For molecular modelers, organizing and managing large, complex molecular systems can be time-consuming and challenging. SAMSON’s integrative molecular design platform offers a highly efficient way to manage model elements using note attributes. These attributes are especially useful for highlighting key components, controlling visibility, or flagging important nodes in your molecular model for easier identification and analysis.
An Introduction to Note Attributes
In SAMSON, note attributes are part of the note attribute space, which uses the short name nt. They apply specifically to note nodes and inherit several properties from the general node attribute space.
With note attributes, you can define whether a note node is hidden, visible, selected, or flagged for selection or visibility changes. These small yet powerful properties greatly enhance your ability to manage and customize the elements of your model.
Key Note Attributes
Let’s go through some of the main note attributes and explore how they can simplify your modeling experience:
| Attribute Name | Short Name | Possible Values | Examples |
|---|---|---|---|
| hidden | h |
true, false |
nt.h, not nt.h |
| name | n |
Strings (in quotes) | nt.n "Label A", nt.n "L*" |
| selected | (no short name) | true, false |
nt.selected, not nt.selected |
| selectionFlag | sf |
true, false |
nt.sf false, nt.sf |
| visibilityFlag | vf |
true, false |
nt.vf false, nt.vf |
| visible | v |
true, false |
nt.v, not nt.v |
Practical Applications of Note Attributes
Here are just a few examples of how note attributes can streamline your modeling tasks in SAMSON:
- Hide notes for clarity: Use the
hiddenattribute (nt.h) to temporarily remove visual clutter when a note is not immediately relevant. - Tag and filter components: Apply the
nameattribute (nt.n) with custom strings to label key nodes. For instance, you might tag all hydrogen bond-related nodes with"H-bond". - Control visibility: The
visibleattribute (nt.v) and thevisibilityFlag(nt.vf) let you toggle visibility depending on your workflow needs. - Focus on selected nodes: Implement
selectedandselectionFlagfor isolating critical nodes that are pertinent to your current analysis.
Conclusion
Note attributes provide a robust, flexible way to structure and organize your molecular models in SAMSON. By leveraging these features, molecular modelers can improve productivity, maintain clarity in their designs, and focus on what truly matters: the science itself.
Want to explore these features in more detail? Check out the official documentation.
SAMSON and all SAMSON Extensions are free for non-commercial use. Get SAMSON at www.samson-connect.net.