# HG changeset patch
# User tduigou
# Date 1754570153 0
# Node ID bce1347453ee2f3de233ae795e439fcf1deabb91
# Parent  9f35d1450906e045be1ca4cb2222b5d5f1386145
planemo upload for repository https://github.com/Edinburgh-Genome-Foundry/Plateo commit ed922f834f891e6048385803c3004465551c911d-dirty

diff -r 9f35d1450906 -r bce1347453ee create_assembly_picklists.xml
--- a/create_assembly_picklists.xml	Thu Aug 07 12:26:04 2025 +0000
+++ b/create_assembly_picklists.xml	Thu Aug 07 12:35:53 2025 +0000
@@ -323,29 +323,43 @@
         </test>
     </tests>
     
-    <help><![CDATA[
+<help><![CDATA[
 create_assembly_picklists
 =========================
 
 Provide a source plate map and an assembly plan, get a robotic picklist spreadsheet for Tecan EVO or Labcyte Echo.
-`Read more... <https://github.com/Edinburgh-Genome-Foundry/Plateo/blob/master/README.rst>`_ 
+
+`Read more... <https://github.com/Edinburgh-Genome-Foundry/Plateo/blob/master/README.rst>`_
+
+**Advanced parameters:**
+------------------------
 
-**Advance parameter**:
----------------------
-* **Backbone Name(s)**: It can be one backbone or more than one (one name by line)
-* **Backbone Molar Ratio**: between 0.0 and 1.0
-This section is to multiplie the backbone concentration with the part:backbone molar ratio. This tricks the calculator into making a picklist with the desired ratio. For example, a part:backbone = 2:1 will multiply the backbone concentration by 2, therefore half as much of it will be added to the well.
-**If Part quantity unit is ng**: Backbone Molar Ratio calculation is not performed in this case.
+- **Backbone Name(s):** It can be one backbone or more than one (one name per line).
+- **Backbone Molar Ratio:** Between 0.0 and 1.0. This multiplies the backbone concentration with the part:backbone molar ratio.
+  For example, a part:backbone = 2:1 will multiply the backbone concentration by 2, so half as much of it will be added.
+  **Note:** If the part quantity unit is ng, this calculation is not performed.
+
+**Mode:**
+---------
+
+This option allows you to choose how the tool runs:
 
-**Mode**:
----------
-    This option allows you to choose the mode in which the tool will be executed:
-        * **Standard**: Runs the tool as a standalone application.
-        * **DEMO**: Runs the tool as a standalone application with default parameters adapted to the demo dataset:
-            - GenBank File(s): `Download... <https://files.osf.io/v1/resources/x2sj3/providers/osfstorage/689496483e21964670f62efc/?zip=>`_ NOTE: make files as collection list (`How to make collection <https://training.galaxyproject.org/training-material/topics/galaxy-interface/tutorials/collections/tutorial.html>`_)
-            - Assembly Plan (csv or excel): `Download... <https://osf.io/download/6894965a96fb8cc5376b0c92/>`_ 
-            - Source Plate (excel): `Download... <https://osf.io/download/6894965b7d01c1cf281b52d3/>`_ 
-        ]]></help>
+- **Standard**: Runs the tool as a standalone application.
+- **DEMO**: Runs the tool with demo data.
+
+Demo data:
+
+- **GenBank File(s):** `Download GenBank files <https://files.osf.io/v1/resources/x2sj3/providers/osfstorage/689496483e21964670f62efc/?zip=>`_
+  
+  **Note:** Make files as a collection list.  
+  `How to make collection <https://training.galaxyproject.org/training-material/topics/galaxy-interface/tutorials/collections/tutorial.html>`_
+
+- **Assembly Plan (CSV or Excel):** `Download Assembly Plan <https://osf.io/download/6894965a96fb8cc5376b0c92/>`_
+
+- **Source Plate (Excel):** `Download Source Plate <https://osf.io/download/6894965b7d01c1cf281b52d3/>`_
+]]></help>
+
+
     <citations>
         <citation type="bibtex">
             @unpublished{create_assembly_picklists