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evalutils helps challenge administrators easily create evaluation containers for grand-challenge.org.

Project description

evalutils

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evalutils helps challenge administrators easily create evaluation containers for grand-challenge.org.

Features

  • Generation your challenge evaluation project boilerplate using Cookiecutter
  • Scripts to build, test and export your generated docker container for grand-challenge.org
  • Loading of CSV, ITK and Pillow compatible prediction files
  • Validation of submitted predictions
  • Interface to SciKit-Learn metrics and Pandas aggregations
  • Bounding box annotations with Jaccard Index calculations

Getting Started

evalutils requires Python 3.6, and can be installed from pip. Please see the Getting Started documentation for more details.

Credits

This package was created with Cookiecutter and the audreyr/cookiecutter-pypackage project template.

History

0.2.3 (2020-03-18)

  • Added support for more algorithm templates

0.2.2 (2020-02-12)

  • Updated default container labels for algorithms

0.2.1 (2020-02-12)

  • Added support for mha input for algorithms

0.2.0 (2020-02-11)

  • Added experimental support for templating algorithms * Note that the init cli command has changed
  • Added support for Python 3.8

0.1.17 (2019-05-23)

  • Fixes build and test scripts on windows
  • Fixes BallTree execution with scipy 0.21.1

0.1.16 (2019-02-13)

  • Fixes bug in export.sh due to extra }

0.1.15 (2019-02-01)

  • Pins Pandas version due to a bug with dataframe conversion to dictionaries in Pandas 0.24.0
  • Updates the export.sh template to gzip the docker container after creation
  • Added Python 3.7 support

0.1.14 (2018-10-16)

  • Adds evalutils.stats for calculating common metrics in medical imaging
  • Adds experimental Windows support - we do not have CI on all of the windows tests so please report any errors
  • Adds evalutils.roc for calculating bootstrapped roc curves

0.1.13 (2018-09-12)

  • Adds Segmentation and Detection challenges to the project generator
  • File loaders now return lists of dictionaries rather than dictionaries
  • Renamed intersection_over_union to jaccard_index
  • Improved image memory management. Added io.ImageLoader and separate load_image and hash_image functions.
  • score_case is no longer a static method

0.1.12 (2018-05-16)

  • Fixed a bug where the number of false_negatives could be less than 0.

0.1.11 (2018-05-15)

  • Breaking change: Renamed Evaluation to ClassificationEvaluation
  • Adds support for DetectionEvaluation

0.1.10 (2018-04-19)

  • Simplifies the example template

0.1.9 (2018-04-19)

  • Breaking change: Renamed bb2 to other in BoundingBox()
  • ground_truth_path is no longer a required argument

0.1.8 (2018-04-18)

  • Fixes template folder in distribution

0.1.7 (2018-04-18)

  • Adds cookiecutter templating for generating new projects
  • Adds equality check for BoundingBox

0.1.6 (2018-03-30)

  • Improves pandas csv handling

0.1.5 (2018-03-30)

  • Corrects loading of some CSV files
  • Adds logging and more tests
  • Adds referencing to _ground_truth and _prediction in joined pandas tables

0.1.3 (2018-03-29)

  • Adds basic implementation with
    • Full Evaluation workflow
    • CSV, SimpleITK, and ImageIO loaders
    • BoundingBox annotations with intersection, union and intersection over union metrics
    • Unique File Indices, Unique Image, Expected Column Names and Number of cases validators

0.1.0 (2018-03-22)

  • First release on PyPI.

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