tutorial-creating-config-files.md

@@ -20,7 +20,7 @@ Saving now will give you a template if you want to edit the file with a text edi
 
 Each field is documented in [configuration files](configuration-files) as well as more details on using the GUI. You may also click the fields in order to get the field description.
 
-## Bandpass Configuration
+## Bandpass Configuration (Local)
 Remember the fields we needed to set for Bandpass
 
 * in_path - input directory
@@ -40,13 +40,36 @@ Leave the `exec_func` as `ef_current_base` for now and set the `replace_string`
 ```
 
 * Set order to `1` because we have no dependencies for this job and it needs a label.
-* Set session_init to `config/matlab.sesinit`
 * Set m_init to `config/matlab.minit`
 
 **Note**: With property grid like this GUI you need to click off the field you are writing in in order for the changes to take effect. Simply click another field name for example.
 
 Save as `config/c01_bandpass.cfg`
 
+## Amica Configuration (Local)
+Remember the fields we needed for Amica
+* dep_path - path to the Amica binary
+* amica_ver - Amica binary name
+* in_path - Path to input files
+
+Note that out_path is not set here, that is because it has to be in the param file that was generated by the Bandpass step
+
+Like in the Bandpass configuration set the fields above in the replace_string[1]
+```
+[dep_path],dependencies/eeglab/plugins/amica
+[amica_ver],amica15
+[in_path],data/2_preproc
+```
+Set order as `[2 1]`
+
+Save as `config/c02_amica.cfg`
+
+and
+
+Save as `config/c03_amica.cfg`
+
+These two config files are the same but may need to be different in the future. Perhaps if we wanted to use param files for each.
+
 # Context Configuration Files
 
 For local jobs we only need to set one field for our pipeline