mirror of
https://github.com/Richard-Sti/csiborgtools.git
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5500fbd2b9
* Fix calculations of expected mass * Add paper plots * Edits to pltos * Add overlap summary * Add imports * Add import * Add binned stat * Add fit * Add more plots * Add basic env * Add histogram mode * Edit expected mass * Improve expected plots * Clean up plot * Improve separation plot * Update plots * Edit expected calculation * Update plotting * Update plots * Update plots * Update plots * Add conc fraction * Add halo maker sorting * Renaming * Add import * Add NaN treatment * add import * Move cosine smi * Update plots * Move similarity * Fix little bugs * Shorten documentation * Update plots
100 lines
3.7 KiB
Python
100 lines
3.7 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 sort the HaloMaker's `particle_membership` file to match the ordering
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of particles in the simulation snapshot.
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"""
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from argparse import ArgumentParser
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from datetime import datetime
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from glob import iglob
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import h5py
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import numpy
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import pynbody
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from mpi4py import MPI
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from taskmaster import work_delegation
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from tqdm import trange
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import csiborgtools
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def sort_particle_membership(nsim, nsnap, method):
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"""
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Read the FoF particle halo membership and sort the halo IDs to the ordering
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of particles in the PHEW clump IDs.
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Parameters
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----------
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nsim : int
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IC realisation index.
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verbose : bool, optional
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Verbosity flag.
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"""
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print(f"{datetime.now()}: starting simulation {nsim}, snapshot {nsnap} and method {method}.") # noqa
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paths = csiborgtools.read.Paths(**csiborgtools.paths_glamdring)
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fpath = next(iglob(f"/mnt/extraspace/rstiskalek/CSiBORG/halo_maker/ramses_{nsim}/output_{str(nsnap).zfill(5)}/**/*particle_membership*", recursive=True), None) # noqa
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print(f"{datetime.now()}: loading particle membership `{fpath}`.")
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# Columns are halo ID, particle ID
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membership = numpy.genfromtxt(fpath, dtype=int)
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print(f"{datetime.now()}: loading particle IDs from the snapshot.")
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sim = pynbody.load(paths.snapshot(nsnap, nsim, "csiborg"))
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pids = numpy.asanyarray(sim["iord"])
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print(f"{datetime.now()}: mapping particle IDs to their indices.")
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pids_idx = {pid: i for i, pid in enumerate(pids)}
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print(f"{datetime.now()}: mapping HIDs to their array indices.")
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# Unassigned particle IDs are assigned a halo ID of 0.
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hids = numpy.zeros(pids.size, dtype=numpy.int32)
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for i in trange(membership.shape[0]):
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hid, pid = membership[i]
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hids[pids_idx[pid]] = hid
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fout = fpath + "_sorted.hdf5"
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print(f"{datetime.now()}: saving the sorted data to ... `{fout}`")
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header = """
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This dataset represents halo indices for each particle.
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- The particles are ordered as they appear in the simulation snapshot.
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- Unassigned particles are given a halo index of 0.
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"""
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with h5py.File(fout, 'w') as hdf:
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dset = hdf.create_dataset('hids_dataset', data=hids)
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dset.attrs['header'] = header
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if __name__ == "__main__":
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parser = ArgumentParser()
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parser.add_argument("--method", type=str, required=True,
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help="HaloMaker method")
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parser.add_argument("--nsim", type=int, required=False, default=None,
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help="IC index. If not set process all.")
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args = parser.parse_args()
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paths = csiborgtools.read.Paths(**csiborgtools.paths_glamdring)
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if args.nsim is None:
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ics = paths.get_ics("csiborg")
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else:
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ics = [args.nsim]
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snaps = numpy.array([max(paths.get_snapshots(nsim, "csiborg"))
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for nsim in ics])
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def main(n):
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sort_particle_membership(ics[n], snaps[n], args.method)
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work_delegation(main, list(range(len(ics))), MPI.COMM_WORLD)
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