[Jchempaint-devel] Update from the UU JChemPaint team

[Egon W. <ego...@gm...>]

Hi all,

last week Wednesday Arvid and I discussed JChemPaint and the Bioclipse
usage, after we both got back from holidays... I have added the notes
as PDF, and will summarize the points here as they are somewhat
cryptic:

* JCP branch updates (task: EW)

There are many patched lined up for the JChemPaint-Primary branch,
both from UU as from EBI. These need to be integrated into the main
branch on the Pele machine.

* wiki about two SWT widgets (task: AB)

Wikipage in the Bioclipse and/or JChemPaint wiki about the SWT widgets
wrapping the renderer with and without controller(s)

* propose factoring out SWT widget (CDK/SWT only)

Put these widgets into separate plugins only depending on
org.openscience.cdk and eclipse SWT plugins and not one Bioclipse
plugins, so that others (e.g. KNIME) can reuse them too

* IAtomContainer widgets

Currently, Bioclipse only has widgets wrapping the Renderer, but with
the arrival of the AtomContainerRenderer these should be wrapped too.

* review/port Stefan's patches

Combines with the first point. This involves the stereo bonds in the PDF.

* look at transparency feedback

To the UU team, feedback on selections of the various kinds is of high
importance. The current feedback mechanism is not enough and the blue
selection indication generally not satisfactory. Proper transparency
and highlighting using larger spheres in the background is much
requested for, but a common interface underlying SWT and Swing is
currently missing. This is a priority for Bioclipse 2.2.

* create IEdit

Arvid's refactoring of the chemical edits in the ControllerHub into
IEdit-based edit classes is unfinished. This has very high priority.

Egon

-- 
Post-doc @ Uppsala University
http://chem-bla-ics.blogspot.com/