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Recent Releases of Delira

Delira - Release v0.6.0

This is a major release since it changes the license to a dual licensing strategy. This may cause some troubles if you want to use the latest version, so make sure to check the README and the LICENSE.

Scientific Software - Peer-reviewed - Python
Published by justusschock about 6 years ago

Delira - Release 0.5.0

Bugfixes

  • removed many mutable default arguments [Commit]
  • Correctly unload TF in Tests [Commit]
  • Split TF-Tests in Graph and Eager Backend [Commit]
  • Backend-Checks for Tests (avoid duplicate testing) [Commit]
  • Move to new APEX API [Commit]
  • Fix Graph-Based Logging [Commit]
  • Fix Utils Imports [Commit]
  • Move to new Slack API [Commit]
  • Fix Travis CI/CD [Commit]
  • Fix Config overwrites [Commit]
  • Minor type fixes inside the trainer [Commit]](e7294fd5580c10e2d2acc3f92145d1e814e2566d)
  • Fix Typecheck for Transforms [Commit]
  • Config Traversal [Commit]
  • Fix logging frequency and timeout [Commit]
  • Fix Logging Steps [Commit]

Breaking Changes

  • Logging is now done outside the closure
  • Metrics are now based on numpy and are calculated the same way for train and val
  • Remove trixi dependency [Commit]
  • Remove deprecated codeparts (TorchvisionClassificationDataset , train_test_split , Nii3DLazyDataset , Nii3DCacheDataset , [delira.utils.imageops.py](http://delira.utils.imageops.py) , DefaultOptimWrapperTorch , DebugMode Context Manager and the following requirements: scikit-image, pillow, SimpleITK, psutil [Commit]

New Features

  • Slack Notificator [Commit]
  • Function to seed all backends [Commit]
  • Add Callbacks after and before epoch, after and before training and after and before every step (regardless of train and val) [Commit]
  • New Custom Data Pipeline (completely replaces the batchgenerators pipeline) for more customization and better integration of our sampling [Commit]
  • Register Logger in Callbacks [Commit]
  • Onecycle Scheduler Callback [Commit]
  • Allow creation of config from system args [Commit]

Scientific Software - Peer-reviewed - Python
Published by justusschock over 6 years ago

Delira - Bugfix Release v0.4.1

Bugfix Release v0.4.1

Bugfixes

  • Several improvements to reduce memory usage (and fixed an actual memory leak)
  • Fix the Search for previous trainings [commit]
  • Convert Metric Values to Numpy [commit]
  • Epochs correctly saved in checkpoints [commit]
  • Refactoring to clean up global namespace [commit]

Improvements

  • Add numba jitting for transforms [commit]
  • Bump TensorFlow to 1.14 [commit]
  • Versioning via versioneer for more detailed versions [commit]

Scientific Software - Peer-reviewed - Python
Published by justusschock over 6 years ago

Delira - Release v0.4.0

Release v0.4.0

New Features

  • Slack: We now have a community chat on slack [commit]
  • Paper: We wrote and submitted a Paper to JOSS [commit]
  • Dataset Integration Guide: New tutorial to switch from old dataset API to new dataset API [commit]
  • Predictor: Introduce new Predictor class to predict from network without having to initialize Trainer with dummy values [commit]
  • PEP-8: Complete Codebase is now PEP-8 compatible and CI/CD now checks for it [commit]
  • Debug Mode: New debug mode disables all multiprocessing (currently multiprocessing is only used during data loading); Might slow down the program but increases debug capabilities [commit]

Breaking Changes

  • Return dicts: Models must now return dicts during prediction and training [commit]
  • Kfold: The old kfold- function has now merged with the new kfold, stratified_kfold and stratified_kfold_predict to a new kfold function supporting all these behaviors. [commit]
  • Rename tf Backend: The tf backend has been renamed to tensorflow during installation. The new command to install delira with TensorFlow backend is now: pip install delira[tensorflow] [commit]

Non-Breaking Changes

  • Unify Trainer: Merging Code from Backend Trainers (TfNetworkTrainer and PyTorchNetworkTrainer) into BaseNetworkTrainer; Will increase maintainability and ease of adding new backends [commit]
  • Unify Experiment: Merging Code from Backend Experiments to BaseExperiment [commit]
  • Sampler StopIteration: Refactor samplers to use a common function to check if StopIteration must be raise (where possible) [commit]

Bugfixes

  • TF Resnet18: ResNet18 in TF now matches the official paper [commit]
  • Parameters: Correct Permutations in Parameters class [commit]
  • Infinite Recursion: Infinite recursion in LookUpConfig due to wrong typechecks is now fixed [commit]
  • DataLoading num_batches: The number of batches is now calculated without any influence of multiprocessing [commit]
  • DataLoading: Instabilities due to inter-process communication [commit]

Scientific Software - Peer-reviewed - Python
Published by justusschock almost 7 years ago

Delira - Release v0.3.2

Release v0.3.2

Added

  • WeightedPrevalenceSampler (433cccb99fdfdf51e319faab30a2d851644d93bc)
  • _DatasetIterator allowing iteration over a dataset with a simple loop without having to iterate over indices explicitly (70d62327de55447b6753c751d980ba66bbee153f)
  • Support for TF1.13 (5e2817297e58fb165a84668903e7a45ec2bf3999)
  • Support for Python 3.5 (5db1a1776c97e6ec8483a6a640e9bc95fd4980a2)

Breaking Changes

  • New Dataset API (#88 )
  • Changed test framework from pytest to unittest (a70980944f361b6d7c290b6be077c844db79782f)

Bugfixes

  • Random sampler can now be seeded via numpy for completely determinitic behavior (a7c10ee5df6fe8714755aba5be1ea367413f608a)

Scientific Software - Peer-reviewed - Python
Published by justusschock almost 7 years ago

Delira - Release v0.3.1

Bugfix-Release 0.3.1

Bugfixes:

  • loading behavior with weights_only=True for torch backend (fff41cf775a10677c5c0c76e6c8d595ba82671cb)
  • Behavior of BlankDataset (353648effdbfdaf02d81662d726d14a89de57caf)
  • Refactoring of backend choosing (01f25deb0c524458d3bf02a8eefc9d9838c63196)

Scientific Software - Peer-reviewed - Python
Published by justusschock about 7 years ago

Delira - Release v0.3.0

Release 0.3.0

Added

  • TensorFlow support including

    • AbstractTfNetwork
    • TfNetworkTrainer
    • TfExperiment
    • ClassificationNetworkBaseTf

  • Basic Test-API in Experiment (commit)

  • More Unittests

  • Methods to get a subset of each Dataset

  • Stratified Kfold

Bugfixes

  • dropping last batch in PyTorchNetworkTrainer.predict (commit)
  • Check for installed backends

Scientific Software - Peer-reviewed - Python
Published by justusschock about 7 years ago

Delira - First Beta Release

Based on PyTorch, batchgenerators and trixi it provides a framework for * Dataset loading * Dataset sampling * Augmentation (multi-threaded) including 3D images with any number of channels * A generic trainer class that implements the training process * Already implemented models used in medical image processing and exemplaric implementations of most used models in general (like Resnet) * Web-based monitoring using Visdom * Model save and load functions

Scientific Software - Peer-reviewed - Python
Published by justusschock about 7 years ago