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https://github.com/Richard-Sti/csiborgtools.git
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Add plotting (#64)
* Add verbosity statements * More verbosity * Save masses too * Add CDF new plot * Blank line * Fix RVS sampling bug * Add R200 conversion * Simplify plotting routines * Remove imoprt
This commit is contained in:
Richard Stiskalek
GitHub
parent
7c2d7a86f5
commit
f1dbe6f03f
6 changed files with 123 additions and 12 deletions
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@ -67,7 +67,7 @@ class RVSinsphere(BaseRVS):
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gen = numpy.random.default_rng(random_state)
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# Spherical
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r = gen.random(nsamples, dtype=dtype)**(1 / 3) * self.R
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theta = 2 * numpy.arcsin(gen.random(nsamples, dtype=dtype))
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theta = numpy.arccos(1 - 2 * gen.random(nsamples, dtype=dtype))
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phi = 2 * numpy.pi * gen.random(nsamples, dtype=dtype)
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# Cartesian
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x = r * numpy.sin(theta) * numpy.cos(phi)
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@ -27,4 +27,4 @@ from .readsim import (MmainReader, ParticleReader, halfwidth_mask, # noqa
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load_clump_particles, load_parent_particles, read_initcm)
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from .tpcf_summary import TPCFReader # noqa
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from .utils import (cartesian_to_radec, cols_to_structured, # noqa
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radec_to_cartesian, read_h5, real2redshift)
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radec_to_cartesian, read_h5, real2redshift, M200_to_R200)
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@ -484,6 +484,8 @@ class NPairsOverlap:
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def __init__(self, cat0, catxs, paths, verbose=True):
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pairs = [None] * len(catxs)
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if verbose:
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print("Loading individual overlap objects...", flush=True)
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for i, catx in enumerate(tqdm(catxs) if verbose else catxs):
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pairs[i] = PairOverlap(cat0, catx, paths)
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@ -506,6 +508,8 @@ class NPairsOverlap:
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summed_overlap : 2-dimensional array of shape `(nhalos, ncatxs)`
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"""
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out = [None] * len(self)
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if verbose:
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print("Calculating summed overlap...", flush=True)
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for i, pair in enumerate(tqdm(self.pairs) if verbose else self.pairs):
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out[i] = pair.summed_overlap(from_smoothed)
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return numpy.vstack(out).T
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@ -527,6 +531,8 @@ class NPairsOverlap:
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prob_nomatch : 2-dimensional array of shape `(nhalos, ncatxs)`
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"""
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out = [None] * len(self)
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if verbose:
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print("Calculating probability of no match...", flush=True)
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for i, pair in enumerate(tqdm(self.pairs) if verbose else self.pairs):
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out[i] = pair.prob_nomatch(from_smoothed)
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return numpy.vstack(out).T
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@ -568,6 +574,8 @@ class NPairsOverlap:
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Returned only if `return_full` is `True`.
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"""
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mus, stds = [None] * len(self), [None] * len(self)
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if verbose:
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print("Calculating counterpart masses...", flush=True)
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for i, pair in enumerate(tqdm(self.pairs) if verbose else self.pairs):
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mus[i], stds[i] = pair.counterpart_mass(
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from_smoothed=from_smoothed,
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@ -18,6 +18,7 @@ Various coordinate transformations.
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from os.path import isfile
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import numpy
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from astropy import units
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from h5py import File
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###############################################################################
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@ -135,6 +136,29 @@ def real2redshift(pos, vel, origin, box, in_box_units, periodic_wrap=True,
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return pos
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def M200_to_R200(M200, cosmo):
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r"""
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Convert :math:M_{200} to :math:`R_{200}`.
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Parameters
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----------
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M200 : float
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:math:`M_{200}` in :math:`M_{\odot}`.
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cosmo : astropy cosmology object
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Cosmology.
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Returns
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-------
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R200 : float
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:math:`R_{200}` in :math:`\mathrm{Mpc}`.
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"""
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Msun = 1.98847e30
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M200 = 1e14 * Msun * units.kg
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rhoc = cosmo.critical_density0
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R200 = (M200 / (4 * numpy.pi / 3 * 200 * rhoc))**(1. / 3)
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return R200.to(units.Mpc).value
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###############################################################################
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# Array manipulation #
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###############################################################################
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@ -69,7 +69,7 @@ def find_neighbour(args, nsim, cats, paths, comm):
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if args.verbose:
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print(f"Rank {comm.Get_rank()} writing to `{fout}`.", flush=True)
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numpy.savez(fout, ndist=ndist, cross_hindxs=cross_hindxs, mass=mass,
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rdist=rdist)
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ref_hindxs=cat0["index"], rdist=rdist)
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if __name__ == "__main__":
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@ -56,14 +56,16 @@ def get_overlap(nsim0):
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cat0 = open_cat(nsim0)
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catxs = []
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print("Opening catalogues...", flush=True)
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for nsimx in tqdm(nsimxs):
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catxs.append(open_cat(nsimx))
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reader = csiborgtools.read.NPairsOverlap(cat0, catxs, paths)
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x = reader.cat0("totpartmass")
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mass = reader.cat0("totpartmass")
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hindxs = reader.cat0("index")
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summed_overlap = reader.summed_overlap(True)
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prob_nomatch = reader.prob_nomatch(True)
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return x, summed_overlap, prob_nomatch
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return mass, hindxs, summed_overlap, prob_nomatch
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def plot_summed_overlap(nsim0):
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@ -71,7 +73,7 @@ def plot_summed_overlap(nsim0):
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Plot the summed overlap and probability of no matching for a single
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reference simulation as a function of the reference halo mass.
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"""
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x, summed_overlap, prob_nomatch = get_overlap(nsim0)
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x, __, summed_overlap, prob_nomatch = get_overlap(nsim0)
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mean_overlap = numpy.mean(summed_overlap, axis=1)
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std_overlap = numpy.std(summed_overlap, axis=1)
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@ -170,7 +172,7 @@ def make_ks(simname, run, nsim, nobs, kwargs):
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return reader.ks_significance(simname, run, nsim, cdf, nobs=nobs)
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def plot_dist(run, kind, kwargs):
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def plot_dist(run, kind, kwargs, r200):
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"""
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Plot the PDF/CDF of the nearest neighbour distance for Quijote and CSiBORG.
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"""
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@ -179,6 +181,8 @@ def plot_dist(run, kind, kwargs):
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paths = csiborgtools.read.Paths(**kwargs["paths_kind"])
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reader = csiborgtools.read.NearestNeighbourReader(**kwargs, paths=paths)
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x = reader.bin_centres("neighbour")
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if r200 is not None:
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x /= r200
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y_quijote = read_dist("quijote", run, kind, kwargs)
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y_csiborg = read_dist("csiborg", run, kind, kwargs)
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@ -196,7 +200,10 @@ def plot_dist(run, kind, kwargs):
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plt.plot(x, y_quijote[i], c="C0", label=label1)
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plt.plot(x, y_csiborg[i], c="C1", label=label2)
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plt.xlim(0, 75)
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if r200 is None:
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plt.xlabel(r"$r_{1\mathrm{NN}}~[\mathrm{Mpc}]$")
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else:
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plt.xlabel(r"$r_{1\mathrm{NN}} / R_{200c}$")
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if kind == "pdf":
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plt.ylabel(r"$p(r_{1\mathrm{NN}})$")
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else:
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@ -308,6 +315,63 @@ def plot_kl_vs_ks(simname, run, nsim, nobs, kwargs):
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plt.close()
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def plot_kl_vs_overlap(run, nsim, kwargs):
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"""
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Plot KL divergence vs overlap.
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"""
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paths = csiborgtools.read.Paths(**kwargs["paths_kind"])
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nn_reader = csiborgtools.read.NearestNeighbourReader(**kwargs, paths=paths)
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nn_data = nn_reader.read_single("csiborg", run, nsim, nobs=None)
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nn_hindxs = nn_data["ref_hindxs"]
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mass, overlap_hindxs, summed_overlap, prob_nomatch = get_overlap(nsim)
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# We need to match the hindxs between the two.
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hind2overlap_array = {hind: i for i, hind in enumerate(overlap_hindxs)}
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mask = numpy.asanyarray([hind2overlap_array[hind] for hind in nn_hindxs])
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summed_overlap = summed_overlap[mask]
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prob_nomatch = prob_nomatch[mask]
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mass = mass[mask]
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kl = make_kl("csiborg", run, nsim, nobs=None, kwargs=kwargs)
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with plt.style.context(utils.mplstyle):
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plt.figure()
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mu = numpy.mean(prob_nomatch, axis=1)
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plt.scatter(kl, 1 - mu, c=numpy.log10(mass))
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plt.colorbar(label=r"$\log M_{\rm tot} / M_\odot$")
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plt.xlabel(r"$D_{\mathrm{KL}}$ of $r_{1\mathrm{NN}}$ distribution")
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plt.ylabel(r"$1 - \langle \eta^{\mathcal{B}}_a \rangle_{\mathcal{B}}$")
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plt.tight_layout()
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for ext in ["png"]:
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fout = join(utils.fout, f"kl_vs_overlap_mean_{run}_{str(nsim).zfill(5)}.{ext}") # noqa
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print(f"Saving to `{fout}`.")
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plt.savefig(fout, dpi=utils.dpi, bbox_inches="tight")
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plt.close()
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with plt.style.context(utils.mplstyle):
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plt.figure()
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std = numpy.std(prob_nomatch, axis=1)
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plt.scatter(kl, std, c=numpy.log10(mass))
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plt.colorbar(label=r"$\log M_{\rm tot} / M_\odot$")
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plt.xlabel(r"$D_{\mathrm{KL}}$ of $r_{1\mathrm{NN}}$ distribution")
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plt.ylabel(r"$\langle \left(\eta^{\mathcal{B}}_a - \langle \eta^{\mathcal{B}^\prime}_a \rangle_{\mathcal{B}^\prime}\right)^2\rangle_{\mathcal{B}}^{1/2}$") # noqa
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plt.tight_layout()
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for ext in ["png"]:
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fout = join(utils.fout, f"kl_vs_overlap_std_{run}_{str(nsim).zfill(5)}.{ext}") # noqa
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print(f"Saving to `{fout}`.")
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plt.savefig(fout, dpi=utils.dpi, bbox_inches="tight")
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plt.close()
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###############################################################################
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# Command line interface #
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###############################################################################
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if __name__ == "__main__":
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parser = ArgumentParser()
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parser.add_argument('-c', '--clean', action='store_true')
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@ -320,15 +384,30 @@ if __name__ == "__main__":
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delete_disk_caches_for_function(func)
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neighbour_kwargs = {"rmax_radial": 155 / 0.705,
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"nbins_radial": 20,
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"nbins_radial": 50,
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"rmax_neighbour": 100.,
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"nbins_neighbour": 150,
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"paths_kind": csiborgtools.paths_glamdring}
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run = "mass003"
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# plot_dist("mass003", "pdf", neighbour_kwargs)
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paths = csiborgtools.read.Paths(**neighbour_kwargs["paths_kind"])
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nn_reader = csiborgtools.read.NearestNeighbourReader(**neighbour_kwargs,
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paths=paths)
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run = "mass003"
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# for ic in [7444, 8812, 9700]:
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# plot_summed_overlap(ic)
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# sizes = numpy.full(2700, numpy.nan)
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# from tqdm import trange
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# k = 0
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# for nsim in trange(100):
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# for nobs in range(27):
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# d = nn_reader.read_single("quijote", run, nsim, nobs)
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# sizes[k] = d["mass"].size
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# k += 1
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# print(sizes)
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# print(numpy.mean(sizes), numpy.std(sizes))
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# plot_kl_vs_overlap("mass003", 7444, neighbour_kwargs)
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# plot_cdf_r200("mass003", neighbour_kwargs)
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