PR/49817 CVS commit: pkgsrc/math/py-rpy

["Thomas Klausner" <wiz%netbsd.org@localhost>]

The following reply was made to PR pkg/49817; it has been noted by GNATS.

From: "Thomas Klausner" <wiz%netbsd.org@localhost>
To: gnats-bugs%gnats.NetBSD.org@localhost
Cc: 
Subject: PR/49817 CVS commit: pkgsrc/math/py-rpy
Date: Tue, 7 Apr 2015 22:14:19 +0000

 Module Name:	pkgsrc
 Committed By:	wiz
 Date:		Tue Apr  7 22:14:19 UTC 2015
 
 Modified Files:
 	pkgsrc/math/py-rpy: Makefile PLIST distinfo
 
 Log Message:
 Update to 2.5.6, in the hope it addresses PR 49817.
 
 Release 2.5.6
 =============
 
 Bugs fixed
 ----------
 
 - Detection of the R version during setup on Win8 (issues #255 and #258)
 
 - Segmentation fault when converting :mod:`pandas` :class:`Series` with
   elements of type object (issue #264)
 
 - The default converter from Python (non-rpy2) objects to rinterface-level
   objects was producing robjects-level objects whenever the input was of
   type :class:`list` (discovered while fixing issue #264)
 
 - Implemented suggested fix for issue with unlinking files on Windows
   (issue #191)
 
 - Testing rpy2 in the absence of ipython no longer stops with an error
   (issue #266)
 
 Release 2.5.5
 =============
 
 Bugs fixed
 ----------
 
 - Crash (segfault) when querying an R object in an R environment triggers an
   error (symbol exists, but associated values resolves to an error - issue #251)
 
 - Change in the signature of `rcall` was not updated in the documentation
   (issue #259)
 
 - Minor update to the documentation (issue #257)
 
 Release 2.5.4
 =============
 
 Bugs fixed
 ----------
 
 - Filter PNG files on size, preventing empty files causing trouble to be
   ipython notebook rendering of graphics later on (slight modification of
   the pull request #39)
 
 - Fix installation left unresolved with rpy2-2.5.3 (issue #248)
 
 - Possible segfault with Python 3.4 (issue #249)
 
 Release 2.5.3
 =============
 
 Changes
 -------
 
 - `setup.py` has `install_requires` in addition to `requires` in the hope to
    fix the missing dependency with Python 2 (:mod:`singledispatch` is required
    but not installed).
 
 Bugs fixed
 ----------
 
 - Extracting configuration information from should now work when R is emitting a warning (issue #247)
 
 - On OS X the library discovery step can yield nothing (see issue #246). A tentative fix is to issue
   a warning and keep moving.
 
 Release 2.5.2
 =============
 
 Bugs fixed
 ----------
 
 - String representation of :class:`robjects.R` (issue #238)
 
 - Check during `build_ext` if unsupported version of R (pull request #32)
 
 - HTMl display of columns of factors in a DataFrame (issue #236)
 
 - HTML display of factors (issue #242)
 
 Release 2.5.1
 =============
 
 Bugs fixed
 ----------
 
 - Require singledispatch if Python 3.3 (issue #232)
 
 - Fixed bug when R spits out a warning when asked configuration information (issue #233)
 
 - Restored printing of compilation information when running `setup.py`
 
 - Fixed installation issue on some systems (issue #234)
 
 - Workaround obscure failure message from unittest if Python < 3.4 and
   :mod:`singledispatch` cannot be imported (issue #235)
 
 Release 2.5.0
 =============
 
 New features
 ------------
 
 - Experimental alternative way to preserve R objects from garbage collection.
   This can be activated with `rinterface.initr(r_preservehash=True)` (default
   is `False`.
 
 - :class:`GGPlot` object getting a method :meth:`save`
   mirroring R's `ggplot2::ggsave()`.
 
 - The conversion system is now using generics/single dispatch.
 
 - New module :mod:`rpy2.ipython.html` with HTML display for rpy2 objects
 
 - [Experimental] New function :func:`robjects.methods.rs4instance_factory`
   to type RS4 objects with more specificity.
 
 Changes
 -------
 
 - The script `setup.py` was rewritten for clarity and ease of maintenance.
   Now it only uses `setuptools`.
 
 Release 2.4.4
 =============
 
 Bugs fixed
 ----------
 
 - Use `input` rather than `raw_input` in the default console callback
   with Python 3 (fixes issue #222)
 
 - Issues with conversions, pandas, and rmagic (fixes issue #218 and more)
 
 Release 2.4.3
 =============
 
 Bugs fixed
 ----------
 
 - `geom_raster` was missing from `rpy2.robjects.lib.ggplot2` (pull request #30)
 
 - Fixed issue with SVG rendering in ipython notebook (issue #217)
 
 - Regression with `rx2()` introduced with new conversion (issue #219)
 
 - Fixed documentation (missing `import`) (issue #213)
 
 Release 2.4.2
 =============
 
 Bugs fixed
 ----------
 
 - Assigning an R `DataFrame` into an environment was failing if
   the conversion for Pandas was activated. (Issue #207)
 
 Release 2.4.1
 =============
 
 Bugs fixed
 ----------
 
 - :meth:`rpy2.ipython` fixed spurious output to notebook cells.
 
 Release 2.4.0
 =============
 
 Changes
 -------
 
 - Conversion system slightly changed, with the optional
   conversions for :mod:`numpy` and :mod:`pandas` modified
   accordingly. The changes should only matter if using
   third-party conversion functions.
 
 - The Python 3 version is now a first class citizen. `2to3`
   is no longer used, and the code base is made directly
   compatible with Python. This lowers significantly the
   installation time with Python 3
   (which matters when developping rpy2).
 
 - The default options to initialize R (`rpy2.rinterface.initoptions') are no longer
   `('rpy2', '--quiet', '--vanilla', '--no-save')` but now
   `('rpy2', '--quiet', '--no-save')`.
 
 - :class:`robjects.vectors.ListVector` can be instanciated from
   any objects with a method `items()` with the expectation that the method
   returns an iterable of (name, value) tuples, or even be an iterable
   of (name, value) tuples.
 
 New features
 ------------
 
 - For instances of :class:`rpy2.robjects.Function`,
   the `__doc__` is now a property fetching information
   about the parameters in the R signature.
 
 - Convenience function :func:`rpy2.robjects.packages.data`
   to extract the datasets in an R pacakges
 
 - :mod:`ipython`'s `rmagic` is now part of :mod:`rpy`. To use, `%load_ext
   rpy2.ipython` from within IPython.
 
 - new method :meth:`rpy2.rinterface.SexpEnvironment.keys`, returnings
   the names in the environment as a tuple of Python strings.
 
 - convenience class :class:`robjects.packages.InstalledPackages`, with a companion function
   :func:`robjects.packages.isinstalled`.
 
 - new class :class:`rinterface.SexpSymbol` to represent R symbols
 
 Bugs fixed
 ----------
 
 - :meth:`rpy2.rinterface.Sexp.do_slot` was crashing when
   the parameter was an empty string (PR #155)
 
 Release 2.3.10
 ==============
 
 Bugs fixed
 ----------
 
 - `setup.py build` was broken when new R compiled with OpenMP (Issue #183)
 
 Release 2.3.9
 =============
 
 - Changes in pandas 0.13.0 broke the rpy2 conversion layer (Issue #173)
 
 Release 2.3.8
 =============
 
 Bugs fixed
 ----------
 
 - Crash with R-3.0.2. Changes in R-3.0.2's C API coupled to a strange behaviour
   with R promises caused the problem. (PR #150)
 
 Release 2.3.7
 =============
 
 Bugs fixed
 ----------
 
 - ggplot2's "guides" were missing
 
 - ggplot2's "theme_classic" was missing (PR #143)
 
 - ggplot2's "element_rect" was missing (PR #144)
 
 - :func:`rpy2.interactive.packages` was broken (PR #142)
 
 Release 2.3.6
 =============
 
 Bugs fixed
 ----------
 
 - Several reports of segfault on OS X (since rpy2-2.3.1 - PR #109)
 
 - More fixes in converting `DataFrames` with dates from `pandas`
 
 Relase 2.3.5
 ============
 
 Bugs fixed
 ----------
 
 - Missing mapping to ggplot2's `scale_shape_discrete` function
 
 - Better handling of dates in Pandas
 
 - Constructor for POSIXct improved (and fixed)
 
 Changes
 -------
 
 - The attribute :attr:`rclass` is no longer read-only and can be set
   (since R allows it)
 
 - Importing the module :mod:`rpy2.interactive` no longer activates
   event processing by default (triggering concurrency errors
   when used with ipython).
 
 New features
 ------------
 
 - New module :mod:`rpy2.interactive.ipython` (so far plotting
   automatically a ggplot2 figure in the iPython's console)
 
 - It is now possible to set the :attr:`rclass`.
 
 Relase 2.3.4
 ============
 
 Bugs fixed
 ----------
 
 - Spurious error when running unit tests with Python 3 and numpy
   installed
 
 - Missing mapping to ggplot2's `geom_dotplot` function
 
 - Warnings are not longer printed (see Changes below)
 
 Changes
 -------
 
 - Bumped target version of ggplot2 to 0.9.3.1
 
 - Warnings are not longer printed. The C-level function in R became
   hidden in R-3.0, and the cost of an R-level check/print is relatively
   high if the R code called is very short. This might evolve into
   printing warnings only if interactive mode in Python (if this can
   be checked reliably).
 
 Release 2.3.3
 =============
 
 Bugs fixed
 ----------
 
 - Some of the data.frames converted from :mod:`pandas` were triggering
   a :class:`TypeError` when calling :func:`repr`
 
 - In :mod:`rpy2.robjects.lib.ggplot2`, a mapping to `coord_fixed` was
   missing (PR #120)
 
 - Using the parameter `lib_loc` in a call to
   :func:`rpy2.robjects.packages.importr` was resulting in an error (PR #119)
 
 - Creating a `layer` through the `rpy2.robjects.lib.ggplot2` interface did
   not accept parameters (PR #122)
 
 - Testing the Python version was crashing of a number of unsupported Python
   versions (<= 2.6) (PR #117)
 
 New features
 ------------
 
 - New module pandas2ri to convert from mod:`pandas` `DataFrame` objects
 
 - New classes :class:`rpy2.robjects.lib.grid.Unit` and
   :class:`rpy2.robjects.lib.grid.Gpar` to model their counterparts in
   R's `grid` package as they were previously missing from rpy2.
 
 Release 2.3.2
 =============
 
 Bug fixed
 ---------
 
 - Building on Win64 (pull request #6)
 
 - Fetching data from an R package through `importr` was masking
   any R object called `data` in that package. The data are now
   under the attribute name `__rdata__`. This is not completely
   safe either, although much less likely, a warning will
   be issued if still masking anything.
 
 Changes
 -------
 
 - More informative error message when failing to build because `R CMD config`
   does not return what is expected
 
 Release 2.3.1
 =============
 
 Bugs fixed
 ----------
 
 - default console print callback with Python (issue #112 linked to it)
 
 - deprecation warnings with ggplot2 (issue #111 and contributed patch)
 
 
 To generate a diff of this commit:
 cvs rdiff -u -r1.33 -r1.34 pkgsrc/math/py-rpy/Makefile
 cvs rdiff -u -r1.13 -r1.14 pkgsrc/math/py-rpy/PLIST
 cvs rdiff -u -r1.11 -r1.12 pkgsrc/math/py-rpy/distinfo
 
 Please note that diffs are not public domain; they are subject to the
 copyright notices on the relevant files.