On Wednesday 07 December 2005 16:49, Daniel Leidert wrote: > X-post to bioclipse, jmol-, cdk-devel list > BCC to Egon and Stephan > please answer to the list(s), fitting your answer (I don't need a CC) > > First, sorry for the late answer Egon.
No worries. > Am Dienstag, den 22.11.2005, 14:41 +0100 schrieb Egon Willighagen: > > as you might know, Eclipse runs with free VMs in Debian GNU/Linux, and > > Bioclipse runs quite well too, except for the plugins that embed AWT > > stuff (see other email). > > > > I've just been talking to Stephan Michels, who actually contributed to > > the CDK in the past, and now happens to one of the Debian Java > > Maintainers doing Debian's Eclipse packages... > > > > OK, since Bioclipse almost runs with with free java tools, it can become > > part of Debian itself (main), > > It must completely depend on packages in main to be allowed to go into > main. With 'almost' I meant: Bioclipse itself requires only free java tools. Some plugins may require non-free stuff (bc_jmol and bc_jcp) and this needs to be explored. Those would need to go into contrib. But to make it clear, bioclipse and bc_cdk: - can be build with free tools from main (as the build process matches that of eclipse) - can run with free tools from main (I have run it with jamvm and classpath) > > and making it straightforward for me to add it to > > the live chemblaics CD I want to release early next year for demoing our > > favorite software on our friends laptop. > > > > Now, Stephan is interested in making debs. Daniel, I was hoping you could > > help out here too, because the Jmol/JCP plugin debs will depend on debs > > for Jmol, CDK and JChemPaint... I've done deb packaging in the past too, > > so can offer testing etc here too... > > No problem with that. The whole work is available to the public (ok, > last solutions are still on my local systems, but if interested I can > put them online). It would like to see it in Debian. Today I again got > post asking, why several packages are not part of it :) Please do put them online, possibly with a brief explanation on how people can build the packages from the deb-src sources. I really interested in getting things ready for debian, (k)ubuntu and the knoppix-based chemoinformatics live CD I want to have ready in May 2006. > > Some questions I currently have (Stephan, Daniel, others, please add > > yours): - how can be build the things from the command line? > > Sorry, I don't understand. What do you mean with "build the things from > the command line"? We need a build process for bioclipse framework and the bioclipse plugins. This will require to build them from the command line, i.e. using the default Debian build process/daemons. > > - can we do without the SWT/AWT bridge, which is not available from free > > tools yet? (see other email) The SWT_AWT bridge uses com.sun classes. A bug has been filed against Eclipse for this. Not sure of the current status of this bug. See [1]. > > - can we resolve the circular dependencies between the current Jmol/CDK > > debs? > > That's a question for upstream. Upstream: that's me right? > The current solution is, that there is a > target in Jmol's build.xml to make a package for the jmolApis.jar and > jmolIO.jar (IIRC you wrote that). But it still requires heavy patching. Can you point out to me what patching you need to do, then I can fix things upstream. > It would be better to find a clear solution, which can be implemented in > upstream, e.g. moving the cyclic stuff to the cdk sourcs and build > cdk-jmol.jar. And BTW: There is another cyclic dependency between JoeLIB > and cdk (cdk-libio.jar). OK, lets disregard JOELib for now, as the future of that project is (unfortunately) uncertain at this moment... E. 1.http://developer.classpath.org/mediation/FreeSWTTestApps -- Egon Willighagen http://chem-bla-ics.blogspot.com/ ------------------------------------------------------- This SF.net email is sponsored by: Splunk Inc. Do you grep through log files for problems? Stop! Download the new AJAX search engine that makes searching your log files as easy as surfing the web. DOWNLOAD SPLUNK! http://ads.osdn.com/?ad_id=7637&alloc_id=16865&op=click _______________________________________________ Jmol-developers mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/jmol-developers
