opening mutiple files

[Naomi Barth]

I am very new to Image J and I was wondering if there is a way to open many
files at once.  I have around 300 files per data set and I need to make them
into a stack and then into a text file that gives an 8-bit value for each
pixel.  I was also wondering what order the values are put in when they are
saved as a test image file.  How can I tell what pixel each value
corresponds to.
Thank you very much
-Naomi Barth

[Albert Cardona]

Naomi,

- There are several plugins to open multiple files. I have some here
http://www.pensament.net/java/other_plugins.html but there are more in the
official ImageJ plugins site http://rsb.info.nih.gov/ij/plugins/ 

- The pixels in an image are stored in 1D array, one row next to the other
starting from the top left corner, each row of length 'image width'. When
saving an image to a text file, pixels are listed as in the array.

--
Albert Cardona
Molecular Cell Developmental Biology
University of California Los Angeles
Tel [phone]
Programming: http://www.pensament.net/java/
Research: http://www.mcdb.ucla.edu/Research/Hartenstein/
Web design: http://www.pixelets.com

[Robert Baer]

If you wish to open multiple files at once from the ImageJ menu, you need to
first activate JFileChooser.  In the ImageJ menu choose EDIT | OPTIONS |
MISC...  and then check the box next to 'open/save using JFleChooser'.  You
will then be able to use SHIFT-click to select a continuous series of files
or the CTRL-click to select discontinuous files.  Your ability to open 300
at once may be dependent on your memory memory and memory settings.

Once loaded, create a stack from the files with IMAGE | STACKS | Convert
Images to Stack.

Rob

____________________________
Robert W. Baer, Ph.D.
Associate Professor
Department of Physiology
A. T. Still University of Health Science
800 W. Jefferson St.
Kirksville, MO 63501-1497 USA


----- Original Message -----
From: "Naomi Barth" <[hidden email]>
To: <[hidden email]>
Sent: Friday, January 06, 2006 12:15 PM
Subject: opening mutiple files


I am very new to Image J and I was wondering if there is a way to open many
files at once.  I have around 300 files per data set and I need to make them
into a stack and then into a text file that gives an 8-bit value for each
pixel.  I was also wondering what order the values are put in when they are
saved as a test image file.  How can I tell what pixel each value
corresponds to.
Thank you very much
-Naomi Barth

[Jim Coleman]

Albert:

I'm curious....in the "File" menu, under "Import", there is an "Image Sequence"
option that will also open multiple files.  Although it doesn't give the option
to pick and choose specific files to open, it will open sets of images.  Is
this an appropriate  method to use for opening multiple files,or have I been
using it incorrectly?  Thanks.  




Quoting Albert Cardona <[hidden email]>:

> Naomi,
>
> - There are several plugins to open multiple files. I have some here
> http://www.pensament.net/java/other_plugins.html but there are more in the
> official ImageJ plugins site http://rsb.info.nih.gov/ij/plugins/ 
>
> - The pixels in an image are stored in 1D array, one row next to the other
> starting from the top left corner, each row of length 'image width'. When
> saving an image to a text file, pixels are listed as in the array.
>
> --
> Albert Cardona
> Molecular Cell Developmental Biology
> University of California Los Angeles
> Tel [phone]
> Programming: http://www.pensament.net/java/
> Research: http://www.mcdb.ucla.edu/Research/Hartenstein/
> Web design: http://www.pixelets.com
>