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Package 191/516HostnameOS / ArchBUILDCHECKBUILD BIN
genefilter 1.36.0
Bioconductor Package Maintainer
Snapshot Date: 2012-01-08 18:22:44 -0800 (Sun, 08 Jan 2012)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_9/madman/Rpacks/genefilter
Last Changed Rev: 59920 / Revision: 61898
Last Changed Date: 2011-10-31 15:59:03 -0700 (Mon, 31 Oct 2011)
wilson2 Linux (openSUSE 11.4) / x86_64  OK  OK 
liverpool Windows Server 2003 R2 (32-bit) / x64  OK [ OK ] OK 
gewurz Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
pitt Mac OS X Leopard (10.5.8) / i386  OK  OK  OK 

Summary

Package: genefilter
Version: 1.36.0
Command: E:\biocbld\bbs-2.9-bioc\R\bin\R.exe CMD check --no-vignettes --timings --no-multiarch genefilter_1.36.0.tar.gz
StartedAt: 2012-01-09 03:16:03 -0800 (Mon, 09 Jan 2012)
EndedAt: 2012-01-09 03:17:51 -0800 (Mon, 09 Jan 2012)
EllapsedTime: 107.3 seconds
RetCode: 0
Status:  OK  
CheckDir: genefilter.Rcheck
Warnings: 0

Command output

* using log directory 'E:/biocbld/bbs-2.9-bioc/meat/genefilter.Rcheck'
* using R version 2.14.1 (2011-12-22)
* using platform: i386-pc-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'genefilter/DESCRIPTION' ... OK
* this is package 'genefilter' version '1.36.0'
* 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 whether package 'genefilter' can be installed ... OK
* checking installed package size ... OK
* 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 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 ... NOTE
File 'genefilter/R/zzz.R':
  .onLoad calls:
    require("methods", quietly = TRUE)
    require("Biobase")

Package startup functions should not change the search path.
See section 'Good practice' in ?.onAttach.

Unable to register TclNotifier window class

This application has requested the Runtime to terminate it in an unusual way.
Please contact the application's support team for more information.
* 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 ... NOTE
'library' or 'require' call not declared from: 'ROC'
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... 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 ... OK
* checking examples ... 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

genefilter.Rcheck/00install.out:

* installing *source* package 'genefilter' ...
** libs
g++  -I"E:/biocbld/BBS-2˜1.9-B/R/include"          -O2 -Wall  -mtune=core2 -c half_range_mode.cpp -o half_range_mode.o
gcc  -I"E:/biocbld/BBS-2˜1.9-B/R/include"          -O3 -Wall  -std=gnu99 -mtune=core2 -c init.c -o init.o
gcc  -I"E:/biocbld/BBS-2˜1.9-B/R/include"          -O3 -Wall  -std=gnu99 -mtune=core2 -c nd.c -o nd.o
nd.c: In function 'gf_dist_binary':
nd.c:242:16: warning: unused variable 'w2'
nd.c:242:12: warning: unused variable 'w1'
gcc  -I"E:/biocbld/BBS-2˜1.9-B/R/include"          -O3 -Wall  -std=gnu99 -mtune=core2 -c pAUC.c -o pAUC.o
pAUC.c: In function 'pAUC_c':
pAUC.c:73:9: warning: operation on 'ta' may be undefined
pAUC.c:76:6: warning: operation on 'ta' may be undefined
pAUC.c:79:9: warning: operation on 'ta' may be undefined
pAUC.c: In function 'pAUC':
pAUC.c:141:5: warning: suggest parentheses around comparison in operand of '|'
pAUC.c:123:9: warning: unused variable 'i'
gcc  -I"E:/biocbld/BBS-2˜1.9-B/R/include"          -O3 -Wall  -std=gnu99 -mtune=core2 -c rowPAUCs.c -o rowPAUCs.o
rowPAUCs.c: In function 'ROCpAUC_c':
rowPAUCs.c:97:9: warning: operation on 'ta' may be undefined
rowPAUCs.c:100:6: warning: operation on 'ta' may be undefined
rowPAUCs.c:103:9: warning: operation on 'ta' may be undefined
gcc  -I"E:/biocbld/BBS-2˜1.9-B/R/include"          -O3 -Wall  -std=gnu99 -mtune=core2 -c rowttests.c -o rowttests.o
gfortran      -O3  -mtune=core2 -c ttest.f -o ttest.o
g++ -shared -s -static-libgcc -o genefilter.dll tmp.def half_range_mode.o init.o nd.o pAUC.o rowPAUCs.o rowttests.o ttest.o -lgfortran -LE:/biocbld/BBS-2˜1.9-B/R/bin/i386 -lR
installing to E:/biocbld/bbs-2.9-bioc/meat/genefilter.Rcheck/genefilter/libs/i386
** R
** data
**  moving datasets to lazyload DB
** inst
** preparing package for lazy loading
Creating a generic function for 'plot' from package 'graphics' in package 'genefilter'
** help
*** installing help indices
** building package indices ...
*** tangling vignette sources ...
   'howtogenefilter.Rnw' 
   'howtogenefinder.Rnw' 
   'independent_filtering_plots.Rnw' 
** testing if installed package can be loaded

* DONE (genefilter)

genefilter.Rcheck/genefilter-Ex.timings:

nameusersystemelapsed
Anova0.020.000.02
allNA000
coxfilter0.190.010.22
cv000
dist20.000.000.16
eSetFilter000
filter_volcano000
filtered_p000
filterfun000
findLargest0.500.030.54
gapFilter000
genefilter000
genefinder0.090.000.10
genescale000
half.range.mode4.770.004.76
kOverA000
kappa_p000
maxA000
nsFilter0.390.000.39
pOverA000
rejection_plot000
rowFtests8.880.169.09
rowROC-class0.230.020.25
rowSds000
rowpAUCs1.30.01.3
shorth000
tdata000
ttest0.020.000.02