pombredanne / pycap

REDCap in Python

Intro

PyCap is a python module exposing the REDCap API through some helpful abstractions. Information about the REDCap project can be found at http://project-redcap.org/.

Available under the MIT license.

Documentation

Canonical documentation can be found on ReadTheDocs.

Features

Currently, these API calls are available:

• Export Records
• Export Metadata
• Import Records
• Export File
• Import File
• Delete File
• Export Users
• Export Form Event Mappings

Events and Arms are automatically exported for longitudinal projects (see below).

Requirements

• requests (>= 1.0.0)

  $ pip install requests

Usage

>>> import redcap
# Init the project with the api url and your specific api key
>>> project = redcap.Project(api_url, api_key)

# Export all data
>>> all_data = project.export_records()

# import data
>>> data = [{'subjid': i, 'age':a} for i, a in zip(range(1,6), range(7, 13))]
>>> num_processed = project.import_records(data)

# For longitudinal projects, project already contains events, arm numbers
# and arm names
>>> print project.events
...
>>> print project.arm_nums
...
>>> print project.arm_names
...

# Import files
>>> fname = 'your_file_to_upload.txt'
>>> with open(fname, 'r') as fobj:
...     project.import_file('1', 'file_field', fname, fobj)

# Export files
>>> file_contents, headers = project.export_file('1', 'file_field')
>>> with open('other_file.txt', 'w') as f:
...     f.write(file_contents)

# Delete files
>>> try:
...     project.delete_file('1', 'file_field')
... except redcap.RedcapError:
...     # This throws if an error occured on the server
... except ValueError:
...     # This throws if you made a bad request, e.g. tried to delete a field
...     # that isn't a file

# Export form event mappings
>>> fem = project.export_fem()
...

Installation

$ git clone git://github.com/sburns/PyCap.git PyCap
$ cd PyCap
$ python setup.py install

OR

$ pip install PyCap

Citing

If you use PyCap in your research, please consider citing the software:

Burns, S. S., Browne, A., Davis, G. N., Rimrodt, S. L., & Cutting, L. E. PyCap (Version 1.0) [Computer Software]. Nashville, TN: Vanderbilt University and Philadelphia, PA: Childrens Hospital of Philadelphia. Available from https://github.com/sburns/PyCap. doi:10.5281/zenodo.9917