03:42 Yuri Victorovich (yuri) 

math/alberta: New port: Adaptive multi-level finite element toolbox

    33c740e

03:58 Yuri Victorovich (yuri) 

math/plantri: New port: Plantri and fullgen are programs to generate planar
graph

    8945e33

13:01 Tobias Kortkamp (tobik) 

*: Clean up some things

- Fix typos
- Remove duplicate variables
- Remove nop or unreferenced variables
- Add missing ports to the build
- Clean up commented PORTREVISION
- Add missing USES

Reported by:	portscan

    310623b

04:47 Yuri Victorovich (yuri) 

math/obake: New port: C++ library for the symbolic manipulation of sparse
polynomials & co

    1b7e468

04:47 Yuri Victorovich (yuri) 

math/heyoka: New port: C++ library for ODE integration via Taylor's method and
LLVM

    d0103b3

04:47 Yuri Victorovich (yuri) 

math/py-heyoka: New port: Python library for ODE integration via Taylor's method
and LLVM

    9f18813

05:46 Yuri Victorovich (yuri) 

math/stan: New port: C++ package for Bayesian inference, maximum likelihood
estimation, etc

    19d3a5b

04:53 Yuri Victorovich (yuri) 

math/stanmath: New port: C++ template library for automatic differentiation

    5f8880a

17:10 Yuri Victorovich (yuri) 

math/polymake: Re-add port: Software package for research in polyhedral geometry
@ version=4.4

PR:		256861
Submitted by:	Philipp Ost <bsd@philippost.de> (original version)

    2233fbc

20:16 Yuri Victorovich (yuri) 

math/normaliz: Remove duplicate of math/libnormaliz

Reported by:	Philipp Ost <bsd@philippost.de>

    67b14e0

05:47 Yuri Victorovich (yuri) 

math/normaliz: New port: Tool for computations in affine monoids, vector
configurations, etc

    e4613da

01:04 Yuri Victorovich (yuri) 

math/py-pynauty: New port: Isomorphism testing and automorphisms of graphs

    ce3a020

01:25 Yuri Victorovich (yuri) 

math/fparser: New port: Function parser for C++

    2eb1585

10:00 Yuri Victorovich (yuri) 

math/cado-nfs: New port: Implementation of the Number Field Sieve Algorithm

    21f6954

02:06 Yuri Victorovich (yuri) 

math/gismo: New port: C++ library for isogeometric analysis (IGA)

    2b409ea

17:32 Yuri Victorovich (yuri) 

math/paritwine: New port: Glue library between PARI/GP and other mathematics
libraries

    1e6a606

06:10 Yuri Victorovich (yuri) 

math/py-unyt: New port: Package for handling numpy arrays with units

    3397fa3

23:48 Wen Heping (wen) 

math/mdal: Add new port

Mesh Data Abstraction Library (MDAL) is a C++ library for handling unstructured
mesh data released with MIT license. It provides a single data model for
multiple supported data formats. MDAL is used by QGIS for data access for mesh
layers.

WWW: http://www.mdal.xyz/

    53e162e

09:24 Yuri Victorovich (yuri) 

math/colpack: New port: Graph Coloring Algorithm Package

    cfb6e19

16:09 Po-Chuan Hsieh (sunpoet) 

math/py-pyreadr: Add py-pyreadr 0.4.2

pyreadr is a python package to read and write R RData and Rds files into/from
pandas dataframes. It does not need to have R or other external dependencies
installed.

WWW: https://github.com/ofajardo/pyreadr

    3482259

03:36 Neel Chauhan (nc) 

math/py-fvcore: New port: Shared code among different Facebook research projects

    bb6b488

03:36 Neel Chauhan (nc) 

math/py-pytorchvideo: New port: Video understanding deep learning library

    ec0263b

19:35 Yuri Victorovich (yuri) 

math/oink: New port: Modern parity game solvers written in C++

    62afe15

19:34 Tobias C. Berner (tcberner) 

math/lib2geom: New port -- Easy to use 2D geometry library in C++

2geom is a C++ library of mathematics for paths, curves, and other geometric
calculations. Designed for vector graphics, it tackles Bézier curves, conic
sections, paths, intersections, transformations, and basic geometries.

WWW: https://gitlab.com/inkscape/lib2geom

    a8b054c

16:07 Rene Ladan (rene) 

*/*: Remove expired ports:

2020-12-31 math/gringo: Uses Python 2.7 which is EOLed upstream
2021-06-23 math/aspcud: Uses EOL Python 2.7 via math/gringo
2021-06-23 math/py-pyasp: Uses EOL Python 2.7 via math/gringo

    4e58570

11:53 TAKATSU Tomonari (tota) 

math/R-cran-wk: Add new port

Provides a minimal R and C++ API for parsing well-known binary and
well-known text representation of geometries to and from R-native
formats. Well-known binary is compact and fast to parse; well-known
text is human-readable and is useful for writing tests. These formats
are only useful in R if the information they contain can be accessed
in R, for which high-performance functions are provided here.

WWW: https://cran.r-project.org/web/packages/wk/

    62845ed

05:34 Yuri Victorovich (yuri) 

math/kfr: New port: C++ DSP framework, FFT, Sample Rate Conversion,
FIR/IIR/Biquad Filters

    07ecb14

10:00 Thierry Thomas (thierry) 

math/suitesparse-*: connect the SuiteSparse modules

    a674df1

17:47 Guangyuan Yang (ygy) 

math/R-cran-maps: New port: Draw Geographical Maps

Approved by:	lwhsu (mentor, implicit)

    4d4002e

07:49 Guangyuan Yang (ygy) 

math/R-cran-tensor: New port: Tensor product of arrays

Approved by:	lwhsu (mentor, implicit)

    8048e64

22:34 Yuri Victorovich (yuri) 

math/conauto: New port: Program for graph isomorphism testing & automorphism
group computation

    94f06f0

22:08 Yuri Victorovich (yuri) 

math/bliss: New port: Tool for computing automorphism groups and canonical forms
of graphs

    b27b6f9

07:56 Yuri Victorovich (yuri) 

New port: math/creme: Randomized thermal relaxation method for MaxFS problems

    0a733dd

23:23 Yuri Victorovich (yuri) 

New port: math/gravity: Mathematical modeling for optimization and machine
learning

    ddeceb2

19:11 Yuri Victorovich (yuri) 

New port: math/disco: Discrete Conic Optimization Solver

    edae1a6

19:11 Yuri Victorovich (yuri) 

New port: math/osiipopt: Conic solver interface for Ipopt

    9af8388

19:11 Yuri Victorovich (yuri) 

New port: math/cgl-conic: Strategies for conic problems for COIN-OR Cut
Generation

    1eef39b

19:11 Yuri Victorovich (yuri) 

New port: math/osi-conic: Conic problem solver interface extending OSI to conic
problems

    1180460

19:07 Yuri Victorovich (yuri) 

devel/gecode: Move to math category

    fa3a01a

06:06 Yuri Victorovich (yuri) 

New port: math/jacop: Java Constraint Programming solve

    58cdedf

00:39 Yuri Victorovich (yuri) 

New port: math/minizinc-solvers: Metaport for MiniZinc solver

    a5fc928

19:30 Yuri Victorovich (yuri) 

New port: math/asl: COIN-OR autotools harness to build AMPL Solver Library

    8d90630

18:59 Yuri Victorovich (yuri) 

New port: math/chuffed: Lazy clause generation CP solver for MiniZinc

    6ae00ae

07:06 Yuri Victorovich (yuri) 

New port: math/bcps: Branch, Constrain, and Price Software (BiCePS)

    6db2cf5

07:06 Yuri Victorovich (yuri) 

New port: math/alps: Abstract Library for Parallel Search (ALPS)

    b01be4b

23:19 Yuri Victorovich (yuri) 

New port: math/highs: Solver for large scale sparse linear programming (LP)
problems

    358eedb

22:12 Danilo G. Baio (dbaio) 

Add math/py-matplotlib-inline

Matplotlib Inline Back-end for IPython and Jupyter.

Matplotlib is a comprehensive library for creating static, animated, and
interactive visualizations in Python.

WWW: https://pypi.org/project/matplotlib-inline/

    3da9271

19:46 Yuri Victorovich (yuri) 

New port: math/flopc++: Library for solving Linear Optimization Problems in C++

    ac26027

08:56 Yuri Victorovich (yuri) 

New port: math/py-point-annotator: Annotate data with labels based on the
Mann-Whitney U test

    73074c7

07:07 Yuri Victorovich (yuri) 

New port: math/libsharp2: Library for fast spherical harmonic transforms

    5e865ee

07:07 Yuri Victorovich (yuri) 

New port: math/py-ducc0: Distinctly Useful Code Collection (DUCC)

    2c8e6e0

00:33 Matthias Andree (mandree) 

math/Imath: new port (replaces graphics/ilmbase)

Patch series to update OpenEXR and ports that depend on ilmbase/OpenEXR
coming up.
---------------

Imath is a basic, light-weight, and efficient C++ representation of 2D and 3D
vectors and matrices and other simple but useful mathematical objects,
functions, and data types common in computer graphics applications, including
the "half" 16-bit floating-point type.

Imath also includes optional python bindings for all types and functions,
including optimized implementations of vector and matrix arrays.

Imath was originally developed at Industrial Light & Magic in the early 2000's
and was originally distributed as open source as a part of the OpenEXR project.

Imath continues to be maintained as a sub-project of OpenEXR, which is now a
project of the Academy Software Foundation. See the OpenEXR project's
GOVERNANCE.md for more information about how the project operates.

WWW: https://github.com/AcademySoftwareFoundation/Imath/

    05044ea

08:09 Mathieu Arnold (mat) 

One more small cleanup, forgotten yesterday.
Reported by:	lwhsu

    cf118cc

14:31 Mathieu Arnold (mat) 

Remove # $FreeBSD$ from Makefiles.

    305f148

01:48 yuri 

Re-add math/rehearse: Doesn't seem to depend on any conflicting ports

 

01:00 yuri 

Re-add port: math/openmesh: Update 8.0 -> 8.1

 

01:00 yuri 

Remove math/s2geometry: It is a duplicate of graphics/s2

Reported by:	sunpoet

 

20:03 yuri 

New port: math/s2geometry: Geometry library for manipulating geometric shapes

 

11:45 tota 

- Add new port: math/R-cran-proxy

  Provides an extensible framework for the efficient calculation of
  auto- and cross-proximities, along with implementations of the most
  popular ones.

  WWW: https://cran.r-project.org/web/packages/proxy/

 

23:37 yuri 

Move: biology/py-fastTSNE -> math/py-openTSNE

Project was renamed and reimplemented.

 

21:29 yuri 

New port: math/py-baycomp: Library for Bayesian comparison of classifiers

 

02:08 yuri 

New port: math/muparserx: C++ math parser library with array and string support

 

00:23 ygy 

new port: math/R-cran-gsl: R Wrapper for the Gnu Scientific Library

Approved by:	lwhsu

 

08:01 yuri 

New port: math/py-iminuit: Jupyter-friendly Python frontend for MINUIT2 in C++

 

23:53 stephen 

- Put back entry which I somehow deleted in a prior commit.

 

23:42 stephen 

- Resurrect port.
- Update to 2.0.0.

 

23:39 stephen 

- Changes forgotten for r566252.

 

09:12 thierry 

Adding mathics-django, which was previously a part of math/py-mathics.

 

09:11 thierry 

Adding mathicsscript, which was previously a part of math/py-mathics.

 

09:10 thierry 

Adding mathics-scanner, a tokeniser or scanner portion for the Wolfram
Language, which was previously a part of math/py-mathics.

 

03:27 swills 

math/mpdecimal: create port

libmpdec is a complete C implementation of the General Decimal Arithmetic
Specification.  The specification, written by Mike Cowlishaw from IBM,
defines a general purpose arbitrary precision data type together with
rigorously specified functions and rounding behavior.  As described in the
scope section of the specification, libmpdec will - with minor restrictions -
also conform to the IEEE 754-2008 Standard for Floating-Point Arithmetic,
provided that the appropriate context parameters are set.

libmpdec++ is a complete C++ implementation of the General Decimal Arithmetic
Specification. libmpdec++ is mostly a header library around libmpdec.  The
library frees users from manual memory management and has an easy API with
inline operators.  libmpdec++ has a thread local context for inline operators
and other functions that use the implicit context.

WWW: https://www.bytereef.org/mpdecimal/index.html

PR:		253084
Submitted by:	Stefan Krah <skrah@bytereef.org>

 

09:58 bapt 

Remove math/why3

This port depends on deprecated gnome2 only libraries, the port is unmaintained
for
a while and very outdated.

 

19:46 sunpoet 

Add py-spopt 0.1.1

Spatial Optimization

Spopt is an open-source Python library for solving optimization problems with
spatial data. Originating from the region module in PySAL (Python Spatial
Analysis Library), it is under active development for the inclusion of newly
proposed models and methods for regionalization, facility location, and
transportation-oriented solutions.

WWW: https://github.com/pysal/spopt

 

07:40 sunpoet 

Remove expired math/py-statsmodels010

 

17:25 thierry 

Add Coxeter3, a llibrary for the study of combinatorial aspects of Coxeter group
theory, to be used by SageMath 9.3.

 

02:28 yuri 

New port: math/py-python-picard: Preconditoned ICA algorithm for Real Data

 

07:20 yuri 

New port: math/dune-vtk: DUNE framework: File reader and writer for the VTK XML
format

 

07:06 yuri 

New port: math/dune-foamgrid: DUNE framework: one- and two-dimensional simplex
grids

 

06:40 yuri 

New port: math/dune-polygongrid: DUNE framework: 2D polygonal grid

 

02:48 yuri 

New port: math/dune-fem: DUNE framework: Finite Element Methods, Finite Volume
Methods, etc

 

22:51 yuri 

New port: math/dune-metagrid: DUNE framework: module implementing a variety of
DUNE meta grids

 

00:53 yuri 

New port: math/dune-curvedgeometry: DUNE framework: curved dune geometries by
lagrange parametrization

 

11:01 yuri 

New port: math/cmh: Compute Igusa class polynomials

 

22:55 yuri 

New port: math/amgcl: C++ header-only library for solving large sparse linear
systems

 

00:46 yuri 

New port: math/py-qdldl: QDLDL free LDL factorization routine for linear
systems: Ax = b

 

22:41 yuri 

New port: math/vinci: Package that implements algorithms for convex body volume
computation

 

22:10 yuri 

New port: math/cm: Library for ring class fields of imaginary quadratic number
fields

 

22:08 yuri 

New port: math/mpfrcx: Arbitrary precision library for arithmetic of univariate
polynomials

 

16:37 rene 

Remove expired port:

2021-01-01 math/qhull5: Legacy version of port no longer required by math/octave

 

20:02 sunpoet 

Add rubygem-prime 0.1.2

Prime is a prime numbers and factorization library.

WWW: https://github.com/ruby/prime

 

19:57 sunpoet 

Add py-spvcm 0.3.0

Gibbs sampling for spatially-correlated variance-components

This is a package to estimate spatially-correlated variance components
models/varying intercept models. In addition to a general toolkit to conduct
Gibbs sampling in Python, the package also provides an interface to PyMC3 and
CODA.

WWW: https://github.com/pysal/spvcm

 

19:57 sunpoet 

Add py-spreg 1.1.2.post1

Spatial Regression Models (spreg)

spreg, short for "spatial regression", is a python package to estimate
simultaneous autoregressive spatial regression models. These models are useful
when modeling processes where observations interact with one another.

WWW: https://spreg.readthedocs.io/en/latest/
WWW: https://github.com/pysal/spreg

 

19:57 sunpoet 

Add py-splot 1.1.3

splot provides PySAL users with a lightweight visualization interface to explore
their data and quickly iterate through static and dynamic visualisations.

splot connects spatial analysis done in PySAL to different popular visualization
toolkits like matplotlib. The splot package allows you to create both static
plots ready for publication and interactive visualizations for quick iteration
and spatial data exploration. The primary goal of splot is to enable you to
visualize popular PySAL objects and gives you different views on your spatial
analysis workflow.

WWW: https://splot.readthedocs.io/en/latest/
WWW: https://github.com/pysal/splot

 

19:57 sunpoet 

Add py-spint 1.0.7

Spatial Interaction Modeling Package

The Spatial Interaction Modeling (SpInt) module seeks to provide a collection of
tools to study spatial interaction processes and analyze spatial interaction
data.

The module currently supports the calibration of the 'family' of spatial
interaction models (Wilson, 1971) which are derived using an entropy maximizing
(EM) framework or the equivalent information minimizing (IM) framework. As such,
it is able to derive parameters for the following Poisson count models:
- unconstrained gravity model
- production-constrained model (origin-constrained)
- attraction-constrained model (destination-constrained)
- doubly-constrained model

WWW: https://github.com/pysal/spint

 

19:57 sunpoet 

Add py-spglm 1.0.8

This module is an adaptation of a portion of GLM functionality from the
Statsmodels package, this it has been simplified and customized for the purposes
of serving as the base for several other PySAL modules, namely SpInt and GWR.
Currently, it supports the estimation of Gaussian, Poisson, and Logistic
regression using only iteratively weighted least squares estimation (IWLS). One
of the large differences this module and the functions avaialble in the
Statsmodels package is that the custom IWLS routine is fully sparse compatible,
which was necesary for the very sparse design matrices that arise in constrained
spatial interaction models. The somewhat limited functionality and computation
of only a subset of GLM diagnostics also decreases the computational overhead.
Another difference is that this module also supports the estimation of
QuasiPoisson models. One caveat is that this custom IWLS routine currently
generates estimates by directly solves the least squares normal equations rather
than using a more robust method like the pseudo inverse. For more robust
estimation of ill conditioned data and a fuller GLM framework we suggest using
the original GLM functionality from Statsmodels.

WWW: https://github.com/pysal/spglm

 

10:11 antoine 

Revert r559792 to unbreak INDEX and bulk -a
It seems a lot of reverse dependencies were missed

With hat:	portmgr

 

10:06 pi 

New port: math/py-optuna: A hyperparameter optimization framework

Optuna is an automatic hyperparameter optimization software framework,
particularly designed for machine learning. It features an imperative,
define-by-run style user API. Thanks to our define-by-run API, the code
written with Optuna enjoys high modularity, and the user of Optuna can
dynamically construct the search spaces for the hyperparameters.

WWW: https://optuna.org/

PR:		252151
Submitted by:	Neel Chauhan <neel@neelc.org>

 

10:03 pi 

New port: math/py-cmaes: Lightweight CMA Evolution Strategy implementation for
Python

CMA-ES is a Lightweight Covariance Matrix Adaptation Evolution Strategy
(CMA-ES) implementation.

WWW: https://pypi.org/project/cmaes/

PR:		252150
Submitted by:	Neel Chauhan <neel@neelc.org>

 

07:23 yuri 

New port: math/sympol: C++ library and tool to work with symmetric polyhedra

 

06:47 yuri 

New port: math/permlib: C++ header-only library for permutation computations