Python Modules

Atomic Structures

• atomic: Atomic structures
• mmcif: Read and write mmCIF files
• pdb: Read and write PDB files

ChimeraX Core

These modules are in chimerax.core.

Commands and Tools

• commands: Register user commands
• tools: Manage running tool instances
• toolshed: Manage installed and available tools

Data

• models: Displayed data
• objects: Manage objects
• session: Application session support

Files

• fetch: Retrieve files from a network source
• history: Application history support
• safesave: Safely write files
• serialize: Support serialization of “simple” types
• settings: Save/access tool interface values

Notifications

• data_events: Support for bulk tracking of data changes
• logger: Application log support
• tasks: Task creation and monitoring
• triggerset: Support for managing triggers and handlers

Utility

• orderedset: An ordered set
• utils: Generically useful stuff that doesn’t fit elsewhere

Generic I/O

• io: Generic I/O support

Geometry

• geometry: Points and coordinate systems

Graphics

• graphics: Rendering using OpenGL

Open and Save

• open_command: Register file openers and database fetch
• save_command: Register file saving

Surfaces

• surface: Triangulated surface calculations

User Interface

• gui: Main ChimeraX graphical user interface
• html_scheme
• toolbar

Volume Data

• map: Density maps
• map_fit: Fit atomic models in density maps
• segment: Segmentations of density maps