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Add new ICs (#59)
* edit IC paths * Remove import * Edit path * Change naming * Add __main__ * Script to match everything * Edit docs * Remove test statement * Move import * Update nb
This commit is contained in:
Richard Stiskalek
GitHub
parent
ab8199be2c
commit
b710b8e89c
18 changed files with 9536 additions and 134 deletions
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@ -27,88 +27,94 @@ except ModuleNotFoundError:
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sys.path.append("../")
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import csiborgtools
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def pair_match(nsim0, nsimx, sigma, smoothen, verbose):
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from csiborgtools.read import HaloCatalogue, read_h5
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# Argument parser
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parser = ArgumentParser()
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parser.add_argument("--nsim0", type=int)
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parser.add_argument("--nsimx", type=int)
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parser.add_argument("--nmult", type=float)
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parser.add_argument("--sigma", type=float, default=None)
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parser.add_argument("--smoothen", type=lambda x: bool(strtobool(x)),
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default=None)
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parser.add_argument("--verbose", type=lambda x: bool(strtobool(x)),
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default=False)
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args = parser.parse_args()
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paths = csiborgtools.read.CSiBORGPaths(**csiborgtools.paths_glamdring)
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smooth_kwargs = {"sigma": args.sigma, "mode": "constant", "cval": 0.0}
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overlapper = csiborgtools.match.ParticleOverlap()
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matcher = csiborgtools.match.RealisationsMatcher()
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paths = csiborgtools.read.CSiBORGPaths(**csiborgtools.paths_glamdring)
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smooth_kwargs = {"sigma": sigma, "mode": "constant", "cval": 0.0}
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overlapper = csiborgtools.match.ParticleOverlap()
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matcher = csiborgtools.match.RealisationsMatcher()
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# Load the raw catalogues (i.e. no selection) including the initial CM
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# positions and the particle archives.
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cat0 = HaloCatalogue(args.nsim0, paths, load_initial=True,
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minmass=("totpartmass", 1e12), with_lagpatch=True,
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load_clumps_cat=True)
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catx = HaloCatalogue(args.nsimx, paths, load_initial=True,
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minmass=("totpartmass", 1e12), with_lagpatch=True,
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load_clumps_cat=True)
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# Load the raw catalogues (i.e. no selection) including the initial CM
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# positions and the particle archives.
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cat0 = HaloCatalogue(nsim0, paths, load_initial=True,
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minmass=("totpartmass", 1e12), with_lagpatch=True,
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load_clumps_cat=True)
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catx = HaloCatalogue(nsimx, paths, load_initial=True,
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minmass=("totpartmass", 1e12), with_lagpatch=True,
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load_clumps_cat=True)
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clumpmap0 = read_h5(paths.particles_path(args.nsim0))["clumpmap"]
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parts0 = read_h5(paths.initmatch_path(args.nsim0, "particles"))["particles"]
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clid2map0 = {clid: i for i, clid in enumerate(clumpmap0[:, 0])}
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clumpmap0 = read_h5(paths.particles_path(nsim0))["clumpmap"]
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parts0 = read_h5(paths.initmatch_path(nsim0, "particles"))["particles"]
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clid2map0 = {clid: i for i, clid in enumerate(clumpmap0[:, 0])}
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clumpmapx = read_h5(paths.particles_path(args.nsimx))["clumpmap"]
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partsx = read_h5(paths.initmatch_path(args.nsimx, "particles"))["particles"]
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clid2mapx = {clid: i for i, clid in enumerate(clumpmapx[:, 0])}
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clumpmapx = read_h5(paths.particles_path(nsimx))["clumpmap"]
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partsx = read_h5(paths.initmatch_path(nsimx, "particles"))["particles"]
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clid2mapx = {clid: i for i, clid in enumerate(clumpmapx[:, 0])}
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# We generate the background density fields. Loads halos's particles one by
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# one from the archive, concatenates them and calculates the NGP density
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# field.
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if verbose:
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print(f"{datetime.now()}: generating the background density fields.",
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flush=True)
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delta_bckg = overlapper.make_bckg_delta(parts0, clumpmap0, clid2map0, cat0,
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verbose=verbose)
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delta_bckg = overlapper.make_bckg_delta(partsx, clumpmapx, clid2mapx, catx,
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delta=delta_bckg, verbose=verbose)
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# We calculate the overlap between the NGP fields.
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if verbose:
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print(f"{datetime.now()}: crossing the simulations.", flush=True)
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match_indxs, ngp_overlap = matcher.cross(cat0, catx, parts0, partsx,
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clumpmap0, clumpmapx, delta_bckg,
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verbose=verbose)
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# We wish to store the halo IDs of the matches, not their array positions
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# in the catalogues
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match_hids = deepcopy(match_indxs)
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for i, matches in enumerate(match_indxs):
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for j, match in enumerate(matches):
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match_hids[i][j] = catx["index"][match]
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fout = paths.overlap_path(nsim0, nsimx, smoothed=False)
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numpy.savez(fout, ref_hids=cat0["index"], match_hids=match_hids,
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ngp_overlap=ngp_overlap)
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if verbose:
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print(f"{datetime.now()}: calculated NGP overlap, saved to {fout}.",
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flush=True)
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if not smoothen:
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quit()
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# We now smoothen up the background density field for the smoothed overlap
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# calculation.
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if verbose:
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print(f"{datetime.now()}: smoothing the background field.", flush=True)
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gaussian_filter(delta_bckg, output=delta_bckg, **smooth_kwargs)
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# We calculate the smoothed overlap for the pairs whose NGP overlap is > 0.
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smoothed_overlap = matcher.smoothed_cross(cat0, catx, parts0, partsx,
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clumpmap0, clumpmapx, delta_bckg,
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match_indxs, smooth_kwargs)
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fout = paths.overlap_path(nsim0, nsimx, smoothed=True)
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numpy.savez(fout, smoothed_overlap=smoothed_overlap, sigma=sigma)
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if verbose:
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print(f"{datetime.now()}: calculated smoothing, saved to {fout}.",
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flush=True)
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# We generate the background density fields. Loads halos's particles one by one
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# from the archive, concatenates them and calculates the NGP density field.
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if args.verbose:
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print(f"{datetime.now()}: generating the background density fields.",
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flush=True)
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delta_bckg = overlapper.make_bckg_delta(parts0, clumpmap0, clid2map0, cat0,
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verbose=args.verbose)
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delta_bckg = overlapper.make_bckg_delta(partsx, clumpmapx, clid2mapx, catx,
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delta=delta_bckg, verbose=args.verbose)
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if __name__ == "__main__":
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parser = ArgumentParser()
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parser.add_argument("--nsim0", type=int)
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parser.add_argument("--nsimx", type=int)
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parser.add_argument("--sigma", type=float, default=None)
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parser.add_argument("--smoothen", type=lambda x: bool(strtobool(x)),
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default=None)
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parser.add_argument("--verbose", type=lambda x: bool(strtobool(x)),
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default=False)
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args = parser.parse_args()
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# We calculate the overlap between the NGP fields.
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if args.verbose:
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print(f"{datetime.now()}: crossing the simulations.", flush=True)
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match_indxs, ngp_overlap = matcher.cross(cat0, catx, parts0, partsx, clumpmap0,
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clumpmapx, delta_bckg,
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verbose=args.verbose)
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# We wish to store the halo IDs of the matches, not their array positions in
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# the catalogues
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match_hids = deepcopy(match_indxs)
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for i, matches in enumerate(match_indxs):
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for j, match in enumerate(matches):
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match_hids[i][j] = catx["index"][match]
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fout = paths.overlap_path(args.nsim0, args.nsimx, smoothed=False)
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numpy.savez(fout, ref_hids=cat0["index"], match_hids=match_hids,
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ngp_overlap=ngp_overlap)
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if args.verbose:
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print(f"{datetime.now()}: calculated NGP overlap, saved to {fout}.",
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flush=True)
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if not args.smoothen:
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quit()
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# We now smoothen up the background density field for the smoothed overlap
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# calculation.
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if args.verbose:
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print(f"{datetime.now()}: smoothing the background field.", flush=True)
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gaussian_filter(delta_bckg, output=delta_bckg, **smooth_kwargs)
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# We calculate the smoothed overlap for the pairs whose NGP overlap is > 0.
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smoothed_overlap = matcher.smoothed_cross(cat0, catx, parts0, partsx,
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clumpmap0, clumpmapx, delta_bckg,
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match_indxs, smooth_kwargs)
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fout = paths.overlap_path(args.nsim0, args.nsimx, smoothed=True)
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numpy.savez(fout, smoothed_overlap=smoothed_overlap, sigma=args.sigma)
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if args.verbose:
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print(f"{datetime.now()}: calculated smoothed overlap, saved to {fout}.",
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flush=True)
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pair_match(args.nsim0, args.nsimx, args.sigma, args.smoothen, args.verbose)
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