VIDA
User Manual

Release version 3.0
23 May 2007

OpenEye Scientific Software, Inc.

3600 Cerrillos Road, Suite 1107
Santa Fe, NM 87507
www.eyesopen.com
support@eyesopen.com

Front Matter
Contents
1. Introduction
- 1.1 History
- 1.2 OpenEye Toolkits
2. Installation
- 2.1 Microsoft Windows
- 2.2 UNIX/Linux
- 2.3 Mac OS X
  - 2.3.1 Platform differences
  - 2.3.2 Launching from the command line
- 2.4 Licenses
3. Getting Started
- 3.1 General Concepts
- 3.2 Scope
- 3.3 Layout
  - 3.3.1 Main Windows
  - 3.3.2 Peripheral Windows
- 3.4 Undo/Redo
4. File I/O
- 4.1 Opening Files
- 4.2 Closing Files
- 4.3 Saving Files
- 4.4 Importing Files
- 4.5 Exporting Files
- 4.6 Drag and Drop
5. 3D Display
- 5.1 User Interaction
  - 5.1.1 Mouse
  - 5.1.2 Style Control
- 5.2 Rendering
- 5.3 Stereo
- 5.4 Viewpoint
- 5.5 Bookmarks
- 5.6 Tiled Display
- 5.7 Toolbars
- 5.8 Display Widgets
- 5.9 Molecular Visualization
- 5.10 Grid Visualization
  - 5.10.1 Grid Types
  - 5.10.2 Reentrant Grids
- 5.11 Surface Visualization
- 5.12 Custom Views
6. 2D Display
- 6.1 Preview vs. Viewer
- 6.2 Interaction
7. Spreadsheet
- 7.1 Basic Usage
- 7.2 Sorting
- 7.3 Displaying Data
- 7.4 Organizing Columns
- 7.5 Creating New Columns
  - 7.5.1 Math Functions
  - 7.5.2 OEChem Functions
- 7.6 Filtering
- 7.7 Statistics
- 7.8 Formatting Columns
- 7.9 Importing/Exporting
  - 7.9.1 Importing
  - 7.9.2 Exporting
8. List Management
- 8.1 Introduction
- 8.2 Browsing
- 8.3 Views
- 8.4 List Columns
- 8.5 List Manipulation
  - 8.5.1 Creating Lists
  - 8.5.2 Deleting from Lists
- 8.6 Toolbar
9. Process Management
- 9.1 Processes
- 9.2 Pipes
10. Scripting
- 10.1 Scripting Window
- 10.2 OEChemLite
11. Preferences
12. Examples
- 12.1 Data
- 12.2 Scripts
13. Help
A. Menus
- A.1 File
- A.2 Edit
- A.3 View
  - A.3.1 Fullscreen
- A.4 Data
- A.5 Style
- A.6 Bookmarks
- A.7 Tools
- A.8 Window
- A.9 Help
B. Mouse Maps
- B.1 VIDA Mouse Map
C. Release Notes
- C.1 Version 3.0.0
- C.2 Version 2.1.2
- C.3 Version 2.1.1
- C.4 Version 2.1.0
- C.5 Version 2.0.2
Bibliography
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