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[R-gregmisc-users] SF.net SVN: r-gregmisc:[1687] trunk/gregmisc
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From: <wa...@us...> - 2013-06-28 21:41:25
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Revision: 1687
http://sourceforge.net/p/r-gregmisc/code/1687
Author: warnes
Date: 2013-06-28 21:41:23 +0000 (Fri, 28 Jun 2013)
Log Message:
-----------
Move NEWS to inst/NEWS
Added Paths:
-----------
trunk/gregmisc/inst/NEWS
Removed Paths:
-------------
trunk/gregmisc/NEWS
Deleted: trunk/gregmisc/NEWS
===================================================================
--- trunk/gregmisc/NEWS 2013-06-28 21:37:23 UTC (rev 1686)
+++ trunk/gregmisc/NEWS 2013-06-28 21:41:23 UTC (rev 1687)
@@ -1,259 +0,0 @@
-
-This file provides a brief list of major feature enhancements
-associated with each package release. For a more detailed list of
-changes see the ChangeLog file.
-
-Version 2.0.6
--------------
-
-Bug fixes:
-
- * gplots::overplot() - Troels Ring <tr...@gv...> noted that
- overplot() was reporting
- Error in eval(expr, envir, enclos) : couldn't find
- function "lowess.formula"
- Fixed by changing reference to gplots:::lowess.formula in
- panel.overplot.
-
-Version 2.0.5
--------------
-
-New functions:
-
- * gmodels::coefFrame() - Fits a model to each subgroup defined by
- \code{by}, then returns a data frame with one row for each
- fit and one column for each parameter.
-
-Function changes:
-
- * frameApply() and drop.levels() have been moved to the
- gdata package from the gtools package.
-
- * gtools::quantcut() now properly handles cases where
- where more than one quantile obtains the same value.
-
-Bug fixes:
-
- * Minor change to avoid 'R CMD check' warnings generated by
- example code for the depreciated gdata::elem() function.
-
- * Fixed a bug in gtools::mixedsort when only a single value
- is provided.
-
-
-Version 2.0.4
--------------
-
-New functions:
-
- * ConvertMedUnits.R - Convert Medical measurements between
- International Standard (SI) and US 'Conventional' Units.
-
-New data:
-
- * MedUnits data set provides conversions between American
- US 'Conventional' and Standard Intertional (SI) medical
- units.
-
-Bug fixes:
-
- * Fix behavior of ll() with some data types.
-
- * Minor update to remove 'R CMD check' warnings.
-
-New sub-package:
-
- * Add a 'gregmisc' subpackage. This package simply loads
- all of the other packages. This should help individuals
- who are used to the old gregmisc package..
-
-
-Version 2.0.3
--------------
-
-New functions:
-
- * gdata::unmatrix - function for converting a matrix into a
- well-labeled vector
-
- * gtools::frameApply - Apply a functon the the rows of a data
- frame.
-
- * gtools::drop.levels remove unused factor levels from the
- factors contained in a data frame
-
-Feature enhancements:
-
-
- * gdata::ll - Now handles list-like objects, including data
- frames
-
- * gmodels::CrossTable - Added 'SPSS' format, as suggested by
- Dirk Enzmann
-
- * gplots::heatmap.2 -
-
- - Add new parameters for controlling color key -
-
- - New parameter to allow control of height and width of
- separator box
-
- * gmodels::CrossTable - Show Chisquare contribution of each
- cell, suggested by Greg Snow.
-
- * gdata::read.xls - Add ability to specify the perl executable
- and path.
-
-Bug fixes:
-
- * gplots::heatmap2 -
-
- - cell note layout was incorrect
-
- - Fix handling of rowsep::colsep.
-
- - Ignore missing values when computing symmetric range.
-
- * gplots::bandplot - Fix problem in passing graphical parameters
-
- * add import of 'reorder' and 'na.omit' from 'stats' package
- to satisfy packages depending on us.
-
-Other changes:
-
- * gplots::textplot - Code can be simplified because R now
- supports selecting a fixed width font.
-
- * gplots::plotmeans - Add more extensive example.
-
- * gdata::elem - depreciated in favor of gdata::ll
-
-
-Version 2.0.0
--------------
-
-First release as a package bundle. Functions are now segregated into four topic-specific packages:
-
- gplots
- gmodels
- gtool
- gmisc
-
-Thanks to Nitin Jain for doing most of the work of the conversion to
-a package bundle.
-
-
-Version 1.11.2
---------------
-
-- Simpify and fix the build process on both *nix and Windows by simply
- providing pre-built perl modules.
-
-
-Version 1.11.1
---------------
-
-- Fix building of of gregmisc on Windows:
-
- Runtime Requirements:
-
- ActiveState perl in the PATH
-
- Build Requirements:
-
- ActiveState perl and Microsoft's NMAKE utility in the PATH
- (A self extracting archive file containing NMAKE is available from
- <ftp://ftp.microsoft.com/Softlib/MSLFILES/nmake15.exe>.)
-
- This was tested on Windows2000 Pro with ActivePerl-5.8.3.809-MSWin32-x86.msi
-
-- (Hopefully) Fix building on Linux with Perl 5.8.0. Perl 5.8.3 is
- reported to work without error on Linux, as does perl 5.6.1 on Solaris.
-
-Version 1.11.0
---------------
-
-- Bump version number to 1.11.0 to better reflect the production
- status of the package.
-
-- Add read.xls(), a function to read Microsoft Excel files by
- translating them to csv files via the xls2csv.pl script, which has
- also been added to the package. I've provided scripts to run xls2csv:
-
- Unix systems: $PACKAGE$/gregmisc/bin/xls2csv
- MS-Windows: $PACKAGE$/gregmisc/bin/xls2csv.bat
-
- or you can execute the perl code directly:
-
- $PACKAGE$/gregmisc/perl/xls2csv.pl
-
- The perl script explicitly loads its libraries from the installed
- gregmisc so you don't have to worry about paths. To get usage and
- parameter information, simply execute the script via any of the
- above methods without providing any command-line arguments.
-
-
-- Improvements to CrossTable() by Marc Schwartz <MSc...@Me...>
-
-- Improvements to ooplot() by Lodewijk Bonebakker <bon...@co...>
-
-- plotCI() and plotmeans() now have improved argument handling.
-
-- The running() function now has an additional parameter `simplify'
- which controls whether the returned values are simplified into a
- vector/matrix or left as a list.
-
-- A makefile that will download and attempt to install all available
- packages from CRAN and Bioconductor is now provided in
- $PACKAGE$/gregmisc/tools/
-
-- space() can now space points along the 'y' dimension.
-
-- Fix an error in the permutations code for repeats.allow=T and r>2.
- Both the bug report and fix are from Elizabeth Purdom
- <ep...@st...>.
-
-- Various fixes for compatibility with R 1.9.X.
-
-Version 0.10.2
---------------
-
-- Fixed latex warning.
-
-- Fixed smartlegend() positioning when x and/or y axis are log-scale.
-
-- Add function remove.vars().
-
-Version 0.10.1
---------------
-
-- Fixed bug in textplot() reported by Kevin Wright <kevin.d.wright at pioneer
- dot com>.
-
-Version 0.10.0
---------------
-
-- Now works with and requires R 1.9.0
-
-- Added ooplot() function that mimics Open-Office style plots.
- Contributed by Lodewijk Bonebakker <bon...@co...>
-
-- Fixed bug in running() that arose when the called function
- really neaded a minimum number of elements to work on.
-
-- Added several new features to running(), it can now allow sequences
- shorter than the requested width to be present at the front, the back,
- or on both sides of the full lenth sequences. This allows one to
- align the data so that the window is before, after, or around the
- indexed point.
-
-- Add enhancements to estimable() provided by S\xF8ren H\xF8jsgaard
- <so...@ag...>:
-
- The estimable function now
- 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.
-
-- Add colorpanel function, which generates a smoothly varying band of
- colors over a three color range (lo, mid, high).
Copied: trunk/gregmisc/inst/NEWS (from rev 1649, trunk/gregmisc/NEWS)
===================================================================
--- trunk/gregmisc/inst/NEWS (rev 0)
+++ trunk/gregmisc/inst/NEWS 2013-06-28 21:41:23 UTC (rev 1687)
@@ -0,0 +1,259 @@
+
+This file provides a brief list of major feature enhancements
+associated with each package release. For a more detailed list of
+changes see the ChangeLog file.
+
+Version 2.0.6
+-------------
+
+Bug fixes:
+
+ * gplots::overplot() - Troels Ring <tr...@gv...> noted that
+ overplot() was reporting
+ Error in eval(expr, envir, enclos) : couldn't find
+ function "lowess.formula"
+ Fixed by changing reference to gplots:::lowess.formula in
+ panel.overplot.
+
+Version 2.0.5
+-------------
+
+New functions:
+
+ * gmodels::coefFrame() - Fits a model to each subgroup defined by
+ \code{by}, then returns a data frame with one row for each
+ fit and one column for each parameter.
+
+Function changes:
+
+ * frameApply() and drop.levels() have been moved to the
+ gdata package from the gtools package.
+
+ * gtools::quantcut() now properly handles cases where
+ where more than one quantile obtains the same value.
+
+Bug fixes:
+
+ * Minor change to avoid 'R CMD check' warnings generated by
+ example code for the depreciated gdata::elem() function.
+
+ * Fixed a bug in gtools::mixedsort when only a single value
+ is provided.
+
+
+Version 2.0.4
+-------------
+
+New functions:
+
+ * ConvertMedUnits.R - Convert Medical measurements between
+ International Standard (SI) and US 'Conventional' Units.
+
+New data:
+
+ * MedUnits data set provides conversions between American
+ US 'Conventional' and Standard Intertional (SI) medical
+ units.
+
+Bug fixes:
+
+ * Fix behavior of ll() with some data types.
+
+ * Minor update to remove 'R CMD check' warnings.
+
+New sub-package:
+
+ * Add a 'gregmisc' subpackage. This package simply loads
+ all of the other packages. This should help individuals
+ who are used to the old gregmisc package..
+
+
+Version 2.0.3
+-------------
+
+New functions:
+
+ * gdata::unmatrix - function for converting a matrix into a
+ well-labeled vector
+
+ * gtools::frameApply - Apply a functon the the rows of a data
+ frame.
+
+ * gtools::drop.levels remove unused factor levels from the
+ factors contained in a data frame
+
+Feature enhancements:
+
+
+ * gdata::ll - Now handles list-like objects, including data
+ frames
+
+ * gmodels::CrossTable - Added 'SPSS' format, as suggested by
+ Dirk Enzmann
+
+ * gplots::heatmap.2 -
+
+ - Add new parameters for controlling color key -
+
+ - New parameter to allow control of height and width of
+ separator box
+
+ * gmodels::CrossTable - Show Chisquare contribution of each
+ cell, suggested by Greg Snow.
+
+ * gdata::read.xls - Add ability to specify the perl executable
+ and path.
+
+Bug fixes:
+
+ * gplots::heatmap2 -
+
+ - cell note layout was incorrect
+
+ - Fix handling of rowsep::colsep.
+
+ - Ignore missing values when computing symmetric range.
+
+ * gplots::bandplot - Fix problem in passing graphical parameters
+
+ * add import of 'reorder' and 'na.omit' from 'stats' package
+ to satisfy packages depending on us.
+
+Other changes:
+
+ * gplots::textplot - Code can be simplified because R now
+ supports selecting a fixed width font.
+
+ * gplots::plotmeans - Add more extensive example.
+
+ * gdata::elem - depreciated in favor of gdata::ll
+
+
+Version 2.0.0
+-------------
+
+First release as a package bundle. Functions are now segregated into four topic-specific packages:
+
+ gplots
+ gmodels
+ gtool
+ gmisc
+
+Thanks to Nitin Jain for doing most of the work of the conversion to
+a package bundle.
+
+
+Version 1.11.2
+--------------
+
+- Simpify and fix the build process on both *nix and Windows by simply
+ providing pre-built perl modules.
+
+
+Version 1.11.1
+--------------
+
+- Fix building of of gregmisc on Windows:
+
+ Runtime Requirements:
+
+ ActiveState perl in the PATH
+
+ Build Requirements:
+
+ ActiveState perl and Microsoft's NMAKE utility in the PATH
+ (A self extracting archive file containing NMAKE is available from
+ <ftp://ftp.microsoft.com/Softlib/MSLFILES/nmake15.exe>.)
+
+ This was tested on Windows2000 Pro with ActivePerl-5.8.3.809-MSWin32-x86.msi
+
+- (Hopefully) Fix building on Linux with Perl 5.8.0. Perl 5.8.3 is
+ reported to work without error on Linux, as does perl 5.6.1 on Solaris.
+
+Version 1.11.0
+--------------
+
+- Bump version number to 1.11.0 to better reflect the production
+ status of the package.
+
+- Add read.xls(), a function to read Microsoft Excel files by
+ translating them to csv files via the xls2csv.pl script, which has
+ also been added to the package. I've provided scripts to run xls2csv:
+
+ Unix systems: $PACKAGE$/gregmisc/bin/xls2csv
+ MS-Windows: $PACKAGE$/gregmisc/bin/xls2csv.bat
+
+ or you can execute the perl code directly:
+
+ $PACKAGE$/gregmisc/perl/xls2csv.pl
+
+ The perl script explicitly loads its libraries from the installed
+ gregmisc so you don't have to worry about paths. To get usage and
+ parameter information, simply execute the script via any of the
+ above methods without providing any command-line arguments.
+
+
+- Improvements to CrossTable() by Marc Schwartz <MSc...@Me...>
+
+- Improvements to ooplot() by Lodewijk Bonebakker <bon...@co...>
+
+- plotCI() and plotmeans() now have improved argument handling.
+
+- The running() function now has an additional parameter `simplify'
+ which controls whether the returned values are simplified into a
+ vector/matrix or left as a list.
+
+- A makefile that will download and attempt to install all available
+ packages from CRAN and Bioconductor is now provided in
+ $PACKAGE$/gregmisc/tools/
+
+- space() can now space points along the 'y' dimension.
+
+- Fix an error in the permutations code for repeats.allow=T and r>2.
+ Both the bug report and fix are from Elizabeth Purdom
+ <ep...@st...>.
+
+- Various fixes for compatibility with R 1.9.X.
+
+Version 0.10.2
+--------------
+
+- Fixed latex warning.
+
+- Fixed smartlegend() positioning when x and/or y axis are log-scale.
+
+- Add function remove.vars().
+
+Version 0.10.1
+--------------
+
+- Fixed bug in textplot() reported by Kevin Wright <kevin.d.wright at pioneer
+ dot com>.
+
+Version 0.10.0
+--------------
+
+- Now works with and requires R 1.9.0
+
+- Added ooplot() function that mimics Open-Office style plots.
+ Contributed by Lodewijk Bonebakker <bon...@co...>
+
+- Fixed bug in running() that arose when the called function
+ really neaded a minimum number of elements to work on.
+
+- Added several new features to running(), it can now allow sequences
+ shorter than the requested width to be present at the front, the back,
+ or on both sides of the full lenth sequences. This allows one to
+ align the data so that the window is before, after, or around the
+ indexed point.
+
+- Add enhancements to estimable() provided by S\xF8ren H\xF8jsgaard
+ <so...@ag...>:
+
+ The estimable function now
+ 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.
+
+- Add colorpanel function, which generates a smoothly varying band of
+ colors over a three color range (lo, mid, high).
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