https://github.com/aramis-lab/pydra-dcm2bids

Pydra tasks for dcm2bids

Science Score: 10.0%

This score indicates how likely this project is to be science-related based on various indicators:

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CITATION.cff file
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codemeta.json file
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.zenodo.json file
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DOI references
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Academic publication links
✓
Committers with academic emails
1 of 4 committers (25.0%) from academic institutions
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Institutional organization owner
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JOSS paper metadata
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Scientific vocabulary similarity
Low similarity (11.3%) to scientific vocabulary

Keywords

bids dicom pydra

Keywords from Contributors

brain-imaging neuroimaging medical-imaging brainweb dataflow-engine workflow-engine labels alzheimer-disease convolutional-neural-network

Last synced: 5 months ago · JSON representation

Repository

Pydra tasks for dcm2bids

Basic Info

Host: GitHub
Owner: aramis-lab
License: apache-2.0
Language: Python
Default Branch: main
Homepage: https://aramis-lab.github.io/pydra-dcm2bids
Size: 48.8 KB

Statistics

Stars: 1
Watchers: 4
Forks: 0
Open Issues: 0
Releases: 3

Archived

Topics

bids dicom pydra

Created about 3 years ago · Last pushed almost 2 years ago

Metadata Files

Readme License

README.md

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

console 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:

console pip install 'pydra-dcm2bids[all]'

Usage

```python from pydra.tasks import dcm2bids

task = dcm2bids.Dcm2Bids( dicomdir="/path/to/dicom/dir", outputdir="/path/to/bids/dir", configfile="/path/to/config/file.json", participantid="sub-01", )

result = task() ```

You may check the following example of a configuration file.

Development

This project is managed with Hatch:

console pipx install hatch

To run the test suite:

console hatch run test:no-cov

To fix linting issues:

console hatch run lint:fix

To check the documentation:

console hatch run docs:serve --open-browser

License

pydra-dcm2bids is distributed under the terms of the Apache License, Version 2.0.

Owner

Name: ARAMIS Lab
Login: aramis-lab
Kind: organization
Location: Paris, France

Website: www.aramislab.fr
Twitter: AramisLabParis
Repositories: 21
Profile: https://github.com/aramis-lab

The Aramis Lab is a joint research team between CNRS, Inria, Inserm and Sorbonne University and belongs to the Paris Brain Institute (ICM).

GitHub Events

Total

Last Year

Committers

Last synced: almost 3 years ago

All Time

Total Commits: 37
Total Committers: 4
Avg Commits per committer: 9.25
Development Distribution Score (DDS): 0.432

Top Committers

Name	Email	Commits
Ghislain Vaillant	g**t@i**g	21
Ghislain Vaillant	g**l@g**m	14
dependabot[bot]	4**]@u**m	1
Ghislain Vaillant	g**l@u**m	1

Committer Domains (Top 20 + Academic)

icm-institute.org: 1

Issues and Pull Requests

Last synced: 7 months ago

All Time

Total issues: 0
Total pull requests: 14
Average time to close issues: N/A
Average time to close pull requests: about 4 hours
Total issue authors: 0
Total pull request authors: 2
Average comments per issue: 0
Average comments per pull request: 0.0
Merged pull requests: 14
Bot issues: 0
Bot pull requests: 11

Past Year

Issues: 0
Pull requests: 0
Average time to close issues: N/A
Average time to close pull requests: N/A
Issue authors: 0
Pull request authors: 0
Average comments per issue: 0
Average comments per pull request: 0
Merged pull requests: 0
Bot issues: 0
Bot pull requests: 0

View more stats

Top Authors

Issue Authors

Pull Request Authors

dependabot[bot] (12)
ghisvail (2)

Top Labels

Issue Labels

Pull Request Labels

dependencies (12)

Packages

Total packages: 1
Total downloads:
- pypi 21 last-month

Total dependent packages: 0
Total dependent repositories: 0
Total versions: 4
Total maintainers: 1

pypi.org: pydra-dcm2bids

Pydra tasks for dcm2bids

Documentation: https://aramis-lab.github.io/pydra-dcm2bids
License: Apache Software License
Latest release: 0.0.4
published almost 3 years ago

Versions: 4
Dependent Packages: 0
Dependent Repositories: 0
Downloads: 21 Last month

Rankings

Dependent packages count: 6.6%

Downloads: 14.6%

Average: 21.5%

Forks count: 23.2%

Dependent repos count: 30.6%

Stargazers count: 32.3%

Maintainers (1)

ghisvail

Last synced: 6 months ago

Dependencies

.github/workflows/docs.yaml actions

actions/checkout v4 composite
actions/configure-pages v4 composite
actions/deploy-pages v3 composite
actions/download-artifact v3 composite
actions/setup-python v5 composite
actions/upload-artifact v3 composite
actions/upload-pages-artifact v2 composite

.github/workflows/publish.yaml actions

actions/checkout v4 composite
actions/setup-python v5 composite
pypa/gh-action-pypi-publish release/v1 composite

.github/workflows/test.yaml actions

actions/checkout v4 composite
actions/setup-python v5 composite

pyproject.toml pypi

attrs >=22.1
pydra >=0.21