Chad Matsalla wrote:
> Greetings!
>
> I'm trying to understand the genepix tiff spotfinding problem I described
> earlier.
>
> I want to interact with the spotfinder plugin with my own program but I
> can't create files.
>
> I have this:
> images/
> |-- 13298608_532-uncompressed.tif
> `-- 13298608_635-uncompressed.tif
>
> I want to do something like this:
>
> public class TestImageProblem {
> SpotImagesData data;
> FileData red;
> FileData green;
>
> TestImageProblem() {
> data = new SpotImagesData();
> data.setGamma(new Float(1.8));
> data.setXOffset(2000);
> data.setYOffset(2400);
> data.setXScale(10);
> data.setYScale(10);
> data.setSpotsize(24);
> java.io.File redfile = new
> java.io.File("images/13298608_635-uncompressed.tif");
> java.io.File greenfile = new
> java.io.File("images/13298608_532-uncompressed.tif");
>
> ****************
> Pass the data to the spot image creator ( SpotImages.createSpotImages )
> ****************
>
> }
>
> Can you tell me how to create the appropriate file objects when the files
> are here and not connected to the base datbaase?
This is not possible. The plugin expects net.sf.basedb.core.File objects
not java.io.File object. And you can't work with XxxxData (FileData,
SpotImagesData) objects. These are only used internally in BASE. You
must use the corresponding objects from the net.sf.basedb.core package
(File, SpotImages, etc.)
/Nicklas
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