essinit.md

@@ -25,7 +25,18 @@ The picture below shows how each section develops the file.
 
 
 # Configuration and GUI
-This script will only produce GUI's if it is missing a necessary piece of information. This means that if you carefully fill out the configuration file then you can run the complete pipeline autonomously. On the other hand if you are not comfortable with the configuration files this file can be run with no configuration and will use GUI's to prompt you for the information as needed. This process is more time consuming but will help you understand what is needed in the configuration, and you can always run a smaller batch first to sort out these details.
+This script will only produce GUI's if it is missing a necessary piece of information. This means that if you carefully fill out the configuration file then you can run the complete pipeline autonomously. On the other hand if you are not comfortable with the configuration files this file can be run with no configuration and will use GUI's to prompt you for the information as needed. This process is more time consuming but will help you understand what is needed in the configuration, and you can always run a smaller batch first to sort out these details. Refer to the table below to plan your script usage.
+
+| Method |          Varibles         |   Run Style  |
+|:------:|:-------------------------:|:-----------:|
+|   ESS  |                           |             |
+|    1   |       ESS and Config      |     Auto    |
+|    2   |       ESS and Manual      | Interactive |
+|    3   | ESS and Config and Manual | Interactive |
+|  OTHER |                           |             |
+|    1   |           Config          |     Auto    |
+|    2   |           Manual          | Interactive |
+|    3   |     Config and Manual     | Interactive |
 
 # Mandatory Variables
 If you want to run this script fully automatic or on a remote cluster you need to ensure that each of the mandatory variables described below are denoted in either the batch config or the ESS capsule metadata.  
@@ -43,7 +54,7 @@ The table below indicates with an **x** the methods in which you can describe ea
 | Variable       |  XML | Config | Manual | Config | Manual | Description                                                                     |
 | loadType       |     |    x   |    x   |    x   |    x   | ESS or OTHER type of study you are loading                                      |
 | modality       |     x  |       |        |    x   |    x   | System used for recording                                                       |
-| oneloc         |        |    x   |    x   |    x   |    x   | 1 if you are using a single montage location file, 0 for subject specific files |
+| oneloc         |  x     |       |      |    x   |    x   | 1 if you are using a single montage location file, 0 for subject specific files |
 | locs_file_name |      x  |       |        |    x   |    x   | Path to montage or naming convention for subject specific files                 |
 | srate          |   x  |       |        |    x   |    x   | Number of data points collected per second                                      |
 | NotEEG_chans   |   x  |       |        |    x   |        | Channel numbers that do not contain EEG data                                    |