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* pep8 * style issue * Documentation edits * Remove old files * Remove more old files * Doc & stop setting snap and nsim in paths * add nsnap, nsim support * Remove blank space * docs * Docs edits * Reduce redudant code * docs * Documentation * Docs * Simplify * add nsnap nsim arguments * Remove redundant docs * Fix typos * Shorten catalogue * Remove import * Remove blank line * Docs only edits * Rearrange imports * Remove blank space * Rearrange imports * Rearrange imports * Remove blank space * Update submission scritp * Edit docs * Remove blank line * new paths * Update submission scripts * Update file handling * Remove blank line * Move things around * Ne paths * Edit submission script * edit paths * Fix typo * Fix bug * Remove import * Update nb
58 lines
2.4 KiB
Python
58 lines
2.4 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 split particles into smaller files according to their clump
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membership for faster manipulation. Currently does this for the maximum
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snapshot of each simulation. Running this requires a lot of memory.
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"""
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from mpi4py import MPI
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from datetime import datetime
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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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import utils
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# Get MPI things
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comm = MPI.COMM_WORLD
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rank = comm.Get_rank()
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nproc = comm.Get_size()
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paths = csiborgtools.read.CSiBORGPaths()
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sims = paths.ic_ids(False)
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partcols = ["x", "y", "z", "vx", "vy", "vz", "M", "level"]
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jobs = csiborgtools.fits.split_jobs(len(sims), nproc)[rank]
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for icount, sim_index in enumerate(jobs):
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print("{}: rank {} working {} / {} jobs."
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.format(datetime.now(), rank, icount + 1, len(jobs)), flush=True)
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nsim = sims[sim_index]
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nsnap = max(paths.get_snapshots(nsim))
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partreader = csiborgtools.read.ParticleReader(paths)
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# Load the clumps, particles' clump IDs and particles.
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clumps = partreader.read_clumps(nsnap, nsim)
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particle_clumps = partreader.read_clumpid(nsnap, nsim, verbose=False)
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particles = partreader.read_particle(nsnap, nsim, partcols, verbose=False)
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# Drop all particles whose clump index is 0 (not assigned to any halo)
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particle_clumps, particles = partreader.drop_zero_indx(
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particle_clumps, particles)
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# Dump it!
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csiborgtools.fits.dump_split_particles(particles, particle_clumps, clumps,
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utils.Nsplits, nsnap, nsim, paths,
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verbose=False)
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print("All finished!", flush=True)
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