Nstrophy/README.md

158 lines
6.0 KiB
Markdown
Raw Normal View History

2023-05-10 23:29:49 +00:00
Nstrophy is a tool to solve the two-dimensional Navier-Stokes equation as well
as Gallavotti's reversible Navier-Stokes equation and compare them.
**Nstrophy is under active development**
# Building
Compile Nstrophy with
```bash
make
```
which will place a binary at `build/nstrophy`.
The syntax for the execution of Nstrophy is
```bash
2023-06-14 18:20:07 +00:00
./build/nstrophy [-p parameters] [-s savefile] [-u u_outfile] [-t nthreads] <command>
2023-05-10 23:29:49 +00:00
```
2023-06-14 18:19:27 +00:00
* `parameters` is a list of parameters for the computation, see
[Parameters](#parameters)
* `savefile` is a file where the last step of the computation is saved in
binary format so that the computation can be resumed after it has terminated,
see
[Interrupting and resuming the computation](#interrupting-and-resuming-the-computation).
* `u_outfile` is a file to which the final u is written in plain text format,
which can be used as an initial condition for a future computation.
2023-05-10 23:29:49 +00:00
2023-06-14 18:20:07 +00:00
* `nthreads` is the number of threads used to compute Fast Fourier Transforms.
2023-05-10 23:29:49 +00:00
Nstrophy is written in C. The Makefile uses the GNU C Compiler.
Nstrophy depends on `fftw`: [https://fftw.org]
# Commands
The available commands are
2023-05-10 23:37:48 +00:00
* `enstrophy`: to compute the enstrophy and various other observables. This
command prints
2024-10-15 15:45:28 +00:00
```step_index time average(alpha) average(energy) average(enstrophy) alpha energy enstrophy```
2023-05-16 04:07:38 +00:00
where the averages are running averages over `print_freq`. In addition, if
the algorithm has an adaptive step, an extra column is printed with `delta`.
2024-10-15 15:45:28 +00:00
In addition, if alpha has a negative value (even in between `print_freq`
intervals), a line is printed with the information.
2023-05-10 23:29:49 +00:00
* `uk`: to compute the Fourier transform of the solution.
* `quiet`: does not print anything, useful for debugging.
# Parameters
The parameters can be specified using the `-p` flag. The parameter string
should be a `;` sperated list of `key=value` pairs. The possible keys are
* `equation`: either `irreverisible` (default) or `reversible`.
* `K` (int, default 16): cutoff in momentum space: -K<=k_i<=K
* `K1` (int, default `K`): cutoff in momentum space for the x component:
-K<=k_x<=K
* `K2` (int, default `K`): cutoff in momentum space for the y component:
-K<=k_y<=K
* `N` (int, default smallest power of 2 that is larger than 3`K`): size of fft
vectors: must be at least 3 times `K` to avoid aliasing.
* `N1` (int, default `N`): same as `N` but only for x component.
* `N2` (int, default `N`): same as `N` but only for y component.
* `final_time` (double, default 100000): time at which to end the computation.
Set to <0 to keep on going forever.
2023-05-10 23:29:49 +00:00
* `nu` (double, default 0.00048828125): viscosity.
* `delta` (double, default 0.0001220703125): step size.
* `L` (double, default 2pi): size of box.
* `print_freq` (double, default 1): only print when time crosses integer
multiples of `print_freq`.
2023-05-10 23:29:49 +00:00
* `starting_time` (double, default 0): starting time.
2023-05-10 23:29:49 +00:00
* `driving`: either `zero` for no driving, `test` (default) for a testing
driving force or `file:<filename>` or `file_txt:<filename>` to read the
driving force from a file. When using `file:<filename>` the file should be
binary, whereas with `file_txt:<filename>` it should be plaintext. The binary
file format is `(double)(double)` for each entry of the driving force,
excluding kx<0 and kx=0&&ky<=0. The plaintext file format is
`kx ky real_part imag_part`.
* `init`: either `random` for a random initialization, `gaussian` (default) for
a Gaussian initial condition or `file:<filename>` or `file_txt:<filename>` to
read the driving force from a file. When using `file:<filename>` the file
should be binary, whereas with `file_txt:<filename>` it should be plaintext.
The binary file format is `(double)(double)` for each entry of the driving
force, excluding kx<0 and kx=0&&ky<=0. The plaintext file format is
`kx ky real_part imag_part`.
* `init_energy` (double, default is to not rescale the initial condition, is
incompatible with `init_enstrophy`): enforce a value for the energy of the
initial condition.
* `init_enstrophy` (double, default is to not rescale the initial condition, is
incompatible with `init_energy`): enforce a value for the enstrophy of the
initial condition.
2023-05-10 23:29:49 +00:00
* `random_seed` (int, default ): seed for random initialization.
2023-05-17 21:41:00 +00:00
* `algorithm`: fixed step methods: `RK4` for Runge-Kutta 4, `RK2` for
Runge-Kutta 2.
adaptive step methods: `RKF45` for Runge-Kutta-Fehlberg (order
4), `RKDP54` for Runge-Kutta-Dormand-Prince (order 5), `RKBS32` for
Runge-Kutta-Bogacki-Shampine (order 3).
2023-05-16 00:29:06 +00:00
* `adaptive_tolerance` (double, default 1e-11): when using an adaptive step
method, this is the maximal allowed relative error.
* `adaptive_factor` (double, default 0.9): when using the RKF45 method, the
step gets adjusted by `factor*delta*(tolerance/error)^(1/5)`.
2023-05-10 23:29:49 +00:00
2023-06-13 22:45:19 +00:00
* `max_delta` (double, default 1e-2): when using the adaptive step, do not
exceet `delta_max`.
* `adaptive_cost`: cost function to use to estimate the error of the adaptive
method: `L1` (default) for the normalized L1 norm, `k3` for the normalized L1
norm of f_k/|k|^3, `k32` for the normalized L1 norm, `enstrophy` for the
enstrophy, `alpha` for alpha.
2023-06-14 03:56:35 +00:00
2023-06-29 20:58:33 +00:00
* `keep_en_cst` (0 or 1, default 0): impose that the enstrophy is constant at
each step (only really useful for the reversible equation).
2024-11-07 19:39:03 +00:00
* `print_alpha` (0 or 1, default 0): if this is set to 1, then whenever alpha
is negative, its value is printed as a comment.
2023-05-10 23:29:49 +00:00
2023-06-14 18:19:27 +00:00
# Interrupting and resuming the computation
2023-05-10 23:29:49 +00:00
The computation can be interrupted by sending Nstrophy the `SIGINT` signal
(e.g. by pressing `Ctrl-C`.) When Nstrophy receives the `SIGINT` signal, it
finishes its current step and writes the value of uk, either to `savefile` if
such a file was specified on the command line (using the `-s` flag), or to
`stderr`. In addition, when a `savefile` is specified it writes the command
that needs to be used to resume the computation (which essentially just sets
the appropriate `starting_time` and `init:file:<savefile>` parameters. The data
written to the `savefile` is binary.
2023-05-10 23:33:29 +00:00
# License
Nstrophy is released under the Apache 2.0 license.
2024-10-15 15:47:13 +00:00
Copyright 2017-2024 Ian Jauslin