Semi-automatic Stitching of Serial Section Image Stacks with Filamentous Structures -- Supplementary Software

This repo contains the source code of the supplementary research software for the publication

Norbert Lindow, Florian N. Brünig, Vincent J. Dercksen, Gunar Fabig, Robert
Kiewisz, Stefanie Redemann, Thomas Müller-Reichert, Steffen Prohaska.
Semi-automatic Stitching of Serial Section Image Stacks with Filamentous
Structures. ZIB Report 19-30, 2019.

The software was developed at Zuse Institute Berlin (ZIB). It is provided under an MIT-like license. See details in LICENSE.

Binary versions are available at https://www.zib.de/software/serial-section-aligner.

To compile the source code, install Amira with the XPand extension.

In Amira:

• Use XPand / Development Wizard / Set local Amira directory to set the Amira XPand workspace to the toplevel directory of this repo.
• Use XPand / Development Wizard / Create build system to generate GNU Makefiles or Visual Studio project files.

On Linux, prepare the workspace with:

tar -xvf SerialSectionAligner-dev-lib-LinuxAMD64.tar.bz2

Compile with:

MAKE_CFG=Optimize make

On Windows, prepare the workspace with:

tar -xvf SerialSectionAligner-dev-bin-Win64VC12.tar.bz2

Compile in Visual Studio.