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 'E:/biocbld/bbs-2.3-bioc/meat/flowClust.Rcheck'
* using R version 2.8.1 (2008-12-22)
* using session charset: ISO8859-1
* 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 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 R.css in E:/biocbld/bbs-2.3-bioc/meat/flowClust.Rcheck
---------- Making package flowClust ------------
**********************************************
WARNING: this package has a configure script
It probably needs manual configuration
**********************************************
adding build stamp to DESCRIPTION
installing NAMESPACE file and metadata
making DLL ...
making BoxCox.d from BoxCox.c
making flowClust.d from flowClust.c
making flowClustGaussian.d from flowClustGaussian.c
making ranMVNT.d from ranMVNT.c
gcc -std=gnu99 -Ie:/biocbld/bbs-2.3-bioc/R/include -Ie:/biocbld/bbs-2.3-bioc/R/src/include -IC:/gsl/include -O3 -Wall -c BoxCox.c -o BoxCox.o
gcc -std=gnu99 -Ie:/biocbld/bbs-2.3-bioc/R/include -Ie:/biocbld/bbs-2.3-bioc/R/src/include -IC:/gsl/include -O3 -Wall -c flowClust.c -o flowClust.o
gcc -std=gnu99 -Ie:/biocbld/bbs-2.3-bioc/R/include -Ie:/biocbld/bbs-2.3-bioc/R/src/include -IC:/gsl/include -O3 -Wall -c flowClustGaussian.c -o flowClustGaussian.o
gcc -std=gnu99 -Ie:/biocbld/bbs-2.3-bioc/R/include -Ie:/biocbld/bbs-2.3-bioc/R/src/include -IC:/gsl/include -O3 -Wall -c ranMVNT.c -o ranMVNT.o
windres --preprocessor="gcc -E -xc -DRC_INVOKED" -I e:/biocbld/bbs-2.3-bioc/R/include -i flowClust_res.rc -o flowClust_res.o
gcc -std=gnu99 -shared -s -o flowClust.dll flowClust.def BoxCox.o flowClust.o flowClustGaussian.o ranMVNT.o flowClust_res.o -Le:/biocbld/bbs-2.3-bioc/R/bin -LC:/gsl/bin -lgsl -lgslcblas -lm -lR
Info: resolving _gsl_root_fsolver_brent by linking to __imp__gsl_root_fsolver_brent (auto-importc:/rtools/mingw/bin/../lib/gcc/mingw32/4.2.1-sjlj/../../../../mingw32/bin/ld.exe: warning: auto-importing has been activated without --enable-auto-import specified on the command line.
This should work unless it involves constant data structures referencing symbols from auto-imported DLLs.)
... DLL made
installing DLL
installing R files
installing inst files
installing data files
preparing package flowClust for lazy loading
Loading required package: mnormt
Loading required package: mclust
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
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
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"
installing man source files
installing indices
not zipping data
installing help
>>> Building/Updating help pages for package 'flowClust'
Formats: text html latex example chm
Map text html latex example chm
SimulateMixture text html latex example chm
Subset text html latex chm
box text html latex example chm
density text html latex example chm
dmvt text html latex chm
flowClust-internal text html latex chm
flowClust-package text html latex chm
flowClust text html latex example chm
hist text html latex example chm
miscellaneous text html latex example chm
plot.flowClust text html latex example chm
plot.flowCore text html latex chm
plot.flowDens text html latex chm
rbox text html latex chm
rituximab text html latex chm
ruleOutliers text html latex example chm
show.flowClust text html latex chm
show.tmixFilter text html latex chm
split text html latex chm
summary text html latex chm
tmixFilter text html latex example chm
Microsoft HTML Help Compiler 4.74.8702
Compiling e:\biocbld\bbs-2.3-bioc\meat\flowClust.Rcheck\00_pkg_src\flowClust\chm\flowClust.chm
Compile time: 0 minutes, 0 seconds
23 Topics
272 Local links
0 Internet links
1 Graphic
Created e:\biocbld\bbs-2.3-bioc\meat\flowClust.Rcheck\00_pkg_src\flowClust\chm\flowClust.chm, 56,900 bytes
Compression decreased file by 84,434 bytes.
adding MD5 sums
* DONE (flowClust)