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Port details
jags 3.4.0_4 math on this many watch lists=0 search for ports that depend on this port
Just Another Gibbs Sampler
Maintained by: bf@FreeBSD.org search for ports maintained by this maintainer
Port Added: 27 May 2004 15:21:02
License: GPLv2


JAGS is Just Another Gibbs Sampler -- a program for analysis of
Bayesian hierarchical models using Markov Chain Monte Carlo (MCMC)
simulation.

The functionality of JAGS is based on the BUGS program created by the
MRC Biostatistics Unit (http://www.mrc-bsu.cam.ac.uk/). There is a short
manual that describes the differences between JAGS and BUGS.

Some of the BUGS examples have been modified to run with JAGS, and have
been turned into a test suite.

WWW: http://mcmc-jags.sourceforge.net/
SVNWeb : Main Web Site : Distfiles Availability : PortsMon

NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.

Required To Build:
  1. devel/bison
  2. lang/gcc
  3. devel/gmake
  4. devel/binutils
Required To Run:
  1. lang/gcc
Required Libraries:
  1. math/blas
  2. math/lapack
There are no ports dependent upon this port

To install the port: cd /usr/ports/math/jags/ && make install clean
To add the package: pkg install math/jags


Configuration Options
===> The following configuration options are available for mcmc-jags-3.4.0_4:
     DOCS=on: Build and/or install documentation
     EXAMPLES=on: Build and/or install examples
===> Use 'make config' to modify these settings

Master Sites:
  1. http://distcache.FreeBSD.org/ports-distfiles/mcmc-jags/

Number of commits found: 43

Commit History - (may be incomplete: see SVNWeb link above for full details)
DateByDescription
10 Sep 2014 20:50:37
Original commit files touched by this commit  3.4.0_4
Revision:367888
gerald search for other commits by this committer
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)
29 Jul 2014 20:55:28
Original commit files touched by this commit  3.4.0_3
Revision:363390
adamw search for other commits by this committer
Repair instances, almost all courtesy of bf ;-), of spaces
and/or tabs before the =. This made doing regular expressions
on the ports tree really difficult.

Approved by:	portmgr (not really, but touches unstaged ports)
18 Jun 2014 14:56:30
Original commit files touched by this commit  3.4.0_3
Revision:358278
vanilla search for other commits by this committer
1: Stagify.
2: USES=libtool, bump version.

Approved by:	portmgr@
10 Mar 2014 20:55:22
Original commit files touched by this commit  3.4.0_2
Revision:347809
gerald search for other commits by this committer
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)
21 Feb 2014 13:38:05
Original commit files touched by this commit  3.4.0_1
Revision:345420
ehaupt search for other commits by this committer
Remove trailing whitespaces from category math
16 Feb 2014 17:15:32
Original commit files touched by this commit  3.4.0_1
Revision:344614
tijl search for other commits by this committer
Convert all USE_FORTRAN=yes to "USES=fortran, USE_GCC=yes".  In most cases
USE_GCC=yes has been omitted though.

Remove USE_FORTRAN handling from bsd.port.mk and bsd.gcc.mk.

Minor cleanups in some ports like USE_GMAKE, NOPORTDOCS,...

Exp-run:	bdrewery
Approved by:	portmgr (bdrewery)
10 Feb 2014 13:54:28
Original commit files touched by this commit  3.4.0_1
Revision:343634
ehaupt search for other commits by this committer
According to the Porter's Handbook (5.12.2.3.) default options must be added to
OPTIONS_DEFINE. This policy has been implemented only recently that's why we
have many ports violating this policy.

This patch adds the default options specified in the Porter's Handbook to
OPTIONS_DEFINE where they are being used. Ports maintained by
gnome@FreeBSD.org, kde@FreeBSD.org and x11@FreeBSD.org have been excluded.

Approved by:    portmgr (bapt)
26 Oct 2013 00:52:36
Original commit files touched by this commit  3.4.0_1
Revision:331644
gerald search for other commits by this committer
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
(Only the first 15 lines of the commit message are shown above View all of this commit message)
29 Sep 2013 08:54:39
Original commit files touched by this commit  3.4.0
Revision:328652
bf search for other commits by this committer
Update to 3.4.0

PR:		181873
20 Sep 2013 20:55:06
Original commit files touched by this commit  3.3.0
Revision:327746
bapt search for other commits by this committer
Add NO_STAGE all over the place in preparation for the staging support (cat:
math)
08 Mar 2013 11:32:12
Original commit files touched by this commit  3.3.0
Revision:313635
bapt search for other commits by this committer
Convert USE_BISON to USES= bison

It brings bison as a build dependency in case it is set the following way:
USES= bison or USES= bison:build

it brings bison as a run dependency in case it is set the following way:
USES= bison:run

it brings bison both as a run and build dependency in case it the set the
following way:
USES= bison:both

While here trim some headers
Convert some USE_GNOME= gnomehack to USES= pathfix
01 Nov 2012 19:27:47
Original commit files touched by this commit  3.3.0
Revision:306820
bf search for other commits by this committer
update to 3.3.0

Feature safe:	yes
14 Jul 2012 01:16:37
Original commit files touched by this commit  3.2.0
bf search for other commits by this committer
clean up pkg-descr and correct WWW; while here, switch to
the new options format
05 Jan 2012 13:16:02
Original commit files touched by this commit  3.2.0
bf search for other commits by this committer
update to 3.2.0, simplify, and fix NOPORTEXAMPLES
22 Nov 2011 11:14:10
Original commit files touched by this commit  3.1.0
bf search for other commits by this committer
adjust linking and comments in dependent ports after the math/atlas update;
math/atlas-devel will be updated to use the same constructs at a later date

PR:             162706
Approved by:    miwi (portmgr)
Feature safe:   yes
23 Sep 2011 22:26:39
Original commit files touched by this commit  3.1.0
amdmi3 search for other commits by this committer
- Add LDFLAGS to CONFIGURE_ENV and MAKE_ENV (as it was done with LDFLAGS)
- Fix all ports that add {CPP,LD}FLAGS to *_ENV to modify flags instead

PR:             157936
Submitted by:   myself
Exp-runs by:    pav
Approved by:    pav
12 Aug 2011 05:39:31
Original commit files touched by this commit  3.1.0
bf search for other commits by this committer
update to 3.1.0
30 Jul 2011 22:07:18
Original commit files touched by this commit  3.0.0
bf search for other commits by this committer
update to 3.0.0
26 Mar 2011 01:39:07
Original commit files touched by this commit  2.2.0
bf search for other commits by this committer
Remove addition of CPPFLAGS to CONFIGURE_ENV
in port Makefiles, and MD5 entries in distinfo
24 Jan 2011 04:12:30
Original commit files touched by this commit  2.2.0
bf search for other commits by this committer
-Chase some silent upstream distfile changes
-Clean-up port Makefile

Approved by:    makc, miwi (mentors, implicit)
Feature safe:   yes
20 Jan 2011 14:13:14
Original commit files touched by this commit  2.2.0
bf search for other commits by this committer
Update to 2.2.0

PR:             154053
Submitted by:   wen
Approved by:    makc, miwi (mentors, implicit)
Feature safe:   yes
08 Jul 2010 12:51:38
Original commit files touched by this commit  2.1.0
bf search for other commits by this committer
Change my ports to use my FreeBSD.org email address.
22 May 2010 06:11:46
Original commit files touched by this commit  2.1.0
miwi search for other commits by this committer
- Update to 2.1.0

PR:             146611
Submitted by:   bf <bf1783@gmail.com> (maintainer)
10 May 2010 13:14:39
Original commit files touched by this commit  2.0.0.20100430
makc search for other commits by this committer
Update to 2.0.0-20100430
Rename port to mcmc-jags to avoid conflict with net/jags

PR:             ports/146180
Submitted by:   b.f. <bf1783 at gmail.com> (maintainer)
26 Apr 2010 01:31:17
Original commit files touched by this commit  1.0.4_1
wen search for other commits by this committer
- Bump PORTREVISION to chase the update of libRmath
02 Feb 2010 16:07:42
Original commit files touched by this commit  1.0.4
miwi search for other commits by this committer
- Update to 1.0.4

PR:             142051
Submitted by:   bf <bf1783@gmail.com> (maintainer)
13 Sep 2009 00:08:01
Original commit files touched by this commit  1.0.3_4
gerald search for other commits by this committer
Bump PORTREVISION for everything that sets USE_FORTRAN=yes which now
implies lang/gcc44 up from lang/gcc43.

Approved by:    portmgr
17 Aug 2009 19:50:53
Original commit files touched by this commit  1.0.3_3
erwin search for other commits by this committer
Fix plist

PR:             137882
Submitted by:   bf <bf1783@gmail.com> (maintainer)
14 Aug 2009 20:52:31
Original commit files touched by this commit  1.0.3_2
erwin search for other commits by this committer
Distfiles were rerolled with new examples and documentation

PR:             137777
Submitted by:   bf <bf1783@gmail.com> (maintainer)
07 Jun 2009 18:51:21
Original commit files touched by this commit  1.0.3_1
miwi search for other commits by this committer
- Update maintainer mail adresse

Submitted by:   "b. f." <bf1783@gmail.com> (maintainer via private mail)
21 Jan 2009 10:19:45
Original commit files touched by this commit  1.0.3_1
pav search for other commits by this committer
- fix location of pkgconfig data
- fix linker flags
- USE_LDCONFIG
- respect NOPORTEXAMPLES
- bump PORTREVISION

PR:             ports/130812
Submitted by:   bf <bf2006a@yahoo.com> (maintainer)
20 Jan 2009 04:26:03
Original commit files touched by this commit  1.0.3
gerald search for other commits by this committer
bf2006a@yahoo.com requested maintainership, reassign accordingly.

PR:             130723
19 Jan 2009 01:19:07
Original commit files touched by this commit  1.0.3
gerald search for other commits by this committer
Update from version 0.90 to 1.0.3, which appears to fix a compilation
problem.  Also removed F77 from CONFIGURE_ENV.  Resign maintainership,
moving to ports@FreeBSD.org.

Submitted by:   Eric van Gyzen <eric+fbports@vangyzen.net> (maintainer)
07 Jan 2009 16:34:27
Original commit files touched by this commit  0.90_3
gerald search for other commits by this committer
Bump PORTREVISION due to change of USE_FORTRAN=yes to GCC 4.3.
04 Oct 2007 01:49:29
Original commit files touched by this commit  0.90_2
edwin search for other commits by this committer
Remove always-false/true conditions based on OSVERSION 500000
17 Jul 2007 00:18:52
Original commit files touched by this commit  0.90_2
maho search for other commits by this committer
Now we use USE_FORTRAN=yes to use FORTRAN compiler.

Approved by:    maintainer
12 Jan 2007 08:00:59
Original commit files touched by this commit  0.90_2
maho search for other commits by this committer
Migrate to gfortran42.
Bump portrevision.

Approved by:    portmgr(kris)
30 Jan 2006 12:52:37
Original commit files touched by this commit  0.90_1
edwin search for other commits by this committer
SHA256ify
09 Jan 2006 19:34:11
Original commit files touched by this commit  0.90_1
ehaupt search for other commits by this committer
- Chase math/libRmath update (bump PORTREVISION)
- Pacify portlint
11 Nov 2005 06:49:03
Original commit files touched by this commit  0.90
sem search for other commits by this committer
- Remove commas from BROKEN message
09 Nov 2005 11:16:04
Original commit files touched by this commit  0.90
sem search for other commits by this committer
- Update to 0.90
- Change maintainer e-mail
- Mark BROKEN on 4.x

PR:             ports/87275
Submitted by:   maintainer
02 Sep 2004 16:18:13
Original commit files touched by this commit  0.50
arved search for other commits by this committer
Fix build with gcc 3.4

PR:             71206
Submitted by:   Eric van Gyzen <vangyzen@stat.duke.edu>
27 May 2004 15:18:46
Original commit files touched by this commit  0.50
pav search for other commits by this committer
Add jags, Just Another Gibbs Sampler. A program for Bayesian analysis of
graphical models via Gibbs sampling, not wholy unlike classic BUGS.

PR:             ports/66648
Submitted by:   Eric van Gyzen <vangyzen@stat.duke.edu>

Number of commits found: 43

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