Documentation/4.5/FAQ/DICOM

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For the latest Slicer documentation, visit the 4.10 page.

DICOM

When I click on "Load selection to slicer" I get an error message "Could not load ... as a scalar volume"

There's a chance you could be running out of memory when loading the data. Make sure you use a 64-bit version of Slicer. The 32-bit Windows version has constrained memory and often does not work with clinical CT studies.

Another potential cause of loading failure is corruption of the DICOM files by incorrect anonymization. Patient name, patient ID, and series instance UID fields should not be empty or missing (the anonymizer should replace them by other valid strings). Try to load the original, non-anonymized sequence and/or change your anonymization procedure.

If none of the above helps then check the Slicer error logs and report the error on the Slicer mailing list. If you share the data (e.g., upload it to Dropbox and add the link to the error report) then Slicer developers can reproduce and fix the problem faster.

I try to import a directory of DICOM files, but nothing shows up in the browser

DICOM is a complex way to represent data, and often scanners and other software will generate 'non-standard' files that claim to be DICOM but really aren't compliant with the specification. In addition, the specification itself has many variations and special formats that Slicer is not able to understand. Slicer is used most often with CT and MR DICOM objects, so these will typically work.

If you have trouble importing DICOM data here are some steps to try:

  • Make sure you are following the DICOM module documentation.
  • Review the Error Log for information.
  • Try loading the data by selecting one of the files in the Add Data Dialog. Note: be sure to turn on Show Options and then turn off the Single File option in order to load the selected series as a volume
  • If you are still unable to load the data, you may need to find a utility that converts the data into something Slicer can read. Sometimes tools like FreeSurfer, FSL or MRIcron can understand special formats that Slicer does not handle natively. These systems typically export NIfTI files that slicer can read.
  • If you are sure that the DICOM files do not contain patient confidential information, you may post a sample dataset on a web site and ask for help from Slicer's user mailing list. Please be careful not to accidentally reveal private health information. If you want to remove identifiers from the DICOM files you may want to look at the RSNA Clinical Trial Processor software.