When flowtrace is run, you are presented with the following options: Place flowtrace_.ijm into the installation directory.
#FIJI IMAGEJ INSTALL#
Open Fiji and go to Plugins > Install Plugin, and then select flowtrace_.ijm from the file list when prompted.įind your installation directory, it is likely somewhere like Program Files (x86)/Fiji.app Place flowtrace_.ijm into Applications/Fiji Rename the file flowtrace.ijm to flowtrace_.ijm (it needs to have a name containing an underscore because of the way that Fiji checks for packages). Go to Applications/Fiji, right-click the icon, and select “Show package contents”). Manually drag flowtrace.ijm into the folder ImageJ/macros (located in the installation directory of ImageJ),.If you find yourself using flowtrace on a regular basis, you may want to install it as a permanent macro in Fiji or ImageJ’s plugins menu. Now follow the prompt to choose a directory into which to save the output images. The remaining options are described in greater detail below. The larger this number, the longer the resulting pathlines (for best performance, this should be as large as possible while still smaller than the number of frames over which the unsteady flow noticeably changes). You will be presented with a list of options for running the toolįor “Number of frames to merge,” select the number of frames that should be used to make each pathline. Navigate to the folder into which you downloaded the tool and double click on it.
In order to run the tool without installing, go to Plugins > Macros > Run Open a folder containing an image time series as a stack or virtual stack
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