CarnaPy

The aim of this package is to provide real-time 3D visualization in Python for specifically, but not limited to, biomedical data. The library is based on Carna.

See examples/kalinin2018.ipynb for an example.

Limitations
Dependencies
Installation
Build instructions

1. Limitations

Only 8bit and 16bit volume data are supported at the moment.
DRR renderings are not exposed to Python yet.
Build process is currently limited to Linux-based systems.

2. Dependencies

Using the library requires the following dependencies:

numpy ≥ 1.16
EGL driver support
OpenGL 3.3
Python ≥ 3.7

The following dependencies must be satisfied for the build process:

Carna ≥ 3.1
Eigen ≥ 3.0.5
libboost-iostreams
pybind11
EGL development files

In addition, the following dependencies are required to run the test suite:

3. Installation

The easiest way to install and use the library is to use one of the binary Conda packages:

conda install -c kostrykin carnapy

Conda packages are available for Python 3.7–3.9.

4. Build instructions

Assuming you are using a recent version of Ubuntu:

sudo apt-get -qq install libegl1-mesa-dev libboost-iostreams-dev

Create and activate a Conda environment to work in, then:

conda install -c conda-forge pybind11

Grab a recent version of Eigen, unpack it, and tell CMake where it is located:

wget https://gitlab.com/libeigen/eigen/-/archive/3.2.10/eigen-3.2.10.tar.gz
tar -vzxf eigen-3.2.10.tar.gz -C /tmp/
export CMAKE_PREFIX_PATH="/tmp/eigen-3.2.10:$CMAKE_PREFIX_PATH"

If you have not already, download, build, and install Carna:

git clone git@github.com:kostrykin/Carna.git build_carna
cd build_carna
sh linux_build.sh

Now it is time to build, package, and install CarnaPy:

cd ..
python setup.py build
python setup.py install

Metadata

Release files for CarnaPy 0.1.6

For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.

Source distribution (sdist)

Source distribution for CarnaPy 0.1.6
File	Size	Uploaded
CarnaPy-0.1.6.tar.gz	741.3 kB	Jun 24, 2021	Details

Release files / CarnaPy-0.1.6.tar.gz

Download URL	CarnaPy-0.1.6.tar.gz
Size	741.3 kB
Tags	Source
SHA-256 checksum How to use checksums	`3d252815bf48c575d9a6cf9e4614e32c2ff60ad466442056d9650a79fbc9f85d`
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Upload date	Jun 24, 2021
Uploaded using Trusted Publishing? What is trusted publishing?	No
Uploaded via	`twine/3.4.1 importlib_metadata/4.5.0 pkginfo/1.6.0 requests/2.24.0 requests-toolbelt/0.9.1 tqdm/4.50.2 CPython/3.8.5`