Re: Strange Java behavior - partly imageJ related

[Jeff Hardin]

Hi all,
I have a weird problem that I believe involves how Java is installed/setup on one of my Mac laptops running MacOS 10.12 (Sierra). I installed JRE 8 from Oracle for running Fiji. Fiji runs fine. I can also run ImageJ, and it tells me I’m running JVM 1.6.0_65 (the legacy Apple JVM). When I try to launch Micr-Manager 1.4 or 2.0beta, I get a brief flash and then neither launches. If I use Apple Jar Launcher to launch the ij.jar file then both MM 1.4 and 2.0beta launch, and they show I”m running JVM 1.8. I tried redownloading fresh apps from the Micro-Manager web site, with no effect.

I have another laptop on which Micro-Manager 1.4 and 2.0 beta are installed in which (I think) I did the same Java install involving JVM 1.8. They launch flawlessly and are running JVM 1.6.0_35. This all suggests some environment variable or something is weird on the other laptop. However, the fact that ImageJ runs fine has me baffled.

Can anyone provide some advice? I mainly want to open Micro-Manager datasets on the laptops; we use Windows machines to control hardware.

Thanks in advance for your help!
Cheers,
Jeff
__________________________
Jeff Hardin
Raymond E. Keller Professor and Chair
Department of Zoology
Faculty Director, Biology Core Curriculum
University of Wisconsin
1117 W. Johnson St.
Madison, WI 53706
voice: [phone]
fax: [phone]
email: [hidden email]<mailto:[hidden email]>
web page: http://worms.zoology.wisc.edu



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[ctrueden]

Hi Jeff,

> When I try to launch Micr-Manager 1.4 or 2.0beta, I get a brief flash
> and then neither launches.

The version of Java being used by each application mostly depends on each
application's launcher. I know the ImageJ2 launcher used by Fiji will use
the java in your Fiji.app/java folder, if one is present. Or if not, then
it searches for the latest installed version of Java on your system
instead. But I don't know how Micro-Manager's launcher works.

> I mainly want to open Micro-Manager datasets on the laptops

Is it sufficient to use Bio-Formats in Fiji, then? Bio-Formats supports
reading Micro-Manager datasets.

Regards,
Curtis

--
Curtis Rueden
LOCI software architect - https://loci.wisc.edu/software
ImageJ2 lead, Fiji maintainer - https://imagej.net/User:Rueden
Did you know ImageJ has a forum? http://forum.imagej.net/


On Thu, Jun 8, 2017 at 7:56 AM, Jeff Hardin <[hidden email]> wrote:

> Hi all,
> I have a weird problem that I believe involves how Java is installed/setup
> on one of my Mac laptops running MacOS 10.12 (Sierra). I installed JRE 8
> from Oracle for running Fiji. Fiji runs fine. I can also run ImageJ, and it
> tells me I’m running JVM 1.6.0_65 (the legacy Apple JVM). When I try to
> launch Micr-Manager 1.4 or 2.0beta, I get a brief flash and then neither
> launches. If I use Apple Jar Launcher to launch the ij.jar file then both
> MM 1.4 and 2.0beta launch, and they show I”m running JVM 1.8. I tried
> redownloading fresh apps from the Micro-Manager web site, with no effect.
>
> I have another laptop on which Micro-Manager 1.4 and 2.0 beta are
> installed in which (I think) I did the same Java install involving JVM 1.8.
> They launch flawlessly and are running JVM 1.6.0_35. This all suggests some
> environment variable or something is weird on the other laptop. However,
> the fact that ImageJ runs fine has me baffled.
>
> Can anyone provide some advice? I mainly want to open Micro-Manager
> datasets on the laptops; we use Windows machines to control hardware.
>
> Thanks in advance for your help!
> Cheers,
> Jeff
> __________________________
> Jeff Hardin
> Raymond E. Keller Professor and Chair
> Department of Zoology
> Faculty Director, Biology Core Curriculum
> University of Wisconsin
> 1117 W. Johnson St.
> Madison, WI 53706
> voice: [phone]
> fax: [phone]
> email: [hidden email]<mailto:[hidden email]>
> web page: http://worms.zoology.wisc.edu
>
>
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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