Aha, I found the setting so the Project:Clean... will indeed delete the required folders (i.e., when I pick it now it outputs): Buildfile: /Users/rkanters/Documents/workspace/Jmol/build.xml [echo] version=14.7.0_2016.05.26
clean: [delete] Deleting directory /Users/rkanters/Documents/workspace/Jmol/build/classes [delete] Deleting directory /Users/rkanters/Documents/workspace/Jmol/build/applet-classes [delete] Deleting directory /Users/rkanters/Documents/workspace/Jmol/build/appjars BUILD SUCCESSFUL Total time: 2 seconds It turns out that I need to edit in the 'Properties for Jmol' under the Builders' ant builder (which one may have to add in Mars.2) to use the build.xml file (as I mentioned earlier), but also in the Targets tab for the "During a "Clean:" " do a 'Set Targets...' and pick the 'clean' target. Default a new ant build doesn't seem to be set up to run a 'clean' target, only things are set for the "After a "Clean":' and 'Manual Build:'. Normally when I am playing around with the code I have the Jmol.jar Builder unchecked (so I don't have to build the signed applets and all the other stuff all the time), and only turn it one when I really want the Jmol.jar file. I hope this helps some other people when they switch over to Mars (which I would not suggest because I tried to set it up to use Java 1.6, but it complains that it can not handle anything below Java 1.7).... René > On May 27, 2016, at 12:51 PM, Robert Hanson <hans...@stolaf.edu> wrote: > > You have to make sure you do > > run as.... and then select the "clean" option. You can't just use > Project...clean > > Bob > > On Fri, May 27, 2016 at 10:32 AM, Kanters, Rene <rkant...@richmond.edu > <mailto:rkant...@richmond.edu>> wrote: > I always thought that it 'cleaning' it means that it would remove all those > files, which is why I was so surprised that it didn't do it. I guess it has > something to do with what is in the build.xml file, but I have never > understood the ant build files well enough to mess with those.... > >> On May 27, 2016, at 10:30 AM, Robert Hanson <hans...@stolaf.edu >> <mailto:hans...@stolaf.edu>> wrote: >> >> yes, that's right. If you figure how to make "Project Clean" remove the >> build files, that would be great. We could set that up. >> >> On Fri, May 27, 2016 at 9:10 AM, Kanters, Rene <rkant...@richmond.edu >> <mailto:rkant...@richmond.edu>> wrote: >> I decided to keep an eye on the build folder and noticed that when I did a >> 'Clean' project the files were not removed. I did an rm -rf in there to >> start fresh, did a build and now it works... >> >> René >> >>> On May 27, 2016, at 9:05 AM, Kanters, Rene <rkant...@richmond.edu >>> <mailto:rkant...@richmond.edu>> wrote: >>> >>> Bob, >>> >>> I did clean builds several times to no avail. I am building the Jmol.jar >>> using an ant builder setup for the Properties of Jmol, where I specify it >>> to use Jmol/build.xml buildfile. I think that when I run it directly in >>> Eclipse is may use the Java Builder set up, but that one is not editable, >>> so I can't tell what exactly that does. >>> >>> I also did an 'override and update' to make sure that I pulled everything >>> back as it is on the SVN server. The only files I did not allow to >>> overwrite were the .externalToolBuilders/Jmol.jar.launch (which does not >>> seem to have a version in SVN, probably something new in Mars.2), >>> Settings/org.eclipse.jdt.core.pref and .project. (like I had before). >>> >>> I do indeed not see the org/jmol/api/JmolBioResolver (and am somewhat >>> surprised it isn't echoed as org.jmol.apl), so why is there a script that >>> still seems to know about that and only needs it when I am running the >>> Jmol.jar (using java -jar Jmol.jar) but not when I am running it from >>> within eclipse? >>> >>> René >>> >>>> On May 27, 2016, at 1:44 AM, Robert Hanson <hans...@stolaf.edu >>>> <mailto:hans...@stolaf.edu>> wrote: >>>> >>>> JmolBioResolver was decommissioned. Perhaps you have not fully >>>> synchronized. Try a clean build. >>>> >>>> I have also added those to the release branch, 14.6. >>>> >>>> On Thu, May 26, 2016 at 4:04 PM, Kanters, Rene <rkant...@richmond.edu >>>> <mailto:rkant...@richmond.edu>> wrote: >>>> Hi, >>>> >>>> I just synchronized after having made the changes in the qchem reader this >>>> morning, and now find that the application when running in the Eclipse >>>> Mars.2 (Release 4.5.2) run the app fine, but that the Jmol.jar I am >>>> creating gives an error message when I try to measure things using the >>>> console: >>>> >>>> $ measure (c2)(c6) >>>> script ERROR: java.lang.NoSuchMethodError: >>>> org.jmol.viewer.Viewer.getJBR()Lorg/jmol/api/JmolBioResolver; >>>> >>>> Does anybody have any idea why that started happening? >>>> >>>> René >>>> >>>> >>>> ------------------------------------------------------------------------------ >>>> Mobile security can be enabling, not merely restricting. Employees who >>>> bring their own devices (BYOD) to work are irked by the imposition of MDM >>>> restrictions. Mobile Device Manager Plus allows you to control only the >>>> apps on BYO-devices by containerizing them, leaving personal data >>>> untouched! >>>> https://ad.doubleclick.net/ddm/clk/304595813;131938128;j >>>> <https://ad.doubleclick.net/ddm/clk/304595813;131938128;j> >>>> _______________________________________________ >>>> Jmol-developers mailing list >>>> Jmol-developers@lists.sourceforge.net >>>> <mailto:Jmol-developers@lists.sourceforge.net> >>>> https://lists.sourceforge.net/lists/listinfo/jmol-developers >>>> <https://lists.sourceforge.net/lists/listinfo/jmol-developers> >>>> >>>> >>>> >>>> >>>> -- >>>> Robert M. Hanson >>>> Larson-Anderson Professor of Chemistry >>>> St. Olaf College >>>> Northfield, MN >>>> http://www.stolaf.edu/people/hansonr <http://www.stolaf.edu/people/hansonr> >>>> >>>> >>>> If nature does not answer first what we want, >>>> it is better to take what answer we get. >>>> >>>> -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900 >>>> >>>> ------------------------------------------------------------------------------ >>>> What NetFlow Analyzer can do for you? Monitors network bandwidth and >>>> traffic >>>> patterns at an interface-level. Reveals which users, apps, and protocols >>>> are >>>> consuming the most bandwidth. Provides multi-vendor support for NetFlow, >>>> J-Flow, sFlow and other flows. Make informed decisions using capacity >>>> planning reports. >>>> https://ad.doubleclick.net/ddm/clk/305295220;132659582;e_______________________________________________ >>>> >>>> <https://ad.doubleclick.net/ddm/clk/305295220;132659582;e_______________________________________________> >>>> Jmol-developers mailing list >>>> Jmol-developers@lists.sourceforge.net >>>> <mailto:Jmol-developers@lists.sourceforge.net> >>>> https://lists.sourceforge.net/lists/listinfo/jmol-developers >>>> <https://lists.sourceforge.net/lists/listinfo/jmol-developers> >>> >>> ------------------------------------------------------------------------------ >>> What NetFlow Analyzer can do for you? Monitors network bandwidth and traffic >>> patterns at an interface-level. Reveals which users, apps, and protocols >>> are >>> consuming the most bandwidth. Provides multi-vendor support for NetFlow, >>> J-Flow, sFlow and other flows. Make informed decisions using capacity >>> planning reports. >>> https://ad.doubleclick.net/ddm/clk/305295220;132659582;e_______________________________________________ >>> >>> <https://ad.doubleclick.net/ddm/clk/305295220;132659582;e_______________________________________________> >>> Jmol-developers mailing list >>> Jmol-developers@lists.sourceforge.net >>> <mailto:Jmol-developers@lists.sourceforge.net> >>> https://lists.sourceforge.net/lists/listinfo/jmol-developers >>> <https://lists.sourceforge.net/lists/listinfo/jmol-developers> >> >> >> ------------------------------------------------------------------------------ >> What NetFlow Analyzer can do for you? Monitors network bandwidth and traffic >> patterns at an interface-level. Reveals which users, apps, and protocols are >> consuming the most bandwidth. Provides multi-vendor support for NetFlow, >> J-Flow, sFlow and other flows. Make informed decisions using capacity >> planning reports. https://ad.doubleclick.net/ddm/clk/305295220;132659582;e >> <https://ad.doubleclick.net/ddm/clk/305295220;132659582;e> >> _______________________________________________ >> Jmol-developers mailing list >> Jmol-developers@lists.sourceforge.net >> <mailto:Jmol-developers@lists.sourceforge.net> >> https://lists.sourceforge.net/lists/listinfo/jmol-developers >> <https://lists.sourceforge.net/lists/listinfo/jmol-developers> >> >> >> >> >> -- >> Robert M. Hanson >> Larson-Anderson Professor of Chemistry >> St. Olaf College >> Northfield, MN >> http://www.stolaf.edu/people/hansonr <http://www.stolaf.edu/people/hansonr> >> >> >> If nature does not answer first what we want, >> it is better to take what answer we get. >> >> -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900 >> >> ------------------------------------------------------------------------------ >> What NetFlow Analyzer can do for you? Monitors network bandwidth and traffic >> patterns at an interface-level. Reveals which users, apps, and protocols are >> consuming the most bandwidth. Provides multi-vendor support for NetFlow, >> J-Flow, sFlow and other flows. Make informed decisions using capacity >> planning reports. >> https://ad.doubleclick.net/ddm/clk/305295220;132659582;e_______________________________________________ >> >> <https://ad.doubleclick.net/ddm/clk/305295220;132659582;e_______________________________________________> >> Jmol-developers mailing list >> Jmol-developers@lists.sourceforge.net >> <mailto:Jmol-developers@lists.sourceforge.net> >> https://lists.sourceforge.net/lists/listinfo/jmol-developers >> <https://lists.sourceforge.net/lists/listinfo/jmol-developers> > > > ------------------------------------------------------------------------------ > What NetFlow Analyzer can do for you? Monitors network bandwidth and traffic > patterns at an interface-level. Reveals which users, apps, and protocols are > consuming the most bandwidth. Provides multi-vendor support for NetFlow, > J-Flow, sFlow and other flows. Make informed decisions using capacity > planning reports. https://ad.doubleclick.net/ddm/clk/305295220;132659582;e > <https://ad.doubleclick.net/ddm/clk/305295220;132659582;e> > _______________________________________________ > Jmol-developers mailing list > Jmol-developers@lists.sourceforge.net > <mailto:Jmol-developers@lists.sourceforge.net> > https://lists.sourceforge.net/lists/listinfo/jmol-developers > <https://lists.sourceforge.net/lists/listinfo/jmol-developers> > > > > > -- > Robert M. Hanson > Larson-Anderson Professor of Chemistry > St. Olaf College > Northfield, MN > http://www.stolaf.edu/people/hansonr <http://www.stolaf.edu/people/hansonr> > > > If nature does not answer first what we want, > it is better to take what answer we get. > > -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900 > > ------------------------------------------------------------------------------ > What NetFlow Analyzer can do for you? Monitors network bandwidth and traffic > patterns at an interface-level. Reveals which users, apps, and protocols are > consuming the most bandwidth. Provides multi-vendor support for NetFlow, > J-Flow, sFlow and other flows. Make informed decisions using capacity > planning reports. > https://ad.doubleclick.net/ddm/clk/305295220;132659582;e_______________________________________________ > Jmol-developers mailing list > Jmol-developers@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/jmol-developers
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