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Port details
pymol 1.5.0.1.3978_3 biology Deleted on this many watch lists=2 search for ports that depend on this port
Deprecated DEPRECATED: Not staged. See http://lists.freebsd.org/pipermail/freebsd-ports-announce/2014-May/000080.html
Expired This port expired on: 2014-08-31
Free and Open-Source molecular modeling system

There is no maintainer for this port.
Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org search for ports maintained by this maintainer
Port Added: 13 Aug 2002 11:53:54
Also Listed In: python
License: not specified in port
PyMOL is a molecular graphics system with an embedded Python interpreter
designed for real-time visualization and rapid generation of
high-quality molecular graphics images and animations. It is fully extensible
and available free to everyone via the "Python" license.
PyMOL can be used to create images and animations with unprecedented ease.
It can also perform many other valuable tasks (such as editing PDB files)
to assist you in your research.

WWW: http://pymol.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. math/py-numeric
  2. lang/python27
  3. devel/gmake
Required To Run:
  1. math/py-numeric
  2. x11-toolkits/py-Pmw
  3. lang/python27
Required Libraries:
  1. graphics/png
  2. print/freetype2
  3. graphics/freeglut
  4. graphics/glew
There are no ports dependent upon this port

No installation instructions: this port has been deleted.

The package name of this deleted port was: pymol


Configuration Options
     No options to configure

Master Sites:
  1. http://distcache.FreeBSD.org/local-distfiles/maho/pymol/
  2. http://distcache.FreeBSD.org/ports-distfiles/
  3. http://distcache.eu.FreeBSD.org/local-distfiles/maho/pymol/
  4. http://distcache.us-east.FreeBSD.org/local-distfiles/maho/pymol/
  5. http://distcache.us-west.FreeBSD.org/local-distfiles/maho/pymol/

Number of commits found: 53

Commit History - (may be incomplete: see SVNWeb link above for full details)
DateByDescription
01 Sep 2014 11:37:14
Original commit files touched by this commit  1.5.0.1.3978_3
Revision:366862
bapt search for other commits by this committer
Remove non staged ports without pending PR from b*
29 Jul 2014 18:41:17
Original commit files touched by this commit  1.5.0.1.3978_3
Revision:363371  Sanity Test Failure
adamw search for other commits by this committer
Convert a bunch of USE_BZIP2 to USES=tar:bzip2

Approved by:	portmgr (not really, but touches unstaged ports)
23 Jul 2014 16:44:28
Original commit files touched by this commit  1.5.0.1.3978_3
Revision:362705
bapt search for other commits by this committer
Reset maintainership for ports not staged with no pending PR

With hat:	portmgr
16 Apr 2014 18:28:50
Original commit files touched by this commit  1.5.0.1.3978_3
Revision:351411
zeising search for other commits by this committer
The FreeBSD x11@ and graphics team proudly presents
a zeising, kwm production, with help from dumbbell, bdrewery:

NEW XORG ON FREEBSD 9-STABLE AND 10-STABLE

This update switches over to use the new xorg stack by default on FreeBSD 9
and 10 stable, on osversions where vt(9) is available.
It is still possible to use the old stack by specifying WITHOUT_NEW_XORG in
/etc/make.conf .
FreeBSD 8-STABLE and released versions of FreeBSD still use
the old version.
A package repository with binary packages for new xorg will
be available soon.

This patch also contains updates of libxcb and related ports, pixman, as well
(Only the first 15 lines of the commit message are shown above View all of this commit message)
13 Mar 2014 07:41:34
Original commit files touched by this commit  1.5.0.1.3978_2
Revision:348042
miwi search for other commits by this committer
- Convert USE_GMAKE to USES
11 Dec 2013 14:43:51
Original commit files touched by this commit  1.5.0.1.3978_2
Revision:336171
bapt search for other commits by this committer
In preparation for making libtool generate libraries with a sane name, fix all
LIB_DEPENDS in biology
20 Sep 2013 15:55:44
Original commit files touched by this commit  1.5.0.1.3978_2
Revision:327709
bapt search for other commits by this committer
Add NO_STAGE all over the place in preparation for the staging support (cat:
biology)
04 Aug 2012 22:52:04
Original commit files touched by this commit  1.5.0.1.3978_2
kwm search for other commits by this committer
Switch from libglut to freeglut and retire libglut. Libglut hasn't been
developed in years and has been dropped from the MESA 8.0 distribution.
Freeglut is a rewrite of glut and is actively developed and is used by
many linux distributions instead of libglut.

Bump all ports that directly depend on libglut because of the shlib version
change.

There are some extra items in this patch.

*) Because freeglut doesn't have the same dependancies as libglut, some ports
	need extra dependencies added to USE_XORG to make them build.
*) Mark graphics/f90gl broken, f90gl depends on a header that is only shipped
	with libglut.
*) Remove option for libglut/freeglut selection in games/cake, only freeglut
	remains now.
*) While here fix a png related build issue games/vegastrike.

Thanks to miwi for running the exp-run.

Approved by:	portmgr (miwi)

Collaboration with:	zeising@
Obtained from:	xorg-dev staging area.
01 Jun 2012 05:26:28
Original commit files touched by this commit  1.5.0.1.3978_1
dinoex search for other commits by this committer
- update png to 1.5.10
16 Feb 2012 02:30:10
Original commit files touched by this commit  1.5.0.1.3978
maho search for other commits by this committer
update to 1.5.0.1.
09 May 2011 04:36:54
Original commit files touched by this commit  1.4.1.3946
maho search for other commits by this committer
update to 1.4.1

Notified by: Alvin Oga
19 Mar 2011 12:38:54
Original commit files touched by this commit  1.3r1.3913
miwi search for other commits by this committer
- Get Rid MD5 support
16 Sep 2010 21:48:04
Original commit files touched by this commit  1.3r1.3913
maho search for other commits by this committer
Update to  1.3r1.3913.

Actually the version number is from SVN, and maho@ manually
checked out from SVN.
The source archive is not distributed as tar ball.
28 Mar 2010 06:47:48
Original commit files touched by this commit  1.0r2_5
dinoex search for other commits by this committer
- update to 1.4.1
Reviewed by:    exp8 run on pointyhat
Supported by:   miwi
05 Feb 2010 11:46:55
Original commit files touched by this commit  1.0r2_4
dinoex search for other commits by this committer
- update to jpeg-8
08 Jun 2009 22:30:55
Original commit files touched by this commit  1.0r2_3
miwi search for other commits by this committer
- Update lang/python26 and make Python 2.6.2 to the default Python version

Tested by:      3 pointyhat runs
Thanks to:      pav, gahr, lwhsu, mva, amdmi3
23 Jan 2009 16:28:36
Original commit files touched by this commit  1.0r2_2
flz search for other commits by this committer
- Update X.org ports to 7.4+ (few ports are more recent than the katamari).
- Bump PORTREVISION for all ports depending on libglut since the shlib
version number went from 4 to 3.
- Bump PORTREVISION for all ports depending on libXaw as libXaw.so.8 isn't
installed anymore.
- Couple of ports fixes (mostly missing xorg components added to USE_XORG).
27 Mar 2008 11:20:18
Original commit files touched by this commit  1.0r2_1
miwi search for other commits by this committer
- Add missing dependens
- Bump PORTREVISION

Submitted by:   pointyhat via pav
10 Mar 2008 00:57:15
Original commit files touched by this commit  1.0r2
maho search for other commits by this committer
Fix pkg-plist

Submitted by:   pav
07 Mar 2008 02:38:09
Original commit files touched by this commit  1.0r2
maho search for other commits by this committer
Update to 1.0r2.
02 Sep 2007 07:16:05
Original commit files touched by this commit  0.99rc6_2
rafan search for other commits by this committer
- Chase x11-toolkits/pmw renamed to x11-toolkits/py-Pmw

PR:             115302
19 May 2007 20:32:57
Original commit files touched by this commit  0.99rc6_1
flz search for other commits by this committer
- Welcome X.org 7.2 \o/.
- Set X11BASE to ${LOCALBASE} for recent ${OSVERSION}.
- Bump PORTREVISION for ports intalling files in ${X11BASE}.
09 Feb 2007 00:11:55
Original commit files touched by this commit  0.99rc6
maho search for other commits by this committer
Update to 0.99rc6.

PR:             108940
Submitted by:   CHAO Shin
17 Sep 2006 11:51:56
Original commit files touched by this commit  0.99rc1
maho search for other commits by this committer
Fix build on amd64

Submitted by:   kris
17 Sep 2006 01:32:58
Original commit files touched by this commit  0.99rc1
kris search for other commits by this committer
BROKEN on amd64 and ia64: Does not build
01 Jul 2006 05:06:21
Original commit files touched by this commit  0.99rc1
maho search for other commits by this committer
o Update to 0.99rc1
o add data dir to have working port[1]

PR:             95121[1]
Submitted by:   Sangwoo Shim <sangwoos at gmail.com>[1]

This commit is a result of hacks at the CodeFest Akihabara 2006 hosted by FSIJ.
03 May 2006 23:26:35
Original commit files touched by this commit  0.98_1
edwin search for other commits by this committer
Remove USE_REINPLACE from all categories starting with B
22 Jan 2006 08:20:34
Original commit files touched by this commit  0.98_1
edwin search for other commits by this committer
SHA256ify

Approved by:    krion@
12 Jan 2006 12:54:32
Original commit files touched by this commit  0.98_1
sem search for other commits by this committer
- Update graphics/libglut to 6.4.1.
- Shared lib version and PORTREVISION bumb for all affected ports.

While I'm here:
- Remove USE_MESA knob where it was (35 ports).
  It marked as depricated for 2 years.

PR:             ports/90247
Submitted by:   Ermal Lu?i <eri--@albabsd.org>
10 Oct 2005 09:08:23
Original commit files touched by this commit  0.98
maho search for other commits by this committer
Update to 0.9.8
26 Mar 2005 22:20:19
Original commit files touched by this commit  0.97
kris search for other commits by this committer
Try to unbreak on amd64 and ia64

Approved by:    portmgr (self)
24 Mar 2005 01:06:40
Original commit files touched by this commit  0.97
maho search for other commits by this committer
Fix build on amd64

Submitted by:   kris via pointy hat
Approved by:    portmgr (marcus)
07 Feb 2005 08:39:51
Original commit files touched by this commit  0.97
maho search for other commits by this committer
update to 0.97
24 Oct 2004 03:40:23
Original commit files touched by this commit  0.93
maho search for other commits by this committer
Forced commit
Actually this report was submitted by mharo,
and eik kindly told me how to fix.

PR:     71095
Submitted by:   mharo
24 Oct 2004 03:37:02
Original commit files touched by this commit  0.93
maho search for other commits by this committer
Avoid the use of != statements in ports Makefile

PR:             71095
Submitted by:   eik
06 May 2004 19:49:54
Original commit files touched by this commit  0.93
maho search for other commits by this committer
Make portlint happy by replacing space to tab

PR:             65409
Submitted by:   trevor
10 Apr 2004 16:07:10
Original commit files touched by this commit  0.93
trevor search for other commits by this committer
Trim whitespace.
20 Mar 2004 05:20:47
Original commit files touched by this commit  0.93
maho search for other commits by this committer
Do not hardcord PICFLAG
Submitted by:   ru
19 Mar 2004 04:20:12
Original commit files touched by this commit  0.93
maho search for other commits by this committer
Backout previous change of PICFLAG, since
behaviour of -fPIC and -fpic are different.
Here is the comment form obrien:

--
"-fpic" is a [minor?] optimization for machines that can handle it:

  -fpic
    Generate position-independent code (PIC) suitable for use in a shared
    library, if supported for the target machine. Such code accesses all
    constant addresses through a global offset table (GOT). The dynamic
    loader resolves the GOT entries when the program starts (the dynamic
    loader is not part of GCC; it is part of the operating system). If
    the GOT size for the linked executable exceeds a machine-specific
    maximum size, you get an error message from the linker indicating
(Only the first 15 lines of the commit message are shown above View all of this commit message)
18 Mar 2004 23:06:12
Original commit files touched by this commit  0.93
maho search for other commits by this committer
-fPIC is appropreate on all architectures.

Submitted by: kris
17 Mar 2004 10:47:29
Original commit files touched by this commit  0.93
maho search for other commits by this committer
1) update to 0.9.3
2) honor PREFIX & LOCALBASE
3) SIZEify
4) possible fix for amd64 and ia64
04 Feb 2004 05:21:48
Original commit files touched by this commit  0.90_1
marcus search for other commits by this committer
Bump PORTREVISION on all ports that depend on gettext to aid with upgrading.

(Part 2)
07 Nov 2003 20:40:50
Original commit files touched by this commit  0.90
anholt search for other commits by this committer
LIB_DEPENDS on libglut for libglut rather than soon-to-disappear Mesa3.
20 Aug 2003 10:40:37
Original commit files touched by this commit  0.90
perky search for other commits by this committer
Fix build on python2.3
24 Jul 2003 07:06:17
Original commit files touched by this commit  0.90
maho search for other commits by this committer
Update to 0.90
03 May 2003 03:45:31
Original commit files touched by this commit  0.86
maho search for other commits by this committer
Updated to 0.8.6.

Submitted by: M. L. Dodson <bdodson@scms.utmb.EDU>
Pkg-plist by: maho
07 Mar 2003 05:56:43
Original commit files touched by this commit  0.82_3
ade search for other commits by this committer
Clear moonlight beckons.
Requiem mors pacem pkg-comment,
And be calm ports tree.

E Nomini Patri, E Fili, E Spiritu Sancti.
19 Nov 2002 23:01:49
Original commit files touched by this commit  0.82_3
maho search for other commits by this committer
1. add a missing dependency on png and unbreak.
2. change e-mail address of maho.
26 Aug 2002 05:13:29
Original commit files touched by this commit  0.82_3
perky search for other commits by this committer
o Fix examples directory path which is changed in last revision.

Submitted by:   Glenn Johnson <glennpj@charter.net>
25 Aug 2002 08:37:53
Original commit files touched by this commit  0.82_2
perky search for other commits by this committer
o Fix RUN_DEPENDS path (PMW -> Pmw)
o Fix DISTNAME which was broken by previous commit.
o Install example files

PR:             41977
Submitted by:   Glenn Johnson <glennpj@charter.net>
Approved by:    maintainer
22 Aug 2002 04:20:19
Original commit files touched by this commit  0.82_1
perky search for other commits by this committer
o Remove redundant dependency on py-tkinter.
o Bump PORTREVISION that I've missed on last commit.

Submitted by:   Glenn Johnson <glennpj@charter.net>
22 Aug 2002 03:35:32
Original commit files touched by this commit  0.82
perky search for other commits by this committer
Add a dependecy to x11-toolkits/pmw

PR:             41857
Submitted by:   Glenn Johnson <gjohnson@srrc.ars.usda.gov>
Approved by:    maintainer
13 Aug 2002 11:53:44
Original commit files touched by this commit  0.82
perky search for other commits by this committer
Add pymol 0.82, Free and Open-Source molecular modeling system.

PR:             40694
Submitted by:   Nakata Maho <chat95@mbox.kyoto-inet.or.jp>

Number of commits found: 53

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