BioC 2.1: CHECK report for flowCore on lamb1

* checking for working latex ... OK
* using log directory '/home/biocbuild/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 '/home/biocbuild/bbs-2.1-bioc/meat/flowCore.Rcheck/00install.out' for details.
* 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 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
  /home/biocbuild/bbs-2.1-bioc/meat/flowCore.Rcheck/00check.log
for details

* Installing *source* package 'flowCore' ...
** libs
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c biexponential.c -o biexponential.o
gcc -std=gnu99 -I/home/biocbuild/bbs-2.1-bioc/R/include -I/home/biocbuild/bbs-2.1-bioc/R/include  -I/usr/local/include    -fpic  -g -O2 -Wall -c inPolygon.c -o inPolygon.o
gcc -std=gnu99 -shared -L/usr/local/lib64 -o flowCore.so biexponential.o inPolygon.o   -L/home/biocbuild/bbs-2.1-bioc/R/lib -lR
** R
** data
** inst
** preparing package 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
Scalable Robust Estimators with High Breakdown Point (version 0.3-05)
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"
** help
Note: unmatched right brace in 'splitScaleTransform' on or after line 23
 >>> Building/Updating help pages for package 'flowCore'
     Formats: text html latex example 
  GvHD                              text    html    latex
  KmeansFilter                      text    html    latex   example
  Subset-methods                    text    html    latex   example
  arcsinhTransform                  text    html    latex   example
  biexponentialTransform            text    html    latex   example
  coerce                            text    html    latex   example
  compensate                        text    html    latex   example
  each_col                          text    html    latex   example
  ellipsoidGate                     text    html    latex   example
  filter-and-methods                text    html    latex
  filter-class                      text    html    latex
  filter-in-methods                 text    html    latex   example
  filter-on-methods                 text    html    latex   example
  filter                            text    html    latex   example
  filterDetails-methods             text    html    latex
  filterResult-class                text    html    latex   example
  flowFrame-class                   text    html    latex
  flowSet-class                     text    html    latex   example
  fsApply                           text    html    latex   example
  identifier                        text    html    latex   example
  keyword-methods                   text    html    latex   example
  linearTransform                   text    html    latex   example
  lnTransform                       text    html    latex   example
  logTransform                      text    html    latex   example
  logicalFilterResult-class         text    html    latex   example
  logicleTransform                  text    html    latex   example
  multiFilter-class                 text    html    latex   example
  multipleFilterResult-class        text    html    latex   example
  norm2Filter-class                 text    html    latex   example
  parameters                        text    html    latex   example
  print.filterSummary               text    html    latex   example
  quadraticTransform                text    html    latex   example
  randomFilterResult-class          text    html    latex   example
  read.FCS                          text    html    latex   example
  read.FCSheader                    text    html    latex   example
  read.flowSet                      text    html    latex   example
  rectangleGate                     text    html    latex   example
  sampleFilter-class                text    html    latex   example
  scaleTransform                    text    html    latex   example
  setOperationFilter-class          text    html    latex   example
  spillover-flowSet                 text    html    latex
  splitScaleTransform               text    html    latex   example
  transform-class                   text    html    latex   example
  transformFilter-class             text    html    latex   example
  transformList-class               text    html    latex   example
  transformMap-class                text    html    latex   example
  truncateTransform                 text    html    latex   example
** building package indices ...
* 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