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% API Documentation for nMOLDYN
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\makeindex

\begin{document}


%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
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%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%%                                 Title                                 %%
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\title{nMOLDYN}
\author{API Documentation}
\maketitle

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%%                           Table of Contents                           %%
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\addtolength{\parskip}{-2ex}
\tableofcontents
\addtolength{\parskip}{2ex}

%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%%                               Includes                                %%
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\include{nMOLDYN-module}
\include{nMOLDYN.Analysis-module}
\include{nMOLDYN.Analysis.Analysis-module}
\include{nMOLDYN.Analysis.Dynamics-module}
\include{nMOLDYN.Analysis.NMR-module}
\include{nMOLDYN.Analysis.Scattering-module}
\include{nMOLDYN.Analysis.Slave-module}
\include{nMOLDYN.Analysis.Structure-module}
\include{nMOLDYN.Analysis.Template-module}
\include{nMOLDYN.Core-module}
\include{nMOLDYN.Core.Chemistry-module}
\include{nMOLDYN.Core.Config-module}
\include{nMOLDYN.Core.Error-module}
\include{nMOLDYN.Core.IOFiles-module}
\include{nMOLDYN.Core.Logger-module}
\include{nMOLDYN.Core.Mathematics-module}
\include{nMOLDYN.Core.Misc-module}
\include{nMOLDYN.Core.Preferences-module}
\include{nMOLDYN.GUI-module}
\include{nMOLDYN.GUI.ASCIIToNetCDFConversionDialog-module}
\include{nMOLDYN.GUI.AnalysisBenchmarkDialog-module}
\include{nMOLDYN.GUI.AnalysisDialog-module}
\include{nMOLDYN.GUI.AnimationDialog-module}
\include{nMOLDYN.GUI.CheckJobsStatusDialog-module}
\include{nMOLDYN.GUI.GeneralInformationsDialog-module}
\include{nMOLDYN.GUI.HTMLReader-module}
\include{nMOLDYN.GUI.HTMLReader.mfxtools-module}
\include{nMOLDYN.GUI.HTMLReader.mfxutil-module}
\include{nMOLDYN.GUI.HTMLReader.tkconst-module}
\include{nMOLDYN.GUI.HTMLReader.tkfont-module}
\include{nMOLDYN.GUI.HTMLReader.tkhtml-module}
\include{nMOLDYN.GUI.HTMLReader.tkinit-module}
\include{nMOLDYN.GUI.HTMLReader.tkutil-module}
\include{nMOLDYN.GUI.HTMLReader.tkwidget-module}
\include{nMOLDYN.GUI.HTMLReader.util-module}
\include{nMOLDYN.GUI.HTMLReader.version-module}
\include{nMOLDYN.GUI.MainDialog-module}
\include{nMOLDYN.GUI.NetCDFToASCIIConversionDialog-module}
\include{nMOLDYN.GUI.PDBSnapshotGeneratorDialog-module}
\include{nMOLDYN.GUI.PlotNetCDFVariableDialog-module}
\include{nMOLDYN.GUI.PreferencesDialog-module}
\include{nMOLDYN.GUI.PyroServerDialog-module}
\include{nMOLDYN.GUI.SelectionDialog-module}
\include{nMOLDYN.GUI.Tags-module}
\include{nMOLDYN.GUI.TrajectoryConversionDialog-module}
\include{nMOLDYN.GUI.ViewEffectiveModeDialog-module}
\include{nMOLDYN.GUI.Widgets-module}
\include{nMOLDYN.Tests-module}
\include{nMOLDYN.Tests.ARA-module}
\include{nMOLDYN.Tests.ARA.TestsContents-module}
\include{nMOLDYN.Tests.ARA.runTests-module}
\include{nMOLDYN.Tests.AVACF-module}
\include{nMOLDYN.Tests.AVACF.TestsContents-module}
\include{nMOLDYN.Tests.AVACF.runTests-module}
\include{nMOLDYN.Tests.AnalysisTests-module}
\include{nMOLDYN.Tests.BuildTestCases-module}
\include{nMOLDYN.Tests.DCSF-module}
\include{nMOLDYN.Tests.DCSF.TestsContents-module}
\include{nMOLDYN.Tests.DCSF.runTests-module}
\include{nMOLDYN.Tests.DISF-module}
\include{nMOLDYN.Tests.DISF.TestsContents-module}
\include{nMOLDYN.Tests.DISF.runTests-module}
\include{nMOLDYN.Tests.DISFG-module}
\include{nMOLDYN.Tests.DISFG.TestsContents-module}
\include{nMOLDYN.Tests.DISFG.runTests-module}
\include{nMOLDYN.Tests.DOS-module}
\include{nMOLDYN.Tests.DOS.TestsContents-module}
\include{nMOLDYN.Tests.DOS.runTests-module}
\include{nMOLDYN.Tests.EISF-module}
\include{nMOLDYN.Tests.EISF.TestsContents-module}
\include{nMOLDYN.Tests.EISF.runTests-module}
\include{nMOLDYN.Tests.MSD-module}
\include{nMOLDYN.Tests.MSD.TestsContents-module}
\include{nMOLDYN.Tests.MSD.runTests-module}
\include{nMOLDYN.Tests.StabilityTests-module}
\include{nMOLDYN.Tests.VACF-module}
\include{nMOLDYN.Tests.VACF.TestsContents-module}
\include{nMOLDYN.Tests.VACF.runTests-module}
\include{nMOLDYN.__pkginfo__-module}

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\printindex


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\end{document}

