csiborgtools/scripts_plots/paper_environment.ipynb

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{
"cells": [
{
"cell_type": "code",
"execution_count": 1,
"metadata": {},
"outputs": [],
"source": [
"from os.path import join\n",
"\n",
"import csiborgtools\n",
"import healpy\n",
"import matplotlib.pyplot as plt\n",
"import numpy\n",
"import scienceplots\n",
"from cache_to_disk import cache_to_disk, delete_disk_caches_for_function\n",
"from h5py import File\n",
"\n",
"import plt_utils\n",
"\n",
"\n",
"%load_ext autoreload\n",
"%autoreload 2"
]
},
{
"cell_type": "code",
Overlap fixing and more (#107) * Update README * Update density field reader * Update name of SDSSxALFAFA * Fix quick bug * Add little fixes * Update README * Put back fit_init * Add paths to initial snapshots * Add export * Remove some choices * Edit README * Add Jens' comments * Organize imports * Rename snapshot * Add additional print statement * Add paths to initial snapshots * Add masses to the initial files * Add normalization * Edit README * Update README * Fix bug in CSiBORG1 so that does not read fof_00001 * Edit README * Edit README * Overwrite comments * Add paths to init lag * Fix Quijote path * Add lagpatch * Edit submits * Update README * Fix numpy int problem * Update README * Add a flag to keep the snapshots open when fitting * Add a flag to keep snapshots open * Comment out some path issue * Keep snapshots open * Access directly snasphot * Add lagpatch for CSiBORG2 * Add treatment of x-z coordinates flipping * Add radial velocity field loader * Update README * Add lagpatch to Quijote * Fix typo * Add setter * Fix typo * Update README * Add output halo cat as ASCII * Add import * Add halo plot * Update README * Add evaluating field at radial distanfe * Add field shell evaluation * Add enclosed mass computation * Add BORG2 import * Add BORG boxsize * Add BORG paths * Edit run * Add BORG2 overdensity field * Add bulk flow clauclation * Update README * Add new plots * Add nbs * Edit paper * Update plotting * Fix overlap paths to contain simname * Add normalization of positions * Add default paths to CSiBORG1 * Add overlap path simname * Fix little things * Add CSiBORG2 catalogue * Update README * Add import * Add TNG density field constructor * Add TNG density * Add draft of calculating BORG ACL * Fix bug * Add ACL of enclosed density * Add nmean acl * Add galaxy bias calculation * Add BORG acl notebook * Add enclosed mass calculation * Add TNG300-1 dir * Add TNG300 and BORG1 dir * Update nb
2024-01-30 17:14:07 +01:00
"execution_count": 8,
"metadata": {},
"outputs": [],
"source": [
"@cache_to_disk(30)\n",
"def _plot_sky_projected_density(nsim, simname, grid, nside, MAS, survey_name,\n",
" dmin, dmax):\n",
" paths = csiborgtools.read.Paths(**csiborgtools.paths_glamdring)\n",
" boxsize = csiborgtools.simname2boxsize(simname)\n",
"\n",
" if simname == \"csiborg1\":\n",
" reader = csiborgtools.read.CSiBORG1Field(nsim, paths)\n",
" elif \"csiborg2\" in simname:\n",
" kind = simname.split(\"_\")[-1]\n",
Overlap fixing and more (#107) * Update README * Update density field reader * Update name of SDSSxALFAFA * Fix quick bug * Add little fixes * Update README * Put back fit_init * Add paths to initial snapshots * Add export * Remove some choices * Edit README * Add Jens' comments * Organize imports * Rename snapshot * Add additional print statement * Add paths to initial snapshots * Add masses to the initial files * Add normalization * Edit README * Update README * Fix bug in CSiBORG1 so that does not read fof_00001 * Edit README * Edit README * Overwrite comments * Add paths to init lag * Fix Quijote path * Add lagpatch * Edit submits * Update README * Fix numpy int problem * Update README * Add a flag to keep the snapshots open when fitting * Add a flag to keep snapshots open * Comment out some path issue * Keep snapshots open * Access directly snasphot * Add lagpatch for CSiBORG2 * Add treatment of x-z coordinates flipping * Add radial velocity field loader * Update README * Add lagpatch to Quijote * Fix typo * Add setter * Fix typo * Update README * Add output halo cat as ASCII * Add import * Add halo plot * Update README * Add evaluating field at radial distanfe * Add field shell evaluation * Add enclosed mass computation * Add BORG2 import * Add BORG boxsize * Add BORG paths * Edit run * Add BORG2 overdensity field * Add bulk flow clauclation * Update README * Add new plots * Add nbs * Edit paper * Update plotting * Fix overlap paths to contain simname * Add normalization of positions * Add default paths to CSiBORG1 * Add overlap path simname * Fix little things * Add CSiBORG2 catalogue * Update README * Add import * Add TNG density field constructor * Add TNG density * Add draft of calculating BORG ACL * Fix bug * Add ACL of enclosed density * Add nmean acl * Add galaxy bias calculation * Add BORG acl notebook * Add enclosed mass calculation * Add TNG300-1 dir * Add TNG300 and BORG1 dir * Update nb
2024-01-30 17:14:07 +01:00
" reader = csiborgtools.read.CSiBORG2Field(nsim, kind, paths)\n",
" else:\n",
" raise ValueError(f\"Unknown simname `{simname}`.\")\n",
"\n",
" field = reader.density_field(MAS, grid)\n",
"\n",
" if survey_name == \"2M++\":\n",
" survey = csiborgtools.read.TwoMPPGalaxies()\n",
" dist = survey[\"ZCMB\"] * 3e5 / 100\n",
" ra, dec = survey[\"RA\"], survey[\"DEC\"]\n",
" ra *= numpy.pi / 180\n",
" dec *= numpy.pi / 180\n",
" elif survey_name == \"SDSS\":\n",
" survey = csiborgtools.SDSS()()\n",
" dist = survey[\"DIST\"]\n",
" ra, dec = survey[\"RA\"], survey[\"DEC\"]\n",
" ra *= numpy.pi / 180\n",
" dec *= numpy.pi / 180\n",
Overlap fixing and more (#107) * Update README * Update density field reader * Update name of SDSSxALFAFA * Fix quick bug * Add little fixes * Update README * Put back fit_init * Add paths to initial snapshots * Add export * Remove some choices * Edit README * Add Jens' comments * Organize imports * Rename snapshot * Add additional print statement * Add paths to initial snapshots * Add masses to the initial files * Add normalization * Edit README * Update README * Fix bug in CSiBORG1 so that does not read fof_00001 * Edit README * Edit README * Overwrite comments * Add paths to init lag * Fix Quijote path * Add lagpatch * Edit submits * Update README * Fix numpy int problem * Update README * Add a flag to keep the snapshots open when fitting * Add a flag to keep snapshots open * Comment out some path issue * Keep snapshots open * Access directly snasphot * Add lagpatch for CSiBORG2 * Add treatment of x-z coordinates flipping * Add radial velocity field loader * Update README * Add lagpatch to Quijote * Fix typo * Add setter * Fix typo * Update README * Add output halo cat as ASCII * Add import * Add halo plot * Update README * Add evaluating field at radial distanfe * Add field shell evaluation * Add enclosed mass computation * Add BORG2 import * Add BORG boxsize * Add BORG paths * Edit run * Add BORG2 overdensity field * Add bulk flow clauclation * Update README * Add new plots * Add nbs * Edit paper * Update plotting * Fix overlap paths to contain simname * Add normalization of positions * Add default paths to CSiBORG1 * Add overlap path simname * Fix little things * Add CSiBORG2 catalogue * Update README * Add import * Add TNG density field constructor * Add TNG density * Add draft of calculating BORG ACL * Fix bug * Add ACL of enclosed density * Add nmean acl * Add galaxy bias calculation * Add BORG acl notebook * Add enclosed mass calculation * Add TNG300-1 dir * Add TNG300 and BORG1 dir * Update nb
2024-01-30 17:14:07 +01:00
" elif survey_name == \"csiborg2\":\n",
" cat = csiborgtools.read.CSiBORG2Catalogue(\n",
" nsim, 99, \"main\", paths, bounds={\"totmass\": (1e12, None)})\n",
" coord = cat[\"spherical_pos\"]\n",
" dist, ra, dec = coord[:, 0], coord[:, 1], coord[:, 2]\n",
" ra *= numpy.pi / 180\n",
" dec *= numpy.pi / 180\n",
" else:\n",
" raise ValueError(f\"Unknown survey name `{survey_name}`.\")\n",
" \n",
" mask = (dist > dmin) & (dist < dmax)\n",
" ra = ra[mask]\n",
" dec = dec[mask]\n",
"\n",
"\n",
" angpos = csiborgtools.field.nside2radec(nside)\n",
" dist = numpy.linspace(dmin, dmax, 1000)\n",
" dmap = csiborgtools.field.make_sky(field, angpos=angpos, dist=dist,\n",
" boxsize=boxsize)\n",
" return dmap, ra, dec"
]
},
{
"cell_type": "code",
Overlap fixing and more (#107) * Update README * Update density field reader * Update name of SDSSxALFAFA * Fix quick bug * Add little fixes * Update README * Put back fit_init * Add paths to initial snapshots * Add export * Remove some choices * Edit README * Add Jens' comments * Organize imports * Rename snapshot * Add additional print statement * Add paths to initial snapshots * Add masses to the initial files * Add normalization * Edit README * Update README * Fix bug in CSiBORG1 so that does not read fof_00001 * Edit README * Edit README * Overwrite comments * Add paths to init lag * Fix Quijote path * Add lagpatch * Edit submits * Update README * Fix numpy int problem * Update README * Add a flag to keep the snapshots open when fitting * Add a flag to keep snapshots open * Comment out some path issue * Keep snapshots open * Access directly snasphot * Add lagpatch for CSiBORG2 * Add treatment of x-z coordinates flipping * Add radial velocity field loader * Update README * Add lagpatch to Quijote * Fix typo * Add setter * Fix typo * Update README * Add output halo cat as ASCII * Add import * Add halo plot * Update README * Add evaluating field at radial distanfe * Add field shell evaluation * Add enclosed mass computation * Add BORG2 import * Add BORG boxsize * Add BORG paths * Edit run * Add BORG2 overdensity field * Add bulk flow clauclation * Update README * Add new plots * Add nbs * Edit paper * Update plotting * Fix overlap paths to contain simname * Add normalization of positions * Add default paths to CSiBORG1 * Add overlap path simname * Fix little things * Add CSiBORG2 catalogue * Update README * Add import * Add TNG density field constructor * Add TNG density * Add draft of calculating BORG ACL * Fix bug * Add ACL of enclosed density * Add nmean acl * Add galaxy bias calculation * Add BORG acl notebook * Add enclosed mass calculation * Add TNG300-1 dir * Add TNG300 and BORG1 dir * Update nb
2024-01-30 17:14:07 +01:00
"execution_count": 9,
"metadata": {},
"outputs": [],
"source": [
"def plot_sky_projected_density(nsim, simname, grid, nside, MAS=\"PCS\",\n",
" dmin=0, dmax=220, survey_name=\"2M++\",\n",
" ext=\"png\", to_save=False):\n",
" dmap, ra, dec = _plot_sky_projected_density(\n",
" nsim, simname, grid, nside, MAS, survey_name, dmin, dmax)\n",
" \n",
" with plt.style.context(plt_utils.mplstyle):\n",
" healpy.mollview(numpy.log10(dmap), fig=0, title=\"\", unit=\"\", rot=90)\n",
"\n",
" healpy.projscatter(numpy.pi / 2 - dec, ra, s=0.05, c=\"red\",\n",
" label=\"2M++ galaxies\")\n",
"\n",
" if to_save:\n",
" fout = join(plt_utils.fout, f\"sky_density_{simname}_{nsim}_from_{dmin}_to_{dmax}.{ext}\") # noqa\n",
" print(f\"Saving to `{fout}`.\")\n",
" plt.savefig(fout, dpi=plt_utils.dpi, bbox_inches=\"tight\")\n",
" plt.show()"
]
},
{
"cell_type": "code",
Overlap fixing and more (#107) * Update README * Update density field reader * Update name of SDSSxALFAFA * Fix quick bug * Add little fixes * Update README * Put back fit_init * Add paths to initial snapshots * Add export * Remove some choices * Edit README * Add Jens' comments * Organize imports * Rename snapshot * Add additional print statement * Add paths to initial snapshots * Add masses to the initial files * Add normalization * Edit README * Update README * Fix bug in CSiBORG1 so that does not read fof_00001 * Edit README * Edit README * Overwrite comments * Add paths to init lag * Fix Quijote path * Add lagpatch * Edit submits * Update README * Fix numpy int problem * Update README * Add a flag to keep the snapshots open when fitting * Add a flag to keep snapshots open * Comment out some path issue * Keep snapshots open * Access directly snasphot * Add lagpatch for CSiBORG2 * Add treatment of x-z coordinates flipping * Add radial velocity field loader * Update README * Add lagpatch to Quijote * Fix typo * Add setter * Fix typo * Update README * Add output halo cat as ASCII * Add import * Add halo plot * Update README * Add evaluating field at radial distanfe * Add field shell evaluation * Add enclosed mass computation * Add BORG2 import * Add BORG boxsize * Add BORG paths * Edit run * Add BORG2 overdensity field * Add bulk flow clauclation * Update README * Add new plots * Add nbs * Edit paper * Update plotting * Fix overlap paths to contain simname * Add normalization of positions * Add default paths to CSiBORG1 * Add overlap path simname * Fix little things * Add CSiBORG2 catalogue * Update README * Add import * Add TNG density field constructor * Add TNG density * Add draft of calculating BORG ACL * Fix bug * Add ACL of enclosed density * Add nmean acl * Add galaxy bias calculation * Add BORG acl notebook * Add enclosed mass calculation * Add TNG300-1 dir * Add TNG300 and BORG1 dir * Update nb
2024-01-30 17:14:07 +01:00
"execution_count": 3,
"metadata": {},
"outputs": [
Overlap fixing and more (#107) * Update README * Update density field reader * Update name of SDSSxALFAFA * Fix quick bug * Add little fixes * Update README * Put back fit_init * Add paths to initial snapshots * Add export * Remove some choices * Edit README * Add Jens' comments * Organize imports * Rename snapshot * Add additional print statement * Add paths to initial snapshots * Add masses to the initial files * Add normalization * Edit README * Update README * Fix bug in CSiBORG1 so that does not read fof_00001 * Edit README * Edit README * Overwrite comments * Add paths to init lag * Fix Quijote path * Add lagpatch * Edit submits * Update README * Fix numpy int problem * Update README * Add a flag to keep the snapshots open when fitting * Add a flag to keep snapshots open * Comment out some path issue * Keep snapshots open * Access directly snasphot * Add lagpatch for CSiBORG2 * Add treatment of x-z coordinates flipping * Add radial velocity field loader * Update README * Add lagpatch to Quijote * Fix typo * Add setter * Fix typo * Update README * Add output halo cat as ASCII * Add import * Add halo plot * Update README * Add evaluating field at radial distanfe * Add field shell evaluation * Add enclosed mass computation * Add BORG2 import * Add BORG boxsize * Add BORG paths * Edit run * Add BORG2 overdensity field * Add bulk flow clauclation * Update README * Add new plots * Add nbs * Edit paper * Update plotting * Fix overlap paths to contain simname * Add normalization of positions * Add default paths to CSiBORG1 * Add overlap path simname * Fix little things * Add CSiBORG2 catalogue * Update README * Add import * Add TNG density field constructor * Add TNG density * Add draft of calculating BORG ACL * Fix bug * Add ACL of enclosed density * Add nmean acl * Add galaxy bias calculation * Add BORG acl notebook * Add enclosed mass calculation * Add TNG300-1 dir * Add TNG300 and BORG1 dir * Update nb
2024-01-30 17:14:07 +01:00
{
"ename": "NameError",
"evalue": "name 'hp' is not defined",
"output_type": "error",
"traceback": [
"\u001b[0;31m---------------------------------------------------------------------------\u001b[0m",
"\u001b[0;31mNameError\u001b[0m Traceback (most recent call last)",
"Cell \u001b[0;32mIn[3], line 1\u001b[0m\n\u001b[0;32m----> 1\u001b[0m \u001b[43mhp\u001b[49m\n",
"\u001b[0;31mNameError\u001b[0m: name 'hp' is not defined"
]
}
],
"source": []
},
{
"cell_type": "code",
"execution_count": 10,
"metadata": {},
"outputs": [
{
"name": "stderr",
"output_type": "stream",
"text": [
"100%|██████████| 196608/196608 [00:22<00:00, 8765.57it/s]\n"
]
},
{
"name": "stdout",
"output_type": "stream",
"text": [
"Saving to `../plots/sky_density_csiborg2_main_15517_from_100_to_125.png`.\n"
]
},
{
"data": {
Overlap fixing and more (#107) * Update README * Update density field reader * Update name of SDSSxALFAFA * Fix quick bug * Add little fixes * Update README * Put back fit_init * Add paths to initial snapshots * Add export * Remove some choices * Edit README * Add Jens' comments * Organize imports * Rename snapshot * Add additional print statement * Add paths to initial snapshots * Add masses to the initial files * Add normalization * Edit README * Update README * Fix bug in CSiBORG1 so that does not read fof_00001 * Edit README * Edit README * Overwrite comments * Add paths to init lag * Fix Quijote path * Add lagpatch * Edit submits * Update README * Fix numpy int problem * Update README * Add a flag to keep the snapshots open when fitting * Add a flag to keep snapshots open * Comment out some path issue * Keep snapshots open * Access directly snasphot * Add lagpatch for CSiBORG2 * Add treatment of x-z coordinates flipping * Add radial velocity field loader * Update README * Add lagpatch to Quijote * Fix typo * Add setter * Fix typo * Update README * Add output halo cat as ASCII * Add import * Add halo plot * Update README * Add evaluating field at radial distanfe * Add field shell evaluation * Add enclosed mass computation * Add BORG2 import * Add BORG boxsize * Add BORG paths * Edit run * Add BORG2 overdensity field * Add bulk flow clauclation * Update README * Add new plots * Add nbs * Edit paper * Update plotting * Fix overlap paths to contain simname * Add normalization of positions * Add default paths to CSiBORG1 * Add overlap path simname * Fix little things * Add CSiBORG2 catalogue * Update README * Add import * Add TNG density field constructor * Add TNG density * Add draft of calculating BORG ACL * Fix bug * Add ACL of enclosed density * Add nmean acl * Add galaxy bias calculation * Add BORG acl notebook * Add enclosed mass calculation * Add TNG300-1 dir * Add TNG300 and BORG1 dir * Update nb
2024-01-30 17:14:07 +01:00
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"text/plain": [
"<Figure size 850x540 with 2 Axes>"
]
},
"metadata": {},
"output_type": "display_data"
}
],
"source": [
"# delete_disk_caches_for_function(\"_plot_sky_projected_density\")\n",
"plot_sky_projected_density(15517, \"csiborg2_main\", 1024, 128, \"SPH\", dmin=100,\n",
Overlap fixing and more (#107) * Update README * Update density field reader * Update name of SDSSxALFAFA * Fix quick bug * Add little fixes * Update README * Put back fit_init * Add paths to initial snapshots * Add export * Remove some choices * Edit README * Add Jens' comments * Organize imports * Rename snapshot * Add additional print statement * Add paths to initial snapshots * Add masses to the initial files * Add normalization * Edit README * Update README * Fix bug in CSiBORG1 so that does not read fof_00001 * Edit README * Edit README * Overwrite comments * Add paths to init lag * Fix Quijote path * Add lagpatch * Edit submits * Update README * Fix numpy int problem * Update README * Add a flag to keep the snapshots open when fitting * Add a flag to keep snapshots open * Comment out some path issue * Keep snapshots open * Access directly snasphot * Add lagpatch for CSiBORG2 * Add treatment of x-z coordinates flipping * Add radial velocity field loader * Update README * Add lagpatch to Quijote * Fix typo * Add setter * Fix typo * Update README * Add output halo cat as ASCII * Add import * Add halo plot * Update README * Add evaluating field at radial distanfe * Add field shell evaluation * Add enclosed mass computation * Add BORG2 import * Add BORG boxsize * Add BORG paths * Edit run * Add BORG2 overdensity field * Add bulk flow clauclation * Update README * Add new plots * Add nbs * Edit paper * Update plotting * Fix overlap paths to contain simname * Add normalization of positions * Add default paths to CSiBORG1 * Add overlap path simname * Fix little things * Add CSiBORG2 catalogue * Update README * Add import * Add TNG density field constructor * Add TNG density * Add draft of calculating BORG ACL * Fix bug * Add ACL of enclosed density * Add nmean acl * Add galaxy bias calculation * Add BORG acl notebook * Add enclosed mass calculation * Add TNG300-1 dir * Add TNG300 and BORG1 dir * Update nb
2024-01-30 17:14:07 +01:00
" dmax=125, survey_name=\"csiborg2\", to_save=True)"
]
},
{
"cell_type": "code",
"execution_count": null,
"metadata": {},
"outputs": [],
"source": []
},
{
"cell_type": "code",
"execution_count": null,
"metadata": {},
"outputs": [],
"source": []
},
{
"cell_type": "code",
"execution_count": null,
"metadata": {},
"outputs": [],
"source": []
},
{
"cell_type": "code",
"execution_count": null,
"metadata": {},
"outputs": [],
"source": []
},
{
"cell_type": "code",
"execution_count": null,
"metadata": {},
"outputs": [],
"source": []
}
],
"metadata": {
"kernelspec": {
"display_name": "venv_csiborg",
"language": "python",
"name": "python3"
},
"language_info": {
"codemirror_mode": {
"name": "ipython",
"version": 3
},
"file_extension": ".py",
"mimetype": "text/x-python",
"name": "python",
"nbconvert_exporter": "python",
"pygments_lexer": "ipython3",
"version": "3.11.4"
}
},
"nbformat": 4,
"nbformat_minor": 2
}