Downloads

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Releases

For simplicity, all platforms are supported in a single package. Source code is included in all releases.

Old versions

Webstart, out of date

Developer access

See Setting up a development environment. Johan Henriksson is responsible for the repository, external contributions are welcome.

You can also browse the code online.

License

This software is available under the BSD3 license unless a source file tells something else.

In addition to this license we also ask that any work that makes use of our software also cites us. Contact us for details. We cannot enforce this as per license but consider it the terms of fair use. If the use is particularly heavy we might ask for co-authorship but in that case we will also give our support in form of support and all forms of customization.

Port Status

Mac Fully supported on MacOSX 10.4+ (maybe earlier if you can get a recent java environment working)

Windows: Sometimes tested on virtualized XP. Probably only limited by Sun Java version support, anything above 2k/NT is likely ok. This port lags behind; we need to know if you run into problems. If you run into memory usage problems, read up on javaenv.txt, added in 2.12.0. Support for AMD 64-bit added in 2.14.

Linux: Both 32-bit & 64-bit should work, as well as PowerPC (IBM java).

Other: Solaris might work, see README.txt in libs/solaris. BSD might work now as well but untested. We rely on other people supplying the required JNI-libraries for other platforms; the main source code itself will probably run out of the box once these are in place.

Example data

Datasets for testing algorithms

C.elegans 2008.2 , map of C.elegans development. Coordinates only. 3.3mb. This is in our OST-format.

The ImageJ example images, mostly 2D

From Broad Institute

For OsirisX

AceTree has some nuclei coordinates of a C.elegans embryo. We provide the data with the small modification that allows it to be loaded. (you need to hit the center button in the model view to see anything; also note current frame)


Old sets, not really to be used

[1]C.elegans embryo, DIC and fluoresence (non-confocal) over time. 90mb.

[2]Some neuron. Suitable for 3d rendering. 0.5mb.

[3]MRI of brain. Suitable for 3d rendering. 3.5mb. Converted from here.

Known Bugs

  • On my Mac with nvidia 7300, clipping planes do not work with 3D texture voxel stacks because of a buggy implementation of OpenGL shaders. Workaround pending, use 2D textures until then.
  • Do not install Endrov in a path that contains spaces or funny characters. Some parts might not work (such as Delaunay).
  • There has been font graphics problems with OpenJDK


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