dcmstack

library0.9.0pypypi✓ verified 85d ago

dcmstack is a Python library (currently v0.9.0, last released stable) that stacks DICOM images into 3D volumes and converts them to NIfTI format. It has a very slow release cadence (last release in 2015) and supports Python >=2.7. The project is effectively in maintenance mode.

data ai-ml

pip install dcmstack

github ↗package ↗

INSTALL

IMPORT

SIG · DCMSTACK

dcmstack

datapythonv0.9.0

harness data pending

Install & Compatibility

Where this runs

No compatibility data collected yet for this library.

Code

Verified usage

Verified import paths — ran on the pinned version, not inferred.

dcmstack

✓ import dcmstack

The library is imported directly; there are no submodules.

Basic usage: add DICOM files to a DicomStack and convert to NIfTI.

import dcmstack from glob import glob # Stack a series of DICOM files into a NIfTI file file_list = sorted(glob('path/to/dicom/*.dcm')) stack = dcmstack.DicomStack() for f in file_list: stack.add_file(f) nifti_img = stack.to_nifti() nib.save(nifti_img, 'output.nii.gz')

Debug

Known issues

deprecateddcmstack is no longer actively maintained. The last release was in 2015, and it only supports Python 2.7 officially. Consider using dcm2niix or Dicom2Nifti for modern projects.

fix

Migrate to dcm2niix (command-line) or the Python library dicom2nifti.

affects: >=0.8.0

gotchaThe library does not handle gzipped NIfTI output directly; you must use nibabel to save as .nii.gz.

fix

After calling stack.to_nifti(), save the resulting nibabel image using nib.save(img, 'output.nii.gz').

affects: all

Errors

Common errors & fixes

ModuleNotFoundError: No module named 'dcmstack'

dcmstack is not installed or installed in the wrong Python environment.

fix

Run: pip install dcmstack

AttributeError: 'DicomStack' object has no attribute 'add_file'

Using an outdated version (<0.8.0) where the API was different.

fix

Upgrade to version 0.9.0: pip install dcmstack==0.9.0

Upgrade

Version history

0.9.0latest on PyPI · released Sep 24, 2022

Audit

Dependencies

No dependency data recorded yet.

Agent activity

11 hits · last 30 days

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OpenAI (training)

Resources

githubhttps://github.com/moloney/dcmstack ↗

packagehttps://pypi.org/project/dcmstack/ ↗