cardiac-geometriesx 0.1.2__py3-none-any.whl → 0.2.0__py3-none-any.whl

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Files changed (16) hide show
  1. cardiac_geometries/cli.py +15 -1
  2. cardiac_geometries/fibers/lv_ellipsoid.py +10 -12
  3. cardiac_geometries/fibers/slab.py +10 -12
  4. cardiac_geometries/fibers/utils.py +13 -8
  5. cardiac_geometries/geometry.py +82 -32
  6. cardiac_geometries/gui.py +272 -0
  7. cardiac_geometries/mesh.py +45 -22
  8. cardiac_geometries/utils.py +343 -25
  9. cardiac_geometriesx-0.2.0.dist-info/LICENSE +21 -0
  10. cardiac_geometriesx-0.2.0.dist-info/METADATA +94 -0
  11. cardiac_geometriesx-0.2.0.dist-info/RECORD +16 -0
  12. {cardiac_geometriesx-0.1.2.dist-info → cardiac_geometriesx-0.2.0.dist-info}/WHEEL +1 -1
  13. cardiac_geometriesx-0.1.2.dist-info/METADATA +0 -51
  14. cardiac_geometriesx-0.1.2.dist-info/RECORD +0 -14
  15. {cardiac_geometriesx-0.1.2.dist-info → cardiac_geometriesx-0.2.0.dist-info}/entry_points.txt +0 -0
  16. {cardiac_geometriesx-0.1.2.dist-info → cardiac_geometriesx-0.2.0.dist-info}/top_level.txt +0 -0
cardiac_geometriesx-0.2.0.dist-info/METADATA ADDED
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+ Metadata-Version: 2.1
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+ Name: cardiac-geometriesx
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+ Version: 0.2.0
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+ Summary: A python library for cardiac geometries
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+ Author-email: Henrik Finsberg <henriknf@simula.no>
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+ License: MIT
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+ Project-URL: Homepage, https://github.com/finsberg/cardiac-geometriesx
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+ Keywords: cardiac,geometry
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+ Classifier: License :: OSI Approved :: MIT License
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+ Classifier: Programming Language :: Python :: 3
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+ Classifier: Programming Language :: Python :: 3 :: Only
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+ Requires-Python: >=3.8
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+ Description-Content-Type: text/markdown
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+ License-File: LICENSE
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+ Requires-Dist: fenics-dolfinx >=0.8.0
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+ Requires-Dist: structlog
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+ Requires-Dist: cardiac-geometries-core
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+ Requires-Dist: rich-click
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+ Requires-Dist: adios4dolfinx
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+ Provides-Extra: dev
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+ Requires-Dist: bump-my-version ; extra == 'dev'
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+ Requires-Dist: ipython ; extra == 'dev'
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+ Requires-Dist: pdbpp ; extra == 'dev'
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+ Requires-Dist: pre-commit ; extra == 'dev'
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+ Requires-Dist: twine ; extra == 'dev'
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+ Requires-Dist: wheel ; extra == 'dev'
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+ Provides-Extra: docs
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+ Requires-Dist: jupyter-book ; extra == 'docs'
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+ Requires-Dist: jupytext ; extra == 'docs'
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+ Requires-Dist: jupyter ; extra == 'docs'
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+ Requires-Dist: pyvista[all] >=0.43.0 ; extra == 'docs'
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+ Requires-Dist: trame-vuetify ; extra == 'docs'
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+ Requires-Dist: ipywidgets ; extra == 'docs'
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+ Requires-Dist: fenicsx-ldrb ; extra == 'docs'
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+ Provides-Extra: gui
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+ Requires-Dist: streamlit ; extra == 'gui'
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+ Requires-Dist: stpyvista ; extra == 'gui'
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+ Requires-Dist: pyvista[all] >=0.43.0 ; extra == 'gui'
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+ Requires-Dist: trame-vuetify ; extra == 'gui'
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+ Requires-Dist: ipywidgets ; extra == 'gui'
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+ Requires-Dist: fenicsx-ldrb ; extra == 'gui'
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+ Provides-Extra: test
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+ Requires-Dist: pre-commit ; extra == 'test'
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+ Requires-Dist: pytest ; extra == 'test'
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+ Requires-Dist: pytest-cov ; extra == 'test'
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+
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+ ![_](docs/_static/logo.png)
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+
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+ [![Create and publish a Docker image](https://github.com/ComputationalPhysiology/cardiac-geometriesx/actions/workflows/docker-image.yml/badge.svg)](https://github.com/ComputationalPhysiology/cardiac-geometriesx/actions/workflows/docker-image.yml)
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+ [![Test package](https://github.com/ComputationalPhysiology/cardiac-geometriesx/actions/workflows/test.yml/badge.svg)](https://github.com/ComputationalPhysiology/cardiac-geometriesx/actions/workflows/test.yml)
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+ [![Test package MPI](https://github.com/ComputationalPhysiology/cardiac-geometriesx/actions/workflows/test-mpi.yml/badge.svg)](https://github.com/ComputationalPhysiology/cardiac-geometriesx/actions/workflows/test-mpi.yml)
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+ [![Pre-commit](https://github.com/ComputationalPhysiology/cardiac-geometriesx/actions/workflows/pre-commit.yml/badge.svg)](https://github.com/ComputationalPhysiology/cardiac-geometriesx/actions/workflows/pre-commit.yml)
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+ [![PyPI version](https://badge.fury.io/py/cardiac-geometriesx.svg)](https://badge.fury.io/py/cardiac-geometriesx)
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+
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+ # Cardiac geometries
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+
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+ Cardiac geometries is a software package built on top of [`cariac-geometries-core`](https://github.com/ComputationalPhysiology/cardiac-geometries-core) that adds support for creating idealized cardiac geometries for dolfinx.
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+
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+ There are two ways you can use `cardiac-geomtries`, either using the command line interface, e.g
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+ ```
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+ geox lv-ellipsoid --create-fibers lv-mesh --fiber-space P_2
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+ ```
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+
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+ or using the python API e.g
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+ ```python
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+ geo = cardiac_geometries.mesh.lv_ellipsoid(outdir="lv-mesh", create_fibers=True, fiber_space="P_2")
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+ ```
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+
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+ ## Install
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+
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+ To install the package you can use `pip`
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+ ```
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+ python3 -m pip install cardiac-geometriesx
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+ ```
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+ however, this assumes that you already have `dolfinx` pre-installed. You can also use the provided docker image e.g
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+ ```
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+ docker pull ghcr.io/computationalphysiology/cardiac-geometriesx:latest
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+ ```
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+ To start a new container interactive you can do
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+ ```
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+ docker run --name geox -v $PWD:/home/shared -w /home/shared -it ghcr.io/computationalphysiology/cardiac-geometriesx:latest
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+ ```
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+ or if you just want to create a mesh and exit you can run the command line interface directly e.g
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+ ```
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+ docker run --rm -v $PWD:/home/shared -w /home/shared -it ghcr.io/computationalphysiology/cardiac-geometriesx:latest geox lv-ellipsoid --create-fibers lv-mesh --fiber-space P_2
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+ ```
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+
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+ ## Authors
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+ Henrik Finsberg (henriknf@simula.no)
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+
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+ ## License
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+ MIT
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+
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+ ## Contributing
cardiac_geometriesx-0.2.0.dist-info/RECORD ADDED
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+ cardiac_geometries/__init__.py,sha256=2W_ywAeLjyRk5MqSPAodHa4UN2lOnW1h8tmGLQ3gaJ0,150
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+ cardiac_geometries/cli.py,sha256=GKcsMNhVFoxWDr-o3jiDCXmTvPgCSEB9Kws8AvYIK4Q,19678
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+ cardiac_geometries/geometry.py,sha256=iK8lydZEqU3sz0983yucW9IzQ2VqSXSy4D5ubdl9bOs,5636
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+ cardiac_geometries/gui.py,sha256=9WYR850wLrqsUrVUC37E2SaO0OWA_oagSe-YNrsxz3k,8376
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+ cardiac_geometries/mesh.py,sha256=JSm69BTS7WRUldwaQ9-Gnjq_KbX66FTnl2ouFKRtFhA,26825
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+ cardiac_geometries/utils.py,sha256=EwEXAuB4XiJaqlZaGZ1cc6sIBSPJLCx-43As1NUcJrA,16488
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+ cardiac_geometries/fibers/__init__.py,sha256=WpRrn9Iakl-3m8IGtFkqP0LXGjw5EZHZ8Eg9JCnCdrg,137
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+ cardiac_geometries/fibers/lv_ellipsoid.py,sha256=jFloAhrFRkKrhsWVKcOiZrGioPLBN3_yiIXiyr1mHCQ,3665
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+ cardiac_geometries/fibers/slab.py,sha256=5tMvOSqXQ4_nbdUUtho_tQjDrmICxZfN7SXNq4FKdlY,3836
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+ cardiac_geometries/fibers/utils.py,sha256=j1ERqXcdaWCwO2yjbYGlgTt2G1DxZCVzbNHuDhh_QrM,2541
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+ cardiac_geometriesx-0.2.0.dist-info/LICENSE,sha256=lo5K2rJPZOSv6luutGHbzzi3IpXNaB9E2UWq60qvNx0,1111
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+ cardiac_geometriesx-0.2.0.dist-info/METADATA,sha256=VHm0LNhB1GsjrcY8fPTJH0C6UzvV01FW07kIxgmVAwc,4163
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+ cardiac_geometriesx-0.2.0.dist-info/WHEEL,sha256=y4mX-SOX4fYIkonsAGA5N0Oy-8_gI4FXw5HNI1xqvWg,91
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+ cardiac_geometriesx-0.2.0.dist-info/entry_points.txt,sha256=xOBnlc6W-H9oCDYLNz3kpki26OmpfYSoFSrmi_4V-Ec,52
15
+ cardiac_geometriesx-0.2.0.dist-info/top_level.txt,sha256=J0gQxkWR2my5Vf7Qt8buDY8ZOjYdVfIweVunCGXWKNE,19
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+ cardiac_geometriesx-0.2.0.dist-info/RECORD,,
{cardiac_geometriesx-0.1.2.dist-info → cardiac_geometriesx-0.2.0.dist-info}/WHEEL RENAMED
@@ -1,5 +1,5 @@
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  Wheel-Version: 1.0
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- Generator: setuptools (70.1.0)
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+ Generator: setuptools (70.2.0)
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  Root-Is-Purelib: true
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  Tag: py3-none-any
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cardiac_geometriesx-0.1.2.dist-info/METADATA DELETED
@@ -1,51 +0,0 @@
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- Metadata-Version: 2.1
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- Name: cardiac-geometriesx
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- Version: 0.1.2
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- Summary: A python library for cardiac geometries
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- Author-email: Henrik Finsberg <henriknf@simula.no>
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- License: MIT
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- Project-URL: Homepage, https://github.com/finsberg/cardiac-geometriesx
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- Keywords: cardiac,geometry
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- Classifier: License :: OSI Approved :: MIT License
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- Classifier: Programming Language :: Python :: 3
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- Classifier: Programming Language :: Python :: 3 :: Only
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- Requires-Python: >=3.8
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- Description-Content-Type: text/markdown
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- Requires-Dist: fenics-dolfinx >=0.8.0
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- Requires-Dist: structlog
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- Requires-Dist: cardiac-geometries-core
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- Requires-Dist: rich-click
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- Requires-Dist: adios4dolfinx
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- Provides-Extra: dev
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- Requires-Dist: bump-my-version ; extra == 'dev'
21
- Requires-Dist: ipython ; extra == 'dev'
22
- Requires-Dist: pdbpp ; extra == 'dev'
23
- Requires-Dist: pre-commit ; extra == 'dev'
24
- Requires-Dist: twine ; extra == 'dev'
25
- Requires-Dist: wheel ; extra == 'dev'
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- Provides-Extra: docs
27
- Provides-Extra: test
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- Requires-Dist: pre-commit ; extra == 'test'
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- Requires-Dist: pytest ; extra == 'test'
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- Requires-Dist: pytest-cov ; extra == 'test'
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-
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-
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- # Cardiac geometries
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-
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- Cardiac geometries for `dolfinx` (targeting v0.8).
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-
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- Install
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- ```
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- python3 -m pip install cardiac-geometriesx
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- ```
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-
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- Example usage
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- ```
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- geox lv-ellipsoid --create-fibers lv-mesh
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- ```
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-
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- ## Authors
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- Henrik Finsberg (henriknf@simula.no)
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-
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- ## License
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- MIT
cardiac_geometriesx-0.1.2.dist-info/RECORD DELETED
@@ -1,14 +0,0 @@
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- cardiac_geometries/__init__.py,sha256=2W_ywAeLjyRk5MqSPAodHa4UN2lOnW1h8tmGLQ3gaJ0,150
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- cardiac_geometries/cli.py,sha256=2-99xmcBltdotzxp4aDZLrh46gyA5U_PZc6lHen7LIM,19323
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- cardiac_geometries/geometry.py,sha256=fxya6HDCe3MtdEcrRgygOfbj5yg10tNWA6HhObamcUY,4659
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- cardiac_geometries/mesh.py,sha256=cJAcwdDaYmO8MlfocaxvV6pkBcfEWybMSBAaycr6q3s,25987
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- cardiac_geometries/utils.py,sha256=-fH13vimCYrirDZubQdxRpX-7I9iCFsOJ8Xo1NL5Nvc,3596
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- cardiac_geometries/fibers/__init__.py,sha256=WpRrn9Iakl-3m8IGtFkqP0LXGjw5EZHZ8Eg9JCnCdrg,137
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- cardiac_geometries/fibers/lv_ellipsoid.py,sha256=jdRek3v_V2a9IQHqH7P-lK0JBwa1dUNpBBmABzKGje4,3690
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- cardiac_geometries/fibers/slab.py,sha256=h_iVs_e1F9LJaXJOzam336f0LcTAXXBvApsFZGZSnZs,3861
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- cardiac_geometries/fibers/utils.py,sha256=hMTAKy32ow10tpNE1-WuvCYk7PVXO1qL0dHPa3LjecQ,2434
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- cardiac_geometriesx-0.1.2.dist-info/METADATA,sha256=j68EaXmIA9r9PFIGGwjigAGekqalX1c44A_6GyZ5KDw,1349
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- cardiac_geometriesx-0.1.2.dist-info/WHEEL,sha256=cpQTJ5IWu9CdaPViMhC9YzF8gZuS5-vlfoFihTBC86A,91
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- cardiac_geometriesx-0.1.2.dist-info/entry_points.txt,sha256=xOBnlc6W-H9oCDYLNz3kpki26OmpfYSoFSrmi_4V-Ec,52
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- cardiac_geometriesx-0.1.2.dist-info/top_level.txt,sha256=J0gQxkWR2my5Vf7Qt8buDY8ZOjYdVfIweVunCGXWKNE,19
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- cardiac_geometriesx-0.1.2.dist-info/RECORD,,