CODE_OF_CONDUCT.md

@@ -0,0 +1,50 @@
+# Data Use Terms
+
+CALM-Brain is distributed to the greater scientific community by the
+CBM-ADBS study under the following terms:
+
+1.  You agree not to attempt to establish the identity of or to make
+    contact with any of the included human participants. This
+    prohibition includes, but is not limited to, the use of facial
+    recognition and 3D facial rendering technologies.
+
+2.  You agree to acknowledge the use of the CALM-Brain resource and any
+    data derived from it in all public presentations of results or
+    algorithms that benefited from their use. This includes:
+
+    -   Acknowledgments: \"Data was provided \[in part\] by CALM-Brain
+        \[insert appropriate release version\]. Data in the CALM-Brain
+        resouce was collected by CBM-ADBS study."
+    -   Citation: Until a journal article is available for the resource,
+        please cite the below reference.
+
+    ``` text
+    Viswanath, B., Rao, N.P., Narayanaswamy, J.C. et al. Discovery biology
+    of neuropsychiatric syndromes (DBNS): a center for integrating clinical
+    medicine and basic science. BMC Psychiatry 18, 106 (2018). doi:
+    https://doi.org/10.1186/s12888-018-1674-2.
+    ```
+
+3.  You agree to provide the Center for Brain and Mind with information
+    about your use of the CALM-Brain resource upon request.
+
+4.  You acknowledge that failure to comply with these data use terms may
+    result in the termination of your right to access and use the
+    CALM-Brain resource.
+
+## Who Can Obtain Access?
+
+Anyone with a scientific usecase can request for access. The resource is
+divided into different zones and the access request should mention the
+zones of interest. Lower zones have a strict vetting process and require
+a detailed statement.
+
+-   Zone 1: Contains raw data collected. Access requests to this is not
+    possible.
+-   Zone 2: Contains pre-release data. Comes with compute resources to
+    perform local analysis via access to the server that hosts the data.
+-   Zone 3: Contains anonymized and stable release.
+-   Zone 4: Contains the resource index and is openly accessible. You
+    can try it out [here](https://calm-brain.ncbs.res.in/search/).
+
+All CALM-Brain data use is governed by these data use terms.

CODE_OF_CONDUCT.rst

@@ -1,58 +0,0 @@
-Data Use Terms
-==============
-
-
-CALM-Brain is distributed to the greater scientific community by the
-CBM-ADBS study under the following terms:
-
-#. You agree not to attempt to establish the identity of or to make
-   contact with any of the included human participants. This
-   prohibition includes, but is not limited to, the use of facial
-   recognition and 3D facial rendering technologies.
-   
-#. You agree to acknowledge the use of the CALM-Brain resource and any
-   data derived from it in all public presentations of results or
-   algorithms that benefited from their use. This includes:
-   
-   * Acknowledgments: "Data was provided [in part] by CALM-Brain
-     [insert appropriate release version]. Data in the CALM-Brain
-     resouce was collected by CBM-ADBS study.”
-
-   * Citation: Until a journal article is available for the resource,
-     please cite the below reference.
-
-   .. code-block:: text
-		   
-		   Viswanath, B., Rao, N.P., Narayanaswamy, J.C. et al. Discovery biology
-		   of neuropsychiatric syndromes (DBNS): a center for integrating clinical
-		   medicine and basic science. BMC Psychiatry 18, 106 (2018). doi:
-		   https://doi.org/10.1186/s12888-018-1674-2.
-		    
-#. You agree to provide the Center for Brain and Mind with information
-   about your use of the CALM-Brain resource upon request.
-   
-#. You acknowledge that failure to comply with these data use terms
-   may result in the termination of your right to access and use the
-   CALM-Brain resource.
-   
-   
-Who Can Obtain Access?
-----------------------
-
-Anyone with a scientific usecase can request for access. The resource
-is divided into different zones and the access request should mention
-the zones of interest. Lower zones have a strict vetting process and
-require a detailed statement.
-
-* Zone 1: Contains raw data collected. Access requests to this is not
-  possible.
-
-* Zone 2: Contains pre-release data. Comes with compute resources to
-  perform local analysis via access to the server that hosts the data.
-
-* Zone 3: Contains anonymized and stable release.
-
-* Zone 4: Contains the resource index and is openly accessible. You
-  can try it out `here <https://www.calm-brain.ncbs.res.in/search/>`_.
-	
-All CALM-Brain data use is governed by these data use terms.

tutorials/README.md

@@ -5,8 +5,8 @@ simple analysis and visualization using the CALM-Brain resource. The
 examples lack a narrative explanation but are well-commented with
 appropriate variable names to make the it self-explanatory. In case
 you haven't already, please checkout the [user
-guide](/wiki/Home). These examples are a way to get familiar with
-using [almirah](https://girishmm.github.io/almirah/) and the
+guide](../../..//wiki/Home). These examples are a way to get familiar
+with using [almirah](https://girishmm.github.io/almirah/) and the
 CALM-Brain resource. The sole purpose of these tutorials is to
 acquaint the user with the components of the resource and not provide
 data related insights.

tutorials/modality/importing-eyetrack-with-mne.md

@@ -47,20 +47,19 @@ raw
 <details open>
     <summary><strong>General</strong></summary>
     <table class="table table-hover table-striped table-sm table-responsive small">
-        <tr>
-            <th>Measurement date</th>
-            <td>January 01, 2009  00:03:33 GMT</td>
-        </tr>
-        <tr>
-            <th>Experimenter</th>
-            <td>Unknown</td>
-        </tr>
-        <tr>
-            <th>Participant</th>
-            <td>Unknown</td>
-        </tr>
+	<tr>
+	    <th>Measurement date</th>
+	    <td>January 01, 2009  00:03:33 GMT</td>
+	</tr>
+	<tr>
+	    <th>Experimenter</th>
+	    <td>Unknown</td>
+	</tr>
+	<tr>
+	    <th>Participant</th>
+	    <td>Unknown</td>
+	</tr>
     </table>
-    </summary>
 </details>
 <details open>
     <summary><strong>Channels</strong></summary>
@@ -86,7 +85,6 @@ raw
 	    <td>Not available</td>
 	</tr>
     </table>
-    </summary>
 </details>
 <details open>
     <summary><strong>Data</strong></summary>
@@ -112,7 +110,6 @@ raw
 	    <td>00:01:11 (HH:MM:SS)</td>
 	</tr>
     </table>
-    </summary>
 </details>
 
 ```python

tutorials/modality/processing-eeg-with-mne.md

@@ -56,20 +56,19 @@ raw.info
 <details open>
     <summary><strong>General</strong></summary>
     <table class="table table-hover table-striped table-sm table-responsive small">
-        <tr>
-            <th>Measurement date</th>
-            <td>Unknown</td>
-        </tr>
-        <tr>
-            <th>Experimenter</th>
-            <td>Unknown</td>
-        </tr>
-        <tr>
-            <th>Participant</th>
-            <td>Unknown</td>
-        </tr>
+	<tr>
+	    <th>Measurement date</th>
+	    <td>Unknown</td>
+	</tr>
+	<tr>
+	    <th>Experimenter</th>
+	    <td>Unknown</td>
+	</tr>
+	<tr>
+	    <th>Participant</th>
+	    <td>Unknown</td>
+	</tr>
     </table>
-    </summary>
 </details>
 <details open>
     <summary><strong>Channels</strong></summary>
@@ -95,7 +94,6 @@ raw.info
 	    <td>Not available</td>
 	</tr>
     </table>
-    </summary>
 </details>
 <details open>
     <summary><strong>Data</strong></summary>
@@ -113,7 +111,6 @@ raw.info
 	    <td>500.00 Hz</td>
 	</tr>
     </table>
-    </summary>
 </details>
 
 # Preprocessing