Thanks for this Mark - we'll add these instructions to our website. Windows will automatically create an icon for the JNLP file after you launch it a few times, but that mechanism seems broken in OSX. I'm glad you found a way to do this manually!
Jim. ps. I'm still not sure this mechanism will cope with the case when the libraries in the JNLP file change.. but I'll check it when I come to make the next release. On Thu Jun 12 15:34:25 2014, Mark A Saper wrote: > Hi Jim, > > I figured out the right way to launch Jalview in OS X. This assumes you have > Oracle Java 1.7 installed and have already run and downloaded jalview. > > 1. In System Preferences, launch Java which opens Java Control Panel. > 2. On the "General" pane, click "View..." which opens Java Cache Viewer > 3. Select Jalview > 4. Click icon for creating a shortcut. A Mac alias is installed on your > Desktop. Drag it /Applications or wherever you want it. > 5. Double-click the Jalview alias file to launch. > > The first time it will download all of the jalview objects into cache again. > Subsequent launches will only check for any updates, then launch. > > -Mark > > > _______________________________________________ > Mark A. Saper, Ph.D. > Associate Professor of Biological Chemistry, U-M Medical School > 3040 Chemistry Building | [email protected] | +1 (734) 764-3353 > > > > > > On Jun 12, 2014, at 9:30 AM, Mark A Saper <[email protected]> wrote: > >> Jim, >> >> I traced the problem to my jalview.jlnp file that I use to launch jalview. >> Although Java downloaded the new jalview 2.8.1 I continued to launch jalview >> with a jalview.jnlp file that I have in my /Applications folder which had >> reference to the older version of JABAWS. This has happened several times >> before over the years. How can always launch the program with the most >> recent jalview? Use a link? >> >> My platform is OS X 10.8.5 running Oracle Java 1.7.0_60. >> >> Regards, Mark >> >> >> software that I am running is 2.8.1 >> _______________________________________________ >> Mark A. Saper, Ph.D. >> Associate Professor of Biological Chemistry, U-M Medical School >> 3040 Chemistry Building | [email protected] | +1 (734) 764-3353 >> >> >> >> >> >>> On Jun 12, 2014, at 2:06 AM, Jim Procter <[email protected]> >>> wrote: >>> >>> Hi Mark. >>>> On Wed Jun 11 21:30:41 2014, Mark A Saper wrote: >>>> Is JABAWS available? A couple of days ago the Sequence alignment services >>>> became "greyed" out. >>> >>> We upgraded JABAWS last week, at the same time as releasing v2.8.1. We >>> didn't expect this to cause any problems - since our tests showed that v2.1 >>> works with Jalview 2.7 onwards (and most likely, 2.6 onwards, too). >>> However, there may be issues with java versions on different platforms. >>> >>> Could you follow the faq (http://www.jalview.org/faq#bug) and send me your >>> Jalview console log output ? >>> >>> Thanks! >>> Jim. >> > > _______________________________________________ > Jalview-discuss mailing list > [email protected] > http://www.compbio.dundee.ac.uk/mailman/listinfo/jalview-discuss _______________________________________________ Jalview-discuss mailing list [email protected] http://www.compbio.dundee.ac.uk/mailman/listinfo/jalview-discuss
