genefilter 1.17.12
Biocore Team c/o BioC user list
| Snapshot Date: 2008-04-09 00:13:10 -0700 (Wed, 09 Apr 2008) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/genefilter | | Last Changed Rev: 30894 / Revision: 30951 | | Last Changed Date: 2008-04-07 15:55:38 -0700 (Mon, 07 Apr 2008) |
| lamb1 | Linux (SUSE 10.1) / x86_64 | OK | WARNINGS | |
| wilson2 | Linux (openSUSE 10.3) / x86_64 | OK | WARNINGS | |
| wellington | Linux (openSUSE 10.3) / i686 | OK | WARNINGS | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | [ WARNINGS ] | OK |
| pelham | Mac OS X Leopard (10.5.1) / i386 | OK | WARNINGS | OK |
* checking for working pdflatex ... OK
* using log directory 'E:/biocbld/bbs-2.2-bioc/meat/genefilter.Rcheck'
* using R version 2.7.0 Under development (unstable) (2008-03-10 r44730)
* using session charset: ISO8859-1
* checking for file 'genefilter/DESCRIPTION' ... OK
* this is package 'genefilter' version '1.17.12'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'genefilter' can be installed ... WARNING
Found the following significant warnings:
Warning: missing text for item 'remove.dupEntrez=TRUE' in \describe
Warning: missing text for item 'remove.dupEntrez=TRUE' in \describe
See 'E:/biocbld/bbs-2.2-bioc/meat/genefilter.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 name space can be loaded with stated dependencies ... 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
eSetFilter : buildGUI: no visible binding for '<<-' assignment to 'END'
eSetFilter : buildGUI : finish: no visible binding for '<<-' assignment
to 'END'
eSetFilter : buildGUI: no visible binding for global variable 'END'
* checking Rd files ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... 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 use of $BLAS_LIBS ... OK
* creating genefilter-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating genefilter-manual.tex ... OK
* checking genefilter-manual.tex using pdflatex ... OK
WARNING: There was 1 warning, see
E:/biocbld/bbs-2.2-bioc/meat/genefilter.Rcheck/00check.log
for details
installing R.css in E:/biocbld/bbs-2.2-bioc/meat/genefilter.Rcheck
---------- Making package genefilter ------------
adding build stamp to DESCRIPTION
installing NAMESPACE file and metadata
making DLL ...
making init.d from init.c
making nd.d from nd.c
making pAUC.d from pAUC.c
making rowPAUCs.d from rowPAUCs.c
making rowttests.d from rowttests.c
making half_range_mode.d from half_range_mode.cpp
gcc -std=gnu99 -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c init.c -o init.o
gcc -std=gnu99 -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c nd.c -o nd.o
nd.c: In function 'gf_dist_binary':
nd.c:242: warning: unused variable 'w2'
nd.c:242: warning: unused variable 'w1'
gcc -std=gnu99 -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c pAUC.c -o pAUC.o
pAUC.c: In function 'pAUC_c':
pAUC.c:75: warning: operation on 'ta' may be undefined
pAUC.c:78: warning: operation on 'ta' may be undefined
pAUC.c:81: warning: operation on 'ta' may be undefined
pAUC.c: In function 'pAUC':
pAUC.c:142: warning: suggest parentheses around comparison in operand of |
pAUC.c:124: warning: unused variable 'i'
pAUC.c: In function 'pAUC_c':
pAUC.c:22: warning: 'ysum' may be used uninitialized in this function
pAUC.c:22: warning: 'xsum' may be used uninitialized in this function
gcc -std=gnu99 -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c rowPAUCs.c -o rowPAUCs.o
rowPAUCs.c: In function 'ROCpAUC_c':
rowPAUCs.c:97: warning: operation on 'ta' may be undefined
rowPAUCs.c:100: warning: operation on 'ta' may be undefined
rowPAUCs.c:103: warning: operation on 'ta' may be undefined
gcc -std=gnu99 -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c rowttests.c -o rowttests.o
gfortran -O3 -c ttest.f -o ttest.o
g++ -Ie:/biocbld/bbs-2.2-bioc/R/include -O2 -Wall -c half_range_mode.cpp -o half_range_mode.o
half_range_mode.cpp: In function 'double half_range_mode(double*, double*, double, int)':
half_range_mode.cpp:101: warning: deprecated conversion from string constant to 'char*'
windres --preprocessor="gcc -E -xc -DRC_INVOKED" -I e:/biocbld/bbs-2.2-bioc/R/include -i genefilter_res.rc -o genefilter_res.o
g++ -shared -s -o genefilter.dll genefilter.def init.o nd.o pAUC.o rowPAUCs.o rowttests.o ttest.o half_range_mode.o genefilter_res.o -Le:/biocbld/bbs-2.2-bioc/R/bin -lgfortran -lR
... DLL made
installing DLL
installing R files
installing inst files
installing data files
preparing package genefilter for lazy loading
Loading required package: Biobase
Loading required package: tools
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: survival
Loading required package: splines
Creating a new generic function for "plot" in "genefilter"
preparing package genefilter for lazy data loading
installing man source files
installing indices
installing help
Warning: missing text for item 'remove.dupEntrez=TRUE' in \describe
Warning: missing text for item 'remove.dupEntrez=TRUE' in \describe
>>> Building/Updating help pages for package 'genefilter'
Formats: text html latex example chm
Anova text html latex example chm
allNA text html latex example chm
coxfilter text html latex example chm
cv text html latex example chm
dist2 text html latex example chm
eSetFilter text html latex example chm
filterfun text html latex example chm
findLargest text html latex example chm
gapFilter text html latex example chm
genefilter text html latex example chm
genefinder text html latex example chm
genescale text html latex example chm
half.range.mode text html latex example chm
kOverA text html latex example chm
maxA text html latex example chm
nsFilter text html latex example chm
pOverA text html latex example chm
rowFtests text html latex example chm
rowROC-class text html latex example chm
rowSds text html latex example chm
rowpAUCs text html latex example chm
shorth text html latex example chm
tdata text html latex example chm
ttest text html latex example chm
Microsoft HTML Help Compiler 4.74.8702
Compiling e:\biocbld\bbs-2.2-bioc\meat\genefilter.Rcheck\00_pkg_src\genefilter\chm\genefilter.chm
Compile time: 0 minutes, 4 seconds
25 Topics
126 Local links
2 Internet links
1 Graphic
Created e:\biocbld\bbs-2.2-bioc\meat\genefilter.Rcheck\00_pkg_src\genefilter\chm\genefilter.chm, 59,795 bytes
Compression decreased file by 55,381 bytes.
adding MD5 sums
* DONE (genefilter)