xcms 1.12.1
Colin A. Smith
| Snapshot Date: 2008-10-16 00:10:09 -0700 (Thu, 16 Oct 2008) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_2/madman/Rpacks/xcms | | Last Changed Rev: 31623 / Revision: 34573 | | Last Changed Date: 2008-05-12 04:39:45 -0700 (Mon, 12 May 2008) |
| lamb1 | Linux (SUSE 10.1) / x86_64 | OK | OK | |
| wilson2 | Linux (openSUSE 10.3) / x86_64 | OK | OK | |
| wellington | Linux (openSUSE 10.3) / i686 | OK | OK | |
| liverpool | Windows Server 2003 R2 (32-bit) / x64 | OK | [ OK ] | OK |
| pitt | Mac OS X Tiger (10.4.11) / i386 | OK | OK | OK |
* checking for working pdflatex ... OK
* using log directory 'E:/biocbld/bbs-2.2-bioc/meat/xcms.Rcheck'
* using R version 2.7.2 (2008-08-25)
* using session charset: ISO8859-1
* checking for file 'xcms/DESCRIPTION' ... OK
* this is package 'xcms' version '1.12.1'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'xcms' can be installed ... 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 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
running: multiple local function definitions for 'funct' with different
formal arguments
* 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 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
* creating xcms-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating xcms-manual.tex ... OK
* checking xcms-manual.tex using pdflatex ... OK
installing R.css in E:/biocbld/bbs-2.2-bioc/meat/xcms.Rcheck
---------- Making package xcms ------------
adding build stamp to DESCRIPTION
installing NAMESPACE file and metadata
making DLL ...
making base64.d from base64.c
making mzROI.d from mzROI.c
making netCDF.d from netCDF.c
making ramp.d from ramp.c
making rampR.d from rampR.c
making util.d from util.c
making xcms.d from xcms.c
gcc -std=gnu99 -I./win -D_MSC_VER -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c base64.c -o base64.o
base64.c:18: warning: 'encode_group' defined but not used
base64.c:46: warning: 'decode_group' defined but not used
gcc -std=gnu99 -I./win -D_MSC_VER -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c mzROI.c -o mzROI.o
gcc -std=gnu99 -I./win -D_MSC_VER -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c netCDF.c -o netCDF.o
gcc -std=gnu99 -I./win -D_MSC_VER -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c ramp.c -o ramp.o
ramp.c: In function 'readPeaks':
ramp.c:1535: warning: 'multiplier' may be used uninitialized in this function
ramp.c:1534: warning: 'deltaMass' may be used uninitialized in this function
ramp.c:1533: warning: 'lastMass' may be used uninitialized in this function
gcc -std=gnu99 -I./win -D_MSC_VER -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c rampR.c -o rampR.o
gcc -std=gnu99 -I./win -D_MSC_VER -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c util.c -o util.o
gcc -std=gnu99 -I./win -D_MSC_VER -Ie:/biocbld/bbs-2.2-bioc/R/include -O3 -Wall -c xcms.c -o xcms.o
xcms.c: In function 'ProfBinLin':
xcms.c:11: warning: 'ypre' may be used uninitialized in this function
xcms.c:11: warning: 'xpre' may be used uninitialized in this function
xcms.c: In function 'ProfBinLinBase':
xcms.c:62: warning: 'ipre' may be used uninitialized in this function
windres --preprocessor="gcc -E -xc -DRC_INVOKED" -I e:/biocbld/bbs-2.2-bioc/R/include -i xcms_res.rc -o xcms_res.o
gcc -std=gnu99 -shared -s -o xcms.dll xcms.def base64.o mzROI.o netCDF.o ramp.o rampR.o util.o xcms.o xcms_res.o -Le:/biocbld/bbs-2.2-bioc/R/bin -L./win -lws2_32 -lnetcdf -lz -lR
... DLL made
installing DLL
installing R files
installing inst files
preparing package xcms for lazy loading
installing man source files
installing indices
installing help
Note: removing empty section \usage
Note: removing empty section \usage
Note: removing empty section \note
Note: removing empty section \note
Note: removing empty section \note
Note: removing empty section \note
>>> Building/Updating help pages for package 'xcms'
Formats: text html latex example chm
SSgauss text html latex chm
c.xcmsSet text html latex chm
colMax text html latex chm
descendZero text html latex example chm
diffreport-methods text html latex chm
doubleMatrix text html latex chm
etg text html latex chm
fillPeaks-methods text html latex chm
filtfft text html latex chm
findEqualGreater text html latex chm
findPeaks-methods text html latex chm
findPeaks.MSW-methods text html latex chm
findPeaks.centWave-methods text html latex chm
findPeaks.matchedFilter-methods text html latex chm
getEIC-methods text html latex chm
getPeaks-methods text html latex chm
getScan-methods text html latex chm
getSpec-methods text html latex chm
group-methods text html latex chm
groupnames-methods text html latex chm
groupval-methods text html latex chm
image.xcmsRaw text html latex chm
medianFilter text html latex example chm
na.flatfill text html latex chm
netCDF text html latex chm
panel.cor text html latex chm
plot.xcmsEIC text html latex chm
plotChrom-methods text html latex chm
plotPeaks-methods text html latex chm
plotRaw-methods text html latex chm
plotScan-methods text html latex chm
plotSpec-methods text html latex chm
plotSurf-methods text html latex chm
plotTIC-methods text html latex chm
plotrt-methods text html latex chm
profGenerate text html latex chm
profMedFilt-methods text html latex chm
profMethod-methods text html latex chm
profRange-methods text html latex chm
profStep-methods text html latex chm
pval text html latex chm
ramp text html latex chm
rawEIC-methods text html latex chm
rectUnique text html latex example chm
retcor-methods text html latex chm
retexp text html latex chm
sampnames-methods text html latex chm
specNoise text html latex chm
specPeaks text html latex chm
split.xcmsSet text html latex chm
xcmsEIC-class text html latex chm
xcmsRaw-class text html latex chm
xcmsRaw text html latex chm
xcmsSet-class text html latex chm
xcmsSet text html latex chm
Microsoft HTML Help Compiler 4.74.8702
Compiling e:\biocbld\bbs-2.2-bioc\meat\xcms.Rcheck\00_pkg_src\xcms\chm\xcms.chm
Compile time: 0 minutes, 0 seconds
56 Topics
282 Local links
8 Internet links
1 Graphic
Created e:\biocbld\bbs-2.2-bioc\meat\xcms.Rcheck\00_pkg_src\xcms\chm\xcms.chm, 78,903 bytes
Compression decreased file by 128,923 bytes.
adding MD5 sums
* DONE (xcms)