[Insight-users] GDCMSeriesFileNames and 3d in VTK afrer segmentation

[mariusz_smch at poczta.fm]

Thank's for tip.

I know I could do it by changing every filname string provide to writer, but I would have to do it "by hand" thanks to:
'GDCMSeriesFileNames'
when I give to this class dirname where DICOM series are and pick any series, and provide to 'GDCMSeriesFileNames' it will give me path to files and I can this provide to ImageSeriesReader:
reader->SetFileNames();
And, in big short, I have all whot I neer read. Some series I have hane 318 -files so It woul take a while to change it,it is not whot I would like to do. I would rather do it by some ITK class whoes take care that kind of thinks. I thoud there is some class in ITK that do it automaticly.
Maybe I do something wrong in my code. I thoud, after reading, to use once again 'GDCMSeriesFileNames' to provide Output filenames to writer but don't know how conect bouth 'GDCMSeriesFileNames' form reader part and this form writer part.
In GDCMSeriesFileNames I can provide 'SetInputDir' and 'SetOutputDir' separetly but to choos write series I have to Provite: 'SetDirectory' whos cover Input and Output Dir, so when I use 'SetDirectory' I don't have separet path filenames to reader and writer.
Can anyone know how to do this? 
And I have question: after segmentation when I convert form ITK to VTK -to display 3D image, whot kind od data I should use in VTK part of pipeline (I don't know jet: mesh or some others...).

Regards
Mariusz Śmiech




I don't know anything yet about ITK and VTK stuff but your question, I am sure, has nothing to do with these packages.

After reading the files, you have the files names stored somewhere. Of course if you use the names as they are then the original files will be overwritten. Obviously your file names are stored as strings (array of characters otherwise) so manupilate the strings to change path and filenames as u wish.

Let me show u simple example:
Supoose you read from a file C:\dir1\dir2\dir3\fileName.dic

Then you may want to write it toC:\dir1\dir2\dir4\newFileName.dic

So here is how you could do it:

***First make sure the name "C:\dir1\dir2\dir3\fileName.dic" is stored in a string, lets call it oldFile. Then,

newFile = string(oldFile, 0, oldFile.rfind('\', oldFile.length())   1)   string("newFileName.dic");

will do your job.

For more information, I suggest you to read C   strings.

-- 
Regards,
Yonas
http://isiosf.isi.it/~yonas 



Hi all

I've read DICOM image series (I have several in one directory) with:
ImageSeriesReader
I get filename from:
GDCMSeriesFileNames
After I choose series I try to write this as DICOM with:
ImageSeriesWriter
and don't know how show wtiter write directory, bycouse if I take filename
form: GDCMSeriesFileNames z get the same dir path and file name so he write
in the same dir whith was used to read DICOM data.

Whow I want to do is:
1. read DICOM File
2. put them to 3D image
3. Segment image
4. could wtire segmented image as 2D DICOM image
5. could wtire segmented image as 3D image
6. anfer segmentatnion thensfer image form ITK to VTK
7. afres segmentation display 3D image (I will use VTK-an soon  as I reath
this point)
8. have posibylity to move camera in 3D image

Can anyone give me some help, basic information about the thin I wrote at
the begining and point 6,7,8 -any clue will be good.

Have a Nice day

Mariusz Śmiech
Poland 



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