install

You need c++ compiler, git, cmake. Works under linux and mac osx. For Windows ... (it's a joke?).

Main dependencies are: ODB, ITK, DCMTK, Ceres-solver, Boost.

Install ODB

• For object-oriented database management : "ODB is an object-relational mapping (ORM) system for C++. It provides tools, APIs, and library support that allow you to persist C++ objects to a relational database (RDBMS) without having to deal with tables, columns, or SQL and without manually writing any of the mapping code."
• See http://www.codesynthesis.com/products/odb
• Work with version >= 2.4.0
• Need 3 parts to be installed: 1) odb compiler 2) libodb and 3) libodb-sqlite
• for Mac osx, use homebrew https://github.com/Max13/homebrew-odb
• brew tap max13/odb
• brew install odb
• brew install libodb
• brew link --overwrite libodb
• brew install libodb-sqlite
• brew link --overwrite libodb-sqlite

Install ITK

• For image processing
• See www.itk.org
• Work with version >= 4.5.2
• (Make sure you use BUILD_SHARED_LIBS=ON)
• because c++11 is needed for syd, you need to compile ITK also with c++11. Use:ccmake -DCMAKE_CXX_FLAGS=-std=c++11 ../InsightToolkit-4.8.0. Note that this option must be set before any ccmake.
• You may want to set the env variable: export ITK_DIR=/my_path/build-itk

Install DCMTK

• For Dicom processing
• See http://dicom.offis.de/dcmtk.php.en
• Work with version >= 3.6.0
• DCMTK 3.6.0, latest public version may not compile with latest version of gcc installed in your system. Please consider using newer shapshot of DCMTK.
• You need to activate BUILD_SHARED_LIBS=ON , consider using CMake instead of the recommended './configure' file

Install Boost (devel)

• Extended C++ library
• Version ?

Install Ceres-solver

• For fit and optimisation
• Version ?

Download and compile the source

• git clone https://github.com/OpenSyd/syd.git
• mkdir build ; cd build
• ccmake ../syd Provide ITK_DIR, and other path to dependence libraries, then type 'c' and 'g' to configure and generate makefiles)
• make -j 4
• Optional: make test

Once compiled, the libraries are in build/lib and the executable in build/bin. You need to set the environment variable SYD_PLUGIN to point to the libraries, for example:

export SYD_PLUGIN=/my_path/build/lib:${SYD_PLUGIN}