A collection of non-proprietary, easily transportable Fortran
subprogram packages solving a variety of mathematical and statistical
problems.
WWW: http://www.nist.gov/itl/math/mcsd-software.cfm
PR: 196258
Submitted by: Anton Shterenlikht <mexas@bris.ac.uk>
Derivative-free optimization by quadratic approximation based on
an interface to Fortran implementations by M. J. D. Powell.
WWW: http://cran.r-project.org/web/minqa/
CryptoMiniSat is a modern, multi-threaded, feature-rich, simplifying SAT
solver, featuring over 100 configurable parameters to tune to specific
need, collection of statistical data to MySQL database + javascript-based
visualization of it and clean C++ and python interfaces.
WWW: http://www.msoos.org/cryptominisat4/
PR: 199929
Submitted by: 6yearold@gmail.com (based on)
Theano is a Python library that allows you to define, optimize, and evaluate mathematical expressions involving multi-dimensional arrays efficiently.
http://deeplearning.net/software/theano/
squares problems. Five algorithmic paths each include a core subroutine and
an easy-to-use driver. The algorithms proceed either from an analytic
specification of the Jacobian matrix or directly from the problem functions.
The paths include facilities for systems of equations with a banded Jacobian
matrix, for least squares problems with a large amount of data, and for
checking the consistency of the Jacobian matrix with the functions
WWW: http://devernay.free.fr/hacks/cminpack/
PR: 196697
Submitted by: Fernando Apesteguia <fernando.apesteguia@gmail.com>
Please use math/rubygem-numru-units instead. Since it's broken for a long time
and there is no consumers in the ports tree, remove that w/o deprecation period.
PR: 197020
Submitted by: murashin@gfd-dennou.org (maintainer)
The octave-forge package is the result of The GNU Octave Repositry project,
which is intended to be a central location for custom scripts, functions and
extensions for GNU Octave. contains the source for all the functions plus
build and install scripts.
This is level-set.
The octave-forge package is the result of The GNU Octave Repositry project,
which is intended to be a central location for custom scripts, functions and
extensions for GNU Octave. contains the source for all the functions plus
build and install scripts.
Ruby/GSL is a Ruby extension library for GSL (GNU Scientific Library),
which provides a number of functions and methods for numerical
computing in Ruby.
WWW: https://rubygems.org/gems/rb-gsl
PR: 196994
Submitted by: Shin-ya MURAKAMI <murashin@gfd-dennou.org>
Approved by: mentor (implicit)
The Vowpal Wabbit (VW) project is a fast out-of-core learning system
sponsored by Microsoft Research and (previously) Yahoo! Research.
There are two ways to have a fast learning algorithm: (a) start with a slow
algorithm and speed it up, or (b) build an intrinsically fast learning
algorithm. This project is about approach (b), and it's reached a state
where it may be useful to others as a platform for research and experimentation.
There are several optimization algorithms available with the baseline
being sparse gradient descent (GD) on a loss function (several are available).
WWW: https://github.com/JohnLangford/vowpal_wabbit/wiki
The octave-forge package is the result of The GNU Octave Repositry project,
which is intended to be a central location for custom scripts, functions and
extensions for GNU Octave. contains the source for all the functions plus
build and install scripts.
This is optics.
to eliminate huge TeXLive dependency. Note that TeX terminal support is
still enabled by default because it works without them.
- Add Lua dependency to support TeX/Tikz terminal.
Approved by: glewis (maintainer)
Gnome 3.14.1 and Cinnamon 2.2.16 are supported on FreeBSD 9.3-RELEASE and up.
This commit removes the old GNOME 2 desktop, bindings and some ports that
can't be compiled. A few ports where updated to more recent versions to
allow them to compile with this update.
Apart from updating ports to newer versions
GDM is more integrated with gnome-shell now, and handles several things for
the GNOME desktop such as screen locking. If you want to use GNOME 3 via
startx, you will have to add your own lock screen/screensaver. For example xscreensaver
can be used for sessions started without GDM.
Shell Extensions can be installed via https://extensions.gnome.org/ , we have
ported a few that can't be installed via this way.
The old gnome-utils and gnome-games ports where split up into single ports
and where converted to meta-ports.
gnome-terminal requires a UTF-8 locale to run, gdm handles this already, but
if you use startx you need to do this yourself.
Upgrade instructions:
Delete the old and conflicting packages:
# pkg delete clutter gnome-utils gnome-panel gnome-keyring vala-vapigen \
guile gcalctool gnome-media libgnomekbd
# pkg delete gnome-screensaver gnome-applets bug-buddy evolution-exchange \
evolution-webcal gnome-system-tools seahorse-plugins gnome-control-center
For package users the following lines will be enough:
# pkg upgrade
# pkg install gnome3
For ports users should do the following:
# portmaster -a
# portmaster x11/gnome3
We are currently aware of two issues. The first issue is a bug in the
file monitoring code in the glib20 port. This bug causes glib programs
to crash when files in a monitored directory are added or removed.
Upstream is aware of the problem, but since the problem is quite complex
there is no solution yet. This problem isn't restricted to BSD.
The second issue is that on certain video cards totem will display a
purple/pink overlay on the video. It not clear yet where the issues
comes from.
Major thanks goes to Gustau Perez for being a driving force behind getting
GNOME 3 up to speed again. Also thanks to Antoine Brodin for running the exp-runs.
This update was also made possible by:
Joe Maloney
Kris Moore
Beeblebrox
Ryan Lortie
Antoine Jacoutot
and everyone I missed
2014-11-07 math/elmer-umfpack: Obsoleted by cad/elmerfem
2014-11-07 science/elmer-eio: Obsoleted by cad/elmerfem
2014-11-07 science/elmer-matc: Obsoleted by cad/elmerfem
2014-11-07 science/elmer-meshgen2d: Obsoleted by cad/elmerfem
2014-11-07 science/elmergrid: Obsoleted by cad/elmerfem
pyfst provides a Python interface to the excellent OpenFst library.
Most of the essential functionality of the library is exposed through a
simplified API, allowing quick prototyping of algorithms using finite-state
methods and easy visual debugging of the results obtained by applying
FST operations.
WWW: http://pyfst.github.io
- Create a slave port to build a package with this option
- Switch to an external plist, because many files are added.
PR: ports/193810
Submitted by: /me
Approved by: bf (maintainer, by private mail)
The octave-forge package is the result of The GNU Octave Repositry project,
which is intended to be a central location for custom scripts, functions and
extensions for GNU Octave. contains the source for all the functions plus
build and install scripts.
This is stk.
----------------------------------------------------------------------------
The STK is a (not so) Small Toolbox for Kriging. Its primary focus in on
the interpolation/regression technique known as kriging, which is very
closely related to Splines and Radial Basis Functions, and can be
interpreted as a non-parametric Bayesian method using a Gaussian Process
(GP) prior. The STK also provides tools for the sequential and
non-sequential design of experiments. Even though it is, currently, mostly
geared towards the Design and Analysis of Computer Experiments (DACE), the
STK can be useful for other applications areas (such as Geostatistics,
Machine Learning, Non-parametric Regression, etc.).
Moses is a statistical machine translation system that allows you to
automatically train translation models for any language pair. All you
need is a collection of translated texts (parallel corpus). Once you have a
trained model, an efficient search algorithm quickly finds the highest
probability translation among the exponential number of choices.
WWW: http://www.statmt.org/moses/
Ipopt (Interior Point OPTimizer, pronounced eye-pea-Opt) is a software
package for large-scale nonlinear optimization.
Ipopt is written in C++ and is released as open source code under the
Eclipse Public License (EPL). It is available from the COIN-OR
initiative. The code has been written by Carl Laird and Andreas Wächter,
who is the COIN project leader for Ipopt.
The Ipopt distribution can be used to generate a library that can be
linked to one's own C++, C, or Fortran code, as well as a solver
executable for the AMPL modeling environment. The package includes
interfaces to CUTEr optimization testing environment, as well as the
MATLAB and R programming environments. IPOPT can be used on Linux/UNIX,
Mac OS X and Windows platforms.
An excellent reference for this library can be found in:
Wächter and L. T. Biegler, On the Implementation of a Primal-Dual Interior
Point Filter Line Search Algorithm for Large-Scale Nonlinear Programming,
Mathematical Programming 106(1), pp. 25-57, 2006
WWW: https://projects.coin-or.org/Ipopt
PR: 168290
Submitted by: Pedro F. Giffuni <pfg@FreeBSD.org>
- Remove from devel/Makefile
- Add to math/Makefile
- Update CATEGORIES for both ports
- Add MOVED entries
While I'm here, sort MOVED entries causing MOVEDlint.awk error [1]
after r365599 [2]
[1] 6470: date going backwards from 2014-08-20 to 2014-08-15
[2] https://svnweb.freebsd.org/changeset/ports/365599
Suggested by: vsevolod
PDAL is a BSD licensed library for translating and manipulating
point cloud data of various formats. It is a library that is
analogous to the GDAL raster library. PDAL is focussed on reading,
writing, and translating point cloud data from the ever-growing
constellation of data formats that are being developed for working
with multi-dimensional emitted-pulse scanning systems. While PDAL is
not explicitly limited to working with LiDAR data formats, its
initial rollout is focused in that area.
WWW: http://www.pdal.io/
PR: 192329
Submitted by: coder@tuxfamily.org (maintainer)
MPIR is an open source multiprecision integer (bignum) library forked from the
GMP (GNU Multi Precision) project. It consists of much code from past GMP
releases, in combination with much original contributed code.
MPIR is constructed by a developer and vendor friendly community of
professional and amateur mathematicians, computer scientists and hobbyists.
WWW: http://www.mpir.org
The Helsinki Finite-State Transducer toolkit is intended for processing
natural language morphologies. The toolkit is demonstrated by wide-coverage
implementations of a number of languages of varying morphological complexity.
2014-06-22 www/phpbb-devel: Use www/phpbb3 instead
2014-06-22 math/polymake: Does not build with any supported version of Perl
2014-06-22 www/phpsysinfo-dev: Use www/phpsysinfo instead
This class covers most functionality of UNIDATA's UDUNITS Library, however,
with a more sophisticated handling of string expressions.
UDUNITS always decomposes units into the four base units and discards the
original string expressions. Therefore, 'hPa' always becomes '100
kg.m-1.sec-1', and 'day' always becomes '86400 sec'. On the other hand, this
library tries to keep the original expressions as much as possible by default,
while allowing partial to complete decompositions if needed.
WWW: http://www.gfd-dennou.org/arch/ruby/products/numru-units/
PR: ports/190202
Submitted by: Shin-ya MURAKAMI <murashin@gfd-dennou.org>
The primary motivation for adding why3 is to support the upcoming SPARK
2014 port. However, SPARK 2014 requires a custom version. In time the
customizations should make it upstream, but currently the stock version
cannot be used to build SPARK. They are also licensed differently (LGPL2
for stock, GPLv3 for SPARK version).
Rather than force people that find why3 useful on their own to accept a
custom version, both are offered although they currently conflict.
Why3 has optional dependencies on coq, isabelle, and frama-c, and all
three have issus:
* coq rebuilds its libraries in $LOCALBASE, could be issue with coq
* isabella currently has a broken dependency (sjsml) and only for i386
when it's not. Updating to 2013-2 version failed, as did trying to
build it with polyml instead of sjsml
* frama-c is fine, but the plugin code in why3 is still experimental
and upstream recommends that it not be used.
==============================================================
Why3 is a platform for deductive program verification. It provides a rich
language for specification and programming, called WhyML, and relies on
external theorem provers, both automated and interactive, to discharge
verification conditions. Why3 comes with a standard library of logical
theories (integer and real arithmetic, Boolean operations, sets and maps,
etc.) and basic programming data structures (arrays, queues, hash tables,
etc.). A user can write WhyML programs directly and get correct-by-
construction OCaml programs through an automated extraction mechanism.
WhyML is also used as an intermediate language for the verification of C,
Java, or Ada programs.
Why3 is a complete reimplementation of the former Why platform. Among the
new features are: numerous extensions to the input language, a new
architecture for calling external provers, and a well-designed API,
allowing to use Why3 as a software library. An important emphasis is put
on modularity and genericity, giving the end user a possibility to easily
reuse Why3 formalizations or to add support for a new external prover if
wanted.
This is a new requirement for the latest veersion of alt-ergo.
================================================================
The Zarith library implements arithmetic and logical operations over
arbitrary precision numbers. It uses GMP to efficiently implement
arithmetic over large numbers. Small integers are represented as Caml
unboxed integers for speed and space economy.
WWW: http://forge.ocamlcore.org/projects/zarith
Foma is a compiler, programming language, and C library for constructing
finite-state automata and transducers for various uses. It has specific
support for many natural language processing applications such as producing
morphological analyzers. Although NLP applications are probably the main use
of foma, it is sufficiently generic to use for a large number of purposes.
2014-04-12 net/pvm++: Unmaintained since 2001
2014-04-12 devel/ixlib: Unmaintained since 2001
2014-04-12 mail/althea: Unmaintained since 2001
2014-04-12 graphics/claraocr: Unmaintained since 2001
2014-04-12 graphics/qvplay: Unmaintained since 2001
2014-04-12 print/guitartex: Unmaintained since 2001
2014-04-12 print/pnm2ppa: Unmaintained since 2001
2014-04-12 graphics/opendis: Unmaintained since 2001
2014-04-12 net/gnome-mud: Unmaintained since 2001
2014-04-12 graphics/maverik: Unmaintained since 2001
2014-04-12 biology/rasmol: Unmaintained since 2001
2014-04-12 mail/mail2procmailrc: Unmaintained since 2001
2014-04-12 science/felt: Unmaintained since 2001
2014-04-12 textproc/pardiff: Unmaintained since 2001
2014-04-12 lang/klone: Unmaintained since 2001
2014-04-12 net/rmsg: Unmaintained since 2001
2014-04-12 net/sharity-light: Unmaintained since 2001
2014-04-12 biology/genpak: Unmaintained since 2001
2014-04-12 net/forg: Unmaintained since 2001
2014-04-12 misc/txt2regex: Unmaintained since 2001
2014-04-12 textproc/ipdf: Unmaintained since 2001
2014-04-12 graphics/plotmtv: Unmaintained since 2001
2014-04-12 devel/happydoc: Unmaintained since 2001
2014-04-12 print/cpp2latex: Unmaintained since 2001
2014-04-12 graphics/svg2swf: Unmaintained since 2001
2014-04-12 devel/flick: Unmaintained since 2001
2014-04-12 mail/smail: Unmaintained since 2001
2014-04-12 net/net-http: Unmaintained since 2001
2014-04-12 security/cfv: Unmaintained since 2001
2014-04-12 graphics/camediaplay: Unmaintained since 2001
2014-04-12 math/umatrix: Unmaintained since 2001
2014-03-10 www/p5-CGI-modules: No more public distfiles
2014-04-10 www/p5-WWW-Link: Depends on expired www/p5-CGI-modules
2014-03-10 www/sbox-dtc: No more public distfiles
2014-04-10 sysutils/dtc: Depends on expired www/sbox-dtc
2014-03-10 textproc/glimpse: No more public distfiles
2014-04-10 ftp/ftplocate: Depends on expired textproc/glimpse
2014-04-10 misc/tkman: Depends on expired textproc/glimpse
2014-04-09 devel/asl: Unmaintained since 1997
2014-04-09 net/pcnfsd: Unmaintained since 1997
2014-04-10 cad/chipmunk: Unmaintained since 1999
2014-04-10 graphics/comix: Insists on installing in /usr/local, and uses nautilus2 which is deprecated.
2014-04-10 www/mambo: Broken for more than 6 months
2014-04-10 devel/lua-rds-parser: Broken for more than 6 months
2014-04-10 editors/the: Unmaintained since 1999
2014-04-10 japanese/exmh2: Unmaintained since 1999
2014-04-10 net/freewais-sf: Unmaintained since 1999
2014-04-10 editors/elvis: Unmaintained since 1999
2014-04-10 japanese/sed: Unmaintained since 1999
2014-04-10 x11-fm/xfm: Unmaintained since 1999
2014-04-10 print/rtf2latex: Unmaintained since 1999
2014-04-10 graphics/fbm: Unmaintained since 1999
2014-04-11 devel/p5-Penguin-Easy: Unmaintained since 2000
2014-04-11 emulators/prodosemu: Unmaintained since 2000
2014-04-11 security/gtkportscan: Unmaintained since 2000
2014-04-11 graphics/xmfract: Unmaintained since 2000
2014-04-11 databases/xmbase-grok: Unmaintained since 2000
2014-04-11 emulators/svr4_base: Unmaintained since 2000
2014-04-11 math/freefem: Unmaintained since 2000
2014-04-11 graphics/tiff2png: Unmaintained since 2000
2014-04-11 math/wingz: Unmaintained since 2000
2014-04-11 lang/STk: Unmaintained since 2000
2014-04-11 graphics/kdc2tiff: Unmaintained since 2000
2014-04-11 math/xlispstat: Unmaintained since 2000
2014-04-11 databases/typhoon: Unmaintained since 2000
2014-04-11 graphics/dc20ctrl: Unmaintained since 2000
2014-04-11 www/fhttpd: Unmaintained since 2000
2014-04-11 graphics/xmorph: Unmaintained since 2000
2014-04-11 editors/axe: Unmaintained since 2000
2014-04-11 www/cgic: Unmaintained since 2000
2014-03-27 audio/pysol-sound-server: Broken, abondonware, use pysolfc
2014-03-27 games/pysol-cardsets: Broken, abondonware, use pysolfc
2014-03-27 games/pysol-music: Broken, abondonware, use pysolfc
2014-03-27 games/pysol: Broken, abondonware, use pysolfc
2014-03-28 devel/ros_tutorials: Depends on expiring devel/ros_comm
2014-03-28 math/ros-geometry: Depends on expiring devel/ros_comm
2014-03-28 devel/ros-nxt: Depends on expiring devel/ros_comm
2014-03-28 devel/ros-rx: Depends on expiring devel/ros_comm
2014-03-28 devel/R-cran-vcd: New port without proper maintainer
2014-03-28 devel/ros-documentation: Depends on expiring devel/ros_comm
2014-03-28 devel/ros-common_msgs: Depends on expiring devel/ros_comm
2014-03-28 devel/ros_comm: Broken for more than 6 months
1/2/4-byte Integer, single/double-precision Real/Complex, and Ruby Object. This
extension library incorporates fast calculation and easy manipulation of large
numerical arrays into the Ruby language. NArray has features similar to NumPy,
but NArray has vector and matrix subclasses.
WWW: http://narray.rubyforge.org/
PR: ports/187917
Submitted by: Shin-ya MURAKAMI <murashin@gfd-dennou.org>
