DBP:Harvard:Software:Bugs:Solved:DICOM 3-21-05
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DTI scans acquired in DICOM are not reconstructed properly and cannot be viewed in Slicer
4-13-05 Test of new script
- The new script after Stephan's code modification is now working properly at least for caseD00779 and caseD00735, which had showed flipped images after reconstruction before.
1. run /projects/schiz/software/scripts/lsdi2dwi-all.pl <dir> <case#>
2. open FA images (35 slices) in slicer24 with setting of 0.8593 x 0.8593 x 5, orientation : coronal PA, scalar type : short, Little Endian : yes (*)
- The FA values shown on the screen in accordance to the pointing of mouse arrow seems to be relevant, e.g. corpus callosum area - 700-900, caudate nuc. 200-250, CSF (3rd ventricle) 0-50.
- Please note that the Little Endian should be yes for adequate image loading.
3-28-05 Update from Sylvain
- Raul and Sylvain have looked at it and it seems that this is a problem only Stephan Maier (or somebody in his group) can solve.
3-24-05 UPDATE: PROBLEM
- Three cases were tested for reconstruction of dicom type DTI image using lsdi2dwi.pl & lsdi2dwi-all.pl. This worked well for caseD00764, but for caseD00735 and caseD00779, the resulting images were flipped.
REMINDER***: D files created by lsdi2dwi.pl, and DWI by lsdi2dwi-all.pl, are identical!
- It should be possible to load DWI files into Slicer and "Convert," just as one would for D files
3-23-05: Solution
- Sylvain has provided a solution to this problem, which involves the following command:
- /projects/schiz/software/scripts/lsdi2dwi-all.pl <dir> <case#>
- This script will reconstruct all x.IMA files into ADC, FAI, DWI, etc. with the case# prefix
- Note: DWI files are the same as "D" files
- A couple reminders:
- If you wish to reconstruct images from the current working directory, be sure to put a "." for <dir>
- Don't forget to include the case# in the command line