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abstract over hdf5::File

This commit is contained in:
Magnus Ulimoen 2020-04-06 23:10:08 +02:00
parent 13abdefe57
commit d3465d5e1e
1 changed files with 76 additions and 70 deletions
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146
sbp/examples/multigrid/bin.rs
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@ -422,10 +422,10 @@ fn main() {
let output = if opt.legacy {
None
} else {
Some(create_hdf(&opt.output, sys.grids.as_slice()).unwrap())
Some(File::create(&opt.output, sys.grids.as_slice()).unwrap())
};
if let Some(file) = output.as_ref() {
add_timestep_to_file(&file, 0, sys.fnow.as_slice()).unwrap();
file.add_timestep(0, sys.fnow.as_slice()).unwrap();
}
let bar = progressbar(opt.no_progressbar, ntime);
@ -440,7 +440,7 @@ fn main() {
bar.finish();
if let Some(file) = output.as_ref() {
add_timestep_to_file(&file, ntime, sys.fnow.as_slice()).unwrap();
file.add_timestep(ntime, sys.fnow.as_slice()).unwrap();
} else {
legacy_output(&opt.output, &sys);
}
@ -491,84 +491,90 @@ fn legacy_output<T: sbp::operators::UpwindOperator, P: AsRef<std::path::Path>>(
}
}
fn create_hdf<P: AsRef<std::path::Path>>(
path: P,
grids: &[sbp::grid::Grid],
) -> Result<hdf5::File, Box<dyn std::error::Error>> {
let gzip = 7;
#[derive(Debug, Clone)]
struct File(hdf5::File);
let file = hdf5::File::create(path.as_ref())?;
let _tds = file
.new_dataset::<u64>()
.resizable(true)
.chunk((1,))
.create("t", (0,))?;
impl File {
fn create<P: AsRef<std::path::Path>>(
path: P,
grids: &[sbp::grid::Grid],
) -> Result<Self, Box<dyn std::error::Error>> {
let file = hdf5::File::create(path.as_ref())?;
let _tds = file
.new_dataset::<u64>()
.resizable(true)
.chunk((1,))
.create("t", (0,))?;
for (i, grid) in grids.iter().enumerate() {
let g = file.create_group(&i.to_string())?;
g.link_soft("/t", "t").unwrap();
for (i, grid) in grids.iter().enumerate() {
let g = file.create_group(&i.to_string())?;
g.link_soft("/t", "t").unwrap();
let add_dim = |name| {
g.new_dataset::<Float>()
.gzip(gzip)
.create(name, (grid.ny(), grid.nx()))
};
let xds = add_dim("x")?;
xds.write(grid.x())?;
let yds = add_dim("y")?;
yds.write(grid.y())?;
let add_dim = |name| {
g.new_dataset::<Float>()
.chunk((grid.ny(), grid.nx()))
.gzip(9)
.create(name, (grid.ny(), grid.nx()))
};
let xds = add_dim("x")?;
xds.write(grid.x())?;
let yds = add_dim("y")?;
yds.write(grid.y())?;
let add_var = |name| {
g.new_dataset::<Float>()
.gzip(gzip)
.chunk((1, grid.ny(), grid.nx()))
.resizable_idx(&[true, false, false])
.create(name, (0, grid.ny(), grid.nx()))
};
add_var("rho")?;
add_var("rhou")?;
add_var("rhov")?;
add_var("e")?;
let add_var = |name| {
g.new_dataset::<Float>()
.gzip(3)
.shuffle(true)
.chunk((1, grid.ny(), grid.nx()))
.resizable_idx(&[true, false, false])
.create(name, (0, grid.ny(), grid.nx()))
};
add_var("rho")?;
add_var("rhou")?;
add_var("rhov")?;
add_var("e")?;
}
Ok(Self(file))
}
Ok(file)
}
fn add_timestep(
&self,
t: u64,
fields: &[euler::Field],
) -> Result<(), Box<dyn std::error::Error>> {
let file = &self.0;
let tds = file.dataset("t")?;
let tpos = tds.size();
tds.resize((tpos + 1,))?;
tds.write_slice(&[t], ndarray::s![tpos..tpos + 1])?;
fn add_timestep_to_file(
file: &hdf5::File,
t: u64,
fields: &[euler::Field],
) -> Result<(), Box<dyn std::error::Error>> {
let tds = file.dataset("t")?;
let tpos = tds.size();
tds.resize((tpos + 1,))?;
tds.write_slice(&[t], ndarray::s![tpos..tpos + 1])?;
for (i, fnow) in fields.iter().enumerate() {
let g = file.group(&i.to_string())?;
let (tpos, ny, nx) = {
let ds = g.dataset("rho")?;
let shape = ds.shape();
(shape[0], shape[1], shape[2])
};
for (i, fnow) in fields.iter().enumerate() {
let g = file.group(&i.to_string())?;
let (tpos, ny, nx) = {
let ds = g.dataset("rho")?;
let shape = ds.shape();
(shape[0], shape[1], shape[2])
};
let rhods = g.dataset("rho")?;
let rhouds = g.dataset("rhou")?;
let rhovds = g.dataset("rhov")?;
let eds = g.dataset("e")?;
let rhods = g.dataset("rho")?;
let rhouds = g.dataset("rhou")?;
let rhovds = g.dataset("rhov")?;
let eds = g.dataset("e")?;
let (rho, rhou, rhov, e) = fnow.components();
rhods.resize((tpos + 1, ny, nx))?;
rhods.write_slice(rho, ndarray::s![tpos, .., ..])?;
let (rho, rhou, rhov, e) = fnow.components();
rhods.resize((tpos + 1, ny, nx))?;
rhods.write_slice(rho, ndarray::s![tpos, .., ..])?;
rhouds.resize((tpos + 1, ny, nx))?;
rhouds.write_slice(rhou, ndarray::s![tpos, .., ..])?;
rhouds.resize((tpos + 1, ny, nx))?;
rhouds.write_slice(rhou, ndarray::s![tpos, .., ..])?;
rhovds.resize((tpos + 1, ny, nx))?;
rhovds.write_slice(rhov, ndarray::s![tpos, .., ..])?;
rhovds.resize((tpos + 1, ny, nx))?;
rhovds.write_slice(rhov, ndarray::s![tpos, .., ..])?;
eds.resize((tpos + 1, ny, nx))?;
eds.write_slice(e, ndarray::s![tpos, .., ..])?;
eds.resize((tpos + 1, ny, nx))?;
eds.write_slice(e, ndarray::s![tpos, .., ..])?;
}
Ok(())
}
Ok(())
}