CometWiki http://www.dayel.com/comet/cometwiki/index.php/CometWiki MediaWiki 1.22.3 first-letter Media Special Talk User User talk CometWiki CometWiki talk File File talk MediaWiki MediaWiki talk Template Template talk Help Help talk Category Category talk 0 1 310 309 2009-11-16T01:35:57Z Markdayel 2 __NOTOC__ [http://www.dayel.com/comet/supmat/movies/FigS2_Fig1_x_proj.mov http://www.dayel.com/comet/supmat/movies/thumbnails/FigS2_Fig1_x_proj.mov.png] [http://www.dayel.com/comet/supmat/movies/FigS3_Fig1vtkx1.mov http://www.dayel.com/comet/supmat/movies/thumbnails/FigS3_Fig1vtkx1.mov.png] [http://www.dayel.com/comet/supmat/movies/FigS7b_Symmetric_Capsule.mov http://www.dayel.com/comet/supmat/movies/thumbnails/FigS7b_Symmetric_Capsule.mov.png] {|cellpadding="10" |width="700" valign="top"| This wiki describes how to set up and use the `comet' program. You can read [http://www.dayel.com/research/comet/ an introduction to the comet project here](to return here, click on 'cometwiki' rather than using the browser back button). |valign="top"| |} {|cellpadding="10" |width=300px valign="top"| ==Essential Information== ===How the Program Works=== *[[Description of the Model]] *[[Program Flow|Overview of Program Flow]] ===Video Tutorials=== *[http://www.dayel.com/research/comet/comet-tutorial-1/ How to run the comet program on OS X] *[http://www.dayel.com/research/comet/comet-tutorial-2/ How to make 3D isosurfaces]. ===Installing the Program=== <code>comet</code> runs on any unix-like operating system, including OS X, Linux or Windows (under cygwin). *[[Installing|Instructions for downloading and installing comet]] ===Running the Program=== The program is called from the command line. The command line parameters tell the program what to do (calculate a new run, re-process existing data, interactive 3D view etc.). A <code>cometparams.ini</code> file in the working directory tells the program detailed information about the model parameters to use for calculation and display. *[[Running the program|Command line parameters for the <code>comet</code> program]] *[[cometparams.ini parameter file|Model settings in the <code>cometparams.ini</code> file]] *[[Display settings|Display settings in the <code>cometparams.ini</code> file]] *[[Running comet on a cluster|Running <code>comet</code> on a cluster]] | valign="top"| ==Simulator Output== ===Example Results=== *[[Symmetry Breaking and Motility]] *[[Forces during Symmetry Breaking]] *[[Circumferential and Radial measurements]] *[[Ellipsoid and Capsule symmetry breaking]] ===Model Robustness=== *[[Model Robustness|The effect of changing the main parameters]] ===In Vitro=== *[[3D Reconstructions of in vitro Constrained Shells]] *[[3D Reconstructions of in vitro Unconstrained Shells]] ==In Depth Information== ===Inner workings of the code=== *[[Detailed Program Flow]] *[[Implementation in C++]] ===Making Measurements=== *[[Node Tracks|Tracking network movement and making measurements]] *[[Radial Force Movies]] |valign="top"| |} ==Code Status== *[http://github.com/markdayel/comet Source Repository] *[http://github.com/markdayel/comet/archives/master Latest Source] *[http://www.dayel.com/comet/Paper/SupportingInformation/code/comet_osx_binary_v0.2.dmg Download OS X Binaries] *[[Known Issues]] *[[To Do]] *[[Using Git]] wikitext text/x-wiki