support Windows

• update support for Windows & CI
• code formating: yapf, isort, pre-commit
• fix docs mocks & setup
• clean docs conf.

minor bug-fixing & extended testing

Some bug fixing and minor refactoring/cleaning.

Main changes

• absolute imports
• rename data-images and move figures
• fix skimage region prop. and re-label
• fix numpy and yaml loads
• split py2 py3 reqs and fix minimal req.
• CI: min-max build and uses GH actions
• CI: migrate nose -> pytest
• fix sphinx docs, warn and docs links
• fix notebook and update config
• fix pkg setup

update ImSegm

Minor refactoring and documentation crafting.
Note: This is the last release supporting Python 2.7

Some particular changes:

• adding online docs - https://pyimsegm.readthedocs.io/en/latest
• move tests outside package
• freeze packages for Py2
• update Expt. class
• explaining constants
• fix ransac_segm
• fix Ray test

Cython & label hist.

Some particular changes:

• cython: ray features
• cython: label hist.
• fix ray features rounding
• fix label hist. padding
• move configs JSON -> YAML
• visual - update plots
• update pkg imports
• fix expt. RG
• use tqdm closing
• update CircleCI
• update docstring

general update

Minor package enhancements and updating image segmentation.

Some particular changes:

• rename CrossVal
• rename nb_jobs -> nb_workers
• fix numpy version for skimage
• update setup/compile
• change repr logging
• add CrossVal tolerance
• add io/image wraps
• add GitHub issues/docs
• add testing py3.7
• add pytest config
• add gitter badge

fix CrossVal & label hist.

Some particular changes:

• fix label histogram
• update params & docstring
• pep8 in imSegm & Experiments
• remove default dicts
• add doctests
• fix & refactor CrossVal
• update manifest
• minor refactoring
• update CI (flake8)
• add CodeFactor

general update

Minor package enhancements and updating image segmentation.

Some particular changes:

• add overlap alpha in segm
• add shift of ray features via FFT
• swap images - cut images to min size
• minor refactor, rename pipeline parameter
• partial fixes - e.g. Ray feature vector
• add ipynb for RG and langer. islet
• simplify annot-segm statistic
• add constrains to GC regul.
• extend measured Ovary ray features
• move sub-package utils -> utilities
• rename tests to be detected by pytest
• update setup, MANIFEST.in, CircleCI, codecov
• fix sklearn due version changes
• fix classif. CrossValidations
• using logging.exception()

update Classif.

Minor package enhancements and updating experiments with image segmentation.

Some particular changes:

• drop labels for train & statisctic
• visualise train samples (label purity)
• outsource metric for classif. hyper-param
• fix setup for installing
• fix loading input list
• remove LOO experiment
• extend color features
• add binary classif. metrics
• add illustration in README
• swap ovary orient. by CrossCorr
• minor refactoring

general update

Minor package enhancements and updating experiments with image segmentation.

Some particular changes:

• wrapper for image I/O
• wrap process sequence
• unify segment. models
• move images -> data_images
• add using config for segment.
• fix segm. debug show
• regroup general image samples
• fix classif. statistic
• update arg params
• replace depricated func.
• minor reactoring

Initial release

pyImSegm - Image segmentation - general superpixel segmentation & region growing.
This is the initial release of three consecutive segmentation utilities related to microscopy images.

Release content:

• segmentation package
• sample images
• experimetal applications