flowClust 2.8.0
Raphael Gottardo
| Snapshot Date: 2011-04-06 23:24:01 -0700 (Wed, 06 Apr 2011) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_7/madman/Rpacks/flowClust | | Last Changed Rev: 50293 / Revision: 54588 | | Last Changed Date: 2010-10-17 22:34:23 -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 |
* using log directory 'E:/biocbld/bbs-2.7-bioc/meat/flowClust.Rcheck'
* using R version 2.12.2 (2011-02-25)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'flowClust/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'flowClust' version '2.8.0'
* checking package name space information ... OK
* checking package dependencies ... NOTE
Package which this enhances but not available for checking: multicore
* 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 'E:/biocbld/bbs-2.7-bioc/meat/flowClust.Rcheck/00install.out' for details.
* 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 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) and $(LAPACK_LIBS) ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... SKIPPED
* checking PDF version of manual ... OK
WARNING: There was 1 warning, see
'E:/biocbld/bbs-2.7-bioc/meat/flowClust.Rcheck/00check.log'
for details
* installing *source* package 'flowClust' ...
**********************************************
WARNING: this package has a configure script
It probably needs manual configuration
**********************************************
** libs
gcc -I"E:/biocbld/BBS-2˜1.7-B/R/include" -I/src/include -IC:/gsl/include -O3 -Wall -std=gnu99 -c BoxCox.c -o BoxCox.o
gcc -I"E:/biocbld/BBS-2˜1.7-B/R/include" -I/src/include -IC:/gsl/include -O3 -Wall -std=gnu99 -c Nu.c -o Nu.o
gcc -I"E:/biocbld/BBS-2˜1.7-B/R/include" -I/src/include -IC:/gsl/include -O3 -Wall -std=gnu99 -c flowClust.c -o flowClust.o
flowClust.c: In function 'flowClust':
flowClust.c:49:21: warning: 's' may be used uninitialized in this function
flowClust.c:49:25: warning: 's2' may be used uninitialized in this function
flowClust.c:51:23: warning: 's3' may be used uninitialized in this function
gcc -I"E:/biocbld/BBS-2˜1.7-B/R/include" -I/src/include -IC:/gsl/include -O3 -Wall -std=gnu99 -c flowClustGaussian.c -o flowClustGaussian.o
flowClustGaussian.c: In function 'flowClustGaussian':
flowClustGaussian.c:33:21: warning: 's' may be used uninitialized in this function
gcc -I"E:/biocbld/BBS-2˜1.7-B/R/include" -I/src/include -IC:/gsl/include -O3 -Wall -std=gnu99 -c ranMVNT.c -o ranMVNT.o
gcc -shared -s -static-libgcc -o flowClust.dll tmp.def BoxCox.o Nu.o flowClust.o flowClustGaussian.o ranMVNT.o -LC:/gsl/bin -lgsl -lgslcblas -lm -LE:/biocbld/BBS-2˜1.7-B/R/bin/i386 -lR
Info: resolving _gsl_root_fsolver_brent by linking to __imp__gsl_root_fsolver_brent (auto-import)
Info: resolving _gsl_min_fminimizer_brent by linking to __imp__gsl_min_fminimizer_brent (auto-importc:/rtools212/mingw/bin/../lib/gcc/mingw32/4.5.0/../../../../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.)
installing to E:/biocbld/bbs-2.7-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
'openVignette()'. 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 1.2-01)
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)