.flowDens text html latex
rbox text html latex
rituximab text html latex
ruleOutliers text html latex example
show.flowClust text html latex
show.tmixFilter text html latex
split text html latex
summary text html latex
tmixFilter text html latex example
** building package indices ...
* DONE (flowClust)