BioC 2.1: CHECK report for flowCore on lemming

* checking for working latex ... OK
* using log directory 'D:/biocbld/bbs-2.1-bioc/meat/flowCore.Rcheck'
* using R version 2.6.0 Under development (unstable) (2007-06-03 r41797)
* checking for file 'flowCore/DESCRIPTION' ... OK
* this is package 'flowCore' version '1.1.6'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'flowCore' can be installed ... WARNING
Found the following significant warnings:
  Warning: argument in method definition changed from (e1) to (x)
See 'D:/biocbld/bbs-2.1-bioc/meat/flowCore.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 ... OK
* 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 for CRLF line endings in C/C++/Fortran sources/headers ... OK
* checking for portable use of $BLAS_LIBS ... OK
* creating flowCore-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating flowCore-manual.tex ... OK
* checking flowCore-manual.tex ... OK

WARNING: There was 1 warning, see
  D:/biocbld/bbs-2.1-bioc/meat/flowCore.Rcheck/00check.log
for details

installing R.css in D:/biocbld/bbs-2.1-bioc/meat/flowCore.Rcheck


---------- Making package flowCore ------------
  adding build stamp to DESCRIPTION
  installing NAMESPACE file and metadata
  making DLL ...
making biexponential.d from biexponential.c
making inPolygon.d from inPolygon.c
gcc   -Id:/biocbld/bbs-2.1-bioc/R/include  -Wall -O3 -std=gnu99   -c biexponential.c -o biexponential.o
gcc   -Id:/biocbld/bbs-2.1-bioc/R/include  -Wall -O3 -std=gnu99   -c inPolygon.c -o inPolygon.o
windres -I d:/biocbld/bbs-2.1-bioc/R/include  -i flowCore_res.rc -o flowCore_res.o
gcc  -shared -s  -o flowCore.dll flowCore.def biexponential.o inPolygon.o flowCore_res.o  -Ld:/biocbld/bbs-2.1-bioc/R/bin    -lR
  ... DLL made
  installing DLL
  installing R files
  installing inst files
  installing data files
  installing man source files
  installing indices
  not zipping data
  installing help
Note: unmatched right brace in 'splitScaleTransform' on or after line 23
Note: unmatched right brace in 'splitScaleTransform.Rd' on or after line 23
 >>> Building/Updating help pages for package 'flowCore'
     Formats: text html latex example chm 
  GvHD                              text    html    latex           chm
  KmeansFilter                      text    html    latex   example chm
  Subset-methods                    text    html    latex   example chm
  arcsinhTransform                  text    html    latex   example chm
  biexponentialTransform            text    html    latex   example chm
  coerce                            text    html    latex   example chm
  compensate                        text    html    latex   example chm
  each_col                          text    html    latex   example chm
  ellipsoidGate                     text    html    latex   example chm
  filter-and-methods                text    html    latex           chm
  filter-class                      text    html    latex           chm
  filter-in-methods                 text    html    latex   example chm
  filter-on-methods                 text    html    latex   example chm
  filter                            text    html    latex   example chm
  filterDetails-methods             text    html    latex           chm
  filterResult-class                text    html    latex   example chm
  flowFrame-class                   text    html    latex           chm
  flowSet-class                     text    html    latex   example chm
  fsApply                           text    html    latex   example chm
  identifier                        text    html    latex   example chm
  keyword-methods                   text    html    latex   example chm
  linearTransform                   text    html    latex   example chm
  lnTransform                       text    html    latex   example chm
  logTransform                      text    html    latex   example chm
  logicalFilterResult-class         text    html    latex   example chm
  logicleTransform                  text    html    latex   example chm
  multiFilter-class                 text    html    latex   example chm
  multipleFilterResult-class        text    html    latex   example chm
  norm2Filter-class                 text    html    latex   example chm
  parameters                        text    html    latex   example chm
  print.filterSummary               text    html    latex   example chm
  quadraticTransform                text    html    latex   example chm
  randomFilterResult-class          text    html    latex   example chm
  read.FCS                          text    html    latex   example chm
  read.FCSheader                    text    html    latex   example chm
  read.flowSet                      text    html    latex   example chm
  rectangleGate                     text    html    latex   example chm
  sampleFilter-class                text    html    latex   example chm
  scaleTransform                    text    html    latex   example chm
  setOperationFilter-class          text    html    latex   example chm
  spillover-flowSet                 text    html    latex           chm
  splitScaleTransform               text    html    latex   example chm
  transform-class                   text    html    latex   example chm
  transformFilter-class             text    html    latex   example chm
  transformList-class               text    html    latex   example chm
  transformMap-class                text    html    latex   example chm
  truncateTransform                 text    html    latex   example chm
Microsoft HTML Help Compiler 4.74.8702

Compiling d:\biocbld\bbs-2.1-bioc\meat\flowCore.Rcheck\00_pkg_src\flowCore\chm\flowCore.chm


Compile time: 0 minutes, 0 seconds
48	Topics
396	Local links
2	Internet links
1	Graphic


Created d:\biocbld\bbs-2.1-bioc\meat\flowCore.Rcheck\00_pkg_src\flowCore\chm\flowCore.chm, 76,181 bytes
Compression decreased file by 140,997 bytes.
  preparing package flowCore 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: rrcov
KernSmooth 2.22 installed
Copyright M. P. Wand 1997
Warning: argument in method definition changed from (e1) to (x)
Creating a new generic function for "colnames" in "flowCore"
Creating a new generic function for "colnames<-" in "flowCore"
Creating a new generic function for "nrow" in "flowCore"
Creating a new generic function for "ncol" in "flowCore"
  adding MD5 sums

* DONE (flowCore)

Package 71/238	Hostname	OS	Arch	BUILD	CHECK	BUILD BIN
flowCore 1.1.6 Nolwenn Le Meur Last Changed Date: 2007-05-30 16:58:48 -0700 Last Changed Rev: 25068	lamb1	Linux (SUSE 10.1)	x86_64	OK	WARNINGS
	wellington	Linux (SUSE 9.2)	i686	OK	WARNINGS
	churchill	Solaris 2.9	sparc	OK	WARNINGS
	lemming	Windows Server 2003 (32-bit)	x64	OK	[ WARNINGS ]	skipped

flowCore

1.1.6

Command output