Installation instructions

System requirements:
  • 64-bit Windows 7, 8 or 10
  • A relatively recent NVIDIA graphics card, for example a GeForce GTX 900 or 1000 Series card.
    Technically, for DenoisEM to use the GPU the NVIDIA graphics card needs to have Compute Capability 3.0.
    However, the plugin will automatically fall back to (slower) parallel computation on the CPU if no supported GPU is present.
Prerequisites installation:
  1. The DenoisEM plugin runs inside ImageJ. We recommend the Fiji distribution, which comes with many additional useful plugins. You can either use your existing ImageJ/Fiji installation or start from a clean environment.
  2. The DenoisEM plugin needs GtkSharp 2.12.12 or higher. You can find the installer here.
  3. The Microsoft Visual C++ 2015 redistributables must be installed. You can find the installer here.
  4. When an NVIDIA graphics card is present, make sure the NVIDIA driver is installed. If it is installed, there normally is a green "NVIDIA Settings" icon in the System Tray of the Windows task bar. If the NVIDIA driver is not installed, it can be downloaded from here.
  5. The NVIDIA CUDA driver must be installed.
  6. The .Net framework 4.5 needs to be present. This is included automatically in your Windows installation.
DenoisEM installation:
  1. Save both JavaQuasarBridge-1.1.0.jar and DenoisEM-1.1.0.jar into the plugins folder of ImageJ/Fiji.
    For Fiji this folder is called "Fiji.app\plugins".
  2. Save Quasar.zip in the root folder of ImageJ or Fiji ("Fiji.app").
    Then unzip Quasar.zip, making sure to create the Quasar subfolder in the process.
    (For example, uzing 7-zip, right click Quasar.zip and select "Extract to Quasar\")
  3. For Fiji, this results in the following directory layout:
    Fiji.app\plugins\DenoisEM-1.1.0.jar
    Fiji.app\plugins\JavaQuasarBridge-1.1.0.jar
    Fiji.app\plugins\...many more files.
    Fiji.app\Quasar\OS_Runtimes\...several files...
    Fiji.app\Quasar\Quasar.Runtime.config.xml
    Fiji.app\Quasar\...many more files...
  4. Edit Quasar\Quasar.Runtime.config.xml so DLL_SEARCHPATH64 points to the folder where GtkSharp was installed. This is not needed if you accepted the default installation folder for GtkSharp.