Posted by
Olivier Burri on
Sep 10, 2013; 12:45pm
URL: http://imagej.273.s1.nabble.com/Image-J-VSI-Reader-tp5004596p5004739.html
Dear Crystal,
In the error log I read this line:
Caused by: loci.formats.MissingLibraryException: The JAI Image I/O Tools are required to read JPEG-2000 files. Please obtain jai_imageio.jar from
http://www.openmicroscopy.org/site/support/bio-formats/developers/java-library.htmlYou need to go to that page, download jai_imageio.jar and place it in your Fiji "jars" folder (not "plugins");
That should fix the error
On a second note, the .VSI file you annexed is only a fraction of your data. Each .vsi file has a folder with the same name. In your case, there should be a "_yay_" folder in the same location as yay.vsi
The vsi file contains only the metadata and some thumbnails. The actual full resolution image data is on the above-mentioned folder.
Hope this helps!
Best
Oli
Olivier Burri
Engineer - Image Processing
& Software Development
EPFL - SV - PTECH - PTBIOP
-----Original Message-----
From: ImageJ Interest Group [mailto:
[hidden email]] On Behalf Of Crystal
Sent: lundi 9 septembre 2013 18:36
To:
[hidden email]
Subject: Re: Image J - VSI Reader
Dear Olivier,
Thanks so much for taking the time to respond. I tried your suggestions but am still getting the same error. Attached is the log file and one of my test analysis files (ignore the file name... it was after hours of problems with the microscope haha).
error:
Log.txt <
http://imagej.1557.x6.nabble.com/file/n5004731/Log.txt>
vsi file:
yay.vsi <
http://imagej.1557.x6.nabble.com/file/n5004731/yay.vsi>
Best,
Crystal
-----------------------
Sep 03, 2013; 4:02am
Re: Image J - VSI Reader
Olivier Burri
50 posts
"To fix this, move the 'icons' folder in the 'shared bars' one folder up (So you get "ActionBar/icons"). This should add the icons back.
The "Macro Error" is most likely caused by scifio.jar missing in the "jars"
folder (if you look at the error log that is generated, you should see a more 'human readable' message suggesting to get scifio.jar)
You can download it here:
http://www.openmicroscopy.org/site/products/bio-formats/downloadsIn case it is not, I suggest you activate the PTBIOP update site and make sure you have the latest version of the VSI Reader.
http://fiji.sc/How_to_follow_a_3rd_party_update_siteIn case this does not help, feel free to send me the error log you get, along with a link to your VSI file and I'll help you out from here.
The documentation will be updated as soon as possible.
All the best,
Oli
--
View this message in context:
http://imagej.1557.x6.nabble.com/Image-J-VSI-Reader-tp5004596p5004731.htmlSent from the ImageJ mailing list archive at Nabble.com.
--
ImageJ mailing list:
http://imagej.nih.gov/ij/list.html--
ImageJ mailing list:
http://imagej.nih.gov/ij/list.html