2005-04-04 10:58  tag release_2_0_6

2005-04-04 10:58  warnes

	* NEWS: Update for release 2.0.6.

2005-04-04 10:23  warnes

	* gplots/R/overplot.R: Explicitly reference package containing
	  lowess.formula in panel.overplot().  This should fix the error
	  reported by Troels Ring <tring@gvdnet.dk>.

2005-04-02 00:53  tag release_2_0_5

2005-04-02 00:53  warnes

	* TODO: Update TODO file.

2005-04-01 23:19  warnes

	* gdata/NAMESPACE, gdata/R/drop.levels.R, gdata/man/drop.levels.Rd,
	  gtools/NAMESPACE, gtools/R/drop.levels.R,
	  gtools/man/drop.levels.Rd: Move drop.levels() from gtools to
	  gdata.

2005-04-01 23:17  warnes

	* gtools/R/mixedsort.R: Minor reordering of functions in file

2005-04-01 23:14  warnes

	* gdata/NAMESPACE, gdata/R/frameApply.R, gdata/man/frameApply.Rd,
	  gtools/R/frameApply.R, gtools/NAMESPACE,
	  gtools/man/frameApply.Rd: Move frameApply() to gdata package.

2005-04-01 22:28  warnes

	* gtools/R/mixedsort.R: Fix error if only one value passed to
	  mixedorder.

2005-04-01 21:37  warnes

	* gtools/: man/quantcut.Rd, R/quantcut.R: Add proper handling where
	  more than one quantile obtains the same value

2005-04-01 18:00  warnes

	* gtools/man/: ELISA.Rd, combinations.Rd, dirichlet.Rd,
	  drop.levels.Rd, foldchange.Rd, invalid.Rd, logit.Rd,
	  mixedsort.Rd, oddeven.Rd, permute.Rd, quantcut.Rd, running.Rd:
	  Add CVS ID tag to file headers.

2005-04-01 18:00  warnes

	* gtools/: R/frameApply.R, man/frameApply.Rd: Fixes from Jim Rogers
	  for R CMD check problems in frameApply

2005-03-31 15:32  warnes

	* gmodels/NAMESPACE: Add ceofFrame function to NAMESPACE

2005-03-31 14:05  warnes

	* gmodels/man/coefFrame.Rd: coefFrame example needs to properly
	  load ELISA data from gtools package

2005-03-31 14:02  warnes

	* gtools/: R/drop.levels.R, R/frameApply.R, man/drop.levels.Rd,
	  man/frameApply.Rd: Updates to drop.levels() and frameApply() from
	  Jim Rogers

2005-03-31 14:01  warnes

	* gtools/: man/ELISA.Rd, data/ELISA.rda: Add ELISA data set used by
	  frameApply and drop.levels examples

2005-03-31 13:47  warnes

	* DESCRIPTION, NEWS: Update for 2.0.5 release

2005-03-31 13:31  warnes

	* gmodels/: R/CrossTable.R, man/CrossTable.Rd, man/ci.Rd,
	  man/estimable.Rd, man/fast.prcomp.Rd, man/fit.contrast.Rd,
	  man/glh.test.Rd, man/make.contrasts.Rd: Ensure that each file has
	  $Id$ header, and no $Log$

2005-03-31 13:30  warnes

	* gmodels/: R/coefFrame.R, man/coefFrame.Rd: Add coefFrame()
	  function contributed by Jim Rogers

2005-03-31 13:11  warnes

	* gdata/man/elem.Rd: Comment out example to avoid R CMD check
	  warnings

2005-03-22 01:15  warnes

	* DESCRIPTION, NEWS, gdata/NAMESPACE, gdata/R/ConvertMedUnits.R,
	  gdata/data/MedUnits.Rda, gdata/data/MedUnits.rda,
	  gdata/man/ConvertMedUnits.Rd, gdata/man/MedUnits.Rd: Fixes to
	  pass `R CMD check'.

2005-03-21 21:51  warnes

	* gdata/: R/Args.R, R/env.R, R/ll.R, man/Args.Rd: Integrated fixes
	  from Arni.

2005-03-21 21:50  warnes

	* gdata/man/read.xls.Rd: Improve documentation of 'perl' argument
	  and give examples.

2005-03-21 21:43  warnes

	* gregmisc/: DESCRIPTION.in, DESCRIPTION.standalone, R/First.R:
	  Create backwords compatibility sub-package 'gregmisc' which loads
	  the other packages and warns the user.

2005-03-09 18:39  warnes

	* gdata/: R/ConvertMedUnits.R, man/ConvertMedUnits.Rd,
	  man/MedUnits.Rd: - Add ConvertMedUnits() plus documentation - Add
	  documentation for MedUnits data set.

2005-03-09 18:37  warnes

	* gdata/data/MedUnits.Rda: Update MedUnits data file.

2005-03-09 17:00  warnes

	* gdata/data/MedUnits.tab: Don't need both .Rda and .tab forms of
	  the data.

2005-03-09 16:55  warnes

	* gdata/data/: MedUnits.Rda, MedUnits.tab: Add MedUnits data set,
	  which provides conversions between American 'Conventional' and
	  Standard Intertional (SI) medical units.

2005-03-01 12:59  warnes

	* gdata/man/: elem.Rd, ll.Rd: - Remove 'elem' call from ll example.
	  - Add note to 'elem' man page that it is depreciated and 'll'
	  should   be used instead.

2005-02-25 20:15  nj7w

	* gdata/NAMESPACE, gdata/man/elem.Rd, gdata/man/env.Rd,
	  gdata/man/ll.Rd, gdata/man/read.xls.Rd, gplots/R/heatmap.2.R,
	  gplots/man/heatmap.2.Rd, gplots/man/rich.color.Rd,
	  gplots/man/sinkplot.Rd, gplots/man/textplot.Rd: [no log message]

2005-02-25 18:32  warnes

	* gdata/NAMESPACE: Remove ll methods since the base function now
	  handles lists and data frames.

2005-02-25 18:22  warnes

	* gdata/R/elem.R, gdata/R/env.R, gdata/R/ll.R, gdata/man/Args.Rd,
	  gdata/man/env.Rd, gdata/man/ll.Rd, gplots/man/rich.color.Rd:
	  Integrate changes submitted by Arni Magnusson

2005-02-25 18:02  warnes

	* gtools/man/frameApply.Rd: Replace 'T' with TRUE.

2005-02-25 17:54  warnes

	* gtools/man/frameApply.Rd: Remove dependency on ELISA data set for
	  the example.

2005-02-25 17:32  warnes

	* DESCRIPTION, NEWS: Update for release 2.0.3

2005-02-25 17:31  warnes

	* gplots/NAMESPACE: Add dependency imports from 'stats' package.

2005-02-25 15:59  warnes

	* .tnatr:fnmap, DESCRIPTION, gtools/NAMESPACE: Add drop.levels,
	  frameApply to namespace export.

2005-02-22 16:01  warnes

	* gplots/R/bandplot.R: Fix problem in passing graphical parameters
	  (xlim,etc).@

2005-02-14 19:40  warnes

	* gtools/: R/drop.levels.R, R/frameApply.R, man/drop.levels.Rd,
	  man/frameApply.Rd: Add frameApply and drop.levels contributed by
	  Jim Rogers.

2005-02-08 11:41  warnes

	* gplots/DESCRIPTION.in: Improve package title.

2005-02-08 11:40  warnes

	* gplots/R/heatmap.2.R: Ignore missing values when computing
	  symmetric range.

2005-02-04 10:16  tag start

2005-02-04 10:16  nj7w

	* .tnatr:fnmap: Initial import.

2005-02-04 10:16  nj7w

	* .tnatr:fnmap: Initial revision

2005-02-02 14:25  warnes

	* gplots/man/plotmeans.Rd: Add more extensive example.

2005-01-31 17:22  warnes

	* gdata/: R/read.xls.R, man/read.xls.Rd: Add ability to specify the
	  perl executable and path.

2005-01-28 13:58  warnes

	* gdata/: DESCRIPTION.in, NAMESPACE: Add dependency on stats.

2005-01-28 13:57  warnes

	* DESCRIPTION: Update version number and date.

2005-01-18 14:53  warnes

	* gmodels/R/CrossTable.R: Removed Windows Line Endings

2005-01-14 16:40  nj7w

	* gmodels/man/CrossTable.Rd: Updated the manual to reflect
	  prop.chisq change in its R file.

2005-01-14 14:14  warnes

	* gmodels/R/CrossTable.R: Nitin added display of the Chisquare
	  contribution of each cell, as suggested by Greg Snow.

2005-01-14 14:05  warnes

	* gplots/R/textplot.R: Code can be simplified because R now
	  supports selecting a fixed width font.

2005-01-12 15:50  warnes

	* gdata/DESCRIPTION.in, gmodels/DESCRIPTION.in,
	  gplots/DESCRIPTION.in, gtools/DESCRIPTION.in: Add dependency on R
	  1.9.0+ to prevent poeple from installing on old versions of R
	  which don't support namespaces.

2004-12-27 17:09  warnes

	* gdata/man/unmatrix.Rd: Update usage to match code.

2004-12-27 17:05  warnes

	* gdata/R/unmatrix.R: Replace 'F' with 'FALSE'.

2004-12-23 14:32  nj7w

	* gmodels/: R/CrossTable.R, man/CrossTable.Rd: Split the function
	  print.CrossTable.vector in two parts - for SAS behaiour and SPSS
	  behaviour. Also put the code of printing statistics in a function
	  'print.statistics'

2004-12-21 17:38  warnes

	* gmodels/R/CrossTable.R: Added & extended changes made by Nitin to
	  implement 'SPSS' format, as suggested by Dirk Enzmann
	  <dirk.enzmann@jura.uni-hamburg.de>.

2004-11-29 20:06  warnes

	* gplots/: R/heatmap.2.R, man/heatmap.2.Rd: 1. Add new parameters
	  for controlling color key: - If `symkey==TRUE', the color key
	  will be made symmetric about 0.  - The `densadj' parameter can be
	  used to modify the smoother width   (see the `adjust' parameter
	  under `help(density)') for the density   plotted in the key.

	  2. Fix handling of rowsep/colsep.

	  3. Vector of length 2 giving the width (colsep) or height
	  (rowsep) the separator box	drawn by colsep and rowsep as a
	  function of the width (colsep) or    height (rowsep) of a cell.

	  4. Appropriate changes to the corresponding help page, plus some
	    minor formatting changes.

2004-11-03 14:43  warnes

	* gplots/R/heatmap.2.R: Fix bugs in layout of cell notes.  They
	  were being plotted top down rather than bottom up.  Further
	  reordering of the x matrix didn't also reorder the notes.  Both
	  issues should now be resolved.

2004-10-12 10:57  warneg

	* gdata/: R/unmatrix.R, man/unmatrix.Rd: Add unmatrix() function

2004-09-30 17:03  warneg

	* gmodels/man/glh.test.Rd: Fix typos.

2004-09-27 17:09  warneg

	* inst/doc/: Rnews.dtx, Rnews.sty, gregmisc.tex: Move
	  gdata/inst/doc/* to inst/doc/*

2004-09-27 17:01  tag rel_2_0_0

2004-09-27 17:01  warneg

	* .Rhistory, DESCRIPTION, gdata/DESCRIPTION, gdata/DESCRIPTION.in,
	  gdata/NAMESPACE, gdata/man/.Rhistory, gmodels/DESCRIPTION,
	  gmodels/DESCRIPTION.in, gplots/DESCRIPTION,
	  gplots/DESCRIPTION.in, gplots/man/sinkplot.Rd,
	  gplots/man/textplot.Rd, gtools/DESCRIPTION,
	  gtools/DESCRIPTION.in, gtools/man/running.Rd: Updated to pass R
	  CMD check.

2004-09-03 19:08  warneg

	* gdata/inst/xls/iris.xls: added to cvs.

2004-09-03 18:58  warneg

	* gdata/inst/perl/xls2csv.pl: Checkin xls2csv.pl.  Should have been
	  in long ago, must have been an oversight

2004-09-03 18:50  warneg

	* gplots/man/textplot.Rd: Provide explicit package for call to
	  nobs.

2004-09-03 18:50  warneg

	* gplots/man/heatmap.2.Rd: Fix typos.

2004-09-03 18:46  warneg

	* gdata/R/read.xls.R: Need to look for files using the new package
	  name.

2004-09-03 18:44  warneg

	* gmodels/man/fit.contrast.Rd: Add explicit package to call to
	  quantcut in example.

2004-09-03 18:43  warneg

	* gdata/man/read.xls.Rd: Need to use the new package name when
	  looking for iris.xls.

2004-09-03 18:42  warneg

	* gdata/man/ll.Rd: Add ll.list to the to the list of functions
	  described

2004-09-03 18:42  warneg

	* gdata/NAMESPACE: Add ll and friends to the namespace

2004-09-03 13:27  warneg

	* gdata/DESCRIPTION, gdata/DESCRIPTION.in, gdata/NAMESPACE,
	  gdata/R/Args.R, gdata/R/aggregate.table.R, gdata/R/combine.R,
	  gdata/R/elem.R, gdata/R/env.R, gdata/R/interleave.R,
	  gdata/R/is.what.R, gdata/R/keep.R, gdata/R/ll.R,
	  gdata/R/matchcols.R, gdata/R/nobs.R, gdata/R/read.xls.R,
	  gdata/R/rename.vars.R, gdata/R/reorder.R, gdata/R/trim.R,
	  gdata/man/reorder.Rd, gmodels/DESCRIPTION, gmodels/NAMESPACE,
	  gmodels/R/CrossTable.R, gmodels/R/ci.R, gmodels/R/estimable.R,
	  gmodels/R/fast.prcomp.R, gmodels/R/fit.contrast.R,
	  gmodels/R/glh.test.R, gmodels/R/make.contrasts.R,
	  gmodels/man/estimable.Rd, gmodels/man/fit.contrast.Rd,
	  gmodels/man/glh.test.Rd, gmodels/man/make.contrasts.Rd,
	  gplots/DESCRIPTION, gplots/NAMESPACE, gplots/R/balloonplot.R,
	  gplots/R/bandplot.R, gplots/R/barplot2.R, gplots/R/boxplot.n.R,
	  gplots/R/colorpanel.R, gplots/R/heatmap.2.R, gplots/R/hist2d.R,
	  gplots/R/lowess.R, gplots/R/ooplot.R, gplots/R/overplot.R,
	  gplots/R/plotCI.R, gplots/R/plotmeans.R, gplots/R/qqnorm.aov.R,
	  gplots/R/residplot.R, gplots/R/rich.color.R, gplots/R/sinkplot.R,
	  gplots/R/smartlegend.R, gplots/R/space.R, gplots/R/textplot.R,
	  gplots/R/wapply.R, gtools/DESCRIPTION, gtools/NAMESPACE,
	  gtools/R/dirichlet.R, gtools/R/foldchange.R, gtools/R/invalid.R,
	  gtools/R/mixedsort.R, gtools/R/oddeven.R, gtools/R/permute.R,
	  gtools/R/quantcut.R, gtools/R/running.R, gtools/man/running.Rd:
	  initial bundle checkin

2004-09-03 13:27  warneg

	* DESCRIPTION, NEWS, TODO: [no log message]

2004-09-02 13:14  tag initial

2004-09-02 13:14  warneg

	* .Rhistory, gdata/DESCRIPTION, gdata/DESCRIPTION.in,
	  gdata/NAMESPACE, gdata/man/.Rhistory, gmodels/DESCRIPTION,
	  gmodels/DESCRIPTION.in, gmodels/NAMESPACE, gplots/DESCRIPTION,
	  gplots/DESCRIPTION.in, gplots/NAMESPACE, gplots/man/1,
	  gplots/man/residplot.Rd, gtools/DESCRIPTION,
	  gtools/DESCRIPTION.in, gtools/NAMESPACE: Initial revision

2004-09-02 13:14  warneg

	* .Rhistory, gdata/DESCRIPTION, gdata/DESCRIPTION.in,
	  gdata/NAMESPACE, gdata/man/.Rhistory, gmodels/DESCRIPTION,
	  gmodels/DESCRIPTION.in, gmodels/NAMESPACE, gplots/DESCRIPTION,
	  gplots/DESCRIPTION.in, gplots/NAMESPACE, gplots/man/1,
	  gplots/man/residplot.Rd, gtools/DESCRIPTION,
	  gtools/DESCRIPTION.in, gtools/NAMESPACE: [no log message]

2004-08-27 17:57  warnes

	* gdata/R/reorder.R, gtools/R/mixedsort.R, gdata/man/reorder.Rd,
	  gtools/man/mixedsort.Rd: Fixed bug in mixedsort, and modified
	  reorder.factor to use mixedsort.

2004-08-26 16:08  warnes

	* gtools/R/mixedsort.R: - Fix bug pointed out by Jim Rogers.  - Use
	  a more distictive internal separator: $@$ instead of just $ -
	  Capitalization is now irrelevent for search order (unlike ASCII).

2004-07-29 11:27  warnes

	* gdata/inst/perl/: IO/AtomicFile.pm, IO/InnerFile.pm, IO/Lines.pm,
	  IO/Scalar.pm, IO/Scalar.pm.html, IO/ScalarArray.pm,
	  IO/Stringy.pm, IO/Wrap.pm, IO/WrapTie.pm, OLE/Storage_Lite.pm,
	  Spreadsheet/ParseExcel.pm, Spreadsheet/ParseExcel/Dump.pm,
	  Spreadsheet/ParseExcel/FmtDefault.pm,
	  Spreadsheet/ParseExcel/FmtJapan.pm,
	  Spreadsheet/ParseExcel/FmtJapan2.pm,
	  Spreadsheet/ParseExcel/FmtUnicode.pm,
	  Spreadsheet/ParseExcel/SaveParser.pm,
	  Spreadsheet/ParseExcel/Utility.pm: Add perl modules to CVS.

2004-07-29 10:48  warnes

	* gplots/: R/plotCI.R, man/plotCI.Rd: Integrate changes from the
	  version of plotCI maintained by Martin Maechler.

2004-07-27 10:29  warnes

	* gdata/man/read.xls.Rd: Fix typos/spelling.

2004-07-27 10:25  warnes

	* gdata/man/read.xls.Rd: Add note that Perl is required for
	  read.xls to work properly.

2004-07-16 15:31  warnes

	* TODO: [no log message]

2004-07-16 15:28  warnes

	* gdata/R/read.xls.R: Remove the temporary csv file if reading it
	  in fails.

2004-06-30 15:32  warnes

	* gplots/R/textplot.R: Remove commented-out code.

2004-06-30 15:26  warnes

	* gplots/R/textplot.R: Fixed text size calculations

2004-06-28 16:16  warnes

	* gplots/: R/barplot2.R, man/barplot2.Rd: - Default 2-d color set
	  to grey as in (v2.0.0) r-devel - The default (v1.9.1) barplot
	  method now handles vectors and 1-d arrays   (e.g., obtained by
	  table()) the same, and uses grey instead of	heat color palettes
	  in these cases.  (Also fixes PR#6776.) - Updated to reflect the
	  addition of 'offset' argument in base - Fix bug in stacked
	  barplots, which would not be plotted properly

2004-06-24 12:57  warnes

	* gplots/: R/heatmap.2.R, man/heatmap.2.Rd: Add ability to specify
	  color of NA cells.

2004-06-22 13:09  warnes

	* gdata/: R/ll.R, man/ll.Rd: Add S3 methods for data frames and
	  lists.

2004-06-09 14:13  warnes

	* NEWS: Belated update for 1.11.2.

2004-06-08 11:49  warnes

	* gtools/: R/running.R, man/running.Rd: Nitin Jain added by=
	  parameter to allow specifying separation between groups.

2004-06-07 23:54  warnes

	* gdata/inst/bin/: xls2csv, xls2csv.bat: Moved from gregmisc/src/.

2004-06-07 22:35  tag rel_1_11_2

2004-06-07 22:35  warnes

	* DESCRIPTION: Add better acknowledgement of authors.

2004-06-05 02:07  tag rel_1_11_1

2004-06-05 02:07  warnes

	* NEWS: Update NEWS file for release 1.11.1.

2004-06-05 01:22  warnes

	* gdata/man/read.xls.Rd: Minor enhancment to read.xls example.

2004-06-05 00:05  warnes

	* DESCRIPTION, NEWS, gdata/inst/xls/iris.xls: - Merge Makefile.win
	  into Makefile.  Makefile.win now just redirects   to Makefile.  -
	  Update xls2csv.bat and xls2csv shell script to correctly obtain
	  thier installion path and infer the location of the perl code and
	  libraries.	- The xls2csv.pl script now assumes that the
	  libraries it needs are   installed into the same directory where
	  it is.

2004-05-27 18:38  warnes

	* gdata/inst/perl/xls2csv.pl: Moved to xls2csv.pl.in.

2004-05-27 18:36  tag rel_1_11_0

2004-05-27 18:36  warnes

	* NEWS: Clarify text describing xls2csv scripts.

2004-05-27 18:30  warnes

	* DESCRIPTION, NEWS: Updated for release.

2004-05-27 18:20  warnes

	* gdata/inst/perl/xls2csv.pl: More fixes.

2004-05-27 18:20  warnes

	* gdata/man/elem.Rd: Fix missing brace.

2004-05-27 17:43  warnes

	* gdata/man/elem.Rd:
	  Add explicit package name to see also links.

2004-05-27 17:24  warnes

	* gdata/inst/perl/xls2csv.pl: More xls2csv perl module support
	  changes.

2004-05-27 11:11  warnes

	* gplots/man/plotCI.Rd: Fix spelling error.

2004-05-26 11:00  warnes

	* NEWS: Update for 1.11.0 release.

2004-05-26 10:56  warnes

	* gplots/R/overplot.R: One more fix to get it right.

2004-05-26 09:50  warnes

	* gplots/R/overplot.R: Use triple-colon operator ':::' to access
	  plot.formula from the graphics package.

2004-05-26 09:40  warnes

	* gtools/man/combinations.Rd, gdata/man/read.xls.Rd: Escape
	  underscores in email addresses so Latex is happy.

2004-05-26 09:19  warnes

	* gplots/man/rich.color.Rd: Replace 'F' by 'FALSE' to pass R CMD
	  check.

2004-05-26 09:18  warnes

	* gtools/R/combinations.R: Replace 'T' with 'TRUE' to pass R CMD
	  check.

2004-05-25 14:45  warnes

	* gdata/inst/perl/xls2csv.pl: More changes to xls2csv code.

2004-05-25 14:32  warnes

	* gplots/R/overplot.R: Work around bug in R 1.9.X due to
	  plot.formula() not having the same arguments as plot().

2004-05-25 13:35  warnes

	* gdata/: R/Args.R, man/Args.Rd: Add Args() function contributed by
	  Arni Magnusson <arnima@u.washington.edu>.

2004-05-25 13:33  warnes

	* gplots/: R/rich.color.R, man/rich.color.Rd: Add rich.colors()
	  submitted by Arni Magnusson <arnima@u.washington.edu>.

2004-05-25 13:14  warnes

	* gdata/R/read.xls.R:
	  - Change to call perl directly rather than depending on the
	  installed shell script.  This should make the code more portable
	  to MS-Windows systes.

	  - Add additional commants..

2004-05-25 13:11  warnes

	* gtools/R/combinations.R: Remove extraneous comments.

2004-05-25 13:08  warnes

	* gtools/R/combinations.R: Fix an error in the code when using
	  repeats.allow=T and r>2.  Bug report and fix both due to
	  Elizabeth Purdom <epurdom@stanford.edu>.

2004-05-25 07:43  warnes

	* DESCRIPTION: Bump version number to 1.11.0 to reflect the actual
	  'production' status of the package.

2004-05-25 07:35  warnes

	* gdata/: R/read.xls.R, man/read.xls.Rd: Add read.xls(), a function
	  to read Microsoft Excel files by translating them to csv files
	  via the xls2csv.pl script.

2004-05-24 22:58  warnes

	* gplots/: R/ooplot.R, man/ooplot.Rd: ??

2004-05-24 22:57  warnes

	* gmodels/: R/CrossTable.R, man/CrossTable.Rd: Updates from Mark
	  Schwartz.

2004-05-24 19:46  warnes

	* gdata/inst/: perl/xls2csv.pl, xls/iris.xls: Add files to enable
	  inclusion and installation of xls2csv.pl as part of the package.

2004-05-24 19:43  warnes

	* gplots/R/: plotCI.R, plotmeans.R: Modified to use invalid() to
	  check arguments instead of missing().  This fixes some build
	  errors under R-1.9.0-Patched.

2004-05-24 13:36  warnes

	* gtools/R/invalid.R: Check if argument is a vector before doing
	  is.na to avoid generating a warning.

2004-05-24 13:17  warnes

	* gtools/: R/invalid.R, man/invalid.Rd: Add invalid() function for
	  testing if a parameter value is non-missing, non-NA, non-NULL.

2004-04-27 10:33  warnes

	* gtools/: R/running.R, man/running.Rd: Replaced argument `as.list'
	  with `simplify'.  Updated documentation, and updated examples
	  appropriately.

2004-04-26 12:37  warnes

	* gtools/: R/running.R, man/running.Rd: Added as.list argument to
	  return one list element per evaluation.

2004-04-22 11:44  warnes

	* gplots/: R/ooplot.R, man/ooplot.Rd: Integrate changes from
	  Lodewijk Bonebakker <bonebakker@comcast.net>

2004-04-13 09:42  warnes

	* gplots/: R/space.R, man/space.Rd: Add ability to space points
	  along 'y' direction.

2004-04-13 07:48  tag gregmisc_0_10_2

2004-04-13 07:48  warnes

	* DESCRIPTION: Update for 0.10.2

2004-04-13 07:46  warnes

	* NEWS: Updated for 0.10.2

2004-04-13 07:41  warnes

	* gmodels/man/estimable.Rd: Fix latex warning: it doesn't like
	  double subscripts.

2004-04-02 14:06  warnes

	* gplots/R/smartlegend.R: Fixed smartlegend() positioning when x
	  and/or y axis are log-scale.

2004-04-01 15:23  warnes

	* gdata/: R/rename.vars.R, man/rename.vars.Rd: Add function
	  remove.vars().

2004-03-30 14:04  warnes

	* DESCRIPTION, gplots/R/textplot.R: - Fix bug in textplot()
	  reported by Wright, Kevin <kevin.d.wright@pioneer.com>.

2004-03-26 17:42  warnes

	* NEWS: Updated for release 0.10.0.

2004-03-26 17:33  warnes

	* TODO: Change proposed names of new packages.

2004-03-26 17:32  warnes

	* DESCRIPTION: - Add  Lodewijk Bonebakker to list of authors -
	  Improve description text - Note dependency on R 1.9.0.

2004-03-26 17:31  warnes

	* gdata/man/reorder.Rd: Contents of package 'mva' moveed to
	  'stats'.

2004-03-26 17:28  warnes

	* gmodels/man/fast.prcomp.Rd: Reflect movement of code from  'mva'
	  package to 'stats' in R 1.9.0.

2004-03-26 17:27  warnes

	* gplots/man/textplot.Rd: Update to match changes in textplot()
	  code.

2004-03-26 17:25  warnes

	* gplots/man/ooplot.Rd: Remove Windows EOL characters.

2004-03-26 17:21  warnes

	* gtools/man/combinations.Rd: Uncomment and fix large 'n' example.

2004-03-26 17:20  warnes

	* gplots/man/barplot2.Rd: - Remove some commented-out code.  -
	  Remove cvs log tag.

2004-03-26 17:19  warnes

	* gtools/man/running.Rd: - Update to match changes in running() -
	  Add examples to illustrate new arguments.  - Modify running
	  correlation plot example to be more clear.

2004-03-26 17:16  warnes

	* gplots/R/textplot.R: Misc changes.

2004-03-26 17:12  warnes

	* gtools/R/running.R: More of the same.

2004-03-26 17:02  warnes

	* gdata/R/is.what.R: - Fix is.what() for use under R 1.9.0 -
	  is.what() now uses is.* functions found in any attached frame

2004-03-26 10:34  warnes

	* gtools/R/running.R: Fix bug discovered by Sean Davis
	  <sdavis2@mail.nih.gov>.  The running function took an improper
	  shortcut.  When allow.fewer=FALSE it was still passing shorter
	  lists of elements to the called function, and then overwriting
	  the results for the shorter lists with NAs.  The code now skips
	  evaluation of the function on lists shorter than the specified
	  length when allow.fewer=FALSE.

2004-03-25 15:09  warnes

	* gmodels/: R/estimable.R, man/estimable.Rd: - Estimable was
	  reporting sqrt(X^2) rather than X^2 in the output.  - Provide
	  latex math markup for linear algebra expressions in help text.  -
	  Other clarifications in help text

2004-03-25 13:17  warnes

	* gmodels/: R/estimable.R, man/estimable.Rd: Add enhancements to
	  estimable() provided by Søren Højsgaard \email{sorenh@agrsci.dk}:

	    I have made a modified version of the function [..] which
	    1) also works on geese and gee objects and
	    2) can test hypotheses af the forb L * beta = beta0 both as a
	    single Wald test and row-wise for each row in L.

2004-02-17 22:59  warnes

	* TODO: Add need for split into sub-package.

2004-02-17 17:22  warnes

	* gplots/man/ooplot.Rd: Minor fix to ooplot documentation.

2004-02-17 17:21  warnes

	* gplots/: R/ooplot.R, man/ooplot.Rd: Integrate ooplot updates
	  provided by Lodewijk Bonebakker <bonebakker@comcast.net>

2004-02-02 11:26  tag gregmisc_0_8_9

2004-02-02 11:26  warnes

	* gplots/: R/colorpanel.R, man/colorpanel.Rd:
	  - Add colorpanel function, which generates a smoothly varying
	  band of   colors over a three color range (lo, mid, high).

2004-02-02 11:21  warnes

	* DESCRIPTION: Update version number for new release.

2004-01-21 07:10  tag rel_0_8_8

2004-01-21 07:10  warnes

	* TODO: Add TODO to contain 'to do' list.

2004-01-21 07:07  warnes

	* gplots/man/textplot.Rd: - Correct arguments to halign to match
	  code.

2004-01-21 07:06  warnes

	* gdata/: R/reorder.R, man/reorder.Rd: - Add ... argument to match
	  generic provided in mva.

2004-01-21 00:17  warnes

	* gplots/R/lowess.R: Track R 1.9.0's move of 'lowess' from the base
	  package to the (new) stats package.

2004-01-20 23:48  warnes

	* DESCRIPTION: Updated for 0.8.8 release.

2004-01-20 23:44  warnes

	* gplots/man/sinkplot.Rd: - Fix sinkplot() example by replacing 'T'
	  with 'TRUE'.

2004-01-20 23:42  warnes

	* gplots/man/ooplot.Rd: - Add some more details to the ooplot()
	  documentation.  The	documentation is *not* complete.

2004-01-20 23:31  warnes

	* gplots/R/textplot.R, gtools/R/capture.R: - Mark sprint() as
	  depreciated.	- Replace references to sprint with
	  capture.output() - Use match.arg for halign and valign arguments
	  to textplot.default.	- Fix textplot.character so that a vector
	  of characters is properly   displayed. Previouslt, character
	  vectors were plotted on top of each	other.

2004-01-19 18:43  warnes

	* gplots/: R/sinkplot.R, man/sinkplot.Rd:
	  New function sinkplot(), as requested on R-devel by Kevin Wright
	  <kwright@eskimo.com> in
	  https://www.stat.math.ethz.ch/pipermail/r-devel/2004-January/028483.html.

2004-01-19 17:45  warnes

	* gdata/: R/elem.R, R/env.R, R/ll.R, man/keep.Rd, man/ll.Rd: -
	  Integrated (partial) patch submitted by Arni Magnusson to clarify
	  help text.  - Modifed code to use match.arg().

2004-01-15 00:14  warnes

	* gplots/: R/ooplot.R, man/ooplot.Rd:
	  Add initial code and docs for ooplot() function submitted by
	  Lodewijk Bonebakker <bonebakker@comcast.net>.

2003-12-15 16:07  warnes

	* gdata/R/env.R:
	  - Applied patch from Arni that fixed a bug that caused env() to
	  crash   if any environment was completely empty

2003-12-02 21:49  tag rel_0_8_7

2003-12-02 21:49  warnes

	* DESCRIPTION:
	  - Updated for version 0.8.7

2003-12-02 21:46  tag rel_0_8_5

2003-12-02 21:46  warnes

	* gdata/man/elem.Rd, gdata/man/ll.Rd, gplots/man/lowess.Rd,
	  gplots/man/textplot.Rd, gplots/man/wapply.Rd,
	  gtools/man/foldchange.Rd: - match function argument defaults with
	  'usage'

2003-12-02 21:42  warnes

	* gplots/: R/heatmap.2.R, man/heatmap.2.Rd:
	  - Fix buglets in heatmap function - Make a slight enhancement to
	  the example code.

2003-12-02 17:49  warnes

	* gplots/R/heatmap.2.R:
	  Integrated some suggestions from Sean Davis
	  <sdavis2@mail.nih.gov>.

2003-12-02 13:22  warnes

	* gplots/man/heatmap.2.Rd: - Make final example use 16 colors
	  instead of 8.  This looks nicer.

2003-12-02 12:00  warnes

	* gdata/man/ll.Rd:
	  Add one argument, to match code.

2003-12-02 11:58  warnes

	* gplots/man/barplot2.Rd:
	  - Remove '%' character from example code to avoid errors.

2003-12-02 11:54  warnes

	* gplots/R/plotCI.R:
	  - Add '...' parameter to call to text to allow user to control
	  size/color/etc.

2003-12-01 11:00  warnes

	* gplots/man/barplot2.Rd:
	  - updated to match changes to barplot() in base.

2003-12-01 10:59  warnes

	* gplots/data/rtPCR.rda:
	  - Renamed rtPCR.Rda to rtPCR.rda so that R will properly load the
	  file	 when data(rtPCR) is executed.

2003-12-01 10:56  warnes

	* gdata/R/: elem.R, env.R, is.what.R, keep.R, ll.R:
	  - Apply changes submitted by Arni Magnusson

2003-12-01 10:55  warnes

	* gplots/R/barplot2.R:
	  - Follow patches applied to barplot() in base.

2003-11-24 16:32  warnes

	* gplots/man/heatmap.2.Rd:
	  Fix unbalanced braces.

2003-11-24 10:11  warnes

	* DESCRIPTION:
	  Updated for release.

2003-11-24 10:09  warnes

	* gplots/: R/overplot.R, man/overplot.Rd:
	  Fix errors reported by R CMD check.

2003-11-21 18:13  warnes

	* gplots/man/overplot.Rd:
	  Added missing closing brace.

2003-11-21 18:08  warnes

	* gplots/man/rtPCR.Rd:
	  Initial addition of these files.  Used in examples of overplot().

2003-11-21 18:00  warnes

	* gtools/man/foldchange.Rd:
	  Removed 'deqn' call that was confusing things.

2003-11-21 17:59  warnes

	* gplots/: R/heatmap.2.R, man/heatmap.2.Rd:
	  Applied my enhancements to the heatmap() code from R 1.8.0, and
	  added documentation of these changes.

2003-11-21 17:58  warnes

	* gplots/: R/overplot.R, man/overplot.Rd:
	  - Discovered that axis(N) does the right thing without needing to
	  be   given location for tick marks.  This allowed simplification
	  of the code.

	  - Minor other changes for distribution

	  - Addition of overplot.Rd documentation.

2003-11-21 15:54  warnes

	* gtools/man/logit.Rd: Add email address to author field

2003-11-21 15:35  warnes

	* gtools/: R/foldchange.R, man/foldchange.Rd:
	  - new files

2003-11-21 14:54  warnes

	* gtools/: R/mixedsort.R, man/mixedsort.Rd:
	  - Change 'T' to 'TRUE' in mixedsort.R - Add missing brace in
	  mixedsort.Rd

2003-11-21 14:50  warnes

	* gplots/: R/heatmap.2.R, man/heatmap.2.Rd:
	  - Integrated my extensions into the R 1.8.0 version of heatmap.
	  - Add Rd documentation.

2003-11-20 10:56  warnes

	* gtools/: R/oddeven.R, man/oddeven.Rd:
	  - Move 'odd' and 'even' functions to a separate file & provide
	  documentation

2003-11-19 09:54  warnes

	* gdata/man/: env.Rd, is.what.Rd, keep.Rd, ll.Rd:
	  Changes to pass R CMD check.

2003-11-19 09:52  warnes

	* gplots/man/bandplot.Rd:
	  Remove extranious NULL that confused R CMD check.

2003-11-18 17:47  warnes

	* gtools/: R/mixedsort.R, man/mixedsort.Rd:
	  - Renamed smartsort to mixedsort and added documentation.

2003-11-18 13:59  warnes

	* gplots/man/barplot2.Rd:
	  - Tiny fix to remove R CMD check error.

2003-11-18 13:58  warnes

	* gplots/man/smartlegend.Rd:
	  - Added missing closing brace.

2003-11-18 13:45  warnes

	* gdata/R/elem.R, gdata/R/env.R, gdata/R/is.what.R, gdata/R/keep.R,
	  gdata/R/ll.R, gplots/R/overplot.R:
	  - Convert from MS-Dos to Unix line endings.  - Reformat to 80
	  columns.

2003-11-17 17:09  warnes

	* gdata/man/elem.Rd: Replace 'T' with 'TRUE' to remove R CMD check
	  error.

2003-11-17 17:09  warnes

	* gdata/man/aggregate.table.Rd: Fix syntax error.

2003-11-17 16:40  warnes

	* gmodels/R/fit.contrast.R:
	  - Fix incorrect handling of glm objects by fit.contrast, as
	  reported   by Ulrich Halekoh, Phd <ulrich.halekoh@agrsci.dk>.

	  - Add regression test code to for this bug.

2003-11-10 17:11  warnes

	* DESCRIPTION, gdata/R/elem.R, gdata/R/env.R, gdata/R/is.what.R,
	  gdata/R/keep.R, gdata/R/ll.R, gdata/man/elem.Rd,
	  gdata/man/env.Rd, gdata/man/is.what.Rd, gdata/man/keep.Rd,
	  gdata/man/ll.Rd, gplots/R/heatmap.2.R, gplots/R/overplot.R,
	  gplots/R/plotmeans.R, gplots/R/space.R, gplots/R/wapply.R,
	  gtools/R/capture.R, gtools/man/capture.Rd:
	  - Add files contributed by Arni Magnusson
	  <arnima@u.washington.edu>. As well as some of my own.

2003-08-19 10:58  warnes

	* gplots/R/heatmap.2.R:
	  - Copy of local changes.

2003-08-19 10:57  warnes

	* gplots/R/heatmap.2.R:
	  - Checkin before re-integrating local changes.

2003-08-06 23:49  warnes

	* gmodels/R/ci.R: - Fixed incorrect denominator in standard error
	  for mean in ci.default.

2003-06-19 17:23  warnes

	* gplots/R/heatmap.2.R:
	  - Added enhanced heatmap function.

2003-06-09 11:10  warnes

	* gplots/man/smartlegend.Rd:
	  - Add help text for smartlegend.

2003-06-09 10:57  warnes

	* gplots/R/smartlegend.R: - New function smartlegend().

2003-06-07 13:58  warnes

	* gdata/man/: aggregate.table.Rd, interleave.Rd:
	  - Fixed error in examples.  Had sqrt(var(x)/(n-1)) for the
	  standard   error of the mean instead of sqrt(var(x)/n).

2003-05-23 14:32  warnes

	* gdata/: R/matchcols.R, man/matchcols.Rd:
	  - Fixed typos

2003-05-23 14:14  warnes

	* gdata/R/matchcols.R, gdata/man/matchcols.Rd, gtools/R/logit.R,
	  gtools/man/logit.Rd:
	  - library() backported from 1.7-devel.  This version of the
	  function   adds the "pos=" argument to specify where in the
	  search path the   library should be placed.

	  - updated .First.lib to use library(...pos=3) for MASS to avoid
	  the	'genotype' data set in MASS from masking the genotype
	  funciton in	genetics when it loads gregmisc

	  - Added logit() inv.logit() matchcols() function and
	  corresponding docs

2003-05-20 12:03  warnes

	* gdata/R/interleave.R:
	  - Omit NULL variables.

2003-05-20 09:16  warnes

	* DESCRIPTION, gdata/R/trim.R, gdata/man/trim.Rd:
	  - Added function trim() and assocated docs.

2003-04-22 14:29  tag rel_0_8_4

2003-04-22 14:29  warnes

	* DESCRIPTION:
	  - Update version number.

2003-04-22 13:28  warnes

	* gplots/R/plotmeans.R:
	  - Fixeed warning messing caused when 'connect' is a vector.

2003-04-22 13:24  warnes

	* gmodels/R/fit.contrast.R:
	  - the variable 'df' was used within the lme code section
	  overwriting	the argument 'df'.

2003-04-22 12:00  warnes

	* gtools/man/combinations.Rd: - Fixed tpyo in example that allowed
	  combinations(500,2) to run when   it should have been ignred for
	  testing..

2003-04-22 11:42  warnes

	* gdata/: R/reorder.R, man/reorder.Rd:
	  - The mva package (which is part of recommended) now provides a
	  generic 'reorder' function.  Consequently, the 'reorder' function
	    here has been renamed to 'reorder.factor'.

	  - Removed check of whether the argument is a factor object.

2003-04-22 11:34  warnes

	* gplots/R/barplot2.R: Update from Marc Schwartz, modified by
	  Gregory Warnes:

	  -  Modified dim() checks for 'ci.l' and 'ci.u' against 'height'
	   to remove R v1.7.0 if() based error msgs for vector conditions.

2003-04-10 12:22  warnes

	* gtools/man/combinations.Rd:
	  - Added note about the need to increase options("expressions") to
	  use	large values for 'n'.  Prompted by bug report from Huan
	  Huang   <huan.huang@bnpparibas.com

2003-04-04 08:59  tag rel_0_8_3

2003-04-04 08:59  warnes

	* DESCRIPTION:
	  - Version 0.8.3

2003-04-04 08:58  warnes

	* gtools/R/RSCompat.S:
	  - Replace 'T' with 'TRUE'

2003-04-04 08:49  warnes

	* gplots/R/balloonplot.R, gtools/R/dirichlet.R,
	  gplots/man/qqnorm.aov.Rd:
	  - Change occurences of 'T' to 'TRUE'

2003-04-04 08:46  warnes

	* gtools/man/capture.Rd:
	  - Allow optional arguments to sprint to be passed to print - Fix
	  R CMD check errors

2003-04-04 08:45  warnes

	* gtools/R/capture.R:
	  - Allow optional arguments to sprint to be passed to print

2003-04-04 08:44  warnes

	* gplots/man/textplot.Rd:
	  - Updated to match changes in textplot function:   - Added
	  textplot.character   - Renamed arguments "col.margin" and
	  "row.margin" to "cmar", and	  "rmar" so that specifying
	  "col='red'" is possible.  - Fixed R CMD check errors - Improve
	  comments in example - Add textplot.matrix example

2003-04-04 08:41  warnes

	* gplots/R/textplot.R:

	  - Added textplot.character to handle character strings.  - Moved
	  test for vector and matrix arguments to textplot.default.  -
	  Renamed arguments "col.margin" and "row.margin" to "cmar", and
	  "rmar" so that specifying "col='red'" is possible.

2003-04-03 08:20  warnes

	* gtools/man/capture.Rd:
	  - Had mistyped 'sprint' as 'sprintf'.

2003-04-03 08:18  warnes

	* gtools/man/capture.Rd: - Add help file for capture and sprintf.

2003-04-02 17:29  warnes

	* gplots/: R/textplot.R, man/textplot.Rd:
	  - Added textplot function and friends, as well as documentation.

2003-04-02 17:28  warnes

	* gtools/R/capture.R:
	  - Added file 'capture.R' containing capture() and sprint().

2003-03-12 12:58  warnes

	* gmodels/man/fit.contrast.Rd:
	  - Fixed a typo in the example - Added to lme example

2003-03-08 11:30  tag rel_0_8_2

2003-03-08 11:30  warnes

	* gplots/man/balloonplot.Rd:
	  - Forgot to update arglist in \usage section.

2003-03-08 11:26  warnes

	* DESCRIPTION:
	  - Bumped up version number.

2003-03-08 11:22  warnes

	* gplots/: R/balloonplot.R, man/balloonplot.Rd:
	  - Added parameters for rotation of and amount of space allocated
	  for	the row and column labels.

2003-03-07 10:48  warnes

	* DESCRIPTION, gmodels/R/fast.prcomp.R, gplots/R/hist2d.R,
	  gplots/R/qqnorm.aov.R, gtools/R/RSCompat.S:
	  - Minor changes to code to allow the package to be provided as an
	  S-Plus chapter.

2003-03-07 10:43  warnes

	* gplots/R/lowess.R: - Add 'NULL' as the last element of if
	  statement that defines   lowess.default so that when the file is
	  sourced, S-Plus doesn't   display the function definition.

2003-03-07 10:41  warnes

	* gplots/R/lowess.R:
	  - Specify where the defualt lowess function should be found.	-
	  Use getFunction in S-Plus instead of 'get'

2003-03-03 12:48  warnes

	* gdata/man/reorder.Rd: - Updated to match reorder.Rd which was
	  exetended to handle factor   label names in addition to numeric
	  indices.

2003-03-03 12:24  warnes

	* gdata/R/reorder.R:
	  - Added handling of factor level names in addition to numeric
	  indexes.

2003-01-30 17:00  tag rel_0_8_0

2003-01-30 17:00  warnes

	* DESCRIPTION:
	  - New release.

2003-01-30 16:56  warnes

	* gtools/man/running.Rd: - Fixed typo in email address.

2003-01-30 16:53  warnes

	* gmodels/: R/fit.contrast.R, man/fit.contrast.Rd:
	  - Renamed 'contrast.lm' to 'fit.contrast'.  This new name is more
	    descriptive and makes it easier to create and use methods for
	  other   classes, eg lme.

	  - Enabled fit.contrast for lme object now that Doug Bates has
	  provided   the necessary support for contrasts in the nlme
	  package.

	  - New contrast.lm function which generates a 'depreciated'
	  warning and	calls fit.contrast

	  - Updated help text to match changes.

2003-01-30 16:43  warnes

	* gplots/: R/barplot2.R, man/barplot2.Rd:
	  - Added argument 'add' to allow for the addition of a barplot to
	  an   existing graphic. Default is FALSE

2003-01-30 16:41  warnes

	* gmodels/: R/CrossTable.R, man/CrossTable.Rd:
	  - Removed argument 'correct' and now print separate corrected
	  values   for 2 x 2 tables.  - Added arguments 'prop.r', 'prop.c'
	  and 'prop.t' to toggle printing   of row, col and table
	  percentages. Default is TRUE.  - Added argument 'fisher' to
	  toggle fisher exact test. Default is	 FALSE.  - Added McNemar
	  test to statistics and argument 'mcnemar' to toggle	test.
	  Default is FALSE.  - Added code to generate an invisible return
	  list containing table   counts, proportions and the results of
	  the appropriate statistical tests.

2003-01-30 09:58  warnes

	* gmodels/R/make.contrasts.R:
	  - Added explicit check to ensure that the number of specified
	  contrasts is less than or equal to the ncol - 1.  Previously,
	  this	 failed with an obtuse error message when the contrast
	  matrix had row   names, and silently dropped contrasts over
	  ncol-1.

2003-01-20 13:35  warnes

	* gplots/: R/balloonplot.R, man/balloonplot.Rd:
	  - Updated balloonplot help page.

2003-01-20 12:13  warnes

	* gplots/: R/wapply.R, man/wapply.Rd:
	  - Updated wapply.R to allow specification of evaluation points
	  when	 method is 'width' or 'range' using the 'pts' argument.  -
	  Updated wapply.Rd to add 'pts' argument - Fixed typos, spelling
	  errors, gramatical errors and lack of clarity   in wapply.Rd help
	  text.

2003-01-03 16:34  warnes

	* gplots/: R/balloonplot.R, man/balloonplot.Rd: - Initial checkin
	  of balloonplot functions and documentation.

2003-01-03 14:23  warnes

	* gplots/man/space.Rd: - Added reference to and comparison example
	  of sunflowerplot.  - Added code to put example plots on same plot
	  window using par(mfrow=...).

2003-01-02 11:11  tag rel_0_7_5

2003-01-02 11:11  warnes

	* DESCRIPTION: Updated version number and added Kjetil to list of
	  contributors.

2003-01-02 11:09  warnes

	* gplots/R/barplot2.R:
	  - Changed assignment statements that used "=" to "<-" to avoid
	  syntax   errors in older versions of the S language.

2003-01-02 11:07  warnes

	* gplots/R/lowess.R:
	  - Added wrapper code so that R-specific fiddling won't be
	  executed   under S-Plus.

2003-01-02 10:42  warnes

	* gtools/R/RSCompat.S: - Add nlevels function.

2003-01-02 10:40  warnes

	* gplots/: R/qqnorm.aov.R, man/qqnorm.aov.Rd: - Renamed first
	  parameter to match qqnorm generic.

2003-01-02 10:14  warnes

	* gplots/man/qqnorm.aov.Rd: Added additional help text from Kjeitl.

2002-12-31 14:50  warnes

	* gplots/: R/qqnorm.aov.R, man/qqnorm.aov.Rd: Initial checkin of
	  qqnorm.aov function and documentation submitted by Kjetil
	  Halvorsen <kjetilh@jupiter.umsanet.edu.bo>.

2002-11-04 09:24  warnes

	* DESCRIPTION: - Added dependency on R >= 1.6.0 due to code in
	  barplot2() - Since MASS is now a dependency in DESCRIPTION, I
	  removed the now   redundant check for MASS in .First.lib().

2002-11-04 09:21  warnes

	* gplots/: R/barplot2.R, man/barplot2.Rd: Updates from Marc
	  Schwartz:

	  - Updated underlying code to be based upon the new barplot() in R
	  v1.6.1 - This now uses the 'axis.lty' and 'border' arguments - In
	  R v1.6.0, R Core introduced a new function called axTicks().
	  This is an R equivalent of the C code for CreateAtVector in
	  plot.c.    This now enables me to get the axis tick mark
	  positions consistently    when the 'height' related axis is
	  either linear or log.  Thus, I can	now have consistent tick
	  marks and can plot grid lines in either    situation.  If
	  'plot.grid = TRUE' and 'grid.inc' is specified, then	  I still
	  use pretty() to determine the tick marks and lines.  - This code
	  now depends on R 1.6.0 or later.

2002-11-04 09:13  warnes

	* gmodels/R/CrossTable.R:
	  - Moved fisher.test() to after table is printed, so that table is
	  still printed in the event that fisher.test() results in
	  errors.

2002-10-29 21:32  tag rel_0_7_3

2002-10-29 21:32  warnes

	* DESCRIPTION:
	  Updated version number for 2002-10-29 release.

2002-10-29 21:21  warnes

	* gplots/R/plot.lm.R:
	  - Commented out plot.lm() code since recent changes in R have
	  broken it.

2002-10-29 18:06  warnes

	* gmodels/: R/fast.prcomp.R, man/fast.prcomp.Rd:
	  - Fixes to fast.svd to make it actually work.  - Updates to man
	  page to fix mistmatches between code and docs and to	 fix
	  warnings.

2002-10-29 18:00  warnes

	* gmodels/: R/make.contrasts.R, man/make.contrasts.Rd:
	  - Moved make.contrasts to a separate file.  - Enhanced make
	  contrasts to better label contrast matrix, to give   how.many a
	  default value, and to coerce vectors into row matrixes.  - Added
	  help page for make.contrasts.  - Added link from contrasts.lm
	  seealso to make.contrasts.

2002-10-29 14:29  warnes

	* gmodels/: R/fast.prcomp.R, man/fast.prcomp.Rd: Initial checkin
	  for fast.prcomp() and fast.svd().

2002-10-11 14:38  tag rel_0_7_2

2002-10-11 14:38  warnes

	* DESCRIPTION:
	  - Updated version number in DESCRIPTION.

2002-10-11 14:22  warnes

	* gtools/: R/permute.R, man/permute.Rd:
	  - Add permute() function (wraper for sample) and man page

2002-10-11 14:21  warnes

	* gtools/man/dirichlet.Rd:
	  - Escaped underscores in my email address that was causing a
	  parse   error in the {r,p}dirichlet man page.

2002-10-11 14:02  warnes

	* gplots/R/barplot2.R:
	  - Fixed log scale errors in legend() call

2002-10-01 14:16  warnes

	* gplots/man/hist2d.Rd:
	  - Added examples of using 'contour' and 'filled.contour' for
	  display.

2002-09-30 16:45  warnes

	* DESCRIPTION:
	  - Updated version number after adding rdirichlet() and
	  ddirichlet()

2002-09-30 16:43  warnes

	* gtools/: R/dirichlet.R, man/dirichlet.Rd:
	  - Added rdirichlet() and ddirichlet() with accompaning help page
	  and tests.

2002-09-26 08:11  warnes

	* gmodels/man/glh.test.Rd: - Added note and example code to
	  illustrate how to properly compute   contrasts for the first
	  factor in the model.

2002-09-24 16:20  tag rel_0_7_0

2002-09-24 16:20  warnes

	* DESCRIPTION:
	  Update version number after fixing bugs and adding regression
	  tests.

2002-09-24 15:12  warnes

	* gmodels/R/glh.test.R:
	  - Fixed a typo.

2002-09-24 11:01  warnes

	* DESCRIPTION:
	  Updated to version 0.6.1, corresponding to some bug fixes.

2002-09-24 10:57  warnes

	* gtools/R/running.R:
	  - Fixed error where running was always calling running2 with
	  'fun=mean', ignoring the specified funtion.

2002-09-24 10:53  warnes

	* gplots/R/plotmeans.R:
	  - Changed digits=options("digits") which produces a list of
	  length 1   to digits=getOption("digits") which returns a vector
	  of length one.    The former was causing an error when passed to
	  round().

2002-09-23 10:27  tag rel_0_6_0

2002-09-23 10:27  warnes

	* gmodels/man/CrossTable.Rd, gmodels/man/glh.test.Rd,
	  gplots/man/barplot2.Rd:
	  - Fixed syntax errors in barplot2.Rd and CrossTable.Rd - Fixed
	  incorrect translation of 'F' (distribution) to 'FALSE' in
	  glh.test.Rd

2002-09-23 10:02  warnes

	* gdata/inst/doc/: Rnews.dtx, Rnews.sty, gregmisc.pdf,
	  gregmisc.tex:
	  Added inst/doc directory and contents to CVS.

2002-09-23 09:59  warnes

	* gdata/R/aggregate.table.R, gdata/R/combine.R,
	  gdata/R/interleave.R, gdata/R/nobs.R,
	  gdata/man/aggregate.table.Rd, gdata/man/combine.Rd,
	  gdata/man/interleave.Rd, gdata/man/nobs.Rd,
	  gdata/man/rename.vars.Rd, gdata/man/reorder.Rd, gmodels/R/ci.R,
	  gmodels/man/estimable.Rd, gmodels/man/glh.test.Rd,
	  gplots/R/boxplot.n.R, gplots/R/hist2d.R, gplots/R/lowess.R,
	  gplots/R/residplot.R, gplots/man/bandplot.Rd,
	  gplots/man/hist2d.Rd, gplots/man/lowess.Rd, gplots/man/plotCI.Rd,
	  gplots/man/space.Rd, gtools/man/combinations.Rd,
	  gtools/man/quantcut.Rd: - Modified all files to include CVS Id
	  and Log tags.

2002-09-23 09:38  warnes

	* DESCRIPTION, gmodels/R/CrossTable.R, gmodels/man/CrossTable.Rd,
	  gplots/R/barplot2.R, gplots/man/barplot2.Rd,
	  gtools/R/combinations.R:
	  - Added CrossTable() and barplot2() code and docs contributed by
	  Marc Schwartz.  - Permit combinations() to be used when r>n
	  provided repeat.allowed=TRUE - Bumped up version number

2002-08-01 15:37  tag rel_0_5_5

2002-08-01 15:37  warnes

	* DESCRIPTION, gmodels/R/ci.R, gmodels/man/ci.Rd,
	  gmodels/man/estimable.Rd, gmodels/man/glh.test.Rd,
	  gplots/R/hist2d.R, gplots/R/wapply.R, gtools/R/running.R:
	  - Corrected documentation mismatch for ci, ci.default.

	  - Replaced all occurences of '_' for assignment with '<-'.

	  - Replaced all occurences of 'T' or 'F' for 'TRUE' and 'FALSE'
	  with	 the spelled out version.

	  - Updaded version number and date.

2002-08-01 14:06  tag rel_0_5_4

2002-08-01 14:06  warnes

	* gdata/R/reorder.R:
	  Added reorder() function to reorder the levels of a factor.

2002-04-08 20:51  tag rel_0_5_3

2002-04-08 20:51  warneg

	* DESCRIPTION, gmodels/R/ci.R, gplots/R/bandplot.R,
	  gplots/R/boxplot.n.R, gmodels/R/estimable.R,
	  gmodels/R/glh.test.R, gplots/R/hist2d.R, gtools/R/combinations.R,
	  gdata/R/rename.vars.R, gplots/R/plot.lm.R, gplots/R/plotCI.R,
	  gplots/R/plotmeans.R, gplots/R/residplot.R,
	  gdata/man/aggregate.table.Rd, gplots/R/space.R,
	  gplots/R/wapply.R, gplots/man/bandplot.Rd,
	  gplots/man/boxplot.n.Rd, gdata/man/interleave.Rd,
	  gmodels/man/glh.test.Rd, gplots/man/hist2d.Rd,
	  gplots/man/plotmeans.Rd, gtools/man/combinations.Rd,
	  gdata/man/reorder.Rd, gplots/man/space.Rd, gplots/man/wapply.Rd,
	  gtools/man/running.Rd:
	  Checkin for version 0.5.3

2002-04-08 20:46  warneg

	* gdata/R/interleave.R: - Properly handle case when some or all
	  arguments are vectors.

2002-03-27 15:51  warneg

	* gplots/man/lowess.Rd:
	  Added "..." argument to lowess.default.

2002-03-27 14:48  warneg

	* gplots/R/lowess.R: - Added code to append "..." to the argument
	  list of lowess.default.

	  - Fixed a wrong default for f in lowess.formula.  Was 3, but
	  should   have been 2/3.

2002-03-26 16:22  tag rel_0_5_1

2002-03-26 16:22  warneg

	* gmodels/R/ci.R, gmodels/R/glh.test.R, gplots/R/lowess.R,
	  gdata/man/reorder.Rd, gmodels/man/ci.Rd, gmodels/man/glh.test.Rd,
	  gplots/man/lowess.Rd:
	  - Changed methods to include '...' to match the generic.  -
	  Updated for version 0.5.1

2002-03-26 16:21  warneg

	* DESCRIPTION:
	  Updated for version 0.5.1

2002-03-26 14:29  warneg

	* gdata/R/nobs.R:
	  Added ... to methods.

2002-03-26 14:29  warneg

	* gdata/man/nobs.Rd:
	  Updated to add ... parameter to function calls.

2002-03-26 14:24  warneg

	* gplots/man/hist2d.Rd:
	  Initial checkin.

2002-03-26 10:30  warneg

	* gmodels/man/glh.test.Rd: Removed incorrect link to 'contrast'
	  from seealso.

2002-03-26 10:27  warneg

	* gdata/man/reorder.Rd:
	  Initial checkin.

2002-03-26 09:49  warneg

	* gtools/man/quantcut.Rd:
	  Initial Checkin

2002-03-26 09:29  warneg

	* gtools/R/quantcut.R:
	  Initial checkin.

2002-03-26 09:28  warneg

	* gdata/R/nobs.R: - Added CVS tags

2002-03-19 23:17  warneg

	* gplots/R/plotmeans.R: - Changes to add compatibility with S-Plus
	  2000

2002-03-19 23:16  warneg

	* gplots/R/plotCI.R: - Changes to add compatibility with S-Plus
	  2000.

2002-03-19 22:48  warneg

	* gplots/R/boxplot.n.R:
	  - Updated to work in S-Plus 2000 as well as R.

2002-03-19 22:44  warneg

	* gtools/R/RSCompat.S: - Added definition of is.R function.

	  - Added boxplot.formula

2002-03-07 18:39  warneg

	* gtools/man/running.Rd: - Added documentation and example for
	  running2

2002-03-07 18:38  warneg

	* gtools/R/running.R:
	  - Added "running2", which handles both univariate and bivariate
	  cases - Modified "running" to call "running2"

2002-03-05 11:44  warneg

	* gplots/R/plotmeans.R: - Replace "T" with "TRUE".  Problems arrive
	  when there is a variable named "T".

2002-02-21 16:45  warneg

	* gdata/R/aggregate.table.R:
	  - Fixed bug where row and column labels didn't always correspond
	  to the contents.  This only occured when a factor was used for
	  by1 or by2 and the factors levels weren't in the default sort
	  order.

2002-02-20 17:10  warneg

	* gdata/R/aggregate.table.R:
	  New function.

2002-02-20 17:09  warneg

	* gdata/man/aggregate.table.Rd:
	  Initial checkin.

2002-02-20 16:41  warneg

	* gdata/: man/interleave.Rd, R/interleave.R: Initial checkin.

2002-02-20 16:31  warneg

	* gdata/man/nobs.Rd:
	  Noted that specialized methods exist.

2002-02-20 16:29  warneg

	* gdata/man/nobs.Rd:
	  Incorrectly had contents of nobs.R here instead of help text.
	  Corrected.

2002-02-20 15:09  warneg

	* gmodels/man/ci.Rd, gmodels/man/estimable.Rd,
	  gmodels/man/glh.test.Rd, gplots/man/lowess.Rd,
	  gplots/man/plotCI.Rd, gdata/man/rename.vars.Rd,
	  gplots/man/space.Rd:
	  Minor changes, typo and formatting fixes.

2002-02-20 15:06  warneg

	* gplots/: R/bandplot.R, man/bandplot.Rd:
	  - Generalized to allow specification of the multiples of the
	  standard deviation levels to be plotted (0=mean, 1=1 sd, ..).  -
	  Now (invisibly) returnes computed smooths.

2002-02-20 15:03  warneg

	* gdata/: R/nobs.R, man/nobs.Rd: - initial checkin.

2002-02-16 13:16  warneg

	* gplots/man/bandplot.Rd:
	  Added bandplot documentation.

2002-02-16 12:58  warneg

	* gplots/R/wapply.R:
	  - Fixed Bug: When method=="range", the absolute range of x was
	  being   used to compute the relative width instead of the
	  (correct) relative   range.

2002-02-16 12:23  warneg

	* gplots/R/wapply.R:
	  - Corrected problem removing missing values: The missing values
	  of $x   and $y were being removed indepdendently, leaving an
	  uneven number   of points in the result.

2002-02-04 21:20  warneg

	* gtools/R/RSCompat.S:
	  - Fix typo that caused code meant to run only under S-Plus to run
	  under R, causing problems.

2002-02-04 18:20  warneg

	* gplots/R/space.R:
	  - Add na.rm parameter and make the default TRUE.

2002-02-04 18:19  warneg

	* gplots/R/hist2d.R:
	  Initial checkin.

2002-02-04 14:12  warneg

	* gplots/R/plotCI.R:
	  - When err="x", 'col' was being used to plot bars, rather than
	  'barcol'.

2002-02-04 14:09  warneg

	* gplots/R/plotCI.R:
	  - fixed typo, when err="x", lty was 'slty' causing an error.

2002-01-17 18:51  warneg

	* gmodels/man/estimable.Rd:
	  - Fixed errror in last example by adding 'conf.int' parameter to
	  'estimable' call.

2002-01-17 18:42  warneg

	* gmodels/R/glh.test.R:
	  - Fixed typo in code that resulted in an syntax error.

2002-01-10 12:35  warneg

	* gmodels/R/glh.test.R:
	  - print.glh.test() was using cat() to printing the call.  This
	  didn't work and generated an error.

2001-12-19 17:45  warneg

	* gtools/R/RSCompat.S: - Added code for %in%.

2001-12-19 15:06  warneg

	* gmodels/man/glh.test.Rd:
	  - Fixed display of formulae.	- Added description of return value

2001-12-19 15:05  warneg

	* gmodels/R/glh.test.R:
	  - Removed extra element of return object.

2001-12-18 17:14  warneg

	* gmodels/man/estimable.Rd:
	  - Updated documentation to reflect change of parameters from
	  'alpha'   to 'conf.int', including the new optional status of the
	  confidence   intervals.

2001-12-18 17:12  warneg

	* gmodels/R/estimable.R:
	  - Modified to make confidence intervals optional.  Changed
	  'alpha'   parameter giving significance level to 'conf.int'
	  giving confidence   level.

2001-12-18 16:36  warneg

	* gmodels/man/glh.test.Rd:
	  - Added summary.glh.test to alias, usage, and example sections.

2001-12-18 16:34  warneg

	* gmodels/R/glh.test.R: - Modified to work correctly when obj is of
	  class 'aov' by specifying   summary.lm instead of summary.  This
	  ensures that the summary object   has the fields we need.

	  - Moved detailed reporting of results from 'print' to 'summary'
	  function and added a simpler report to 'print'

2001-12-18 16:27  warneg

	* gmodels/R/estimable.R:
	  - Modified to work correctly when obj is of class 'aov' by
	  specifying   summary.lm instead of summary.  This ensures that
	  the summary object   has the fields we need.

2001-12-17 19:43  warneg

	* gmodels/: R/glh.test.R, man/glh.test.Rd:
	  Initial checkin.

2001-12-17 14:13  tag rel_0_5_0

2001-12-17 14:13  warneg

	* DESCRIPTION:
	  Updated to include new functions and thier contributors.

2001-12-17 13:59  warneg

	* gmodels/man/estimable.Rd:
	  - Fixed spelling errors.

2001-12-17 13:52  warneg

	* gmodels/man/estimable.Rd:
	  - Fixed the link to contrasts.lm.  - Rephrased title/description
	  to be more clear.

2001-12-11 20:41  warneg

	* gplots/man/space.Rd:
	  - Quoted underscore character in my email address.  - Added
	  correct keyword.

2001-12-11 20:39  warneg

	* gdata/man/rename.vars.Rd:
	  Added omitted documentaton for 'info' parameter.  Changed example
	  code not to use 'Orthodont' data set so that the nlme package is
	  not required.

2001-12-11 20:37  warneg

	* gplots/man/plotmeans.Rd:
	  Added documentation for xaxt parameter.

2001-12-11 20:34  warneg

	* gplots/R/lowess.R:
	  Updated to explicitly list control arguments to lowess.formula.

2001-12-11 20:34  warneg

	* gplots/man/lowess.Rd:
	  Initial checkin.  Code copied from R source package and extended.

2001-12-10 14:35  warneg

	* gmodels/man/estimable.Rd: Renamed 'contrsts.coeff.Rd' to
	  'estimable.Rd' corresponding to function rename.

2001-12-10 14:26  warneg

	* gmodels/R/estimable.R: renamed from contrast.coeff.R to
	  estimable.R (incorrectly via contrast.lm.R)

2001-12-07 20:54  warneg

	* gdata/R/rename.vars.R: Changed 'T' to 'TRUE' in parameter list.

2001-12-07 18:34  warneg

	* gplots/man/wapply.Rd:
	  Fixed an problem where \code was incorrectly delimited by parens
	  rather than curly brackets.

2001-12-07 18:33  warneg

	* gdata/man/rename.vars.Rd: - Fixed see also link.  Mis-typed
	  'data.frame' as 'dataframe'.

2001-12-07 17:55  warneg

	* gdata/R/rename.vars.R:
	  Added attribution.

2001-12-07 17:49  warneg

	* gdata/man/rename.vars.Rd:
	  Added proper attribution to Don MacQueen.

2001-12-07 17:33  warneg

	* gplots/R/: lowess.R, plot.lm.R, residplot.R:
	  Initial checkin.

2001-12-07 17:29  warneg

	* gplots/man/space.Rd:
	  Initial checkin.

2001-12-07 17:24  warneg

	* gplots/R/space.R:
	  - Added cvs tags.

2001-12-07 17:23  warneg

	* gplots/R/space.R:
	  - Leave first point at center, rather than shifting by s/2 to the
	  left.  This looks better when there are more than 2 'spaced'
	  points.

2001-12-07 16:48  warneg

	* gdata/man/rename.vars.Rd:
	  Initial checkin.  Unfortunately, I've lost the email of the
	  person who sent this to me.  I'll credit him/her when I find out
	  who it was!

2001-12-07 16:40  warneg

	* gdata/R/rename.vars.R:
	  Initial checkin

2001-12-07 14:50  warneg

	* gmodels/man/ci.Rd: - Added text noting that lme is now supported.

2001-12-07 14:19  warneg

	* gmodels/R/ci.R: - Fixed typo:  DF column was being filled in with
	  p-value.

2001-12-07 13:49  warneg

	* gmodels/R/ci.R: - Added ci.lme method to handle lme objects.

2001-12-05 14:51  warneg

	* gdata/R/combine.R:
	  - Renamed 'concat' function to 'combine' to avoid name conflict
	  with	 an existing S-Plus function.

2001-12-05 14:49  warneg

	* gplots/R/plotmeans.R: - Added ability to use the t-distribution
	  to compute confidence   intervals.  This is controlled using the
	  'use.t' parameter.

2001-12-05 14:44  warneg

	* gdata/man/combine.Rd:
	  - Changed function name 'concat' to 'combine' and renamed
	  concat.Rd to	 combine.Rd

2001-12-05 14:41  warneg

	* gplots/man/plotmeans.Rd: - Added documentation of use.t
	  parameter.

2001-12-05 14:36  warneg

	* gplots/man/wapply.Rd:  - Clarified how the width of the window is
	  computed when method="nobs".

2001-12-05 14:29  warneg

	* gplots/R/wapply.R:
	  - Added a better default for "width" when method="nobs".  For
	  this case,   width=max(5, length(x)/10).

	  - Allow omission of x values which result in missing y values via
	    'drop.na' parameter.

2001-10-25 22:48  warneg

	* gplots/R/plotmeans.R:
	  Added correct handling of 'xaxt="n"'.

2001-10-16 19:14  warneg

	* gmodels/man/ci.Rd, gplots/man/wapply.Rd:
	  Fixed unbalanced brace.

2001-10-16 19:06  warneg

	* gplots/man/plotCI.Rd:
	  Added minbar and maxbar parameters.

2001-10-16 19:04  warneg

	* gplots/man/plotmeans.Rd:
	  Forgot to add minbar and maxbar to usage section.

2001-10-16 19:03  warneg

	* gplots/man/plotmeans.Rd:
	  Added description of minbar and maxbar.

2001-10-16 19:00  warneg

	* gplots/R/plotCI.R:
	  - Added minbar and maxbar parameters - Added cvs id and log tags
	  to header

2001-10-16 18:59  warneg

	* gplots/R/plotmeans.R:
	  Added cvs id and log tag to file header

2001-10-16 18:57  warneg

	* gplots/R/plotmeans.R:
	  Added minbar and maxbar parameters.

2001-10-16 18:35  warneg

	* gplots/man/plotmeans.Rd:
	  Added description of minsd parameter.

2001-10-16 18:35  warneg

	* gplots/R/plotmeans.R: Added minsd parameter.

2001-09-18 10:15  warneg

	* DESCRIPTION, gtools/R/RSCompat.S, gplots/R/plotCI.R,
	  gplots/R/plotmeans.R:
	  Release 0.3.2

2001-09-01 15:19  warneg

	* gtools/R/RSCompat.S:
	  Initial checkin.

2001-08-31 20:01  warneg

	* DESCRIPTION, gtools/R/running.R, gplots/man/wapply.Rd,
	  gtools/man/running.Rd: Release 0.3.0

2001-08-31 19:45  warneg

	* gplots/R/wapply.R: Used wrong character in header (% instead of
	  #).  Fixed.

2001-08-31 19:41  warneg

	* gplots/R/bandplot.R:
	  Used wrong comment character (% instead of #) in header.  Fixed.

2001-08-25 01:53  warneg

	* gtools/R/running.R: Initial CVS checkin.

2001-08-25 01:52  warneg

	* gmodels/man/ci.Rd: - Added CVS header.  - Added my email address.

2001-08-25 01:50  warneg

	* gtools/man/combinations.Rd: Fixed a typo and a syntax error.

2001-08-25 01:48  warneg

	* gplots/R/wapply.R: Initial checkin.

2001-08-25 01:46  warneg

	* gplots/man/: boxplot.n.Rd, plotmeans.Rd: Added CVS header.

2001-08-25 01:45  warneg

	* gplots/man/wapply.Rd: Initial Checkin

2001-08-24 23:59  warneg

	* gtools/man/running.Rd: Initial Checkin

2001-06-29 09:23  warneg

	* gtools/: R/combinations.R, man/combinations.Rd:
	  Initial revision.

2001-06-05 14:39  warneg

	* DESCRIPTION:
	  Updated with addition of concat.R and concat.Rd.

2001-05-30 09:23  tag null

2001-05-30 09:23  warneg

	* DESCRIPTION, gmodels/R/ci.R, gmodels/man/ci.Rd,
	  gplots/R/boxplot.n.R, gplots/R/plotCI.R, gplots/R/plotmeans.R,
	  gplots/man/boxplot.n.Rd, gplots/man/plotCI.Rd,
	  gplots/man/plotmeans.Rd:
	  Initial CVS import

2001-05-30 09:23  warneg

	* DESCRIPTION, gmodels/R/ci.R, gmodels/man/ci.Rd,
	  gplots/R/boxplot.n.R, gplots/R/plotCI.R, gplots/R/plotmeans.R,
	  gplots/man/boxplot.n.Rd, gplots/man/plotCI.Rd,
	  gplots/man/plotmeans.Rd: Initial revision

