Difference between revisions of "CometWiki"
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| + | [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]] | |
| − | *[ | + | |
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| − | + | ==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]] | |
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| − | *[[ | + | |
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Latest revision as of 18:35, 15 November 2009
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This wiki describes how to set up and use the `comet' program. You can read an introduction to the comet project here(to return here, click on 'cometwiki' rather than using the browser back button). |
Essential InformationHow the Program WorksVideo TutorialsInstalling the Program
Running the ProgramThe 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 |
Simulator OutputExample Results
Model RobustnessIn Vitro
In Depth InformationInner workings of the codeMaking Measurements |
