[ome-users] Problem open DV Files (time lapse file >33000 images)

[David Gault (Staff)]

Hi Alex,

Thank you for providing the sample file. I was able to reproduce the issue as you described. The issue appears to be that we are reading the size of the time series from the image header as a signed 2 byte integer (as per the specification that we currently have) which gives a maximum value of 32,767. When the time series is longer than this we end up with negative values leading to the error message you saw.

I have created a bug ticket to track this issue which you can follow at https://trac.openmicroscopy.org/ome/ticket/13261#ticket

With Thanks,
David Gault

On 5 Jul 2016, at 11:55, Alexander Al Saroori <saroori.alexander at googlemail.com<mailto:saroori.alexander at googlemail.com>> wrote:

Hi again,

Sorry for bothering you again.

But I have just realized, that the problem is probably not connected with the size of my file but with the amount of images in my stack. I can't open image stacks with  35000 images  and a total size of 4.8 GB (256x256, STORM mode, OMX-V3) in Fiji with bioformats.  Image stacks with 20000 images but a size of >5 GB,  I can open without a problem (same acquisition mode, but 512x512). So I think it is not a problem with the  size but with the images in the stack size.

Thanks for your help.

Cheers,
Alex

-----Ursprüngliche Nachricht-----
Von: Alexander Al Saroori [mailto:saroori.alexander at googlemail.com]
Gesendet: Montag, 4. Juli 2016 17:21
An: OME User Support List <ome-users at lists.openmicroscopy.org.uk<mailto:ome-users at lists.openmicroscopy.org.uk>>
Betreff: Open DV Files > 4GB in Fiji fails

Hi together,

I have tried to open DV-Files >4GB in Fiji (retrieved from OMX-V3) which fails the entire time. I tried different Fiji versions and different OS (Ubuntu 14.04, Windows 10). But it fails every time. Please find attached the error message.

Do you have any suggestions what I could do?

Thank you!

Best,
Alex
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