[ome-users] ImageJ plugin in 4.4-RC2

[Harri Jäälinoja]

>> http://hudson.openmicroscopy.org.uk/job/OMERO-trunk/3028/artifact/src/targ
>> et/OMERO.insight-ij-4.4.0-RC2-188-da0c55d-ice33-b3028.zip
>>
>> You'll still need the new loci_tools.jar.
>
> And ome-io.jar installed in the ImageJ/Plugins folder in order to work.
>


Hi,

I first reinstalled Fiji, to be sure, and updated it. Then:

hajaalin at dh2-bll10-06:~$ cp 
Downloads/OMERO.ij-4.4.0-RC2-188-da0c55d-ice33-b3028/omero_ij.jar 
Fiji.app/plugins/
hajaalin at dh2-bll10-06:~$ cp 
Downloads/OMERO.ij-4.4.0-RC2-188-da0c55d-ice33-b3028/libs/ome-io.jar 
Fiji.app/plugins/

hajaalin at dh2-bll10-06:~$ wget 
http://hudson.openmicroscopy.org.uk/view/Bio-Formats/job/BIOFORMATS-trunk/lastSuccessfulBuild/artifact/artifacts/loci_tools.jar
hajaalin at dh2-bll10-06:~$ mv loci_tools.jar Fiji.app/plugins/

hajaalin at dh2-bll10-06:~$ Fiji.app/fiji-linux64
Re-executing with correct library lookup path 
(/home/hajaalin/Fiji.app/lib/linux64)


Now the OMERO plugin menu item is different, says "Connect to OMERO". 
When I select it, nothing happens.

Then I looked at the jar files in 
Downloads/OMERO.ij-4.4.0-RC2-188-da0c55d-ice33-b3028/libs/, and I 
noticed that for example TableLayout.jar and JHotDraw.jar are not in 
Fiji.app/plugins or Fiji.app/

To be sure (or maybe to overdo), I did like this:
hajaalin at dh2-bll10-06:~$ cp 
Downloads/OMERO.ij-4.4.0-RC2-188-da0c55d-ice33-b3028/libs/* 
Fiji.app/plugins/

Now something happens when I select OMERO plugin, so maybe it's a matter 
of getting the jars right?

Cheers,
Harri


java.lang.reflect.InvocationTargetException
	at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
	at 
sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
	at 
sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
	at java.lang.reflect.Method.invoke(Method.java:597)
	at ij.Command.runPlugIn(Command.java:146)
	at ij.Command.runCommand(Command.java:95)
	at ij.Executer.run(Executer.java:64)
	at java.lang.Thread.run(Thread.java:662)
Caused by: java.lang.RuntimeException: Failed to intialize the Container 
in test mode.
	at 
org.openmicroscopy.shoola.env.Container.startupInPluginMode(Container.java:414)
	at org.openmicroscopy.shoola.MainIJPlugin.run(MainIJPlugin.java:160)
	at ij.IJ.runUserPlugIn(IJ.java:185)
	at ij.IJ.runPlugIn(IJ.java:152)
	... 8 more
Caused by: org.openmicroscopy.shoola.env.init.StartupException: Unable 
to load Container configuration
	at 
org.openmicroscopy.shoola.env.init.ContainerConfigInit.execute(ContainerConfigInit.java:100)
	at 
org.openmicroscopy.shoola.env.init.Initializer.doInit(Initializer.java:255)
	at 
org.openmicroscopy.shoola.env.Container.startupInPluginMode(Container.java:409)
	... 11 more
Caused by: org.openmicroscopy.shoola.env.config.ConfigException: An 
error occurred while attempting to process 
/home/hajaalin/Fiji.app/plugins/config/container.xml. 
(/home/hajaalin/Fiji.app/plugins/config/container.xml (No such file or 
directory))
	at org.openmicroscopy.shoola.env.config.Parser.rethrow(Parser.java:105)
	at org.openmicroscopy.shoola.env.config.Parser.parse(Parser.java:173)
	at 
org.openmicroscopy.shoola.env.config.RegistryFactory.fillFromFile(RegistryFactory.java:102)
	at 
org.openmicroscopy.shoola.env.init.ContainerConfigInit.execute(ContainerConfigInit.java:84)
	... 13 more
Caused by: java.io.FileNotFoundException: 
/home/hajaalin/Fiji.app/plugins/config/container.xml (No such file or 
directory)
	at java.io.FileInputStream.open(Native Method)
	at java.io.FileInputStream.<init>(FileInputStream.java:106)
	at java.io.FileInputStream.<init>(FileInputStream.java:66)
	at 
org.openmicroscopy.shoola.util.file.IOUtil.readConfigFile(IOUtil.java:262)
	at org.openmicroscopy.shoola.env.config.Parser.parse(Parser.java:156)
	... 15 more