math/R-cran-MCMCpack: Update to 1.7-1

Reported by:	portscout

math/R-cran-MCMCpack: Update to 1.7-0

Reported by:	portscou

*: Bump PORTREVISIONs for math/mpc update to 1.3.1

Remove WWW entries moved into port Makefiles

Commit b7f05445c00f has added WWW entries to port Makefiles based on
WWW: lines in pkg-descr files.

This commit removes the WWW: lines of moved-over URLs from these
pkg-descr files.

Approved by:		portmgr (tcberner)

Add WWW entries to port Makefiles

It has been common practice to have one or more URLs at the end of the
ports' pkg-descr files, one per line and prefixed with "WWW:". These
URLs should point at a project website or other relevant resources.

Access to these URLs required processing of the pkg-descr files, and
they have often become stale over time. If more than one such URL was
present in a pkg-descr file, only the first one was tarnsfered into
the port INDEX, but for many ports only the last line did contain the
port specific URL to further information.

There have been several proposals to make a project URL available as
a macro in the ports' Makefiles, over time.

math: remove 'Created by' lines

A big Thank You to the original contributors of these ports:

  *  Aaron Dalton <aaron@FreeBSD.org>
  *  Aaron Dalton <aaron@daltons.ca>
  *  Alessando Sagratini <ale_sagra@hotmail.com>
  *  Alex Dupre <ale@FreeBSD.org>
  *  Alexey Dokuchaev <danfe@FreeBSD.org>
  *  Amarendra Godbole <amarendra.godbole@gmail.com>
  *  Anders Nordby <anders@FreeBSD.org>
  *  Andreas Fehlner (fehlner@gmx.de)
  *  Andrew L. Neporada <andrew@chg.ru>
  *  Andrey <gugu@zoo.rambler.ru>
  *  Andrey Zakhvatov

math/R-cran-MCMCpack: Update to 1.6-3

math/R-cran-MCMCpack: Update to 1.6-2

math/R-cran-MCMCpack: Update to 1.6-1

math/R-cran-MCMCpack: Update to 1.6-0

Remove # $FreeBSD$ from Makefiles.

- Update to 1.5-0

- Update to 1.4-9

- Update to 1.4-8

- Update to 1.4-7

math/R: Update to version 4.0.0

Upstream changes:
https://stat.ethz.ch/pipermail/r-announce/2020/000653.html

Also bump PORTREVISION of ports that depend on math/R.

Submitted by:	wen (in part)
Reviewed by:	jwb, Rainer Hurling <rhurlin@gwdg.de>, thierry
Differential Revision:	https://reviews.freebsd.org/D24572

- Update to 1.4-6

- Update to 1.4-5

Bump PORTREVISION for ports depending on the canonical version of GCC
as defined in Mk/bsd.default-versions.mk which has moved from GCC 8.3
to GCC 9.1 under most circumstances now after revision 507371.

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, c11, c++0x, c++11-lang,
   c++11-lib, c++14-lang, c++17-lang, or gcc-c++11-lib
plus, everything INDEX-11 shows with a dependency on lang/gcc9 now.

PR:		238330

Bump PORTREVISION for ports depending on the canonical version of GCC
defined via Mk/bsd.default-versions.mk which has moved from GCC 7.4 t
GCC 8.2 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, c11, c++0x, c++11-lang,
   c++11-lib, c++14-lang, c++17-lang, or gcc-c++11-lib
plus, as a double check, everything INDEX-11 showed depending on lang/gcc7.

PR:		231590

- Update to 1.4-4

- Update to 1.4-3

- Update to 1.4-2

Bump PORTREVISIONs of all users of math/mpc that we just updated to
version 1.1.0 (via revision 464079).

- Update to 1.4-0

- Update to 1.3-9 [1]
- Fix minimal version of CRAN_DEPENDS

Submitted by:	wen@ (via private e-mail) [1]

- Update to 1.3-8

- Update to 1.3-7

- Update to 1.3-6
- Update descrption and WWW line in pkg-descr

Mk/Uses/cran: add "compiles" argument.

[1] Add "compiles" argument to cran to allow R-cran ports need to compile
code to bring in the correct compiler dependencies.  Also, ensure
consistency between the compiler selected by the R port and the R-cran ports.

[2] Migrate R-cran ports that manually specify the compiler to
USES=cran,compiles.

PR:		210343
Approved by:	wen (1), portmgr (2, blanket)

Remove ${PORTSDIR}/ from dependencies, categories m, n, o, and p.

With hat:	portmgr
Sponsored by:	Absolight

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)

Replace USE_GCC=4.2+ by USE_GCC=any. [1]
And USE_GMAKE by USES=gmake where touching a port because of the above.

Approved by:	portmgr (bapt) [1]

Convert Mk/bsd.cran.mk to the Uses framework.

PR:		ports/184699
Reviewed by:	bapt
Approved by:	portmgr (bdrewery), wen (maintainer, timeout > 2 weeks)

Add stage support to Mk/bsd.cran.mk and all USE_R_MOD ports (aka R-cran-*).

Since this patch converts all affected ports, bsd.cran.mk no longer supports
NO_STAGE and errors out if NO_STAGE is set.

Exp-run:	ports/184216
Reviewed by:	bdrewery
Approved by:	portsmgr, wen

Update math/R to 3.0.2 patched r64207 and math/R-cran-SuppDists to 1.1-9.1;
adjust dependent ports

Reviewed by:	pfg, thierry, tota

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

Add NO_STAGE all over the place in preparation for the staging support (cat:
math)

Update math/R to 3.0.1-patched, and adjust dependent ports;
synchronize math/rpy with upstream repository

Reviewed by:	wen
Approved by:	wen, tota

- Update to 1.3-3

- Update to 1.3-2
- Update pkg-descr

Feature safe:	yes

- Update to 1.3-1

Feature safe:	yes

update math/R to 2.15.3, and adjust dependent ports

update the R base ports to 2.15.2 and adjust dependent ports

Reviewed by:	thierry, tota, wen

- Add a new port: math/R-cran-MCMCpack

  This package contains functions to perform Bayesian inference using
  posterior simulation for a number of statistical models. Most
  simulation is done in compiled C++ written in the Scythe Statistical
  Library Version 1.0.3. All models return coda mcmc objects that can
  then be summarized using the coda package. MCMCpack also contains
  some useful utility functions, including some additional density
  functions and pseudo-random number generators for statistical
  distributions, a general purpose Metropolis sampling algorithm, and
  tools for visualization.

  WWW: http://cran.r-project.org/web/packages/MCMCpack/

Feature safe:	yes