Hi there,
I have been working on MR data from siemens. Some of the subjects have their data in .IMA format. I realized it is also a form of DICOM files. I normally use ( for files in .dcm format) dcm2niix and dcm_sort to convert dicom to nifti and sort them.
I was able to use dcm2niix *IMA for the conversion of IMA to nifti but how do I sort them? the command dcm_sort is not working. Any suggestions on how I can sort the IMA files?
Do you know why dcm_sort is not working? Were there any useful error messages?
Anyway, you may not need to sort the data. dcm2niix will scan all the IMA files in the folder and make a single nifti file for each series (assuming all the images in the series have the same orientation). All you need to do is
>dcm2niix filename_of_file1.IMA
Actually the name of any of the IMA files will work, but you don't need a wildcard, just use the name of one of the files.
If doing this results in more than one nifti file for each data set, then a single data set is being assigned more than one series number. On the scanner, there is a pull down menu on the dynamic tab of the Contrast card, that will let you select how series numbers are assigned. My guess would be, that any strange behavior in sorting of IMA files and generating nifti files would be due to a change in this Multiple Series setting.
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