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Bug 431 - LOCI autoupdater didn't work
LOCI autoupdater didn't work
Status: RESOLVED FIXED
Product: Fiji
Classification: Unclassified
Component: Bio-Formats
unspecified
Macintosh Mac OS
: P4 normal
Assigned To: ImageJ Bugs Mailing List
Depends on:
Blocks:
 
Reported: 2012-05-21 10:33 CDT by Rubén Muñoz
Modified: 2012-05-29 16:28 CDT
2 users (show)

See Also:

Description Rubén Muñoz 2012-05-21 10:33:13 CDT
Lately I tried to update Fiji's Bioformats LOCI plugin using the menu: Plugins -> LOCI -> Update LOCI Plugins

After restart this didn't give me the latest version of the Plugins when checked at: Help -> About Plugins -> LOCI Plugins...

At the end downloaded loci_tools.jar from bioformats website and replaced the file manually. 

NOTE: For a colleague of mine this happened on Windows too! 

Information about your version of Java - this information is useful for the Fiji developers:

  os.arch => x86_64
  os.name => Mac OS X
  os.version => 10.7.3
  java.version => 1.6.0_31
  java.vendor => Apple Inc.
  java.runtime.name => Java(TM) SE Runtime Environment
  java.runtime.version => 1.6.0_31-b04-415-11M3646
  java.vm.name => Java HotSpot(TM) 64-Bit Server VM
  java.vm.version => 20.6-b01-415
  java.vm.vendor => Apple Inc.
  java.vm.info => mixed mode
  java.awt.graphicsenv => apple.awt.CGraphicsEnvironment
  java.specification.name => Java Platform API Specification
  java.specification.version => 1.6
  sun.cpu.endian => little
  sun.desktop => null
  file.separator => /

The up-to-date check says: You wanted never to be reminded.

Information relevant to JAVA_HOME related problems:

  JAVA_HOME is set to: null
  fiji.dir => /Applications/Fiji.app

Information about the version of each plugin:

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Comment 1 Melissa Linkert 2012-05-23 00:51:51 CDT
Which version of Bio-Formats was installed when "Plugins > LOCI > Update LOCI Plugins" failed?

If you go through the same upgrade procedure with the build downloaded from the website, does it work as expected?
Comment 2 Rubén Muñoz 2012-05-29 08:02:35 CDT
Hi Melissa,

Sorry for the late reply. I tried today with Windows and Mac. 

Windows: 
First I got the error: 

"The LOCI plugins have been downloaded to: C:\Documents And...
The JAR couldnt be renamed to loci_tools.jar

Please rename C:\Documents And... to C:\Documents And...
and restart ImageJ to complete the upgrade process."

Second I upgraded manually and tried again. This time a second error hapened:

"And error ocurred while downloading the LOCI plugins" 

In Mac I only get the second error. 

It seems that the automatic download is not working for me anymore. 

Thank you for looking into this. 
Rubén

Comment 3 Rubén Muñoz 2012-05-29 08:04:54 CDT
Sorry the versions are: 

Windows
4.4-DEV 29th of May 2012

Mac 
4.4-DEV 7th May 2012  

Regards,

Rubén
Comment 4 Melissa Linkert 2012-05-29 16:28:19 CDT
Oh, I see the problem now - the URLs to both the trunk and daily builds are incorrect, which is a rather embarrassing oversight on my part (and not Fiji's fault in the slightest).

Fixed on a branch:

https://github.com/melissalinkert/bioformats/commit/9a2f81d419d3f389f06a1051a23ca6ed58e772fc

...and so the upcoming 4.4 release of Bio-Formats will just solve the problem.

Do note, though, that the message on Windows about having to rename loci_tools.jar is expected.  There is a ticket on OME's issue tracker to eventually make that go away:

https://trac.openmicroscopy.org.uk/ome/ticket/4174