xarray-behave 0.37.3__tar.gz → 0.37.5__tar.gz

{xarray_behave-0.37.3 → xarray_behave-0.37.5}/PKG-INFO

@@ -1,17 +1,18 @@
-Metadata-Version: 2.3
+Metadata-Version: 2.5
 Name: xarray-behave
-Version: 0.37.3
+Version: 0.37.5
 Summary: xarray tools for behavioral data.
 Author-email: Jan Clemens <clemensjan@googlemail.com>
-Requires-Python: >3.9
+Requires-Python: >=3.10
 Description-Content-Type: text/markdown
 Classifier: License :: OSI Approved :: Apache Software License
+License-File: LICENSE
 Requires-Dist: defopt==6.3
 Requires-Dist: rich
 Requires-Dist: flammkuchen
 Requires-Dist: h5py
 Requires-Dist: pyyaml
-Requires-Dist: zarr
+Requires-Dist: zarr<3
 Requires-Dist: dask
 Requires-Dist: pandas
 Requires-Dist: xarray
@@ -25,20 +26,24 @@ Requires-Dist: soundfile
 Requires-Dist: librosa>0.8
 Requires-Dist: opencv-python-headless
 Requires-Dist: pyvideoreader
-Requires-Dist: PySide6-Essentials
+Requires-Dist: PySide6-Essentials==6.10.*
 Requires-Dist: pyqtgraph>0.12.2
 Requires-Dist: qtpy
 Requires-Dist: superqt
 Requires-Dist: colorcet
+Requires-Dist: pytest ; extra == "dev"
+Requires-Dist: flit ; extra == "dev"
 Project-URL: documentation, https://janclemenslab.org/das/
 Project-URL: source, https://github.com/janclemenslab/xarray-behave
+Provides-Extra: dev
+Import-Name: xarray_behave
 
 # xarray-behave
 
-Install a working conda installation (see [here](https://docs.conda.io/en/latest/miniconda.html)). 
+Install a working conda installation (see [here](https://docs.conda.io/en/latest/miniconda.html)).
 
 ```shell
-conda create -c conda-forge -c ncb -n xb python=3.12 xarray-behave
+conda env create -n xb -y -f https://raw.githubusercontent.com/janclemenslab/xarray-behave/refs/heads/master/env/xb.yml
 ```
 
 See `demo.ipynb` for usage examples.

xarray_behave-0.37.5/README.md

@@ -0,0 +1,9 @@
+# xarray-behave
+
+Install a working conda installation (see [here](https://docs.conda.io/en/latest/miniconda.html)).
+
+```shell
+conda env create -n xb -y -f https://raw.githubusercontent.com/janclemenslab/xarray-behave/refs/heads/master/env/xb.yml
+```
+
+See `demo.ipynb` for usage examples.

xarray_behave-0.37.5/pyproject.toml

@@ -0,0 +1,57 @@
+[build-system]
+requires = ["flit_core >=3.2"]
+build-backend = "flit_core.buildapi"
+
+[project]
+name = "xarray-behave"
+authors = [{ name = "Jan Clemens", email = "clemensjan@googlemail.com" }]
+classifiers = ["License :: OSI Approved :: Apache Software License"]
+dynamic = ["version", "description"]
+requires-python = ">=3.10"
+dependencies = [
+       'defopt==6.3',
+       'rich',
+       'flammkuchen',
+       'h5py',
+       'pyyaml',
+       'zarr<3',
+       'dask',
+       'pandas',
+       'xarray',
+       'scikit-image',
+       'peakutils',
+       'numba',
+       'numpy',
+       'scipy>1.9',
+       'sounddevice',
+       'soundfile',
+       'librosa>0.8',
+       'opencv-python-headless',
+       'pyvideoreader',
+       'PySide6-Essentials==6.10.*',
+       'pyqtgraph>0.12.2',
+       'qtpy',
+       'superqt',
+       'colorcet',
+]
+readme = "README.md"
+
+[project.optional-dependencies]
+dev = ["pytest", "flit"]
+
+[project.urls]
+source = "https://github.com/janclemenslab/xarray-behave"
+documentation = "https://janclemenslab.org/das/"
+
+[tool.flit.module]
+name = "xarray_behave"
+
+[tool.pytest.ini_options]
+minversion = "6.0"
+testpaths = ["tests"]
+
+[tool.ruff]
+extend-select = ["C4", "NPY", "PD", "TCH"]
+ignore = ["E501"]
+show-fixes = true
+line-length = 196

{xarray_behave-0.37.3 → xarray_behave-0.37.5}/src/xarray_behave/__init__.py

@@ -1,6 +1,6 @@
 """xarray tools for behavioral data."""
 
-__version__ = "0.37.3"
+__version__ = "0.37.5"
 
 from .xarray_behave import assemble, assemble_metrics, load, save
 import os

{xarray_behave-0.37.3 → xarray_behave-0.37.5}/src/xarray_behave/gui/forms/das_train.yaml

@@ -158,30 +158,6 @@ main:
   help: Reduce learning rate if performance does not improve after patience epochs.
 
 
-- name: morph
-  label: Postprocessing with trainable morphological kernels
-  type: stacked
-  default: "No"
-  options: "No,Yes"
-
-  "No":
-
-  "Yes":
-  - type: text
-    text: 'Clean up predictions using trainable kernels for opening and closing operations.'
-
-  - name: morph_nb_kernels
-    label:  Number of morphological kernels
-    type: int
-    default: 1
-    range: 0, 100
-  - name: morph_kernel_duration
-    label: Duration of morphological kernels (samples)
-    type: int
-    default: 32
-    range: 1,1000
-
-
 - name: postopt
   label: Optimize postprocessing
   type: stacked
@@ -285,4 +261,4 @@ main:
 - name: train
   label: Start training in GUI
   type: button
-  default: main action
+  default: main action

{xarray_behave-0.37.3 → xarray_behave-0.37.5}/src/xarray_behave/io/movieparams.py

@@ -1,6 +1,4 @@
-"""Load parameters for DLP movies
-
-"""
+"""Load parameters for DLP movies"""
 
 import numpy as np
 import pandas as pd

xarray_behave-0.37.3/.github/workflows/publish.yaml

@@ -1,55 +0,0 @@
-name: Publish to Anaconda.org
-
-on:
-  release:
-    types:
-      - published
-  workflow_dispatch:
-    inputs:
-      logLevel:
-        description: 'Log level'
-        required: true
-        default: 'warning'
-      tags:
-        description: 'manual run'
-
-jobs:
-  publish:
-    runs-on: ${{ matrix.os }}
-    strategy:
-      fail-fast: False
-      matrix:
-        python-version: ['3.10', '3.11', '3.12']
-        os: [ubuntu-latest, windows-latest, macOS-14]
-    defaults:  # https://github.com/marketplace/actions/setup-miniconda#use-a-default-shell
-      run:
-        shell: bash -l {0}
-    steps:
-    - uses: actions/checkout@v4
-    - name: Setup miniconda # https://github.com/marketplace/actions/setup-miniconda
-      uses: conda-incubator/setup-miniconda@v3
-      with:
-        auto-update-conda: true
-        channels: conda-forge,ncb
-        python-version: 3.12
-        auto-activate-base: false
-        activate-environment: anaconda-client-env
-        environment-file: build_env.yml
-        condarc-file: condarc.yml
-    - name: Build
-      run: |
-        mkdir ./build
-        conda build conda/xarray-behave --no-test --no-anaconda-upload --python ${{ matrix.python-version }} --output-folder ./build
-    - name: Test
-      run: |
-        conda deactivate
-        conda create -n xb_test python=${{ matrix.python-version }} xarray-behave -c ./build -c local -c conda-forge -c ncb -y
-        conda activate xb_test
-        python -c "import xarray_behave; print(xarray_behave.__version__)"
-        python -c "import xarray_behave.gui.app"
-        # xb --help  
-    - name: Upload
-      run: |
-        conda build conda/xarray-behave --no-test --python ${{ matrix.python-version }} --output-folder ./build --user ncb --token ${{ secrets.ANACONDA_TOKEN }}
-      env:
-        ANACONDA_TOKEN: ${{ secrets.ANACONDA_TOKEN }}

xarray_behave-0.37.3/.gitignore

@@ -1,128 +0,0 @@
-# Byte-compiled / optimized / DLL files
-__pycache__/
-*.py[cod]
-*$py.class
-
-# C extensions
-*.so
-
-# Distribution / packaging
-.Python
-build/
-develop-eggs/
-dist/
-downloads/
-eggs/
-.eggs/
-lib/
-lib64/
-parts/
-sdist/
-var/
-wheels/
-*.egg-info/
-.installed.cfg
-*.egg
-MANIFEST
-
-# PyInstaller
-#  Usually these files are written by a python script from a template
-#  before PyInstaller builds the exe, so as to inject date/other infos into it.
-*.manifest
-*.spec
-
-# Installer logs
-pip-log.txt
-pip-delete-this-directory.txt
-
-# Unit test / coverage reports
-htmlcov/
-.tox/
-.coverage
-.coverage.*
-.cache
-nosetests.xml
-coverage.xml
-*.cover
-.hypothesis/
-.pytest_cache/
-
-# Translations
-*.mo
-*.pot
-
-# Django stuff:
-*.log
-local_settings.py
-db.sqlite3
-
-# Flask stuff:
-instance/
-.webassets-cache
-
-# Scrapy stuff:
-.scrapy
-
-# Sphinx documentation
-
-# PyBuilder
-target/
-
-# Jupyter Notebook
-.ipynb_checkpoints
-
-# pyenv
-.python-version
-
-# celery beat schedule file
-celerybeat-schedule
-
-# SageMath parsed files
-*.sage.py
-
-# Environments
-.env
-.venv
-env/
-venv/
-ENV/
-env.bak/
-venv.bak/
-
-# Spyder project settings
-.spyderproject
-.spyproject
-
-# Rope project settings
-.ropeproject
-
-# mkdocs documentation
-/site
-
-# mypy
-.mypy_cache/
-
-# MATLAB
-*.asv
-
-
-# LEAP-specific
-dat/*
-dat.*/
-res*
-fig*
-*.err
-*.out
-
-/*
-/*/
-!/src/
-!/tests/
-!/env/
-!/docs/
-!/*.toml
-!/.github
-!/conda
-/src/*.egg-info/
-/src/*.egg-info
-/tests/data

xarray_behave-0.37.3/README.md

@@ -1,9 +0,0 @@
-# xarray-behave
-
-Install a working conda installation (see [here](https://docs.conda.io/en/latest/miniconda.html)). 
-
-```shell
-conda create -c conda-forge -c ncb -n xb python=3.12 xarray-behave
-```
-
-See `demo.ipynb` for usage examples.

xarray_behave-0.37.3/build_env.yml

@@ -1,9 +0,0 @@
-name: anaconda-client-env
-channels:
-  - conda-forge
-dependencies:
-  - conda
-  - anaconda-client
-  - conda-build
-  - pip
-  - git

xarray_behave-0.37.3/conda/xarray-behave/bld.bat

@@ -1,10 +0,0 @@
-# We need to turn pip index back on because Anaconda turns
-# it off for some reason.
-set PIP_NO_INDEX=False
-set PIP_NO_DEPENDENCIES=False
-set PIP_IGNORE_INSTALLED=False
-
-"%PYTHON%" -m pip install simpleaudio -vv --no-dependencies
-"%PYTHON%" -m pip install pkgutil_resolve_name -vv --no-dependencies
-"%PYTHON%" -m pip install xarray-behave[gui] -vv --no-dependencies
-if errorlevel 1 exit 1

xarray_behave-0.37.3/conda/xarray-behave/build.sh

@@ -1,11 +0,0 @@
-# We need to turn pip index back on because Anaconda turns
-# it off for some reason.
-export PIP_NO_INDEX=False
-export PIP_NO_DEPENDENCIES=False
-export PIP_IGNORE_INSTALLED=False
-
-if [[ "$OSTYPE" == "darwin"* ]]; then
-  $PYTHON -m pip install simpleaudio -vv --no-dependencies
-fi
-$PYTHON -m pip install pkgutil_resolve_name -vv --no-dependencies
-$PYTHON -m pip install xarray-behave[gui] -vv --no-dependencies

xarray_behave-0.37.3/conda/xarray-behave/meta.yaml

@@ -1,57 +0,0 @@
-{% set data = load_setup_py_data(setup_file='../../setup.py', from_recipe_dir=True) %}
-{% set name = data.get('name') %}
-{% set version = data.get('version') %}
-
-package:
-  name: "{{ name }}"
-  version: "{{ version }}"
-
-source:
-  url: https://pypi.org/packages/source/x/xarray-behave/xarray_behave-{{ version }}.tar.gz
-build:
-  number: 0
-
-requirements:
-  host:
-    - python {{ python }}
-    - pip
-  run:
-    - python {{ python }}
-    - defopt=6.3
-    - rich
-    - flammkuchen
-    - h5py
-    - pyyaml
-    - zarr
-    - numba
-    - xarray
-    - dask
-    - librosa>0.8
-    - pysoundfile
-    - python-sounddevice
-    - matplotlib
-    - colorcet
-    - pandas
-    - scipy>=1.9
-    - scikit-image
-    - scikit-learn
-    - peakutils
-    - pyside6
-    - pyqtgraph>0.12
-    - qtpy
-    - superqt
-    - ffmpeg
-    - pyvideoreader
-
-about:
-  home: "http://github.com/janclemenslab/xarray-behave"
-  license: MIT
-  license_family: MIT
-  license_file:
-  summary: "xarray behave"
-  doc_url: "https://janclemenslab.org/xarray-behave"
-  dev_url: "http://github.com/janclemenslab/xarray-behave"
-
-extra:
-  recipe-maintainers:
-    - postpop

xarray_behave-0.37.3/condarc.yml

@@ -1,9 +0,0 @@
-anaconda_upload: yes
-always_yes: yes
-changeps1: no
-channel_priority: flexible 
-channels:
-- conda-forge
-- ncb
-conda-build:
-   pkg_format: 2