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ChangeLog

v2.0.0

  • Set CMake policy CMP0079.
  • Use swig_add_library instead of swig_add_module.
  • Averaging of rigid transformation matrices via quaternions (and therefore a quaternion class).
  • Arrays of SIRF objects can be passed from the Python and Matlab interfaces to the C++ level (e.g., averaging a large number of matrices) via the DataHandleVector class. This is an internal class that should not be used. Simply pass a native array of objects and SIRF will convert to the DataHandleVector class if necessary.
  • Image data role checks in MRAcquisitionModel introduced.
  • Corrected ISMRMRD acquisition sorting.
  • Added PhysioInterpolationGadget and FatWaterGadget to SIRF gadgets library.
  • Wrapping of NiftyReg to allow registration/resampling in SIRF.
  • Implemented new ImageData hierarchy common to PET and MR. ImageData contain geometrical info.
  • MR/Gadgetron
    • Added default constructor and set_up to MRAcquisitionModel
    • Implemented sorting of MR images
    • Implemented reading of MR acquisition data from ISMRMRD file
  • PET/STIR
    • projectors can now handle subsets (although with a somewhat ugly work-around)
    • added FBP2D, SSRB and the Parallel Level Sets prior
    • added TOF bins dimension to PETAcquisitionData (still fixed to have size 1)
  • C++ changes
    • Removed using statements from the C++ header files
    • Created namespace sirf
    • include files are now moved to subdirectories (such as include/sirf/common).
    • Modified ObjectHandle type so that it can handle both std::shared_ptr and boost::shared_ptr.
  • Python/MATLAB:
    • petmr_data_path is now obsolete. Use examples_data_path instead.
  • Python:
    • everything is now in a sirf module. Use for instance import sirf.Gadgetron
  • Matlab:
    • in keeping with changes to c++ and python, classes are now called with e.g., sirf.STIR.obj instead of mSTIR.obj. Aliases can be used to shorten this (e.g., PET=set_up_PET() and then PET.obj).
  • CMake:
    • Updated minimum required version of CMake to 3.9.0.

v1.1.0

  • Various bug fixes and corrections
  • BUILD_STIR_WITH_OPENMP is now ON by default
  • Gadgetron data processors check for Gadgetron server crash
  • More data files in SIRF/data/examples/MR
  • Grayscale plotting enabled

v1.1.0-rc.1

  • Created a python sirf package (recommended way of importing)
    • aliased p(Gadgetron|STIR|Utilities) -> sirf.(Gadgetron|STIR|Utilities)
    • added setup.py
    • exposed cmake variable PYTHON_STRATEGY. Options:
      • PYTHONPATH: prefix $PYTHONPATH (default)
      • SETUP_PY: execute ${PYTHON_EXECUTABLE} setup.py install
      • CONDA: do nothing
  • Added PYTHON_DEST_DIR variable, which allows the user to select the install destination of the SIRF python modules. PYTHON_DEST_DIR is a cached variable which can be updated on the GUI. If PYTHON_DEST_DIR is not set, we will install in ${CMAKE_INSTALL_PREFIX}/python. Likewise for MATLAB_DEST_DIR.
  • Some improvements to the demos. Note that PET reconstruction demos have somewhat different parameters.
  • Implemented PLS Prior
  • Implemented 2D Filtered Back Projection

v1.0.0

  • Access to all MR images and acquisition parameters
  • All 8 file IO available (PET: Interfile, MR: HDF5)
  • PET
    • PETAcquisitionData object creation from scanner name and parameters
    • ListmodeToSinograms converter class, also estimating randoms (from delayed coincidences)
    • Normalization from ECAT8 (Siemens mMR) and attenuation image
    • Build with OpenMP delivers stable and substantially accelerated performance
  • More documentation
    • Developer's Guide
    • Doxygen inline documentation (available on CCP PETMR website)
  • More tests (now run via CTest), for Python, Matlab and C++.
  • Coverage reporting for Python tests done by ctest

v0.9.2

  • fixed version number and avoid confusing with wrong tag v0.9.1

v0.9.1

  • PET data algebra implemented
  • Storage scheme (file/memory) management for acquisition data implemented
  • Using single precision float Matlab and Python arrays now
  • Argument validity checks introduced
  • Consistent naming scheme for libraries and modules adopted
  • Matlab tests added
  • User Guide Appendix on advanced features added
    • Storage scheme management
    • Programming Gadgetron chains
  • Specific versions of dependencies (ISMRMRD, Gadgetron, STIR, SIRF) in SuperBuild
  • SuperBuild update for Virtual Machine

v0.9.0

  • first release