| Port details |
- spdbv Deep View Swiss-PdbViewer is a Protein viewer and analysis tool
- 3.7_1 biology
 =0      3.7_1Version of this port present on the latest quarterly branch.  DEPRECATED: "is incompatible with new x11-toolkits/linux-openmotif 2.2.4"
 IGNORE: is incompatible with new x11-toolkits/linux-openmotif 2.2.4
- Maintainer: chuynh@biolateral.com.au
- Port Added: 2002-04-02 16:19:11
- Last Update: 2005-02-18 23:44:49
- SVN Revision: UNKNOWN
- License: not specified in port
- WWW:
- http://www.expasy.ch/spdbv/
- Description:
- Swiss-PdbViewer is an application that provides a user friendly interface
allowing to analyse several proteins at the same time. The proteins can be
superimposed in order to deduce structural alignments and compare their
active sites or any other relevant parts. Amino acid mutations, H-bonds,
angles and distances between atoms are easy to obtain thanks to the
intuitive graphic and menu interface.
Moreover, Swiss-PdbViewer is tightly linked to Swiss-Model, an automated
homology modelling server developped at Glaxo Welcome Experimental Research
in Geneva. Working with these two programs greatly reduces the amount of work
necessary to generate models, as it is possible to thread a protein primary
sequence onto a 3D template and get an immediate feedback of how well the
threaded protein will be accepted by the reference structure before
submitting a request to build missing loops and refine sidechain packing.
Swiss-PdbViewer can also read electron density maps, and provides various
tools to build into the density. In addition, various modelling tools are
integrated and command files for popular energy minimisation packages can be
generated.
Finally, as a special bonus, POV-Ray scenes can be generated from the
current view in order to make stunning ray-traced quality images.
WWW: http://www.expasy.ch/spdbv/
 cgit ¦ GitHub ¦ GitHub ¦ GitLab ¦ 
- Manual pages:
- FreshPorts has no man page information for this port.
- pkg-plist: as obtained via:
make generate-plist - There is no configure plist information for this port.
- Dependency lines:
-
- No installation instructions:
- This port has been deleted.
- PKGNAME: spdbv
- Flavors: there is no flavor information for this port.
- distinfo:
- There is no distinfo for this port.
No package information for this port in our database- Sometimes this happens. Not all ports have packages. Perhaps there is a build error. Check the fallout link:
- Dependencies
- NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
- Runtime dependencies:
-
- libMesaGL.so.3 : graphics/linux_mesa3
- libXm.so.3 : x11-toolkits/linux-openmotif
- redhat-release : emulators/linux_base
- There are no ports dependent upon this port
Configuration Options:- No options to configure
- Options name:
- N/A
- FreshPorts was unable to extract/find any pkg message
- Master Sites:
|
| Commit History - (may be incomplete: for full details, see links to repositories near top of page) |
| Commit | Credits | Log message |
|---|
3.7_1
18 Feb 2005 23:44:49
  |
kris |
As previously announced, remove ports that have reached their expiry date,
and the handful of ports that depended on them. |
3.7_1
18 Dec 2004 23:02:35
|
kris |
This port is scheduled to be removed on 2005-02-18 if it is still
broken at that time, and a fix has not been submitted to GNATS. |
3.7_1
17 Dec 2004 08:01:22
|
linimon |
Clean up wording of IGNORE output. |
3.7_1
17 Dec 2004 07:43:11
|
linimon |
Unquote the IGNORE string. |
3.7_1
17 Dec 2004 06:43:46
|
linimon |
With portmgr hat on, switch from BROKEN to ignore. It does indeed build. |
3.7_1
01 Nov 2004 22:26:55
|
mezz |
Correct a typo: s/linux-opera/linux-openmotif/g. |
3.7_1
01 Nov 2004 21:25:10
|
mezz |
Chase the linux-openmotif shared library version and mark biology/spdbv as
broke, I get no respone from the maintainer since Oct 22, 2004. The
www/linux-opera works fine with new linux-openmotif. Also, bump PORTREVISION.
To fix or update for biology/spdbv is welcome, I shall commit them if I get
patch(es) in my Inbox. |
3.7
22 May 2004 13:19:02
|
pav |
- Remove long time unresponsive MASTER_SITE
PR: ports/67016
Submitted by: Roman Neuhauser <neuhauser@chello.cz> |
3.7
31 Mar 2004 03:12:58
|
trevor |
SIZEify (maintainer timeout) |
3.7
21 Feb 2003 11:01:38
|
knu |
De-pkg-comment. |
3.7
02 Jan 2003 03:57:58
|
ijliao |
upgrade to 3.7
PR: 44957
Submitted by: maintainer |
37b2
02 Apr 2002 16:18:53
|
dinoex |
Swiss-PdbViewer is an application that provides a user friendly interface
allowing to analyse several proteins at the same time. The proteins can be
superimposed in order to deduce structural alignments and compare their
active sites or any other relevant parts. Amino acid mutations, H-bonds,
angles and distances between atoms are easy to obtain thanks to the
intuitive graphic and menu interface.
Moreover, Swiss-PdbViewer is tightly linked to Swiss-Model, an automated
homology modelling server developped at Glaxo Welcome Experimental Research
in Geneva. Working with these two programs greatly reduces the amount of work
necessary to generate models, as it is possible to thread a protein primary
sequence onto a 3D template and get an immediate feedback of how well the
threaded protein will be accepted by the reference structure before
submitting a request to build missing loops and refine sidechain packing.
(Only the first 15 lines of the commit message are shown above  ) |
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