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Package 252/389HostnameOS / ArchBUILDCHECKBUILD BIN
multtest 2.4.0
Katherine S. Pollard
Snapshot Date: 2010-10-04 11:22:20 -0700 (Mon, 04 Oct 2010)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_6/madman/Rpacks/multtest
Last Changed Rev: 46467 / Revision: 49923
Last Changed Date: 2010-04-23 09:18:01 -0700 (Fri, 23 Apr 2010)
wilson1 Linux (openSUSE 11.1) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK  OK  OK 
gewurz Windows Server 2008 R2 Enterprise (64-bit) / x64  OK  OK  OK 
pelham Mac OS X Leopard (10.5.8) / i386  OK [ OK ] OK 

Summary

Package: multtest
Version: 2.4.0
Command: /Library/Frameworks/R.framework/Versions/2.11/Resources/bin/R CMD check --no-vignettes --timings multtest_2.4.0.tar.gz
StartedAt: 2010-10-04 17:56:55 -0700 (Mon, 04 Oct 2010)
EndedAt: 2010-10-04 17:58:22 -0700 (Mon, 04 Oct 2010)
EllapsedTime: 87.0 seconds
RetCode: 0
Status:  OK 
CheckDir: multtest.Rcheck
Warnings: 0

Command output

* checking for working pdflatex ... OK
* using log directory '/Users/biocbuild/bbs-2.6-bioc/meat/multtest.Rcheck'
* using R version 2.11.1 Patched (2010-05-31 r52167)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'multtest/DESCRIPTION' ... OK
* this is package 'multtest' version '2.4.0'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'multtest' can be installed ... OK
* 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
EBMTP: no visible global function definition for ‘makeCluster’
EBMTP: no visible global function definition for ‘clusterEvalQ’
EBMTP: no visible global function definition for ‘stopCluster’
EBMTP: no visible binding for global variable ‘V’
EBMTP: no visible binding for global variable ‘S’
MTP: no visible global function definition for ‘makeCluster’
MTP: no visible global function definition for ‘clusterEvalQ’
MTP: no visible global function definition for ‘stopCluster’
boot.null: no visible global function definition for ‘clusterApply’
boot.null: no visible global function definition for ‘clusterApplyLB’
lmX : <anonymous>: no visible global function definition for ‘rlm’
lmY : <anonymous>: no visible global function definition for ‘rlm’
* 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 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 PDF version of manual ... OK

multtest.Rcheck/00install.out:

* install options are ' --no-html'

* installing *source* package ‘multtest’ ...
** libs
*** arch - i386
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/i386  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c Rpack.c -o Rpack.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/i386  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c VScount.c -o VScount.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/i386  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c block_sampling_fixed.c -o block_sampling_fixed.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/i386  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c bootloop.c -o bootloop.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/i386  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c mt.c -o mt.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/i386  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c pairt_sampling.c -o pairt_sampling.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/i386  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c pairt_sampling_fixed.c -o pairt_sampling_fixed.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/i386  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c random.c -o random.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/i386  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c sampling.c -o sampling.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/i386  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c sampling_fixed.c -o sampling_fixed.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/i386  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c stat_func.c -o stat_func.o
gcc -arch i386 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/i386  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c stat_order.c -o stat_order.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 multtest.so Rpack.o VScount.o block_sampling_fixed.o bootloop.o mt.o pairt_sampling.o pairt_sampling_fixed.o random.o sampling.o sampling_fixed.o stat_func.o stat_order.o -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.6-bioc/meat/multtest.Rcheck/multtest/libs/i386
*** arch - ppc
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/ppc  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c Rpack.c -o Rpack.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/ppc  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c VScount.c -o VScount.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/ppc  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c block_sampling_fixed.c -o block_sampling_fixed.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/ppc  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c bootloop.c -o bootloop.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/ppc  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c mt.c -o mt.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/ppc  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c pairt_sampling.c -o pairt_sampling.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/ppc  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c pairt_sampling_fixed.c -o pairt_sampling_fixed.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/ppc  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c random.c -o random.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/ppc  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c sampling.c -o sampling.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/ppc  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c sampling_fixed.c -o sampling_fixed.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/ppc  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c stat_func.c -o stat_func.o
gcc -arch ppc -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/ppc  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c stat_order.c -o stat_order.o
gcc -arch ppc -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o multtest.so Rpack.o VScount.o block_sampling_fixed.o bootloop.o mt.o pairt_sampling.o pairt_sampling_fixed.o random.o sampling.o sampling_fixed.o stat_func.o stat_order.o -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.6-bioc/meat/multtest.Rcheck/multtest/libs/ppc
*** arch - x86_64
gcc -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/x86_64  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c Rpack.c -o Rpack.o
gcc -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/x86_64  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c VScount.c -o VScount.o
gcc -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/x86_64  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c block_sampling_fixed.c -o block_sampling_fixed.o
gcc -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/x86_64  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c bootloop.c -o bootloop.o
gcc -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/x86_64  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c mt.c -o mt.o
gcc -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/x86_64  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c pairt_sampling.c -o pairt_sampling.o
gcc -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/x86_64  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c pairt_sampling_fixed.c -o pairt_sampling_fixed.o
gcc -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/x86_64  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c random.c -o random.o
gcc -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/x86_64  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c sampling.c -o sampling.o
gcc -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/x86_64  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c sampling_fixed.c -o sampling_fixed.o
gcc -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/x86_64  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c stat_func.c -o stat_func.o
gcc -arch x86_64 -std=gnu99 -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include -I/Library/Frameworks/R.framework/Versions/2.11/Resources/include/x86_64  -I/usr/local/include   -DUSEDOUBLE -fPIC  -g -O2 -Wall -pedantic -c stat_order.c -o stat_order.o
gcc -arch x86_64 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -o multtest.so Rpack.o VScount.o block_sampling_fixed.o bootloop.o mt.o pairt_sampling.o pairt_sampling_fixed.o random.o sampling.o sampling_fixed.o stat_func.o stat_order.o -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.6-bioc/meat/multtest.Rcheck/multtest/libs/x86_64
** 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)'.

Creating a new generic function for "as.list" in "multtest"
** help
*** installing help indices
** building package indices ...
** testing if installed package can be loaded

* DONE (multtest)

multtest.Rcheck/multtest-Ex.timings:

nameusersystemelapsed
EBMTP-class0.0010.0000.001
EBMTP0.4510.0090.462
Hsets0.4950.0080.503
MTP-class000
MTP0.7880.0040.794
boot.null0.1470.0010.149
corr.null0.0510.0080.059
fwer2gfwer7.4730.0277.539
get.index1.5020.0151.522
meanX0.0130.0010.014
mt.maxT 9.885 0.05810.033
mt.plot0.5670.0080.577
mt.rawp2adjp0.5200.0060.529
mt.reject0.5110.0070.519
mt.sample.teststat0.0950.0060.128
mt.teststat0.3370.0410.382
ss.maxT0.0010.0000.000
wapply0.0020.0010.002