flowClust 2.9.0
Raphael Gottardo
| Snapshot Date: 2011-02-24 11:26:35 -0800 (Thu, 24 Feb 2011) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/flowClust | | Last Changed Rev: 50295 / Revision: 53255 | | Last Changed Date: 2010-10-17 22:57:44 -0700 (Sun, 17 Oct 2010) |
| lamb2 | Linux (openSUSE 11.2) / x86_64 | OK | WARNINGS | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | WARNINGS | OK |
| gewurz | Windows Server 2008 R2 Enterprise (64-bit) / x64 | OK | WARNINGS | OK |
| pelham | Mac OS X Leopard (10.5.8) / i386 | OK | [ WARNINGS ] | OK |
| petty | Mac OS X Snow Leopard (10.6.4) / i386 | OK | WARNINGS | OK |
* using log directory ‘/Users/biocbuild/bbs-2.8-bioc/meat/flowClust.Rcheck’
* using R version 2.13.0 Under development (unstable) (2011-01-10 r53950)
* using platform: i386-apple-darwin9.8.0 (32-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘flowClust/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘flowClust’ version ‘2.9.0’
* 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 ... WARNING
Found the following significant warnings:
Warning: 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: 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’
See ‘/Users/biocbuild/bbs-2.8-bioc/meat/flowClust.Rcheck/00install.out’ for details.
* 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 package can be unloaded cleanly ... OK
* checking whether the name space can be loaded with stated dependencies ... OK
* checking whether the name space can be unloaded cleanly ... 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
flowClust: no visible global function definition for ‘mclapply’
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... 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
* checking examples ... OK
* checking package vignettes in ‘inst/doc’ ... SKIPPED
* checking PDF version of manual ... OK
WARNING: There was 1 warning, see
‘/Users/biocbuild/bbs-2.8-bioc/meat/flowClust.Rcheck/00check.log’
for details
* 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 -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include/i386 -I/usr/local/include -fPIC -g -O2 -Wall -pedantic -c BoxCox.c -o BoxCox.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include/i386 -I/usr/local/include -fPIC -g -O2 -Wall -pedantic -c Nu.c -o Nu.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include/i386 -I/usr/local/include -fPIC -g -O2 -Wall -pedantic -c flowClust.c -o flowClust.o
flowClust.c: In function ‘flowClust’:
flowClust.c:49: warning: ‘s’ may be used uninitialized in this function
flowClust.c:49: warning: ‘s2’ may be used uninitialized in this function
flowClust.c:51: warning: ‘s3’ may be used uninitialized in this function
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include/i386 -I/usr/local/include -fPIC -g -O2 -Wall -pedantic -c flowClustGaussian.c -o flowClustGaussian.o
flowClustGaussian.c: In function ‘flowClustGaussian’:
flowClustGaussian.c:33: warning: ‘s’ may be used uninitialized in this function
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include -I/Library/Frameworks/R.framework/Versions/2.13/Resources/include/i386 -I/usr/local/include -fPIC -g -O2 -Wall -pedantic -c ranMVNT.c -o ranMVNT.o
gcc -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 Nu.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
installing to /Users/biocbuild/bbs-2.8-bioc/meat/flowClust.Rcheck/flowClust/libs/i386
** R
** data
** inst
** preparing package for lazy loading
Welcome to Bioconductor
Vignettes contain introductory material. To view, type
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")' and for packages 'citation(pkgname)'.
Loading required package: rrcov
Loading required package: robustbase
Loading required package: pcaPP
Loading required package: mvtnorm
Scalable Robust Estimators with High Breakdown Point (version 1.1-00)
Attaching package: 'flowCore'
The following object(s) are masked from 'package:stats':
alias, filter
Warning: 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: 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
*** installing help indices
** building package indices ...
** testing if installed package can be loaded
* DONE (flowClust)