{
 "cells": [
  {
   "cell_type": "markdown",
   "metadata": {},
   "source": [
    "# LePhare\n",
    "\n",
    "In addition to SED fitting with EAZY, we also include functionality to run SED fitting with LePhare, which is an older code based in Fortran."
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 1,
   "metadata": {},
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Reading GALFIND config file from: /nvme/scratch/work/austind/GALFIND/galfind/../configs/galfind_config.ini\n"
     ]
    },
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "WARNING:galfind:Aperture corrections for VISTA not found in /nvme/scratch/work/austind/GALFIND/galfind/Aperture_corrections/VISTA_aper_corr.txt\n",
      "WARNING:galfind:Aperture corrections for VISTA not found in /nvme/scratch/work/austind/GALFIND/galfind/Aperture_corrections/VISTA_aper_corr.txt\n"
     ]
    },
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Failed to `import dust_attenuation`\n",
      "Install from the repo with $ pip install git+https://github.com/karllark/dust_attenuation.git\n"
     ]
    }
   ],
   "source": [
    "import astropy.units as u\n",
    "from galfind import Catalogue_Creator, Data, LePhare\n",
    "from galfind.Data import morgan_version_to_dir"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 2,
   "metadata": {},
   "outputs": [
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "INFO:galfind:Loaded aper_diams=<Quantity [0.32] arcsec> for F277W+F356W+F444W\n",
      "INFO:galfind:Combined mask for NIRCam/F277W+F356W+F444W already exists at /raid/scratch/work/austind/GALFIND_WORK/Masks/JOF/combined/JOF_F277W+F356W+F444W_auto.fits\n",
      "WARNING: hdu= was not specified but multiple tables are present, reading in first available table (hdu=1) [astropy.io.fits.connect]\n",
      "WARNING:astroquery:hdu= was not specified but multiple tables are present, reading in first available table (hdu=1)\n",
      "WARNING:galfind:Aperture correction columns already in /raid/scratch/work/austind/GALFIND_WORK/Catalogues/v11/NIRCam/JOF/(0.32)as/JOF_MASTER_Sel-F277W+F356W+F444W_v11.fits\n",
      "Calculating depths:   0%|          | 0/15 [00:00<?, ?it/s]\n",
      "INFO:galfind:Calculated/loaded depths for JOF v11 NIRCam\n",
      "INFO:galfind:Local depth columns already exist in /raid/scratch/work/austind/GALFIND_WORK/Catalogues/v11/NIRCam/JOF/(0.32)as/JOF_MASTER_Sel-F277W+F356W+F444W_v11.fits\n"
     ]
    }
   ],
   "source": [
    "# Load in a JOF data object\n",
    "survey = \"JOF\"\n",
    "version = \"v11\"\n",
    "instrument_names = [\"NIRCam\"]\n",
    "aper_diams = [0.32] * u.arcsec\n",
    "forced_phot_band = [\"F277W\", \"F356W\", \"F444W\"]\n",
    "min_flux_pc_err = 10.\n",
    "\n",
    "JOF_data = Data.pipeline(\n",
    "    survey, \n",
    "    version, \n",
    "    instrument_names = [\"NIRCam\"], \n",
    "    version_to_dir_dict = morgan_version_to_dir,\n",
    "    aper_diams = aper_diams,\n",
    "    forced_phot_band = forced_phot_band,\n",
    "    min_flux_pc_err = min_flux_pc_err\n",
    ")"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 3,
   "metadata": {},
   "outputs": [
    {
     "name": "stderr",
     "output_type": "stream",
     "text": [
      "INFO:galfind:Loaded 'has_data_mask' from /raid/scratch/work/austind/GALFIND_WORK/Masks/JOF/has_data_mask/JOF_MASTER_Sel-F277W+F356W+F444W_v11.h5\n",
      "INFO:galfind:Making JOF v11 JOF_MASTER_Sel-F277W+F356W+F444W_v11 catalogue!\n",
      "WARNING:galfind:cat_aper_diams not in kwargs.keys()=dict_keys(['ZP', 'min_flux_pc_err'])! Setting to aper_diams=<Quantity [0.32] arcsec>\n",
      "WARNING:galfind:cat_aper_diams not in kwargs.keys()=dict_keys(['ZP', 'min_flux_pc_err'])! Setting to aper_diams=<Quantity [0.32] arcsec>\n",
      "WARNING:galfind:cat_aper_diams not in kwargs.keys()=dict_keys([])! Setting to aper_diams=<Quantity [0.32] arcsec>\n",
      "WARNING:galfind:cat_type = cat_type='selection' not in ['ID', 'sky_coord', 'phot', 'mask', 'depths'] and not a valid HDU extension in /raid/scratch/work/austind/GALFIND_WORK/Catalogues/v11/NIRCam/JOF/(0.32)as/JOF_MASTER_Sel-F277W+F356W+F444W_v11.fits!\n",
      "WARNING:galfind:selection tab is None!\n",
      "INFO:galfind:Made /raid/scratch/work/austind/GALFIND_WORK/Catalogues/v11/NIRCam/JOF/(0.32)as/JOF_MASTER_Sel-F277W+F356W+F444W_v11.fits catalogue!\n"
     ]
    }
   ],
   "source": [
    "cat_path = JOF_data.phot_cat_path\n",
    "filterset = JOF_data.filterset\n",
    "cat_creator = Catalogue_Creator(survey, version, cat_path, filterset, aper_diams)\n",
    "cat = cat_creator()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 4,
   "metadata": {},
   "outputs": [
    {
     "ename": "AttributeError",
     "evalue": "'LePhare' object has no attribute 'get_input_filterset'",
     "output_type": "error",
     "traceback": [
      "\u001b[0;31m---------------------------------------------------------------------------\u001b[0m",
      "\u001b[0;31mAttributeError\u001b[0m                            Traceback (most recent call last)",
      "Cell \u001b[0;32mIn[4], line 3\u001b[0m\n\u001b[1;32m      1\u001b[0m SED_fit_params \u001b[38;5;241m=\u001b[39m {\u001b[38;5;124m\"\u001b[39m\u001b[38;5;124mGAL_TEMPLATES\u001b[39m\u001b[38;5;124m\"\u001b[39m: \u001b[38;5;124m\"\u001b[39m\u001b[38;5;124mBC03_Chabrier2003_Z(m42_m62)\u001b[39m\u001b[38;5;124m\"\u001b[39m}\n\u001b[1;32m      2\u001b[0m LePhare_fitter \u001b[38;5;241m=\u001b[39m LePhare(SED_fit_params)\n\u001b[0;32m----> 3\u001b[0m \u001b[43mLePhare_fitter\u001b[49m\u001b[38;5;241;43m.\u001b[39;49m\u001b[43mcompile\u001b[49m\u001b[43m(\u001b[49m\u001b[43mfilterset\u001b[49m\u001b[43m,\u001b[49m\u001b[43m \u001b[49m\u001b[43mtypes\u001b[49m\u001b[43m \u001b[49m\u001b[38;5;241;43m=\u001b[39;49m\u001b[43m \u001b[49m\u001b[43m[\u001b[49m\u001b[38;5;124;43m\"\u001b[39;49m\u001b[38;5;124;43mSTAR\u001b[39;49m\u001b[38;5;124;43m\"\u001b[39;49m\u001b[43m]\u001b[49m\u001b[43m)\u001b[49m\u001b[38;5;66;03m#, \"QSO\"])\u001b[39;00m\n\u001b[1;32m      4\u001b[0m \u001b[38;5;28mprint\u001b[39m(SED_fit_params)\n",
      "File \u001b[0;32m/nvme/scratch/work/austind/GALFIND/galfind/LePhare.py:229\u001b[0m, in \u001b[0;36mLePhare.compile\u001b[0;34m(self, filterset, types, template_save_suffix)\u001b[0m\n\u001b[1;32m    222\u001b[0m \u001b[38;5;28;01mdef\u001b[39;00m \u001b[38;5;21mcompile\u001b[39m(\n\u001b[1;32m    223\u001b[0m     \u001b[38;5;28mself\u001b[39m, \n\u001b[1;32m    224\u001b[0m     filterset: Multiple_Filter, \n\u001b[0;32m   (...)\u001b[0m\n\u001b[1;32m    227\u001b[0m ) \u001b[38;5;241m-\u001b[39m\u001b[38;5;241m>\u001b[39m NoReturn:\n\u001b[1;32m    228\u001b[0m     \u001b[38;5;66;03m# determine appropriate input filterset\u001b[39;00m\n\u001b[0;32m--> 229\u001b[0m     input_filterset \u001b[38;5;241m=\u001b[39m \u001b[38;5;28;43mself\u001b[39;49m\u001b[38;5;241;43m.\u001b[39;49m\u001b[43mget_input_filterset\u001b[49m(filterset)\n\u001b[1;32m    230\u001b[0m     \u001b[38;5;28mself\u001b[39m\u001b[38;5;241m.\u001b[39mcompile_filters(input_filterset)\n\u001b[1;32m    231\u001b[0m     \u001b[38;5;28;01mfor\u001b[39;00m _type \u001b[38;5;129;01min\u001b[39;00m types:\n",
      "\u001b[0;31mAttributeError\u001b[0m: 'LePhare' object has no attribute 'get_input_filterset'"
     ]
    }
   ],
   "source": [
    "SED_fit_params = {\"GAL_TEMPLATES\": \"BC03_Chabrier2003_Z(m42_m62)\"}\n",
    "LePhare_fitter = LePhare(SED_fit_params)\n",
    "LePhare_fitter.compile(filterset, types = [\"STAR\"])#, \"QSO\"])\n",
    "print(SED_fit_params)\n",
    "\n",
    "#LePhare_fitter.compile_templates(filterset)\n",
    "#LePhare_fitter._compile_templates(input_filterset)\n",
    "#LePhare_SED_results_arr = LePhare_fitter(cat, aper_diams[0])"
   ]
  }
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