mirror of
https://github.com/Richard-Sti/csiborgtools.git
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ae92fd9b72
* Continue if r200c not defined * Remove smooth scale * Remove smooth scale * Edit Max Matching plot * Add peculiar velocity * Add Vobs calculation * Edit docs * Add Vobs plot * Improve plotting * Edit naming convention * Make a note * Add new cat options * Update density field RSP calculation * Update field 2 rsp * Move functions and shorten documentation * Improve transforms and comments * Update docs * Update imports * Edit calculation * Add docs * Remove imports * Add Quijote flags * Edit documentation * Shorten documentation * Edit func calls * Shorten * Docs edits * Edit docs * Shorten docs * Short docs edits * Simplify docs a little bit * Save plotting * Update env
119 lines
4.3 KiB
Python
119 lines
4.3 KiB
Python
# Copyright (C) 2022 Richard Stiskalek
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# This program is free software; you can redistribute it and/or modify it
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# under the terms of the GNU General Public License as published by the
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# Free Software Foundation; either version 3 of the License, or (at your
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# option) any later version.
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#
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# This program is distributed in the hope that it will be useful, but
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# WITHOUT ANY WARRANTY; without even the implied warranty of
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# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General
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# Public License for more details.
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#
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# You should have received a copy of the GNU General Public License along
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# with this program; if not, write to the Free Software Foundation, Inc.,
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# 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
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"""
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Script to calculate the particle centre of mass, Lagrangian patch size in the
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initial snapshot.
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The initial snapshot particles are read from the sorted files.
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"""
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from argparse import ArgumentParser
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from datetime import datetime
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import numpy
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from mpi4py import MPI
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from taskmaster import work_delegation
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from tqdm import tqdm
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from utils import get_nsims
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try:
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import csiborgtools
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except ModuleNotFoundError:
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import sys
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sys.path.append("../")
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import csiborgtools
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def _main(nsim, simname, verbose):
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"""
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Calculate the Lagrangian halo centre of mass and Lagrangian patch size in
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the initial snapshot.
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"""
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paths = csiborgtools.read.Paths(**csiborgtools.paths_glamdring)
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cols = [("index", numpy.int32),
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("x", numpy.float32),
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("y", numpy.float32),
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("z", numpy.float32),
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("lagpatch_size", numpy.float32),
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("lagpatch_ncells", numpy.int32),]
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fname = paths.initmatch(nsim, simname, "particles")
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parts = csiborgtools.read.read_h5(fname)
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parts = parts['particles']
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halo_map = csiborgtools.read.read_h5(paths.particles(nsim, simname))
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halo_map = halo_map["halomap"]
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if simname == "csiborg":
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cat = csiborgtools.read.CSiBORGHaloCatalogue(
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nsim, paths, bounds=None, load_fitted=False, load_initial=False)
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else:
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cat = csiborgtools.read.QuijoteHaloCatalogue(
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nsim, paths, nsnap=4, load_fitted=False, load_initial=False)
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hid2map = {hid: i for i, hid in enumerate(halo_map[:, 0])}
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# Initialise the overlapper.
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if simname == "csiborg":
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kwargs = {"box_size": 2048, "bckg_halfsize": 512}
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else:
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kwargs = {"box_size": 512, "bckg_halfsize": 256}
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overlapper = csiborgtools.match.ParticleOverlap(**kwargs)
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out = csiborgtools.read.cols_to_structured(len(cat), cols)
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for i, hid in enumerate(tqdm(cat["index"]) if verbose else cat["index"]):
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out["index"][i] = hid
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part = csiborgtools.read.load_halo_particles(hid, parts, halo_map,
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hid2map)
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# Skip if the halo has no particles or is too small.
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if part is None or part.size < 40:
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continue
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pos, mass = part[:, :3], part[:, 3]
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# Calculate the centre of mass and the Lagrangian patch size.
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cm = csiborgtools.center_of_mass(pos, mass, boxsize=1.0)
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distances = csiborgtools.periodic_distance(pos, cm, boxsize=1.0)
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out["x"][i], out["y"][i], out["z"][i] = cm
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out["lagpatch_size"][i] = numpy.percentile(distances, 99)
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# Calculate the number of cells with > 0 density.
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delta = overlapper.make_delta(pos, mass, subbox=True)
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out["lagpatch_ncells"][i] = csiborgtools.delta2ncells(delta)
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# Now save it
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fout = paths.initmatch(nsim, simname, "fit")
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if verbose:
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print(f"{datetime.now()}: dumping fits to .. `{fout}`.", flush=True)
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with open(fout, "wb") as f:
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numpy.save(f, out)
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if __name__ == "__main__":
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parser = ArgumentParser()
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parser.add_argument("--simname", type=str, default="csiborg",
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choices=["csiborg", "quijote"],
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help="Simulation name")
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parser.add_argument("--nsims", type=int, nargs="+", default=None,
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help="IC realisations. If `-1` processes all.")
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args = parser.parse_args()
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paths = csiborgtools.read.Paths(**csiborgtools.paths_glamdring)
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nsims = get_nsims(args, paths)
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def main(nsim):
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_main(nsim, args.simname, MPI.COMM_WORLD.Get_size() == 1)
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work_delegation(main, nsims, MPI.COMM_WORLD)
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