Re: [Jmol-users] Bioclipse 1.0 released

Sun, 20 Aug 2006 06:40:52 -0700

Hi Oja,

Thanks for your reply.

Any idea when Eclipse 3.2.1 might appear? I do not see anything on the Eclipse wiki that is helpful in that regard.

I would not be developing Bioclipse - I enquired because I was interested in trying out Bioclipse to see if it would be useful in exploring macromolecules as I develop web-based Jmol tutorials. Any thoughts on that?

Frieda

On Aug 17, 2006, at 8:45 AM, Ola Spjuth wrote:

Hi Frieda,

Bioclipse is developed in Java but relies on native SWT-libraries and hence we need to distribute one version for each OS.

We have had problems exporting correct packages for Mac OS X due to a bug in Eclipse 3.2 and Apple's compatibility libraries, but this should be fixed in the next Eclipse release (3.2.1). It is still possible to develop Bioclipse on a Mac (I am!) with some limitations in functionality.

We hope to be able to offer a binary Mac OS X release very soon!


Cheers,

   .../Ola

On Aug 16, 2006, at 16:18 , Frieda Reichsman wrote:

Hi Ola,
The Bioclipse download pages seem to say that Bioclipse is OS-independent. Can you tell me which version will run on Mac OSX? It seems one is marked for Linux and the other for Win...
Frieda
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Frieda Reichsman, PhD
Molecules in Motion
Interactive Molecular Structures

///////////////////////////////////////////



On Aug 11, 2006, at 10:26 AM, Ola Spjuth wrote:

The Bioclipse team is proud to announce the release of Bioclipse 1.0, containing a Jmol plugin and a script editor for Jmol scripts with syntax highlighting and code assistance.
 
Bioclipse [1] is a free, open source, workbench for chemo- and bioinformatics with powerful editing and visualization capabilities for molecules, sequences, proteins, spectra etc. The major features of version 1.0 are:
 
* Import and export in various file formats
* Visual editing of molecular 2D-structures
* 3D-visualization of molecules and proteins
* Editing and visualization of sequences and features (DNA, RNA, proteins etc)
* Graphing and editing of various types of spectra, e. g. NMR, MS
* Retrieval of resources (sequences, proteins, etc) from public data repositories
* Scripting of 3D-visualizations with syntax highlighting and content assistance
* PDB-editor with syntax highlighting for working with PDB files
* CMLRSS-viewer for downloading chemical content published on the web using RSS-feeds
* Integrated, searchable help-system
* Hierarchical view of molecular and macromolecular substructures and calculation of chemical properties
* Connection with external programs, e. g. PyMol
 
Bioclipse is a rich client, which means it is run on your local computer but also gives the possibility to communicate with servers for data retrieval and computational services. The powerful plugin architecture is based on Eclipse[2], and results in a responsive, integrated user interface designed for simple and intuitive operations that at the same time is easy to extend with custom functionality.
 
There is much ongoing work with Bioclipse and new features are constantly added. Please visit the Bioclipse Wiki [3] in order to get the latest information regarding the development.
 
Bioclipse is available for download from Sourceforge [4].
 
[1] Bioclipse homepage: http://www.bioclipse.net
[2] Eclipse: http://www.eclipse.org
[3] Bioclipse Wiki: http://wiki.bioclipse.net
[4] Sourceforge project site: http://sourceforge.net/projects/bioclipse/
 
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Using Tomcat but need to do more? Need to support web services, security?
Get stuff done quickly with pre-integrated technology to make your job easier
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Jmol-users mailing list

///////////////////////////////////////////


Frieda Reichsman, PhD

Molecules in Motion

Interactive Molecular Structures

http://www.moleculesinmotion.com


///////////////////////////////////////////


 

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Using Tomcat but need to do more? Need to support web services, security?
Get stuff done quickly with pre-integrated technology to make your job easier
Download IBM WebSphere Application Server v.1.0.1 based on Apache Geronimo
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