[ome-users] bio-formats problem opening a VSI image set

[Balaji Ramalingam (Staff)]

Hi,

Testing locally on OSX, we were able to open the ³.vsi" along with the
corresponding ".ets" file in ImageJ(using the latest version of BF).
The only issue that we could think of in your case, could be the
permissions on the files.
Could you please check if both the ³.vsi" and ".ets" files have read
permissions?

It would help us troubleshoot the issue better, if you could paste the
output of : ls -ahl (on the parent directory).

Best,
Balaji



__________________
Mr Balaji Ramalingam
Software Developer

OME Team
College of Life Sciences
University of Dundee






On 29/09/2015 17:44, "Aryeh Weiss" <aryeh at cc.huji.ac.il> wrote:

>I have a VSI file that is not being read correctly by bio-formats. I
>discovered this when trying to use the VSI reader.
>It works correctly on a Windows 7 system, so this may be OSX specific.
>The problem occurs on both Java 1.6.0_65 and Java 1.8.0_60.
>
>There is no error generated, but the bio-formats importer only opens the
>smallest image (which is stored in Process_2297.vsi).
>It fails to related to the images in the
>_Process_2297_>stack1>frame_t_0.ets file (which is almost 20GB big and
>has the rest of the images.
>I worked with Oli Burri to verify that the file is valid and works for
>him. It also works on his mac, so you not be able to reproduce the
>problem, but we can only hope... On Oli's computer, the importer will
>show a list of series (which are images at increasing resolution).
>
>The zip file is still 14+ GB , so I cannot upload it from home, but the
>following link should work:
>https://filesender.huji.ac.il/filesender/?vid=37f1710c-1db5-3bc9-4a6e-0000
>619d7dcd
>The image will have a different name (I had remnai
>
>I tried it also with a new installation of Fiji, and reproduced the error.
>
>Also, I made sure that I have the latest bio-formats and loci (though
>the update sites).
>
>Any help you can provide will be most appreciated.
>
>--aryeh
>
>--
>Aryeh Weiss
>Faculty of Engineering
>Bar Ilan University
>Ramat Gan 52900 Israel
>
>Ph:  972-3-5317638
>FAX: 972-3-7384051
>
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