Hi Leoncio,
The current version of FLIMJ does not currently support a batch mode.
Unfortunately, trying to use the macro recorder will only produce a useless
macro to start FLIMJ, but not one that could be used to script its function.
There are two main ways to do batch processing using Fiji and FLIMLib:
1. Use flimj-ops: FLIMJ uses flimj-ops and FLIMLib to perform the fitting. You
can use flimj-ops directly in a Fiji script to perform batch processing on your
data.
a. Here's the flimj-ops GitHub repository:
https://github.com/flimlib/flimj-ops
b. Here's a link to the flimj-ops notebooks where you can see how to use it
in a script for fitting data:
https://github.com/flimlib/flimj-ops/tree/master/notebooks
2. Use SciJava Ops: We recently published our new image processing/algorithm
framework where you can use the same FLIMLib library that FLIMJ uses to fit
your data.
a. Here's a link to our FLIM analysis use case using SciJava Ops and Fiji:
https://ops.scijava.org/en/latest/examples/flim_analysis.html
I hope that helps. Please let me know if you have any other questions.
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