RPy is a very simple, yet robust, Python interface to the R Programming
Language. It can manage all kinds of R objects and can execute arbitrary
R functions (including the graphic functions). All the errors from the
R language are converted to Python exceptions. Any module that later were
installed on the R system, can easily be used from within Python, without
introducing any changes.
rpy2 is a redesign and rewrite of rpy. It is providing a low-level interface
to R, a proposed high-level interface, including wrappers to graphical
libraries, as well as R-like structures and functions.
WWW: http://rpy2.bitbucket.org/
math/rpy2: Update 2.7.8 -> 2.9.4; Move to math/py-rpy2
Port changes:
* Add LICENSE_FILE
* Update dependencies
* Support for python-2 is dropped
* Update WWW to https
Bump PORTREVISION for ports depending on the canonical version of GCC
in the ports tree (via Mk/bsd.default-versions.mk and lang/gcc) which
has now moved from GCC 6 to GCC 7 by default.
This includes ports
- featuring USE_GCC=yes or USE_GCC=any,
- featuring USES=fortran,
- using Mk/bsd.octave.mk which in turn features USES=fortran, and those
- with USES=compiler specifying one of openmp, nestedfct, c11, c++0x,
c++11-lib, c++11-lang, c++14-lang, c++17-lang, or gcc-c++11-lib.
PR: 222542
Convert Python ports to FLAVORS.
Ports using USE_PYTHON=distutils are now flavored. They will
automatically get flavors (py27, py34, py35, py36) depending on what
versions they support.
There is also a USE_PYTHON=flavors for ports that do not use distutils
but need FLAVORS to be set. A USE_PYTHON=noflavors can be set if
using distutils but flavors are not wanted.
A new USE_PYTHON=optsuffix that will add PYTHON_PKGNAMESUFFIX has been
added to cope with Python ports that did not have the Python
PKGNAMEPREFIX but are flavored.
USES=python now also exports a PY_FLAVOR variable that contains the
(Only the first 15 lines of the commit message are shown above )
Bump PORTREVISION for ports depending on the canonical version of GCC
(via Mk/bsd.default-versions.mk and lang/gcc) which has moved from
GCC 5.4 to GCC 6.4 under most circumstances.
This includes ports
- with USE_GCC=yes or USE_GCC=any,
- with USES=fortran,
- using Mk/bsd.octave.mk which in turn features USES=fortran, and
- with USES=compiler specifying openmp, nestedfct, c++11-lib, c++11-lang,
c++14-lang, c++0x, c11, or gcc-c++11-lib.
PR: 219275
After r446199 libR.so has SONAME and was made visible for
consumer ports. Register correct dependency by using LIB_DEPENDS
instead of BUILD|RUN_DEPENDS dance.
math/rkward-kde4:
- Add 2 missing files to pkg-plist also
PR: 219776
Submitted by: myself
Approved by: maintainers timeouts
Bump PORTREVISIONs for ports depending on the canonical version of GCC and
lang/gcc which have moved from GCC 4.9.4 to GCC 5.4 (at least under some
circumstances such as versions of FreeBSD or platforms).
This includes ports
- with USE_GCC=yes or USE_GCC=any,
- with USES=fortran,
- using using Mk/bsd.octave.mk which in turn has USES=fortran, and
- with USES=compiler specifying openmp, nestedfct, c++11-lib, c++14-lang,
c++11-lang, c++0x, c11, or gcc-c++11-lib.
PR: 216707
Bump PORTREVISIONS for ports depending on the canonical version of GCC and
lang/gcc which have moved from GCC 4.8.5 to GCC 4.9.4 (at least under some
circumstances such as versions of FreeBSD or platforms), part II.
The first part covered ports with USE_GCC=yes, USE_GCC=any, or one of
gcc-c++11-lib, openmp, nestedfct, c++11-lib as well as c++14-lang,
c++11-lang, c++0x, c11 requested via USES=compiler.
This adds ports with USES=fortran and ports using Mk/bsd.octave.mk
which in turn has USES=fortran.
PR: 214965
Reported by: thierry
math/rpy2: stop linking against math/R depends
While here, switch back to Clang build but keep RPATH which is a quirk
to avoid loading /usr/lib/libgcc_s.so during dlopen() race.
PR: 214384
- Update devel/icu to 57.1.
- Clean up the Makefile.
- Follow some upstream recommendations (--with-data-packaging=archive,
--disable-renaming, -DICU_NO_USER_DATA_OVERRIDE).
- Patch makefiles to install static libraries with INSTALL_DATA so they
aren't stripped.
- Patch config/mh-bsd-gcc to sync with config/mh-linux-gcc.
- Fix endianness detection in ICU. The code wanted to use BYTE_ORDER
defined in machine/endian.h, but this isn't visible because ICU is
compiled with _XOPEN_SOURCE. Patch the code to use _BYTE_ORDER instead.
- Compile ICU with C++11 compiler to enable move constructors.
- Patch ICU to fix a problem with atomics in the case of a C++11 compiler
without C++11 header <atomic> (like Clang on FreeBSD 9).
- Bump all ports that depend on it due to library version change.
- Add USES=compiler:c++0x to some ports that pick up -std=c++0x from ICU
pkgconfig files.
- Add USES=compiler:c++11-lib to graphics/libcdr01 because it also needs
a C++11 runtime library now. Add this to all ports that depend on it
so their executables load the right libstdc++.so on FreeBSD 9.
PR: 205120
Exp-run by: antoine
Approved by: portmgr (antoine)
Update the default version of GCC in the Ports Collection from GCC 4.7.4
to GCC 4.8.3.
Part II, Bump PORTREVISIONs.
PR: 192025
Tested by: antoine (-exp runs)
Approved by: portmgr (implicit)
Update the default version of GCC used in the Ports Collection from
GCC 4.6.4 to GCC 4.7.3. This entails updating the lang/gcc port as
well as changing the default in Mk/bsd.default-versions.mk.
Part II, Bump PORTREVISIONs.
PR: 182136
Supported by: Christoph Moench-Tegeder <cmt@burggraben.net> (fixing many ports)
Tested by: bdrewery (two -exp runs)
Update to libmpc version 1.0.1 which brings the following fixes:
- Switched to automake 1.11.6, see CVE-2012-3386.
- #14669: Fixed extraction of CC from gmp.h.
- Fixed case of intermediate zero real or imaginary part in mpc_fma,
found by hydra with GMP_CHECK_RANDOMIZE=1346362345.
This is on top of the following changes from version 1.0
- Licence change towards LGPLv3+ for the code and GFDLv1.3+ (with no
invariant sections) for the documentation.
- 100% of all lines are covered by tests
- Renamed functions
. mpc_mul_2exp to mpc_mul_2ui
. mpc_div_2exp to mpc_div_2ui
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- update math/R-cran-psych to 1.2.1 [1]
- update math/R to 2.15.0, and adjust dependent ports
- minor changes to bsd.cran.mk [2]: rename MASTER_CRAN_SITES to
MASTER_SITE_CRAN, as in bsd.sites.mk; make the install target more
flexible and allow CRAN ports to override it; add a regression-test
target; set USE_FORTRAN to match math/R; remove some of the
redundant checks of USE_R_MOD; honor NOPORTDATA and NOPORTDOCS
Reviewed by: thierry, tota, wen
Approved by: D. Rue (maintainer) [1], wen [2]
update R to 2.13.1 [1], and adjust dependent ports (this
includes workarounds intended to fix the broken sparc64
build, and fixes to the static libR, which is now in a
separate slave port, math/libR)
PR: 158947 [1]
Submitted by: wen ([1], independently)
- update to 2.13.0
- switch to the bundled Rblas and Rlapack by default (this
can be changed by setting BLAS and LAPACK) which favors
correctness in some corner cases over a slight performance
penalty; this will be revisited after the blas and lapack
updates
- replace the STATIC_LIBR option with a LIBR option (on
by default): if on, libR.a and libR.so are installed,
and R is linked to libR.so. Otherwise, R is static, and
no libRs are installed.
- remove the superfluous copy of libR.so in ${LOCALBASE}/lib [1]
- enable the cairo and pango elements in the X11() graphics
device by default, controlled by new PANGOCAIRO option
- add a few small patches to dependent ports, bumping
PORTREVISION where necessary
PR: 153309 [1]
Approved by: thierry (rkward*), wen (rpy*, R-cran-*)
