--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/Spectrum.py	Mon Feb 19 10:56:44 2024 +0000
@@ -0,0 +1,209 @@
+#!/usr/bin/env python
+# coding: utf-8
+
+# flake8: noqa
+
+import json
+import os
+import shutil
+
+import matplotlib.pyplot as plt
+import numpy as np
+from astropy.coordinates import SkyCoord
+from astropy.io import fits
+from astropy.time import Time
+from numpy import log10, sqrt
+from oda_api.data_products import ODAAstropyTable, PictureProduct
+from oda_api.json import CustomJSONEncoder
+
+if os.path.exists("hess_dl3_dr1.tar.gz") == False:
+    get_ipython().system(   # noqa: F821
+        "wget https://zenodo.org/record/1421099/files/hess_dl3_dr1.tar.gz"
+    )
+    get_ipython().system("tar -zxvf hess_dl3_dr1.tar.gz")   # noqa: F821
+
+# src_name='Crab' #http://odahub.io/ontology#AstrophysicalObject
+# RA = 83.628700  # http://odahub.io/ontology#PointOfInterestRA
+# DEC = 22.014700 # http://odahub.io/ontology#PointOfInterestDEC
+src_name = "PKS 2155-304"
+RA = 329.716938  # http://odahub.io/ontology#PointOfInterestRA
+DEC = -30.225588  # http://odahub.io/ontology#PointOfInterestDEC
+
+T1 = "2000-10-09T13:16:00.0"  # http://odahub.io/ontology#StartTime
+T2 = "2022-10-10T13:16:00.0"  # http://odahub.io/ontology#EndTime
+Radius = 2.5  # http://odahub.io/ontology#AngleDegrees
+R_s = 0.2  # http://odahub.io/ontology#AngleDegrees
+
+Emin = 100.0  # http://odahub.io/ontology#Energy_GeV
+Emax = 10000.0  # http://odahub.io/ontology#Energy_GeV
+NEbins = 20  # http://odahub.io/ontology#Integer
+
+_galaxy_wd = os.getcwd()
+
+with open("inputs.json", "r") as fd:
+    inp_dic = json.load(fd)
+if "_data_product" in inp_dic.keys():
+    inp_pdic = inp_dic["_data_product"]
+else:
+    inp_pdic = inp_dic
+
+for vn, vv in inp_pdic.items():
+    if vn != "_selector":
+        globals()[vn] = type(globals()[vn])(vv)
+
+Emin = Emin / 1e3
+Emax = Emax / 1e3
+Ebins = np.logspace(log10(Emin), log10(Emax), NEbins + 1)
+Ebins
+Emin = Ebins[:-1]
+Emax = Ebins[1:]
+Emean = sqrt(Emin * Emax)
+lgEmean = log10(Emean)
+
+T1 = Time(T1, format="isot", scale="utc").mjd
+T2 = Time(T2, format="isot", scale="utc").mjd
+message = ""
+RA_pnts = []
+DEC_pnts = []
+DL3_files = []
+OBSIDs = []
+Tstart = []
+Tstop = []
+flist = os.listdir("data")
+for f in flist:
+    if f[-7:] == "fits.gz":
+        DL3_files.append(f)
+        OBSIDs.append(int(f[20:26]))
+        hdul = fits.open("data/" + f)
+        RA_pnts.append(float(hdul[1].header["RA_PNT"]))
+        DEC_pnts.append(float(hdul[1].header["DEC_PNT"]))
+        Tstart.append(
+            Time(
+                hdul[1].header["DATE-OBS"] + "T" + hdul[1].header["TIME-OBS"],
+                format="isot",
+                scale="utc",
+            ).mjd
+        )
+        Tstop.append(
+            Time(
+                hdul[1].header["DATE-END"] + "T" + hdul[1].header["TIME-END"],
+                format="isot",
+                scale="utc",
+            ).mjd
+        )
+        hdul.close()
+
+Coords_s = SkyCoord(RA, DEC, unit="degree")
+COORDS_pnts = SkyCoord(RA_pnts, DEC_pnts, unit="degree")
+seps = COORDS_pnts.separation(Coords_s).deg
+
+mask = np.where((seps < Radius) & (Tstart > T1) & (Tstop < T2))[0]
+OBSlist = []
+for i in mask:
+    OBSlist.append(DL3_files[i])
+if len(OBSlist) == 0:
+    message = "No data found"
+    raise RuntimeError("No data found")
+message
+
+cts_s = np.zeros(NEbins)
+cts_b = np.zeros(NEbins)
+Expos = np.zeros(NEbins)
+for f in OBSlist:
+    hdul = fits.open("data/" + f)
+    RA_pnt = hdul[1].header["RA_PNT"]
+    DEC_pnt = hdul[1].header["DEC_PNT"]
+    Texp = hdul[1].header["LIVETIME"]
+    dRA = RA - RA_pnt
+    dDEC = DEC - DEC_pnt
+    RA_b = RA_pnt - dRA
+    DEC_b = DEC_pnt - dDEC
+    Coords_b = SkyCoord(RA_b, DEC_b, unit="degree")
+    Coords_pnt = SkyCoord(RA_pnt, DEC_pnt, unit="degree")
+    dist = Coords_pnt.separation(Coords_s).deg
+
+    ev = hdul["EVENTS"].data
+    ev_ra = ev["RA"]
+    ev_dec = ev["DEC"]
+    ev_en = ev["ENERGY"]
+    ev_time = ev["TIME"]
+    ev_coords = SkyCoord(ev_ra, ev_dec, unit="degree")
+    sep_s = ev_coords.separation(Coords_s).deg
+    sep_b = ev_coords.separation(Coords_b).deg
+
+    hdu = hdul["AEFF"].data
+    EEmin = hdu["ENERG_LO"][0]
+    EEmax = hdu["ENERG_HI"][0]
+    lgEE = log10(sqrt(EEmin * EEmax))
+    lgAA = log10(hdu["EFFAREA"][0] + 1e-10)
+    Thmin = hdu["THETA_LO"][0]
+    Thmax = hdu["THETA_HI"][0]
+    ind = np.argmin((Thmin - dist) ** 2)
+    Expos += 10 ** (np.interp(lgEmean, lgEE, lgAA[ind])) * Texp
+    mask = sep_s < R_s
+    cts_s += np.histogram(ev_en[mask], bins=Ebins)[0]
+    mask = sep_b < R_s
+    cts_b += np.histogram(ev_en[mask], bins=Ebins)[0]
+    hdul.close()
+
+flux = (cts_s - cts_b) / (Emax - Emin) * Emax * Emin / (Expos * 1e4)
+flux_err = sqrt(cts_s + cts_b) / (Emax - Emin) * Emax * Emin / (Expos * 1e4)
+plt.errorbar(Emean, flux, yerr=flux_err, xerr=[Emean - Emin, Emax - Emean])
+plt.xscale("log")
+plt.yscale("log")
+plt.xlabel("$E$, TeV")
+plt.ylabel("$E^2 dN/dE$, erg/(cm$^2$s)")
+plt.savefig("Spectrum.png", format="png")
+
+bin_image = PictureProduct.from_file("Spectrum.png")
+from astropy.table import Table
+
+data = [Emean, Emin, Emax, flux, flux_err, cts_s, cts_b, Expos * 1e4]
+names = (
+    "Emean[TeV]",
+    "Emin[TeV]",
+    "Emax[TeV]",
+    "Flux[TeV/cm2s]",
+    "Flux_error[TeV/cm2s]",
+    "Cts_s",
+    "Cts_b",
+    "Exposure[cm2s]",
+)
+spec = ODAAstropyTable(Table(data, names=names))
+
+picture_png = bin_image  # http://odahub.io/ontology#ODAPictureProduct
+spectrum_astropy_table = spec  # http://odahub.io/ontology#ODAAstropyTable
+
+# output gathering
+_galaxy_meta_data = {}
+_oda_outs = []
+_oda_outs.append(
+    ("out_Spectrum_picture_png", "picture_png_galaxy.output", picture_png)
+)
+_oda_outs.append(
+    (
+        "out_Spectrum_spectrum_astropy_table",
+        "spectrum_astropy_table_galaxy.output",
+        spectrum_astropy_table,
+    )
+)
+
+for _outn, _outfn, _outv in _oda_outs:
+    _galaxy_outfile_name = os.path.join(_galaxy_wd, _outfn)
+    if isinstance(_outv, str) and os.path.isfile(_outv):
+        shutil.move(_outv, _galaxy_outfile_name)
+        _galaxy_meta_data[_outn] = {"ext": "_sniff_"}
+    elif getattr(_outv, "write_fits_file", None):
+        _outv.write_fits_file(_galaxy_outfile_name)
+        _galaxy_meta_data[_outn] = {"ext": "fits"}
+    elif getattr(_outv, "write_file", None):
+        _outv.write_file(_galaxy_outfile_name)
+        _galaxy_meta_data[_outn] = {"ext": "_sniff_"}
+    else:
+        with open(_galaxy_outfile_name, "w") as fd:
+            json.dump(_outv, fd, cls=CustomJSONEncoder)
+        _galaxy_meta_data[_outn] = {"ext": "json"}
+
+with open(os.path.join(_galaxy_wd, "galaxy.json"), "w") as fd:
+    json.dump(_galaxy_meta_data, fd)
+print("*** Job finished successfully ***")