flowClust 1.0.0
Raphael Gottardo
| Snapshot Date: 2008-04-09 00:13:10 -0700 (Wed, 09 Apr 2008) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/flowClust | | Last Changed Rev: 30947 / Revision: 30951 | | Last Changed Date: 2008-04-08 22:34:40 -0700 (Tue, 08 Apr 2008) |
| lamb1 | Linux (SUSE 10.1) / x86_64 | OK | WARNINGS | |
| wilson2 | Linux (openSUSE 10.3) / x86_64 | OK | WARNINGS | |
| wellington | Linux (openSUSE 10.3) / i686 | OK | WARNINGS | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | ERROR | skipped | skipped |
| pelham | Mac OS X Leopard (10.5.1) / i386 | OK | WARNINGS | [ OK ] |
INSTALLATION WITH 'R CMD INSTALL flowClust_1.0.0.tar.gz'
* Installing to library 'flowClust.buildbin-libdir'
* Installing *source* package 'flowClust' ...
checking for g77... no
checking for xlf... no
checking for f77... no
checking for frt... no
checking for pgf77... no
checking for cf77... no
checking for fort77... no
checking for fl32... no
checking for af77... no
checking for xlf90... no
checking for f90... no
checking for pgf90... no
checking for pghpf... no
checking for epcf90... no
checking for gfortran... gfortran
checking for Fortran 77 compiler default output file name... a.out
checking whether the Fortran 77 compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables...
checking for suffix of object files... o
checking whether we are using the GNU Fortran 77 compiler... yes
checking whether gfortran accepts -g... yes
checking how to get verbose linking output from gfortran... -v
checking for Fortran 77 libraries of gfortran... -L/usr/lib/gcc/i686-apple-darwin9/4.2.1 -L/usr/lib/gcc/i686-apple-darwin9/4.2.1/../../.. -lgfortranbegin -lgfortran
checking for gcc... gcc
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking for dummy main to link with Fortran 77 libraries... rm: conftest.dSYM: is a directory
none
checking for Fortran 77 name-mangling scheme... rm: conftest.dSYM: is a directory
lower case, underscore, no extra underscore
checking for sgemm_... no
checking for ATL_xerbla in -latlas... no
checking for sgemm_ in -lblas... yes
checking for dgemm_ in -ldgemm... no
checking for sgemm_ in -lcxml... no
checking for sgemm_ in -ldxml... no
checking for sgemm_ in -lscs... no
checking for sgemm_ in -lcomplib.sgimath... no
checking for sgemm_ in -lblas... (cached) yes
checking for sgemm_ in -lessl... no
checking for sgemm_ in -lblas... (cached) yes
checking for gsl-config... /usr/local/bin/gsl-config
checking for GSL - version >= 1.6... 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/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -I/usr/local/include -fPIC -g -O2 -march=nocona -Wall -c BoxCox.c -o BoxCox.o
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -I/usr/local/include -fPIC -g -O2 -march=nocona -Wall -c flowClust.c -o flowClust.o
flowClust.c: In function 'up_date_z_weight':
flowClust.c:276: warning: unused variable 'row4'
gcc-4.2 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386 -I/usr/local/include -fPIC -g -O2 -march=nocona -Wall -c ranMVNT.c -o ranMVNT.o
ranMVNT.c: In function 'gsl_mahalanobis':
ranMVNT.c:170: warning: 'PrecisionTmp' may be used uninitialized in this function
ranMVNT.c: In function 'gsl_ran_mvngaussian':
ranMVNT.c:110: warning: 'PrecisionTmp' may be used uninitialized in this function
ranMVNT.c: In function 'gsl_ran_mvnt':
ranMVNT.c:139: warning: 'PrecisionTmp' may be used uninitialized in this function
ranMVNT.c: In function 'gsl_ran_mvnt_pdf':
ranMVNT.c:60: warning: 'PrecisionTmp' may be used uninitialized in this function
ranMVNT.c: In function 'gsl_ran_mvngaussian_pdf':
ranMVNT.c:7: warning: 'PrecisionTmp' may be used uninitialized in this function
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 ranMVNT.o -lblas -lgsl -F/Library/Frameworks/R.framework/.. -framework R -lintl -liconv -lc -Wl,-framework -Wl,CoreFoundation
** R
** data
** inst
** preparing package for lazy loading
Loading required package: mnormt
Loading required package: mclust
use of mclust requires a license agreement
see http://www.stat.washington.edu/mclust/license.txt
Loading required package: ellipse
Loading required package: flowCore
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: rrcov
Loading required package: robustbase
Scalable Robust Estimators with High Breakdown Point (version 0.4-05)
Attaching package: 'rrcov'
The following object(s) are masked from package:stats :
biplot,
predict,
screeplot
Loading required package: feature
Loading required package: KernSmooth
KernSmooth 2.22 installed
Copyright M. P. Wand 1997
Loading required package: misc3d
Loading required package: rgl
Attaching package: 'flowCore'
The following object(s) are masked from package:Biobase :
description
The following object(s) are masked from package:stats :
filter
** 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
plot.flowClust text html latex example
plot.flowCore text html latex
plot.flowDens text html latex
posterior text html latex example
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)
INSTALLATION OF ppc LIBS WITH 'R_ARCH=/ppc R CMD INSTALL --libs-only flowClust_1.0.0.tar.gz'
* Installing to library 'flowClust.buildbin-libdir'
* Installing *source* package 'flowClust' ...
checking for g77... no
checking for xlf... no
checking for f77... no
checking for frt... no
checking for pgf77... no
checking for cf77... no
checking for fort77... no
checking for fl32... no
checking for af77... no
checking for xlf90... no
checking for f90... no
checking for pgf90... no
checking for pghpf... no
checking for epcf90... no
checking for gfortran... gfortran
checking for Fortran 77 compiler default output file name... a.out
checking whether the Fortran 77 compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables...
checking for suffix of object files... o
checking whether we are using the GNU Fortran 77 compiler... yes
checking whether gfortran accepts -g... yes
checking how to get verbose linking output from gfortran... -v
checking for Fortran 77 libraries of gfortran... -L/usr/lib/gcc/i686-apple-darwin9/4.2.1 -L/usr/lib/gcc/i686-apple-darwin9/4.2.1/../../.. -lgfortranbegin -lgfortran
checking for gcc... gcc
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking for dummy main to link with Fortran 77 libraries... rm: conftest.dSYM: is a directory
none
checking for Fortran 77 name-mangling scheme... rm: conftest.dSYM: is a directory
lower case, underscore, no extra underscore
checking for sgemm_... no
checking for ATL_xerbla in -latlas... no
checking for sgemm_ in -lblas... yes
checking for dgemm_ in -ldgemm... no
checking for sgemm_ in -lcxml... no
checking for sgemm_ in -ldxml... no
checking for sgemm_ in -lscs... no
checking for sgemm_ in -lcomplib.sgimath... no
checking for sgemm_ in -lblas... (cached) yes
checking for sgemm_ in -lessl... no
checking for sgemm_ in -lblas... (cached) yes
checking for gsl-config... /usr/local/bin/gsl-config
checking for GSL - version >= 1.6... yes
configure: creating ./config.status
config.status: creating src/Makevars
** libs
** arch - ppc
gcc-4.2 -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -fPIC -g -O2 -Wall -c BoxCox.c -o BoxCox.o
gcc-4.2 -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -fPIC -g -O2 -Wall -c flowClust.c -o flowClust.o
flowClust.c: In function 'up_date_z_weight':
flowClust.c:276: warning: unused variable 'row4'
gcc-4.2 -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc -I/usr/local/include -fPIC -g -O2 -Wall -c ranMVNT.c -o ranMVNT.o
ranMVNT.c: In function 'gsl_mahalanobis':
ranMVNT.c:170: warning: 'PrecisionTmp' may be used uninitialized in this function
ranMVNT.c: In function 'gsl_ran_mvngaussian':
ranMVNT.c:110: warning: 'PrecisionTmp' may be used uninitialized in this function
ranMVNT.c: In function 'gsl_ran_mvnt':
ranMVNT.c:139: warning: 'PrecisionTmp' may be used uninitialized in this function
ranMVNT.c: In function 'gsl_ran_mvnt_pdf':
ranMVNT.c:60: warning: 'PrecisionTmp' may be used uninitialized in this function
ranMVNT.c: In function 'gsl_ran_mvngaussian_pdf':
ranMVNT.c:7: warning: 'PrecisionTmp' may be used uninitialized in this function
gcc-4.2 -arch ppc -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 ranMVNT.o -lblas -lgsl -F/Library/Frameworks/R.framework/.. -framework R -lintl -liconv -lc -Wl,-framework -Wl,CoreFoundation
* DONE (flowClust)
INSTALLATION OF x86_64 LIBS WITH 'R_ARCH=/x86_64 R CMD INSTALL --libs-only flowClust_1.0.0.tar.gz'
* Installing to library 'flowClust.buildbin-libdir'
* Installing *source* package 'flowClust' ...
checking for g77... no
checking for xlf... no
checking for f77... no
checking for frt... no
checking for pgf77... no
checking for cf77... no
checking for fort77... no
checking for fl32... no
checking for af77... no
checking for xlf90... no
checking for f90... no
checking for pgf90... no
checking for pghpf... no
checking for epcf90... no
checking for gfortran... gfortran
checking for Fortran 77 compiler default output file name... a.out
checking whether the Fortran 77 compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables...
checking for suffix of object files... o
checking whether we are using the GNU Fortran 77 compiler... yes
checking whether gfortran accepts -g... yes
checking how to get verbose linking output from gfortran... -v
checking for Fortran 77 libraries of gfortran... -L/usr/lib/gcc/i686-apple-darwin9/4.2.1 -L/usr/lib/gcc/i686-apple-darwin9/4.2.1/../../.. -lgfortranbegin -lgfortran
checking for gcc... gcc
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking for dummy main to link with Fortran 77 libraries... rm: conftest.dSYM: is a directory
none
checking for Fortran 77 name-mangling scheme... rm: conftest.dSYM: is a directory
lower case, underscore, no extra underscore
checking for sgemm_... no
checking for ATL_xerbla in -latlas... no
checking for sgemm_ in -lblas... yes
checking for dgemm_ in -ldgemm... no
checking for sgemm_ in -lcxml... no
checking for sgemm_ in -ldxml... no
checking for sgemm_ in -lscs... no
checking for sgemm_ in -lcomplib.sgimath... no
checking for sgemm_ in -lblas... (cached) yes
checking for sgemm_ in -lessl... no
checking for sgemm_ in -lblas... (cached) yes
checking for gsl-config... /usr/local/bin/gsl-config
checking for GSL - version >= 1.6... yes
configure: creating ./config.status
config.status: creating src/Makevars
** libs
** arch - x86_64
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/usr/local/include -fPIC -g -O2 -Wall -c BoxCox.c -o BoxCox.o
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/usr/local/include -fPIC -g -O2 -Wall -c flowClust.c -o flowClust.o
flowClust.c: In function 'up_date_z_weight':
flowClust.c:276: warning: unused variable 'row4'
gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/x86_64 -I/usr/local/include -fPIC -g -O2 -Wall -c ranMVNT.c -o ranMVNT.o
ranMVNT.c: In function 'gsl_mahalanobis':
ranMVNT.c:170: warning: 'PrecisionTmp' may be used uninitialized in this function
ranMVNT.c: In function 'gsl_ran_mvngaussian':
ranMVNT.c:110: warning: 'PrecisionTmp' may be used uninitialized in this function
ranMVNT.c: In function 'gsl_ran_mvnt':
ranMVNT.c:139: warning: 'PrecisionTmp' may be used uninitialized in this function
ranMVNT.c: In function 'gsl_ran_mvnt_pdf':
ranMVNT.c:60: warning: 'PrecisionTmp' may be used uninitialized in this function
ranMVNT.c: In function 'gsl_ran_mvngaussian_pdf':
ranMVNT.c:7: warning: 'PrecisionTmp' may be used uninitialized in this function
gcc-4.2 -arch x86_64 -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 ranMVNT.o -lblas -lgsl -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
* DONE (flowClust)