split multichannel & updating not working

[Cammer, Michael]

I am having a problem that a hyperstack with 8 channels and 4 timepoints returns an error when I try to split the channels.  The error is "Multichannel image required."  However, there definitely are 8 channels as checked with this macro
macro "test dimensions" {
  Stack.getDimensions(width, height, channels, slices, frames);
  print(width, height, channels, slices, frames);
}
Which prints
852 720 8 1 4

With six channel image, however, it works fine.  Is the problem with > 6 channels?  I could swap Z for channels, but then I would have to rewrite 3 functions accordingly...

I thought that before asking for help I would update ImageJ to the daily build (we have 1.50i1 installed).  However, when we try to update we get the message 'The "News" page on the ImageJ website is not in the expected format or it was not found.'  We also got the same error yesterday on a different computer.

Any help would be greatly appreciated.

Regards,
Michael


=========================================================================
Michael Cammer, Microscopy Core & Skirball Institute, NYU Langone Medical Center
Cell:  914-309-3270     Office: Skirball 2nd Floor main office, back right a.k.a. The Coldroom
http://ocs.med.nyu.edu/microscopy & http://microscopynotes.com/


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[Krs5]

Hi Michael,

If I create a new hyperstack with 8 channels and 4 timepoints via File > New > Hyperstack ... and run split channels it all works fine, both in Fiji (1.51d) and ImageJ (1.50e).

If I try to update ImageJ get the error "Release notes are not in the expected format".

Best wishes

Kees

________________________________________
From: ImageJ Interest Group [[hidden email]] on behalf of Cammer, Michael [[hidden email]]
Sent: 01 July 2016 21:52
To: [hidden email]
Subject: split multichannel & updating not working

I am having a problem that a hyperstack with 8 channels and 4 timepoints returns an error when I try to split the channels.  The error is "Multichannel image required."  However, there definitely are 8 channels as checked with this macro
macro "test dimensions" {
  Stack.getDimensions(width, height, channels, slices, frames);
  print(width, height, channels, slices, frames);
}
Which prints
852 720 8 1 4

With six channel image, however, it works fine.  Is the problem with > 6 channels?  I could swap Z for channels, but then I would have to rewrite 3 functions accordingly...

I thought that before asking for help I would update ImageJ to the daily build (we have 1.50i1 installed).  However, when we try to update we get the message 'The "News" page on the ImageJ website is not in the expected format or it was not found.'  We also got the same error yesterday on a different computer.

Any help would be greatly appreciated.

Regards,
Michael


=========================================================================
Michael Cammer, Microscopy Core & Skirball Institute, NYU Langone Medical Center
Cell:  914-309-3270     Office: Skirball 2nd Floor main office, back right a.k.a. The Coldroom
http://ocs.med.nyu.edu/microscopy & http://microscopynotes.com/


------------------------------------------------------------
This email message, including any attachments, is for the sole use of the intended recipient(s) and may contain information that is proprietary, confidential, and exempt from disclosure under applicable law. Any unauthorized review, use, disclosure, or distribution is prohibited. If you have received this email in error please notify the sender by return email and delete the original message. Please note, the recipient should check this email and any attachments for the presence of viruses. The organization accepts no liability for any damage caused by any virus transmitted by this email.
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[Rasband, Wayne (NIH/NIMH) [E]]

> On Jul 1, 2016, at 4:52 PM, Cammer, Michael <[hidden email]> wrote:
>
> I am having a problem that a hyperstack with 8 channels and 4 timepoints returns an error when I try to split the channels.  The error is "Multichannel image required."  However, there definitely are 8 channels as checked with this macro
> macro "test dimensions" {
>  Stack.getDimensions(width, height, channels, slices, frames);
>  print(width, height, channels, slices, frames);
> }
> Which prints
> 852 720 8 1 4
>
> With six channel image, however, it works fine.  Is the problem with > 6 channels?  I could swap Z for channels, but then I would have to rewrite 3 functions accordingly…

I am not able to reproduce this problem using this macro on either ImageJ 1.51d or 1.50i:

  newImage("HyperStack","8-bit color-mode label",852,720,8,1,4);
  run("Split Channels”);

> I thought that before asking for help I would update ImageJ to the daily build (we have 1.50i1 installed).  However, when we try to update we get the message 'The "News" page on the ImageJ website is not in the expected format or it was not found.'  We also got the same error yesterday on a different computer.

You are getting this error with the Help>Update ImageJ command because you are running an older version of ImageJ that does not support the HTTPS encryption now used by the ImageJ website (https://imagej.nih.gov/ij/). You can work around the problem by downloading the latest ij.jar file from https://imagej.nih.gov/ij/ij.jar and copying it into the ImageJ folder. On Mac OS X, you need to control click on ImageJ.app, select “Show Package Contents” and copy the ij.jar file to Contents/Resorces/Java/ (or Contents/Java/ if you are using Java 8).

-wayne


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