Posted by
ctrueden on
Aug 27, 2010; 4:55pm
URL: http://imagej.273.s1.nabble.com/troubles-opening-lif-flies-with-Image-J-and-Fiji-tp3687147p3687150.html
Hi Lucia,
Image J: In order to open lif files I need to go to plug ins-LOCI-bio
> formats importer. which is a pain to do for every file, ideall i would like
> to open them directly or to drag them to the tool bar and get them open, but
> when I do that it says that the format is not suported. I used to be able to
> do so until I upgraded to the latest version of Image J
>
With the latest daily build of ImageJ (1.44g3), I am able to open LIF files
using File>Open successfully.
I also downloaded the ImageJ 1.43 bundle fresh from the ImageJ web site,
dropped the latest loci_tools.jar trunk build into the plugins folder, and
it also worked from there. So the same thing might solve your problem as
well.
Fiji: I can open the lif files by dragging them directly to the tool bar,
> but the default function is to open them pseudocolor (it is suppose to be
> gray scale) and I need them in gray scale (white and black), and there is no
> option to open them in gray sclae.
You can control the colorization by changing the "Color mode" setting in the
main dialog box—try using "Grayscale." If you choose "Default," the behavior
with LIFs is to use the embedded color tables present in the LIF metadata.
Also the function mege channels to RGB does not work properly.
>
The "merge channels to RGB" option no longer exists. It has been replaced
with the "Color mode" setting. Are you using the latest version of
Bio-Formats?
-Curtis
On Fri, Aug 27, 2010 at 4:08 AM, Laura Lucia Prieto Godino
<
[hidden email]>wrote:
> Dear List,
>
> I am having troubles importing lif files with both Image J and Fiji. The
> problems are:
>
> Image J: In order to open lif files I need to go to plug ins-LOCI-bio
> formats importer. which is a pain to do for every file, ideall i would like
> to open them directly or to drag them to the tool bar and get them open, but
> when I do that it says that the format is not suported. I used to be able to
> do so until I upgraded to the latest version of Image J
>
> Fiji: I can open the lif files by dragging them directly to the tool bar,
> but the default function is to open them pseudocolor (it is suppose to be
> gray scale) and I need them in gray scale (white and black), and there is no
> option to open them in gray sclae. Also the function mege channels to RGB
> does not work properly.
>
> Before someone says it, yes, I have the latest version of both.
>
> Thanks for all you help and support!
>
> Lucia
>
>
> Lucia Prieto Godino
> PhD student.
> Department of Zoology,
> Downing street
> University of Cambridge.
> UK
>
http://www.neuroscience.cam.ac.uk/directory/profile.php?lauralucia>