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Mechanobiology-Lab / BatchDeconvolution

Fiji plugin for increasing deconvolution workflow
GNU General Public License v3.0
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Fiji Plugin Error #3

Open krbarbe3 opened 2 years ago

krbarbe3 commented 2 years ago

Hi-

I m encountering the following error:

Initializing helper readers
Reading additional metadata
Populating metadata
Reading bitmap header
Populating metadata
[WARN] Unknown LaserMedium value 'DAPI' will be stored as "Other"
[WARN] Unknown LaserMedium value 'Alexa Fluor 488' will be stored as "Other"
[WARN] Unknown LaserMedium value 'Cy3' will be stored as "Other"
Exception in thread "Thread-6" java.lang.NoClassDefFoundError: javafx/util/Pair
    at calculations.Split.run(Split.java:128)
    at calculations.Run$1.method(Run.java:115)
    at calculations.Run$1.run(Run.java:58)
Caused by: java.lang.ClassNotFoundException: javafx.util.Pair
    at java.net.URLClassLoader.findClass(URLClassLoader.java:382)
    at java.lang.ClassLoader.loadClass(ClassLoader.java:424)
    at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:349)
    at java.lang.ClassLoader.loadClass(ClassLoader.java:357)
    ... 3 more

Do you have any suggestions?

Thanks!

Kara

ZbigniewBaster commented 2 years ago

Hey Kara, Just noticed your message. It seems that BioFormats library might have problems with reading your files. What format are your files? you can try initially save them as tiffs - not sure if it help, but tiffs are more native files for ImageJ than other formats. Let me know if you still have this problem. If so, can you test this solution on one file, and if it works, I can prepare a quick macro to transform all the files to tiffs.

Best, Zbyszek