• Download and run the Windows installer from the release page. Note: Windows might prompt you with a security warning, to proceed you must press "More info" followed by "Run anyway".
• Run fastpathology from your start menu.
• To uninstall the application, go to start menu -> remove programs -> find fastpathology and select uninstall. Optionally you can also delete your C:/Users/"your username"/fastpathology/ which includes stored project results, pipelines, and models. And the folder C:/ProgramData/FAST/ which contains a cache.

• Install OpenCL for Linux by downloading an implementation depending on the CPU/GPU you have:
  • NVIDIA - Install CUDA.
  • Intel - Install the OpenCL NEO driver.
  • AMD - Install the ROCm stack.
  • If none of the above fits, you can try the Portable Computing Lanauge (PCOL), although reduced performance is likely.

• Download the debian package from the release page.
• Install the debian package from the terminal or by double-clicking it:

sudo dpkg -i fastpathology_ubuntu*.deb

• Go to the folder /opt/fastpathology/bin/ and run the fastpathology executable, or run it from the ubuntu menu (windows button->type fastpathology).
• To uninstall the application, run the following in your terminal:

sudo apt remove fastpathology
# Optionally, you can also delete your fastpathology folder 
# which includes stored project results, pipelines and models.
# and the FAST folder which stores cache files.
rm -Rf $HOME/fastpathology
rm -Rf $HOME/FAST

Note that the macOS version of FastPathology is experimental.

• Install homebrew if you don't already have it. Then, install the following packages using homebrew:

brew install openslide libomp

• Download and run the macOS installer (.dmg) from the release page. Download the x86_64 file if you have an Intel CPU, or download the arm64 file if you have an Apple Silicon (M1/M2) CPU.
• In the installer, drag-and-drop the FastPathology bundle to the Applications directory.
• When the copy is finished, double-click the Applications icon in the installer and right-click + open FastPathology from the Applications menu.
• A warning should be prompted "macOS cannot verify the developer of FastPathology (...)", click open and the program should launch.

Note: This is only required to be done once. For all future usage, launch FastPathology as a regular App bundle.

• To uninstall the application, delete the extracted folder. Optionally, you can also delete the /Users/"your username"/fastpathology/ folder, which includes stored project results, pipelines, and models. And the folder /Users/"your username"/FAST/ which contains a cache.

If you have an NVIDIA GPU on your machine you can enable high-speed inference by downloading and installing the following:

• CUDA 11
• cuDNN 8.2
• TensorRT 8.2

Note: Make sure to download the correct versions. NVIDIA GPU inference is not supported on Mac.

1. Either
   • Download and install a release of FAST.
   • Compile and install FAST on your system.
2. Clone this repository

   git clone https://github.com/SINTEFMedtek/FAST-Pathology.git

3. Setup build environment using CMake
   Linux (Ubuntu)

   mkdir build
   cd build
   cmake .. -DFAST_DIR=/path/to/FAST/cmake/

   Windows (Visual Studio) Modify generator -G string to match your Visual studio version. This command will create a visual studio solution in your build folder.

   mkdir build
   cd build
   cmake .. -DFAST_DIR=C:\path\to\FAST\cmake\ -G "Visual Studio 16 2019" -A x64

4. Build

   cmake --build . --config Release --target fastpathology

5. Run Linux (Ubuntu)

   ./fastpathology

   Windows

   cd Release
   fastpathology.exe

NOTE: Visual Studio 19 has been tested with both FAST and FastPathology and works well.