pydra-dcm2bids
Pydra tasks for dcm2bids.
Pydra is a dataflow engine which provides a set of lightweight abstractions for DAG construction, manipulation, and distributed execution.
dcm2bids is a tool which facilitates
conversion from DICOM datasets to NIfTI files
organized as BIDS.
Installation
pip install pydra-dcm2bids
A separate installation of dcm2bids and dcm2niix is required to use this package.
Please review the following instructions.
dcm2bids can be installed alongside pydra-dcm2bids with:
pip install 'pydra-dcm2bids[all]'
Usage
from pydra.tasks import dcm2bids
task = dcm2bids.Dcm2Bids(
dicom_dir="/path/to/dicom/dir",
output_dir="/path/to/bids/dir",
config_file="/path/to/config/file.json",
participant_id="sub-01",
)
result = task()
You may check the following example of a configuration file.
Development
This project is managed with Hatch:
pipx install hatch
To run the test suite:
hatch run test:no-cov
To fix linting issues:
hatch run lint:fix
To check the documentation:
hatch run docs:serve --open-browser
License
pydra-dcm2bids is distributed under the terms of the Apache License, Version 2.0.
1 maintainer
Metadata
1 maintainer
Release files for pydra-dcm2bids 0.0.4
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| pydra_dcm2bids-0.0.4.tar.gz | 9.2 kB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| pydra_dcm2bids-0.0.4-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 16.3 kB
Release files / pydra_dcm2bids-0.0.4.tar.gz
| Download URL | pydra_dcm2bids-0.0.4.tar.gz |
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| Size | 9.2 kB |
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| Size | 7.1 kB |
| Tags | Python 3 |
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