Skip to main content
Version: Research-v26.2

Export Volume tool

The MySegmenter Software offers an Export Volume tool to write a scalar volume from the scene to disk as a standard DICOM series, as NRRD (.nrrd), or as NIfTI (.nii / .nii.gz). When DICOM is selected, you can review and edit the Patient, Study, and Series metadata before export. The source volume is never modified — export produces a new set of files in a folder you choose.

The Export Volume button is located in the DICOM Wizard table.

Steps:

  1. Select a volume from the dropdown, which lists all scalar volumes in the scene. The volume currently active in Segment Editor is pre-selected. Changing the selection refreshes the Series Info and Edit Tags panels.
  2. Choose an Export Type from the dropdown DICOM (.dcm), NRRD (.nrrd), NIfTI (.nii.gz), or NIfTI (.nii). The rest of the window changes to match the format selected.
  3. Review Series Info (read-only, left panel): Name, Modality, Dimensions, Spacing (mm), and Slice count — informational only.
  4. Edit DICOM tags (scrollable, right panel), pre-filled from the volume's subject-hierarchy metadata, with defaults applied where source values are missing (e.g., Patient Name → ANONYMOUS, Study ID → SLICER10001, Modality → CT, Series # → 301, Manufacturer/Model → MySegmenter, dates/times → current date/time):
  5. Patient: Name, ID, Gender, BirthDate, Comments
  6. Study: Description, Date, Time, Study ID
  7. Series: Description, Modality, Series #, Series Date, Series Time, Manufacturer, Model, Content Date, Content Time
  8. Note: UID fields (StudyInstanceUID, SeriesInstanceUID, FrameOfReferenceUID) are not shown — new valid UIDs are generated automatically on export.
  9. NRRD and NIfTI exports: these formats store the image only, with no patient, study, or series fields. The Edit Tags panel is greyed out and an on-screen note explains why, and the exported file is named after the volume.
  10. Choose an output directory using the folder-icon button next to the read-only path field. Defaults to MySegmenter's default directory.
  11. Click Export to generate the DICOM series.

Notes:

  1. Files are written inside the chosen directory in a subfolder named <PatientName>- <yyyyMMdd_hhmmss>, so repeated exports never overwrite each other. Invalid filename characters in the patient name are sanitized.

  2. The original source volume is left unchanged in the scene.

  3. On success, the progress dialog shows completion, and the output folder and elapsed time are logged — no additional success popup appears.

  4. On failure, the progress dialog closes, the error is logged, and a critical error message is displayed.

  5. If a file of the same name already exists in the selected output directory, you are asked whether to Overwrite, Keep both, or Cancel. Keep both is the default, so an existing file is not overwritten unintentionally.

  6. In the Export Volume dialog, NRRD (.nrrd) and NIfTI (.nii / .nii.gz) write the grayscale image volume. Segmentations are exported separately, from the Export Segments button in the Segments table