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update license to L-GPL and add user_doc/Maze.md
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\page maze | ||
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description: Module that implements enhanced sampling methods for ligand | ||
unbinding from protein tunnels. | ||
authors: Jakub Rydzewski | ||
reference: J. Rydzewski, and O. Valsson, Finding Multiple Reaction Pathways of | ||
Ligand Unbinding, arXiv: 1808.08089, 2018 | ||
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maze is a module for PLUMED2, which implements enhanced sampling methods for | ||
ligand unbinding from protein tunnels. The maze module is developed and | ||
maintained by [Jakub Rydzewski](http://www.fizyka.umk.pl/~jr) at the Institute | ||
of Physics, Nicolaus Copernicus University, Toruń, Poland. See this | ||
[link](https://www.fizyka.umk.pl/~jr/maze.html) for additional information. | ||
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The maze module is an optional module for PLUMED2 that needes to be enabled when | ||
configuring the compilation of PLUMED2. You can either pass a flag | ||
'\-\-enable-modules=maze' or a '\-\-enable-modules=all' when running the | ||
configure script. | ||
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See the following sections for further information: | ||
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- \subpage maze_loss | ||
- \subpage maze_optimizer | ||
- \subpage maze_bias | ||
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\page maze_loss Loss | ||
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The following list contains the loss functions available in the maze module. | ||
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@MAZE_LOSS@ | ||
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\page maze_optimizer Optimizers | ||
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The following list contains the optimizers available in the maze module. | ||
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@MAZE_OPTIMIZER@ | ||
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\page maze_bias Biases | ||
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The following list contains the biases available in the maze module. | ||
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@MAZE_BIAS@ |