Posted by
Romain Guiet on
Sep 22, 2015; 7:09am
URL: http://imagej.273.s1.nabble.com/problem-using-BIOP-vsi-reader-tp5014387p5014395.html
Hi Aryeh,
thank you for your report.
Can you check a couple of thing.
1. Do you have the lastest LOCI Bio-formats installed? or the bio-formats update site activated ?
2. If you try, can you open your image (or a downscale version of it) using Bio-formats importer ?
3. Can you send us the informations you get from the windows Bio-formats Plugins Configuration -> Log
Can you provide us with a link to download your file so we can check that everything is fine with it ?
Cheers,
Romain
---------------------------------------------------------------
Dr. Romain Guiet
Bioimaging and Optics Platform (PT-BIOP)
Ecole Polytechnique Fédérale de Lausanne (EPFL)
Faculty of Life Sciences
Station 19, AI 0140
CH-1015 Lausanne
Phone: [+4121 69] 39629
http://biop.epfl.ch/---------------------------------------------------------------
________________________________________
De : ImageJ Interest Group [
[hidden email]] de la part de Aryeh Weiss [
[hidden email]]
Envoyé : lundi 21 septembre 2015 15:40
À :
[hidden email]
Objet : problem using BIOP vsi reader
I am trying to help a colleague open his VSI files using ImageJ.
The file he sent me has a two parts:
Process_2297.vsi, which si 651kB in size.
_Process_2297_/stack1/frame_t_0_ets , which a 19.93GB in size.
When I run BIOP VSI reader, it comes up fine. I press "Select VSI" and
get the following two windows:
1. VSI Reader
This window contains data the macro needs. Please don't close it
Series ID :
/Users/amw1/Desktop/projects/itamarSimonCombing/shwarts/Process_2297.vsi
Image Folder : /Users/amw1/Desktop/projects/itamarSimonCombing/shwarts/
totSeries : 1
Has Label : No
Has Overview : No
Has Macro Image : No
Has Mask : No
Number Of Series : 0
Mode : Basic
2. Log
Relative Path, adding Path to Fiji
Full path to BIOPLib
:/Applications/local/fiji/Fiji.app/plugins/BIOP/BIOPLib.ijm
Empty Library. Adding BIOPLib Library.
I do not get the "Pick series" window which I found in the tutorial ppt
presentation, in
http://biop.epfl.ch/downloads/VSIreader_tutov2.pdfI have not been able to figure out how to display an image oy part of an
image.
I assume that I am missing something obvious, and any help in finding it
will be much 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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