lavavu

Lightweight, Automatable Visualisation & Analysis Viewing Utility

https://github.com/lavavu/lavavu

Science Score: 59.0%

This score indicates how likely this project is to be science-related based on various indicators:

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CITATION.cff file
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codemeta.json file
Found codemeta.json file
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.zenodo.json file
Found .zenodo.json file
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DOI references
Found 6 DOI reference(s) in README
✓
Academic publication links
Links to: zenodo.org
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Committers with academic emails
11 of 18 committers (61.1%) from academic institutions
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Institutional organization owner
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JOSS paper metadata
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Scientific vocabulary similarity
Low similarity (16.1%) to scientific vocabulary

Keywords from Contributors

auscope finite-element-methods geodynamics particle-in-cell petsc underworld

Last synced: 6 months ago · JSON representation

Repository

Lightweight, Automatable Visualisation & Analysis Viewing Utility

Basic Info

Host: GitHub
Owner: lavavu
License: other
Language: Jupyter Notebook
Default Branch: master
Size: 30.6 MB

Statistics

Stars: 56
Watchers: 7
Forks: 13
Open Issues: 3
Releases: 66

Created over 10 years ago · Last pushed 6 months ago

Metadata Files

Readme License Zenodo

README.md

# logo

A scientific visualisation tool with a python interface for fast and flexible visual analysis.

Documentation available here LavaVu Documentation

examplevis

LavaVu development is supported by ACCESS-NRI. Prior development was funded by the Monash Immersive Visualisation Plaform at Monash eResearch and the Simulation, Analysis & Modelling component of the NCRIS AuScope capability.

The acronym stands for: lightweight, automatable visualisation and analysis viewing utility, but "lava" is also a reference to its primary application as a viewer for geophysical simulations. It was also chosen to be unique enough to find the repository with google.

The project started as a replacement rendering library for the gLucifer¹ framework, visualising geodynamics simulations. The new OpenGL visualisation code was re-implemented as a more general purpose visualisation tool. gLucifer continues as a set of sampling tools for Underworld simulations as part of the Underworld2 code. LavaVu provides the rendering library for creating 2d and 3d visualisations to view this sampled data, inline within interactive Jupyter notebooks and offline through saved visualisation databases and images/movies.

As a standalone tool it is a scriptable 3D visualisation tool capable of producing publication quality high res images and video output from time varying data sets along with HTML5 3D visualisations in WebGL. Rendering features include correctly and efficiently rendering large numbers of opaque and transparent points and surfaces and volume rendering by GPU ray-marching. There are also features for drawing vector fields and tracers (streamlines).

Control is via python and a set of simple verbose scripting commands along with mouse/keyboard interaction. GUI components can be generated for use from a web browser via the python "control" module and a built in web server.

Widgets for interactive use in the Jupyter notebook environment allow use for remote visualisation, eg: on supercomputing environments.

A native data format called GLDB is used to store and visualisations in a compact single file, using SQLite for storage and fast loading. A small number of other data formats are supported for import (OBJ surfaces, TIFF stacks etc). Further data import formats are supported with python scripts, with the numpy interface allowing rapid loading and manipulation of data.

This repository

This is the public source code repository for all development on the project. Development happens in the "master" branch with stable releases tagged, so if you just check out master, be aware that things can be unstable or broken from time to time.

How do I get set up?

It's now in the python package index, so you can install with pip:

python -m pip install lavavu

Currently binary wheels are provided for Linux x8664, MacOS x8664 and ARM64 and Windows x86_64.

To try it out:

``` python

import lavavu lv = lavavu.Viewer() #Create a viewer lv.test() #Plot some sample data lv.interactive() #Open an interactive viewer window ```

Alternatively, clone this repository with git and build from source:

git clone https://github.com/lavavu/LavaVu cd LavaVu python -m pip install . or ``` make -j4

```

If all goes well the viewer will be built, try running with: ./lavavu/LavaVu

Dependencies

OpenGL and Zlib, present on most systems, headers may need to be installed
To use with python requires python 3.6+ and NumPy
For video output, requires: PyAV or for built in encoding, libavcodec, libavformat, libavutil, libswscale (from FFmpeg / libav)
To build the python interface from source requires swig (http://www.swig.org/)

Who do I talk to?

Report bugs/issues here on github: https://github.com/lavavu/LavaVu/issues
Contact developer: Owen Kaluza (at) anu.edu.au

For further documentation / examples, see the online documentation * https://lavavu.github.io/Documentation

Included libraries

In order to avoid as many external dependencies as possible, the LavaVu sources include files from the following public domain or open source libraries, many thanks to the authors for making their code available! * SQLite3 https://www.sqlite.org * JSON for Modern C++ https://github.com/nlohmann/json * linalg https://github.com/sgorsten/linalg * Tiny OBJ Loader https://github.com/syoyo/tinyobjloader * LodePNG https://github.com/lvandeve/lodepng * jpeg-compressor https://github.com/richgel999/jpeg-compressor * miniz https://github.com/richgel999/miniz * GPU Cubic B-Spline Interpolation (optional) in volume shader http://www.dannyruijters.nl/cubicinterpolation/ ² * stbimageresize http://github.com/nothings/stb

¹ Stegman, D.R., Moresi, L., Turnbull, R., Giordani, J., Sunter, P., Lo, A. and S. Quenette, gLucifer: Next Generation Visualization Framework for High performance computational geodynamics, 2008, Visual Geosciences
² Ruijters, Daniel & ter Haar Romeny, Bart & Suetens, Paul. (2008). Efficient GPU-Based Texture Interpolation using Uniform B-Splines. J. Graphics Tools. 13. 61-69.

Owner

Name: lavavu
Login: lavavu
Kind: organization

Repositories: 2
Profile: https://github.com/lavavu

GitHub Events

Total

Create event: 15
Issues event: 4
Release event: 13
Watch event: 4
Issue comment event: 15
Push event: 66
Pull request event: 4
Fork event: 1

Last Year

Create event: 15
Issues event: 4
Release event: 13
Watch event: 4
Issue comment event: 15
Push event: 66
Pull request event: 4
Fork event: 1

Committers

Last synced: almost 3 years ago

All Time

Total Commits: 2,959
Total Committers: 18
Avg Commits per committer: 164.389
Development Distribution Score (DDS): 0.059

Top Committers

Name	Email	Commits
Owen Kaluza	o**a@m**u	2,783
Owen Kaluza	O**a@m**u	123
Andreas Hamacher	a**r@g**m	9
Owen Kaluza	o**a@m**u	7
CAVE2	t**n@m**u	7
John Mansour	j**r@m**u	6
Romain Beucher	r**r@a**u	5
jmansour	m**n@g**m	4
lmoresi	l**i@u**m	3
Louis Moresi	l**i@g**m	3
Owen Kaluza	o**a@h**u	2
github-actions[bot]	g**]@u**m	1
David Haberthür	e**l@d**h	1
CAVE Operator	c**p@c**u	1
lmoresi		1
Owen Kaluza	O**z@m**u	1
Owen Kaluza	o**a@A**U	1
cave	c**e@h**u	1

Committer Domains (Top 20 + Academic)

monash.edu: 5 head1.cave.monash.edu: 2 ad.monash.edu: 1 carbon.cave.monash.edu.au: 1 davidhaberthuer.ch: 1 anu.edu.au: 1 monash.edu.au: 1

Issues and Pull Requests

Last synced: 6 months ago

All Time

Total issues: 97
Total pull requests: 14
Average time to close issues: 5 months
Average time to close pull requests: 17 days
Total issue authors: 28
Total pull request authors: 7
Average comments per issue: 2.92
Average comments per pull request: 0.93
Merged pull requests: 11
Bot issues: 0
Bot pull requests: 1

Past Year

Issues: 3
Pull requests: 5
Average time to close issues: about 1 month
Average time to close pull requests: 15 minutes
Issue authors: 3
Pull request authors: 2
Average comments per issue: 5.33
Average comments per pull request: 0.0
Merged pull requests: 5
Bot issues: 0
Bot pull requests: 1

View more stats

Top Authors

Issue Authors

OKaluza (44)
julesghub (8)
lmoresi (6)
rbeucher (5)
AngelValverdePerez (4)
brmather (3)
jmansour (3)
ntoand (2)
tyszwh (2)
arijitlaik (2)
sassy-crick (1)
kiufta (1)
MikeWazoWski123 (1)
gthyagi (1)
HUN220 (1)

Pull Request Authors

OKaluza (5)
lmoresi (4)
dependabot[bot] (2)
habi (1)
rbeucher (1)
maeager (1)
jmansour (1)

Top Labels

Issue Labels

bug (32) enhancement (8) Urgent (4)

Pull Request Labels

dependencies (2)

Packages

Total packages: 2
Total downloads:
- pypi 1,455 last-month
Total docker downloads: 203

Total dependent packages: 1
(may contain duplicates)
Total dependent repositories: 2
(may contain duplicates)
Total versions: 122
Total maintainers: 1

pypi.org: lavavu

Python interface to LavaVu OpenGL 3D scientific visualisation utilities

Documentation: https://lavavu.github.io
License: ### Licensing 1) All source code is released under the LGPL-3 (See below). This covers all files found in the `src` directory and any other material not explicitly identified under (2) below. 2) Notebooks, stand-alone documentation and python scripts which show how the code is used and run are licensed under the Creative Commons Attribution 4.0 International License. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ or send a letter to Creative Commons, PO Box 1866, Mountain View, CA 94042, USA. We offer this licence to encourage you to modify and share the examples and use them to help you in your research. Where no individual creator is identified in these files, the appropriate attribution is "The LavaVu Team". All the files covered by this license are found in the `scripts` and `notebooks` directories. ### Copyright holders Copyright Monash University, 2009-2017 ### License GNU LESSER GENERAL PUBLIC LICENSE Version 3, 29 June 2007 Copyright (C) 2007 Free Software Foundation, Inc. <http://fsf.org/> Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed. This version of the GNU Lesser General Public License incorporates the terms and conditions of version 3 of the GNU General Public License, supplemented by the additional permissions listed below. 0. Additional Definitions. As used herein, "this License" refers to version 3 of the GNU Lesser General Public License, and the "GNU GPL" refers to version 3 of the GNU General Public License. "The Library" refers to a covered work governed by this License, other than an Application or a Combined Work as defined below. An "Application" is any work that makes use of an interface provided by the Library, but which is not otherwise based on the Library. Defining a subclass of a class defined by the Library is deemed a mode of using an interface provided by the Library. A "Combined Work" is a work produced by combining or linking an Application with the Library. The particular version of the Library with which the Combined Work was made is also called the "Linked Version". The "Minimal Corresponding Source" for a Combined Work means the Corresponding Source for the Combined Work, excluding any source code for portions of the Combined Work that, considered in isolation, are based on the Application, and not on the Linked Version. The "Corresponding Application Code" for a Combined Work means the object code and/or source code for the Application, including any data and utility programs needed for reproducing the Combined Work from the Application, but excluding the System Libraries of the Combined Work. 1. Exception to Section 3 of the GNU GPL. You may convey a covered work under sections 3 and 4 of this License without being bound by section 3 of the GNU GPL. 2. Conveying Modified Versions. If you modify a copy of the Library, and, in your modifications, a facility refers to a function or data to be supplied by an Application that uses the facility (other than as an argument passed when the facility is invoked), then you may convey a copy of the modified version: a) under this License, provided that you make a good faith effort to ensure that, in the event an Application does not supply the function or data, the facility still operates, and performs whatever part of its purpose remains meaningful, or b) under the GNU GPL, with none of the additional permissions of this License applicable to that copy. 3. Object Code Incorporating Material from Library Header Files. The object code form of an Application may incorporate material from a header file that is part of the Library. You may convey such object code under terms of your choice, provided that, if the incorporated material is not limited to numerical parameters, data structure layouts and accessors, or small macros, inline functions and templates (ten or fewer lines in length), you do both of the following: a) Give prominent notice with each copy of the object code that the Library is used in it and that the Library and its use are covered by this License. b) Accompany the object code with a copy of the GNU GPL and this license document. 4. Combined Works. You may convey a Combined Work under terms of your choice that, taken together, effectively do not restrict modification of the portions of the Library contained in the Combined Work and reverse engineering for debugging such modifications, if you also do each of the following: a) Give prominent notice with each copy of the Combined Work that the Library is used in it and that the Library and its use are covered by this License. b) Accompany the Combined Work with a copy of the GNU GPL and this license document. c) For a Combined Work that displays copyright notices during execution, include the copyright notice for the Library among these notices, as well as a reference directing the user to the copies of the GNU GPL and this license document. d) Do one of the following: 0) Convey the Minimal Corresponding Source under the terms of this License, and the Corresponding Application Code in a form suitable for, and under terms that permit, the user to recombine or relink the Application with a modified version of the Linked Version to produce a modified Combined Work, in the manner specified by section 6 of the GNU GPL for conveying Corresponding Source. 1) Use a suitable shared library mechanism for linking with the Library. A suitable mechanism is one that (a) uses at run time a copy of the Library already present on the user's computer system, and (b) will operate properly with a modified version of the Library that is interface-compatible with the Linked Version. e) Provide Installation Information, but only if you would otherwise be required to provide such information under section 6 of the GNU GPL, and only to the extent that such information is necessary to install and execute a modified version of the Combined Work produced by recombining or relinking the Application with a modified version of the Linked Version. (If you use option 4d0, the Installation Information must accompany the Minimal Corresponding Source and Corresponding Application Code. If you use option 4d1, you must provide the Installation Information in the manner specified by section 6 of the GNU GPL for conveying Corresponding Source.) 5. Combined Libraries. You may place library facilities that are a work based on the Library side by side in a single library together with other library facilities that are not Applications and are not covered by this License, and convey such a combined library under terms of your choice, if you do both of the following: a) Accompany the combined library with a copy of the same work based on the Library, uncombined with any other library facilities, conveyed under the terms of this License. b) Give prominent notice with the combined library that part of it is a work based on the Library, and explaining where to find the accompanying uncombined form of the same work. 6. Revised Versions of the GNU Lesser General Public License. The Free Software Foundation may publish revised and/or new versions of the GNU Lesser General Public License from time to time. Such new versions will be similar in spirit to the present version, but may differ in detail to address new problems or concerns. Each version is given a distinguishing version number. If the Library as you received it specifies that a certain numbered version of the GNU Lesser General Public License "or any later version" applies to it, you have the option of following the terms and conditions either of that published version or of any later version published by the Free Software Foundation. If the Library as you received it does not specify a version number of the GNU Lesser General Public License, you may choose any version of the GNU Lesser General Public License ever published by the Free Software Foundation. If the Library as you received it specifies that a proxy can decide whether future versions of the GNU Lesser General Public License shall apply, that proxy's public statement of acceptance of any version is permanent authorization for you to choose that version for the Library.
Latest release: 1.9.10
published 8 months ago

Versions: 76
Dependent Packages: 1
Dependent Repositories: 1
Downloads: 1,021 Last month
Docker Downloads: 203

Rankings

Docker downloads count: 2.1%

Dependent packages count: 4.7%

Downloads: 6.6%

Average: 9.1%

Stargazers count: 9.6%

Forks count: 10.2%

Dependent repos count: 21.6%

Maintainers (1)

OwKal

Last synced: 6 months ago

pypi.org: lavavu-osmesa

Python interface to LavaVu OpenGL 3D scientific visualisation utilities

Documentation: https://lavavu.github.io
License: ### Licensing 1) All source code is released under the LGPL-3 (See below). This covers all files found in the `src` directory and any other material not explicitly identified under (2) below. 2) Notebooks, stand-alone documentation and python scripts which show how the code is used and run are licensed under the Creative Commons Attribution 4.0 International License. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ or send a letter to Creative Commons, PO Box 1866, Mountain View, CA 94042, USA. We offer this licence to encourage you to modify and share the examples and use them to help you in your research. Where no individual creator is identified in these files, the appropriate attribution is "The LavaVu Team". All the files covered by this license are found in the `scripts` and `notebooks` directories. ### Copyright holders Copyright Monash University, 2009-2017 ### License GNU LESSER GENERAL PUBLIC LICENSE Version 3, 29 June 2007 Copyright (C) 2007 Free Software Foundation, Inc. <http://fsf.org/> Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed. This version of the GNU Lesser General Public License incorporates the terms and conditions of version 3 of the GNU General Public License, supplemented by the additional permissions listed below. 0. Additional Definitions. As used herein, "this License" refers to version 3 of the GNU Lesser General Public License, and the "GNU GPL" refers to version 3 of the GNU General Public License. "The Library" refers to a covered work governed by this License, other than an Application or a Combined Work as defined below. An "Application" is any work that makes use of an interface provided by the Library, but which is not otherwise based on the Library. Defining a subclass of a class defined by the Library is deemed a mode of using an interface provided by the Library. A "Combined Work" is a work produced by combining or linking an Application with the Library. The particular version of the Library with which the Combined Work was made is also called the "Linked Version". The "Minimal Corresponding Source" for a Combined Work means the Corresponding Source for the Combined Work, excluding any source code for portions of the Combined Work that, considered in isolation, are based on the Application, and not on the Linked Version. The "Corresponding Application Code" for a Combined Work means the object code and/or source code for the Application, including any data and utility programs needed for reproducing the Combined Work from the Application, but excluding the System Libraries of the Combined Work. 1. Exception to Section 3 of the GNU GPL. You may convey a covered work under sections 3 and 4 of this License without being bound by section 3 of the GNU GPL. 2. Conveying Modified Versions. If you modify a copy of the Library, and, in your modifications, a facility refers to a function or data to be supplied by an Application that uses the facility (other than as an argument passed when the facility is invoked), then you may convey a copy of the modified version: a) under this License, provided that you make a good faith effort to ensure that, in the event an Application does not supply the function or data, the facility still operates, and performs whatever part of its purpose remains meaningful, or b) under the GNU GPL, with none of the additional permissions of this License applicable to that copy. 3. Object Code Incorporating Material from Library Header Files. The object code form of an Application may incorporate material from a header file that is part of the Library. You may convey such object code under terms of your choice, provided that, if the incorporated material is not limited to numerical parameters, data structure layouts and accessors, or small macros, inline functions and templates (ten or fewer lines in length), you do both of the following: a) Give prominent notice with each copy of the object code that the Library is used in it and that the Library and its use are covered by this License. b) Accompany the object code with a copy of the GNU GPL and this license document. 4. Combined Works. You may convey a Combined Work under terms of your choice that, taken together, effectively do not restrict modification of the portions of the Library contained in the Combined Work and reverse engineering for debugging such modifications, if you also do each of the following: a) Give prominent notice with each copy of the Combined Work that the Library is used in it and that the Library and its use are covered by this License. b) Accompany the Combined Work with a copy of the GNU GPL and this license document. c) For a Combined Work that displays copyright notices during execution, include the copyright notice for the Library among these notices, as well as a reference directing the user to the copies of the GNU GPL and this license document. d) Do one of the following: 0) Convey the Minimal Corresponding Source under the terms of this License, and the Corresponding Application Code in a form suitable for, and under terms that permit, the user to recombine or relink the Application with a modified version of the Linked Version to produce a modified Combined Work, in the manner specified by section 6 of the GNU GPL for conveying Corresponding Source. 1) Use a suitable shared library mechanism for linking with the Library. A suitable mechanism is one that (a) uses at run time a copy of the Library already present on the user's computer system, and (b) will operate properly with a modified version of the Library that is interface-compatible with the Linked Version. e) Provide Installation Information, but only if you would otherwise be required to provide such information under section 6 of the GNU GPL, and only to the extent that such information is necessary to install and execute a modified version of the Combined Work produced by recombining or relinking the Application with a modified version of the Linked Version. (If you use option 4d0, the Installation Information must accompany the Minimal Corresponding Source and Corresponding Application Code. If you use option 4d1, you must provide the Installation Information in the manner specified by section 6 of the GNU GPL for conveying Corresponding Source.) 5. Combined Libraries. You may place library facilities that are a work based on the Library side by side in a single library together with other library facilities that are not Applications and are not covered by this License, and convey such a combined library under terms of your choice, if you do both of the following: a) Accompany the combined library with a copy of the same work based on the Library, uncombined with any other library facilities, conveyed under the terms of this License. b) Give prominent notice with the combined library that part of it is a work based on the Library, and explaining where to find the accompanying uncombined form of the same work. 6. Revised Versions of the GNU Lesser General Public License. The Free Software Foundation may publish revised and/or new versions of the GNU Lesser General Public License from time to time. Such new versions will be similar in spirit to the present version, but may differ in detail to address new problems or concerns. Each version is given a distinguishing version number. If the Library as you received it specifies that a certain numbered version of the GNU Lesser General Public License "or any later version" applies to it, you have the option of following the terms and conditions either of that published version or of any later version published by the Free Software Foundation. If the Library as you received it does not specify a version number of the GNU Lesser General Public License, you may choose any version of the GNU Lesser General Public License ever published by the Free Software Foundation. If the Library as you received it specifies that a proxy can decide whether future versions of the GNU Lesser General Public License shall apply, that proxy's public statement of acceptance of any version is permanent authorization for you to choose that version for the Library.
Latest release: 1.9.10
published 8 months ago

Versions: 46
Dependent Packages: 0
Dependent Repositories: 1
Downloads: 434 Last month

Rankings

Stargazers count: 9.6%

Dependent packages count: 10.1%

Downloads: 10.1%

Forks count: 10.2%

Average: 12.3%

Dependent repos count: 21.6%

Maintainers (1)

OwKal

Last synced: 6 months ago

Dependencies

docs/src/requirements.txt pypi

jupyter *
mock *
myst_parser *
pandoc *
sphinx-markdown-tables *
sphinxcontrib-napoleon *

requirements.txt pypi

aiohttp *
jupyter_server_proxy *
numpy >=1.18

.github/workflows/osmesa_deploy.yaml actions

actions/checkout v2 composite
actions/download-artifact v2 composite
actions/setup-python v2 composite
actions/upload-artifact v2 composite
docker/build-push-action v2 composite
docker/login-action v1 composite
docker/metadata-action v3 composite
docker/setup-buildx-action v1 composite
pypa/gh-action-pypi-publish master composite

.github/workflows/publish.yaml actions

actions/checkout v2 composite
actions/setup-python v2 composite
mymindstorm/setup-emsdk v7 composite
svenstaro/upload-release-action v2 composite

.github/workflows/testing.yaml actions

actions/checkout v2 composite
actions/setup-python v2 composite

.github/workflows/wheel_deploy.yaml actions

actions/checkout v2 composite
actions/checkout master composite
actions/download-artifact v2 composite
actions/setup-python v2 composite
actions/upload-artifact v2 composite
pypa/gh-action-pypi-publish master composite

Dockerfile docker

ubuntu 20.04 build

binder/Dockerfile docker

ghcr.io/lavavu/lavavu 1.8.36 build

pyproject.toml pypi

setup.py pypi