Hello!
I have a question about running Dimon. I have two scans from a GE scanner, the first was collected sequentially, the second collected interleaved. No matter what I try with Dimon, it instructs to3d to run with "alt+z" tpattern. In the directory with the DICOM files, I've ran the following:
Dimon -infile_pattern "*.dcm" \
-dicom_org \
-gert_to3d_prefix testOutput \
-gert_outdir /path/to/DICOM/ \
-gert_filename testOutput.dimon \
-gert_create_dataset -gert_write_as_nifti
I've tried using both:
-sort_by_acq_time
and
-sp FROM_IMAGE
It chokes using the "-sp" call. Sorting by acq time has zero effect. I tried digging into the source code on github and it looks like it's using "0008,0032" (ID Acquisition Time) for the time, but that field is exactly the same in every DICOM in the series. Further, field "0021,105E" (RTIA_timer) would be a great second-check on the slice time but it often isn't set, or is set to 0, withing a run (a GE problem?).
Given that I have sequential and interleaved data, I would have thought Dimon would prescribe seq+z and alt+z respectively, but it looks to treat every file as interleaved. Is there a way (or a flag) to force Dimon to respect the slice timing?
Thank you for taking the time to read this.
-Joel
