Nd stacks builder

[Klaas Medendorp]

Hi!

I have a problem with an .nd file, using the "Nd Stacks Builder" plugin. During the last round of pictures of my lapse experiment the computer harddisk was full and therefore it could finish properly.
I now have 199 photos (instead of 200) and the .nd file, but cannot open it in ImageJ.

This is what I get:

java.lang.NullPointerException
 at nd_stacks_builder.readLine(nd_stacks_builder.java:331)
 at nd_stacks_builder.readND(nd_stacks_builder.java:201)
 at nd_stacks_builder.run(nd_stacks_builder.java:101)
 at ij.IJ.runUserPlugIn(IJ.java:265)
 at ij.ImageJ.runUserPlugIn(ImageJ.java:171)
 at ij.plugin.PlugInExecuter.run(Compiler.java:189)
 at java.lang.Thread.run(Unknown Source)

Does anybody know what I can do to open the .nd file?

Thanks a lot,

Klaas Medendorp

[Fabrice Cordelières]

Hi Klaas,

The nd file is a simple text file which contains all informations about the
number/names of wavelengthes, number of z steps and number/names of stage
positions that were recording in one experiment. You can have a look at it
using the notepad.

If the nd file is corrupted, you can either edit it with the notepad or
copy/paste a nd file from a previous experiment in the same folder as your
images (assuming you've already this is the same type of experiment as
previously).

The other possibility that I see to explain this problem is that the format
of the nd file has changed since I wrote the plugin (it was working fine
with metamorph 6.3.4 but I haven't tested it yet with its latest release).
In that case, please send me a copy of your nd file.

Best,

Fabrice


 
Fabrice Cordelières, PhD
 
Institut Curie - Section de recherche/ CNRS UMR 146
Plateforme d'Imagerie Cellulaire et Tissulaire
Bâtiment 112 - Centre universitaire
91405 Orsay Cedex
FRANCE
 
Tél. : [phone]
Fax. : [phone]

-----Message d'origine-----
De : ImageJ Interest Group [mailto:[hidden email]] De la part de Klaas
Medendorp
Envoyé : jeudi 2 mars 2006 13:20
À : [hidden email]
Objet : Nd stacks builder

Hi!

I have a problem with an .nd file, using the "Nd Stacks Builder" plugin.
During the last round of pictures of my lapse experiment the computer
harddisk was full and therefore it could finish properly.
I now have 199 photos (instead of 200) and the .nd file, but cannot open it
in ImageJ.

This is what I get:

java.lang.NullPointerException
 at nd_stacks_builder.readLine(nd_stacks_builder.java:331)
 at nd_stacks_builder.readND(nd_stacks_builder.java:201)
 at nd_stacks_builder.run(nd_stacks_builder.java:101)
 at ij.IJ.runUserPlugIn(IJ.java:265)
 at ij.ImageJ.runUserPlugIn(ImageJ.java:171)
 at ij.plugin.PlugInExecuter.run(Compiler.java:189)
 at java.lang.Thread.run(Unknown Source)

Does anybody know what I can do to open the .nd file?

Thanks a lot,

Klaas Medendorp