= ChimeraX Developer Wiki =

ChimeraX is a desktop application and a [wiki:Mobile web browser application] for molecular visualization and analysis, with an emphasis on molecular assemblies.

[http://www.rbvi.ucsf.edu/chimerax/ ChimeraX Home Page]

[wiki:DeveloperMeetings Developer meetings]

[wiki:MSC2019Deliverables MSC 2019 Contract Deliverables]

[wiki:MSCContract MSC Contract Ideas, Feb 2019]

[wiki:ChangeLog Change log]

[wiki:BundleSessionSupport Bundle session support status]

Documentation:
- [http://www.rbvi.ucsf.edu/chimerax/docs/user user guide]
- [http://www.rbvi.ucsf.edu/chimerax/docs/quickstart quick start]
- [http://www.rbvi.ucsf.edu/chimerax/docs/devel programming manual]
- [http://www.rbvi.ucsf.edu/chimerax/docs/pdbimages pdbimages]
- [https://docs.google.com/document/d/1OmscI-IuQsrW4NV241Kb1TZnrWAm-fUIHjaxguIJklE vizvault VR instructions]
- [wiki:vizvault_stereo vizvault stereo instructions]
- [https://plato.cgl.ucsf.edu/trac/chimera/wiki/hardware Computer Hardware for Chimera]

[http://www.rbvi.ucsf.edu/chimerax/download.html Nightly builds]
- [http://www.cgl.ucsf.edu/chimerax/cgi-bin/secure/chimerax-get.py?file=linux/chimerax-0.1.daily.tar.gz Linux] ([http://preview.rbvi.ucsf.edu/chimerax/builds/linux/build.out build log])
- [http://www.cgl.ucsf.edu/chimerax/cgi-bin/secure/chimerax-get.py?file=windows/chimerax-0.1.daily.exe Windows] ([http://preview.rbvi.ucsf.edu/chimerax/builds/windows/build.out build log])
- [http://www.cgl.ucsf.edu/chimerax/cgi-bin/secure/chimerax-get.py?file=macosx/chimerax-0.1.daily.dmg Mac] ([http://preview.rbvi.ucsf.edu/chimerax/builds/macosx/build.out Mac build log])

[https://cxtoolshed.rbvi.ucsf.edu/apps/devel/release Release bundles on toolshed]

[wiki:SourceCode Getting ChimeraX source code]

[wiki:WindowsDevReq Windows Development Requirements]

== Features and Implementation ==

[wiki:mmCIFWriting Writing mmCIF files]

[wiki:GrantAims NIH grant aims]

[wiki:EarlyReleaseRequirements ChimeraX Release Requirements] and [[Needed Command Functionality]]

[wiki:Functionality ChimeraX User Functionality]

[https://docs.google.com/spreadsheet/ccc?key=0AuSc9B_SY_MXdHotcm9veDc2VDdPektzbHQ4NXdoeHc&usp=sharing 2014 Development schedule.]

[wiki:BaseScoreCard ChimeraX Base Scorecard]

[wiki:PseudoBonds Commands for pseudobonds]

[wiki:Hierarchy Model hierarchy]

[wiki:Commands Current ChimeraX Commands] and [wiki:MouseModes Mouse Modes] 

[wiki:FebruaryDemo February 2 Demo]

[wiki:DeferredIssues Deferred discussion topics/issues]

[wiki:MolGraphics Molecular graphics attributes]

[wiki:UndoManager Undo Manager]

[wiki:GraphicsAPI Graphics API]

[wiki:LoggingAPI Logging/status API]

[wiki:Notifications Proposed notifications architecture]


[http://www.rbvi.ucsf.edu/chimera/data/hydra-mar2014/hydra.html Hydra features] March 2014.

[wiki:Optical Support optical microscopy?]

[wiki:wxDocs Resources for getting up to speed with wxPython]

[http://www.rbvi.ucsf.edu/chimera/data/qt_wx_mar2014/qt_wx.html Qt and wxWidgets] developer support, March 2014.

ChimeraX Feature Advertisement, HTML [http://www.rbvi.ucsf.edu/home/meng/chi2/advantages-discussion.html with] and [http://www.rbvi.ucsf.edu/home/meng/chi2/advantages.html without] further discussion topics (ECM 4 Mar 2015 I consider it done until we decide to list more things)

ChimeraX [http://www.rbvi.ucsf.edu/home/meng/chi2/frameatom_spec2.html atomspec writeup]

[wiki:nightlydocker Nightly Linux build using Docker]

[https://www.rbvi.ucsf.edu/trac/chimera/wiki/Chimera2/git Version Control using git]

[http://www.rbvi.ucsf.edu/home/pett/Mitaine/ Molecular data issues/decisions]

== Trac Documentation ==

You can use [wiki:TracAdmin trac-admin] to configure
[http://trac.edgewall.org/ Trac] to better fit your project, especially in
regard to ''components'', ''versions'' and ''milestones''. 

 * TracGuide --  Built-in Documentation
 * [http://trac.edgewall.org/ The Trac project] -- Trac Open Source Project
 * [http://trac.edgewall.org/wiki/TracFaq Trac FAQ] -- Frequently Asked Questions
 * TracSupport --  Trac Support

For a complete list of local wiki pages, see TitleIndex.