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Pydra: Dataflow Engine

A simple dataflow engine with scalable semantics.

Pydra is a rewrite of the Nipype engine with mapping and joining as first-class operations. It forms the core of the Nipype 2.0 ecosystem.

The goal of pydra is to provide a lightweight Python dataflow engine for DAG construction, manipulation, and distributed execution.

Feature list:

  1. Python 3.11+ using type annotation and attrs

  2. Composable dataflows with simple node semantics. A dataflow can be a node of another dataflow.

  3. splitter and combiner provides many ways of compressing complex loop semantics

  4. Cached execution with support for a global cache across dataflows and users

  5. Distributed execution, presently via ConcurrentFutures, SLURM and SGE, with support for PS/IJ and Dask available via plugins

API Documentation

Learn more about Pydra

Binder

Please note that mybinder times out after an hour.

Installation

Pydra can be installed from PyPI using pip, noting that you currently need to specify the 1.0-alpha version due to a quirk of PyPI version sorting, otherwise you will end up with the old 0.25 version.

pip install -–upgrade pip
pip install pydra>=1.0a

If you want to install plugins for psij or dask you can by installing the relevant plugin packages

pip install pydra-workers-psij
pip install pydra-workers-dask

Task implementations for various toolkits and workflows are available in task plugins, which can be installed similarly

pip install pydra-tasks-mrtrix3
pip install pydra-tasks-fsl

Developer installation

Pydra requires Python 3.11+. To install in developer mode:

git clone git@github.com:nipype/pydra.git
cd pydra
pip install -e ".[dev]"

In order to run pydra’s test locally:

pytest pydra

We use tox to test versions and dependency sets. For example, to test on the minimum and latest dependencies, run:

tox -e py311-min -e py313-latest

It is also useful to install pre-commit:

pip install pre-commit
pre-commit

Metadata

Release files for pydra 1.0a11

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Source distribution for pydra 1.0a11
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Table of built distributions (wheels) for pydra 1.0a11
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Total release size: 289.5 kB

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This release

1.0a11 This release

2 release files

0.25

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0.24

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0.23

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0.1

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