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Package 257/658HostnameOS / ArchBUILDCHECKBUILD BIN
GeneSelectMMD 2.3.2
Weiliang Qiu
Snapshot Date: 2013-03-23 17:02:20 -0700 (Sat, 23 Mar 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/GeneSelectMMD
Last Changed Rev: 71219 / Revision: 74756
Last Changed Date: 2012-11-14 13:15:22 -0800 (Wed, 14 Nov 2012)
george2 Linux (Ubuntu 12.04.1 LTS) / x86_64  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
petty Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 
pelham Mac OS X Snow Leopard (10.6.8) / x86_64  OK [ OK ] OK 

Summary

Package: GeneSelectMMD
Version: 2.3.2
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch GeneSelectMMD_2.3.2.tar.gz
StartedAt: 2013-03-24 05:34:08 -0700 (Sun, 24 Mar 2013)
EndedAt: 2013-03-24 05:35:23 -0700 (Sun, 24 Mar 2013)
EllapsedTime: 75.0 seconds
RetCode: 0
Status:  OK 
CheckDir: GeneSelectMMD.Rcheck
Warnings: 0

Command output

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/GeneSelectMMD.Rcheck'
* using R version 3.0.0 beta (2013-03-21 r62346)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'GeneSelectMMD/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'GeneSelectMMD' version '2.3.2'
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package 'GeneSelectMMD' can be installed ... [11s/11s] OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over 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 namespace can be loaded with stated dependencies ... OK
* checking whether the namespace 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 ... OK
* 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 line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking compiled code ... NOTE
File '/Users/biocbuild/bbs-2.12-bioc/meat/GeneSelectMMD.Rcheck/GeneSelectMMD/libs/GeneSelectMMD.so':
  Found '__gfortran_st_write', possibly from 'write' (Fortran), 'print'
    (Fortran)
    Objects: 'lbfgsb.o', 'llkhFun.o', 'wiFun.o'

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console.

See 'Writing portable packages' in the 'Writing R Extensions' manual.
* checking installed files from 'inst/doc' ... OK
* checking examples ... [5s/5s] OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK

NOTE: There was 1 note.
See
  '/Users/biocbuild/bbs-2.12-bioc/meat/GeneSelectMMD.Rcheck/00check.log'
for details.

GeneSelectMMD.Rcheck/00install.out:

* installing *source* package 'GeneSelectMMD' ...
** libs
gfortran-4.2 -arch x86_64   -fPIC  -g -O2 -Wall -pedantic  -c Qfunc.f -o Qfunc.o
gfortran-4.2 -arch x86_64   -fPIC  -g -O2 -Wall -pedantic  -c blas.f -o blas.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2  -c isnan.c -o isnan.o
gfortran-4.2 -arch x86_64   -fPIC  -g -O2 -Wall -pedantic  -c lbfgsb.f -o lbfgsb.o
lbfgsb.f: In function 'cauchy':
lbfgsb.f:1409: warning: 'tl' may be used uninitialized in this function
lbfgsb.f:1409: warning: 'tu' may be used uninitialized in this function
gfortran-4.2 -arch x86_64   -fPIC  -g -O2 -Wall -pedantic  -c lbfgsbDriver.f -o lbfgsbDriver.o
gfortran-4.2 -arch x86_64   -fPIC  -g -O2 -Wall -pedantic  -c linpack.f -o linpack.o
gfortran-4.2 -arch x86_64   -fPIC  -g -O2 -Wall -pedantic  -c llkhFun.f -o llkhFun.o
gfortran-4.2 -arch x86_64   -fPIC  -g -O2 -Wall -pedantic  -c myTtest.f -o myTtest.o
gfortran-4.2 -arch x86_64   -fPIC  -g -O2 -Wall -pedantic  -c paraEstLoop.f -o paraEstLoop.o
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=core2 -g -O2  -c pt.c -o pt.o
gfortran-4.2 -arch x86_64   -fPIC  -g -O2 -Wall -pedantic  -c timer.f -o timer.o
gfortran-4.2 -arch x86_64   -fPIC  -g -O2 -Wall -pedantic  -c wiFun.f -o wiFun.o
llvm-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 GeneSelectMMD.so Qfunc.o blas.o isnan.o lbfgsb.o lbfgsbDriver.o linpack.o llkhFun.o myTtest.o paraEstLoop.o pt.o timer.o wiFun.o -L/usr/local/lib/gcc/i686-apple-darwin8/4.2.3/x86_64 -L/usr/local/lib/x86_64 -L/usr/local/lib/gcc/i686-apple-darwin8/4.2.3 -lgfortran -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.12-bioc/meat/GeneSelectMMD.Rcheck/GeneSelectMMD/libs
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   'gsMMD.Rnw' 
** testing if installed package can be loaded
* DONE (GeneSelectMMD)

GeneSelectMMD.Rcheck/GeneSelectMMD-Ex.timings:

nameusersystemelapsed
errRates0.0170.0030.019
gsMMD2.3850.1482.557
gsMMD.default0.1010.0200.122
gsMMD20.0100.0130.024
gsMMD2.default0.0120.0160.029
plotHistDensity0.0070.0100.018