Master:
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.. image:: https://readthedocs.org/projects/tmtk/badge/?version=latest :target: http://tmtk.readthedocs.io/en/latest/?badge=latest :alt: Documentation Status
Develop:
.. image:: https://travis-ci.org/thehyve/tmtk.svg?branch=develop :target: https://travis-ci.org/thehyve/tmtk
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Anaconda Cloud latest package:
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A toolkit for ETL curation for the tranSMART data warehouse. The
TranSMART curation toolkit (tmtk
) can be used to edit and validate
studies prior to loading them with transmart-batch
_.
For general documentation visit readthedocs
_.
Installing via Anaconda Cloud or Pip package managers ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
Anaconda:
.. code:: sh
conda install -c conda-forge tmtk
Pip:
.. code:: sh
pip install tmtk
Installing manually ^^^^^^^^^^^^^^^^^^^
Initialize a virtualenv
.. code:: bash
python3 -m venv env
source env/bin/activate
Installation from source
To install tmtk and all dependencies into your Python environment, and enable the Arborist Jupyter notebook extension, run:
.. code:: sh
pip install -r requirements.txt
python setup.py install
or if you want to run the tool from code in development mode:
.. code:: sh
pip install -r requirements.txt
python setup.py develop
jupyter-nbextension install --py tmtk.arborist
jupyter-serverextension enable tmtk.arborist
Requirements ^^^^^^^^^^^^
The dependencies are in requirements.txt
,
optional dependencies are in requirements-dev.txt
.
LGPL-3.0
.. _transmart-batch: https://github.com/thehyve/transmart-batch/ .. _virtualenvwrapper: https://virtualenvwrapper.readthedocs.io .. _readthedocs: https://tmtk.readthedocs.io/en/latest/ .. _examples: examples