Package: rflowcyt

Version: 1.8.0

Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check rflowcyt_1.8.0.tar.gz

RetCode: 0

Time: 803.9 seconds

Status: WARNINGS

CheckDir: rflowcyt.Rcheck

Warnings: 1

* checking for working latex ... OK
* using log directory '/Users/biocbuild/bbs-2.0-bioc/meat/rflowcyt.Rcheck'
* using R version 2.5.0 (2007-04-23)
* checking for file 'rflowcyt/DESCRIPTION' ... OK
* this is package 'rflowcyt' version '1.8.0'
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'rflowcyt' can be installed ... OK
* 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 ... WARNING
parallel:
  function(x, data, ...)
parallel.coordinates:
  function(x, varlabpos, variable.names, my.ylab, my.ylim, at.y,
           each.ylab, scaled, group, group.lty, group.col, group.lwd,
           superimpose)

See section 'Generic functions and methods' of the 'Writing R Extensions'
manual.
* 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
* creating rflowcyt-Ex.R ... OK
* checking examples ... OK
* checking tests ...
  Running 'FCSclass-tests.R'
  Running 'FCSgateclass-tests.R'
  Running 'FCSmetadataclass-tests.R'
  Running 'fluors.FCS.R'
  Running 'read.FCS-tests.R'
  Running 'runflowcytests-tests.R'
 OK
* checking package vignettes in 'inst/doc' ... OK
* creating rflowcyt-manual.tex ... OK
* checking rflowcyt-manual.tex ... OK

WARNING: There was 1 warning, see
  /Users/biocbuild/bbs-2.0-bioc/meat/rflowcyt.Rcheck/00check.log
for details

* Installing *source* package 'rflowcyt' ...
** R
** inst
** preparing package for lazy loading
Loading required package: survival
Loading required package: splines
Loading required package: xtable
Loading required package: KernSmooth
KernSmooth 2.22 installed
Copyright M. P. Wand 1997
Loading required package: MASS
Loading required package: grid
Loading required package: hexbin
Loading required package: lattice
Loading required package: rfcdmin
Loading required package: fields
fields is loaded use help(fields) for an overview of this library
Loading required package: locfit
Loading required package: akima
locfit 1.5-3 	 2006-04-06 
Loading required package: splancs
Loading required package: sp

Spatial Point Pattern Analysis Code in S-Plus

 Version 2 - Spatial and Space-Time analysis
Scalable Robust Estimators with High Breakdown Point (version 0.3-05)
Creating a new generic function for "print" in "rflowcyt"
** help
 >>> Building/Updating help pages for package 'rflowcyt'
     Formats: text html latex example 
  ContourScatterPlot                text    html    latex   example
  FCS-class                         text    html    latex   example
  FCSgate-class                     text    html    latex   example
  FCSggobi-class                    text    html    latex   example
  FCSmetadata-class                 text    html    latex   example
  FCSsummary-class                  text    html    latex   example
  FHCRC.HVTNFCS                     text    html    latex   example
  ImageParCoord                     text    html    latex   example
  KS.flowcytest                     text    html    latex   example
  MODE                              text    html    latex   example
  PercentPos.FCS                    text    html    latex   example
  ProbBin.FCS                       text    html    latex   example
  ProbBin.flowcytest                text    html    latex   example
  ROC.FCS                           text    html    latex   example
  VRC.HVTNFCS                       text    html    latex   example
  WLR.flowcytest                    text    html    latex   example
  add.parallel.coordinates          text    html    latex   example
  add.parallelCoordinates           text    html    latex   example
  addParameter-methods              text    html    latex
  boxplot.FCS                       text    html    latex   example
  breakpoints.ProbBin               text    html    latex   example
  checkvars-methods                 text    html    latex
  coerce-FCSformat                  text    html    latex   example
  coerce-methods                    text    html    latex
  convertS3toS4                     text    html    latex   example
  createGate                        text    html    latex   example
  cytoSet-class                     text    html    latex   example
  dim.FCS-methods                   text    html    latex
  emp.f                             text    html    latex   example
  equals-methods                    text    html    latex
  extractGateHistory                text    html    latex   example
  extractGatedData                  text    html    latex   example
  fcs.type                          text    html    latex   example
  fixvars-methods                   text    html    latex
  fluors-methods                    text    html    latex
  gate.IPC                          text    html    latex   example
  get.h                             text    html    latex   example
  get.num.modes                     text    html    latex   example
  get.p                             text    html    latex   example
  ggobi-methods                     text    html    latex
  legend.CSP                        text    html    latex   example
  make.grid                         text    html    latex   example
  metaData-methods                  text    html    latex
  pairs.CSP                         text    html    latex   example
  parallel.coordinates              text    html    latex   example
  parallelCoordinates               text    html    latex   example
  pkci2.flowcytest                  text    html    latex   example
  plot-methods                      text    html    latex
  plot.ProbBin.FCS                  text    html    latex   example
  plot2sets.FCS                     text    html    latex   example
  plotECDF.FCS                      text    html    latex   example
  plotQA.FCS                        text    html    latex   example
  plotdensity.FCS                   text    html    latex   example
  plotvar.FCS                       text    html    latex   example
  print-methods                     text    html    latex
  read.FCS                          text    html    latex   example
  read.series.FCS                   text    html    latex   example
  rect.box.idx                      text    html    latex   example
  rflowcyt-defunct                  text    html    latex
  runflowcytests                    text    html    latex   example
  show-methods                      text    html    latex
  showgate.FCS                      text    html    latex   example
  standard                          text    html    latex   example
  subset-methods                    text    html    latex
  subset2-methods                   text    html    latex
  subset2assign-methods             text    html    latex
  subsetassign-methods              text    html    latex
  summary-methods                   text    html    latex
  summary.ProbBin.FCS               text    html    latex   example
  xgobi.FCS                         text    html    latex   example
** building package indices ...
* DONE (rflowcyt)