Jim, I actually think Jalview creates the icon automatically, as it reappears on the Desktop if I delete it.
I may have a similar problem later if things change again. _______________________________________________ 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 11:58 AM, Jim Procter <[email protected]> wrote: > 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
