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README_configuration.md

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# Configuration
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Launch the configuration module and GUI (ConfigWindow.py) from the Main window by selecting/editing a configuration file
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or creating a new one. This file will be instrument-suite-specific, and is also deployment-specific according to which
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factory calibration files are needed, as well as how the instrument was configured on the platform or ship.
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Some cruises (e.g. moving between significantly different water types) may also require multiple configurations to
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obtain the highest quality ocean color products at Level 2. Sharp gradients in environmental conditions could also
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warrant multiple configurations for the same cruise (e.g. sharp changes in air temperature may effect how data
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deglitching is parameterized, as described [below](README_deglitching.md)).
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Launch the configuration window from the Main window by selecting/editting a configuration file
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or creating a new one. This configuration is sensor/platform specific and deployment-specific according to which
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factory calibration files are needed, as well as how the instrument was configured on the platform.
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The configuration window looks like this:
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The configuration window should look like this:
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<center><img src="Data/Img/Configuration_window.png" alt="banner"></center>
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## Calibration & Instrument Files
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# Contents
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### [Calibration/Instrument Setup](#calibration-and-instrument-files)
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### [Level 0](#level-0-raw-files)
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### [Level 1A](#level-1a)
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### [Level 1AQC](#level-1aqc)
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### [Level 1B](#level-1b)
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### [Level 1BQC](#level-1bqc)
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### [Level 2](#level-2)
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### [SeaBASS/OCDB Output](#1-seabassocdb-file-and-header)
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### [PDF Reports](#2-pdf-reports)
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## Calibration and Instrument Files
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***NOTE: IT IS IMPORTANT THAT THESE INSTRUCTIONS FOR SELECTING AND ACTIVATING CALIBRATION AND INSTRUMENT FILES ARE
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FOLLOWED CAREFULLY OR PROCESSING WILL FAIL***
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document to see recommended QC screening in the frame of [FRM4SOC-2](https://frm4soc2.eumetsat.int/).
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## L2 Processing
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## Level 2 Processing
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Data are averaged within optional time interval ensembles prior to calculating the remote sensing
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reflectance within each ensemble. A typical field collection file for the SunTracker is one hour, and the

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