For the in-line characterization of optical properties of the materials (such as absorbance, fluorescence, or chemiluminescence), we used a multiwell plate reader that also has a cuvette port that can hold a flow-through cuvette. Here, we encountered another problem with automating measurements: while the device has an API that allows querying the hardware status and starting measurements, all acquisition parameters are stored in separate protocol files and cannot be set via the API. These protocol files follow a proprietary and undocumented file format, for which the device manufacturer could not supply any automatable file editing or conversion software or even just the raw file format specifications. Instead of following the same approach as outlined above for the DLS/Zeta hardware and automating the generation of the protocol files via emulated user inputs in the proprietary software, we carefully studied exemplary protocols manually generated for different acquisition parameters. This way, we were able to write our own Python code for automatically generating similar protocol files in which the most relevant acquisition parameters could be freely specified (measurement mode, well positions, excitation and emission wavelengths, etc.). This gave us the necessary flexibility for incorporating the device in our SDL for the characterization of arbitrary samples and for use in closed-loop processes, without having to resort to emulated keyboard or mouse inputs. While this makes the process more robust, the approach is still somewhat vulnerable towards the file format specifications changing in future releases of the proprietary software and also carries some risks associated with parameters not being correctly set or identified. However, in our tests, this method gave us the expected results.