mirror of
https://github.com/Richard-Sti/csiborgtools.git
synced 2024-12-22 22:58:02 +00:00
aaa14fc880
* Add RAMSES2HDF5 conversion * Upload changes * Clean up * More clean up * updates * Little change * pep9 * Add basic SPH calculation for a snapshot * Add submit script * Remove echo * Little changes * Send off changes * Little formatting * Little updates * Add nthreads argument * Upload chagnes * Add nthreads arguemnts * Some local changes.. * Update scripts * Add submission script * Update script * Update params * Rename CSiBORGBox to CSiBORG1box * Rename CSiBORG1 reader * Move files * Rename folder again * Add basic plotting here * Add new skeletons * Move def * Update nbs * Edit directories * Rename files * Add units to converted snapshots * Fix empty dataset bug * Delete file * Edits to submission scripts * Edit paths * Update .gitignore * Fix attrs * Update weighting * Fix RA/dec bug * Add FORNAX cluster * Little edit * Remove boxes since will no longer need * Move func back * Edit to include sort by membership * Edit paths * Purge basic things * Start removing * Bring file back * Scratch * Update the rest * Improve the entire file * Remove old things * Remove old * Delete old things * Fully updates * Rename file * Edit submit script * Little things * Add print statement * Add here cols_to_structured * Edit halo cat * Remove old import * Add comment * Update paths manager * Move file * Remove file * Add chains
109 lines
3.8 KiB
Python
109 lines
3.8 KiB
Python
# Copyright (C) 2023 Richard Stiskalek
|
|
# This program is free software; you can redistribute it and/or modify it
|
|
# under the terms of the GNU General Public License as published by the
|
|
# Free Software Foundation; either version 3 of the License, or (at your
|
|
# option) any later version.
|
|
#
|
|
# This program is distributed in the hope that it will be useful, but
|
|
# WITHOUT ANY WARRANTY; without even the implied warranty of
|
|
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General
|
|
# Public License for more details.
|
|
#
|
|
# You should have received a copy of the GNU General Public License along
|
|
# with this program; if not, write to the Free Software Foundation, Inc.,
|
|
# 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
|
|
"""
|
|
A script to calculate the particle's separation from the CM and save it.
|
|
Currently MPI is not supported.
|
|
"""
|
|
from argparse import ArgumentParser
|
|
from datetime import datetime
|
|
from gc import collect
|
|
|
|
import numpy
|
|
from mpi4py import MPI
|
|
from tqdm import trange
|
|
|
|
try:
|
|
import csiborgtools
|
|
except ModuleNotFoundError:
|
|
import sys
|
|
|
|
sys.path.append("../")
|
|
import csiborgtools
|
|
|
|
parser = ArgumentParser()
|
|
parser.add_argument("--ics", type=int, nargs="+", default=None,
|
|
help="IC realisatiosn. If `-1` processes all simulations.")
|
|
args = parser.parse_args()
|
|
|
|
# Get MPI things
|
|
comm = MPI.COMM_WORLD
|
|
rank = comm.Get_rank()
|
|
nproc = comm.Get_size()
|
|
|
|
if nproc > 1:
|
|
raise NotImplementedError("MPI is not implemented implemented yet.")
|
|
|
|
paths = csiborgtools.read.Paths(**csiborgtools.paths_glamdring)
|
|
cols_collect = [("r", numpy.float32), ("M", numpy.float32)]
|
|
if args.ics is None or args.ics == -1:
|
|
nsims = paths.get_ics("csiborg")
|
|
else:
|
|
nsims = args.ics
|
|
|
|
|
|
# We loop over simulations. Here later optionally add MPI.
|
|
for i, nsim in enumerate(nsims):
|
|
if rank == 0:
|
|
now = datetime.now()
|
|
print(f"{now}: calculating {i}th simulation `{nsim}`.", flush=True)
|
|
nsnap = max(paths.get_snapshots(nsim, "csiborg"))
|
|
box = csiborgtools.read.CSiBORG1Box(nsnap, nsim, paths)
|
|
|
|
f = csiborgtools.read.read_h5(paths.particles(nsim, "csiborg"))
|
|
particles = f["particles"]
|
|
clump_map = f["clumpmap"]
|
|
clid2map = {clid: i for i, clid in enumerate(clump_map[:, 0])}
|
|
clumps_cat = csiborgtools.read.ClumpsCatalogue(nsim, paths, rawdata=True,
|
|
load_fitted=False)
|
|
ismain = clumps_cat.ismain
|
|
ntasks = len(clumps_cat)
|
|
|
|
# We loop over halos and add ther particle positions to this dictionary,
|
|
# which we will later save as an archive.
|
|
out = {}
|
|
for j in trange(ntasks) if nproc == 1 else range(ntasks):
|
|
# If we are fitting halos and this clump is not a main, then continue.
|
|
if not ismain[j]:
|
|
continue
|
|
|
|
clumpid = clumps_cat["index"][j]
|
|
parts = csiborgtools.read.load_parent_particles(
|
|
clumpid, particles, clump_map, clid2map, clumps_cat)
|
|
# If we have no particles, then do not save anything.
|
|
if parts is None:
|
|
continue
|
|
obj = csiborgtools.fits.Clump(parts, clumps_cat[j], box)
|
|
r200m, m200m = obj.spherical_overdensity_mass(200, npart_min=10,
|
|
kind="matter")
|
|
r = obj.r()
|
|
mask = r <= r200m
|
|
|
|
_out = csiborgtools.read.cols_to_structured(numpy.sum(mask),
|
|
cols_collect)
|
|
|
|
_out["r"] = r[mask]
|
|
_out["M"] = obj["M"][mask]
|
|
out[str(clumpid)] = _out
|
|
|
|
# Finished, so we save everything.
|
|
fout = paths.radpos_path(nsnap, nsim)
|
|
now = datetime.now()
|
|
print(f"{now}: saving radial profiles for simulation {nsim} to `{fout}`",
|
|
flush=True)
|
|
numpy.savez(fout, **out)
|
|
|
|
# Clean up the memory just to be sure.
|
|
del out
|
|
collect()
|