diff --git a/.flake8 b/.flake8 index 64d39f71..f5c1e137 100644 --- a/.flake8 +++ b/.flake8 @@ -11,10 +11,13 @@ exclude = dist fink_fat/others/plot_perf_test.py fink_fat/others/night_report.py + ../fink-fat/fink_fat_out_2/mpc/test_assoc_tag.py count show-source statistics per-file-ignores = + ../fink-fat/fink_fat/orbit_fitting/orbfit_files.py:W503 + ../fink-fat/fink_fat/orbit_fitting/mpcobs_files.py:W503 ../fink-fat/fink_fat/orbit_fitting/orbfit_local.py:W503 ../fink-fat/fink_fat/orbit_fitting/orbfit_cluster.py:W503 ../fink-fat/fink_fat/orbit_fitting/orbfit_merger.py:W503 diff --git a/.github/workflows/run_test.yml b/.github/workflows/run_test.yml index 4015b33a..5390887e 100644 --- a/.github/workflows/run_test.yml +++ b/.github/workflows/run_test.yml @@ -31,6 +31,9 @@ jobs: - name: install OrbFit SoftWare run: | ./fink_fat/test/orbFit_installer.sh + - name: update pickle + run: | + pip install pickle5 - name: Run test suites run: | ./run_test.sh diff --git a/LICENSE b/LICENSE index 261eeb9e..b4abd379 100644 --- a/LICENSE +++ b/LICENSE @@ -186,7 +186,7 @@ same "printed page" as the copyright notice for easier identification within third-party archives. - Copyright [yyyy] [name of copyright owner] + Copyright [2022] [Le Montagner Roman] Licensed under the Apache License, Version 2.0 (the "License"); you may not use this file except in compliance with the License. diff --git a/bin/fink_fat_cli.py b/bin/fink_fat_cli.py index 89c5c585..4e5247b9 100755 --- a/bin/fink_fat_cli.py +++ b/bin/fink_fat_cli.py @@ -50,6 +50,7 @@ import datetime import glob from astropy import units as u +from astropy.time import Time from terminaltables import DoubleTable, AsciiTable, SingleTable from bin.offline_cli import offline_intro_reset, offline_yes_reset from bin.orbit_cli import ( @@ -72,7 +73,7 @@ from fink_fat.associations.inter_night_associations import night_to_night_association from fink_fat.others.utils import cast_obs_data from fink_fat.orbit_fitting.orbfit_local import compute_df_orbit_param -from fink_fat.orbit_fitting.orbfit_merger import orbit_identification +from fink_fat.orbit_fitting.orbfit_merger import merge_orbit from bin.association_cli import ( get_data, get_last_sso_alert, @@ -346,16 +347,16 @@ def main(): t_before = t.time() # call the orbit identification that will merge trajectories - merge_traj_orb, merger_orb_df = orbit_identification( + merge_traj = merge_orbit( traj_orb_df, orb_df, config["SOLVE_ORBIT_PARAMS"]["ram_dir"], int(config["MERGE_ORBIT_PARAMS"]["neighbor"]), int(config["SOLVE_ORBIT_PARAMS"]["cpu_count"]), + prop_epoch=(Time.now() + 2 * u.hour).jd ) - merge_traj_orb.to_parquet(traj_orb_path) - merger_orb_df.to_parquet(orb_res_path) + merge_traj.to_parquet(os.path.join(output_path, "merge_traj.parquet")) if arguments["--verbose"]: print("Merging of the trajectories done !") diff --git a/fink_fat/__init__.py b/fink_fat/__init__.py index ef3df8e7..c7373d4e 100644 --- a/fink_fat/__init__.py +++ b/fink_fat/__init__.py @@ -12,4 +12,4 @@ # WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. # See the License for the specific language governing permissions and # limitations under the License. -__version__ = "0.7.1" +__version__ = "0.8.0" diff --git a/fink_fat/orbit_fitting/AST17.bai_431_fcct b/fink_fat/orbit_fitting/AST17.bai_431_fcct old mode 100644 new mode 100755 diff --git a/fink_fat/orbit_fitting/AST17.bep_431_fcct b/fink_fat/orbit_fitting/AST17.bep_431_fcct old mode 100644 new mode 100755 diff --git a/fink_fat/orbit_fitting/ephem.py b/fink_fat/orbit_fitting/ephem.py deleted file mode 100644 index 017e3855..00000000 --- a/fink_fat/orbit_fitting/ephem.py +++ /dev/null @@ -1,240 +0,0 @@ -import requests -import pandas as pd -import numpy as np -import matplotlib.pyplot as plt - -import time as t - -from astropy.coordinates import SkyCoord -import astropy.units as u - -import src.orbit_fitting.orbfit_management as om - -# import src.utils as utils -import multiprocessing as mp -from src.others.utils import load_data -import json -import glob -import os -from src.orbit_fitting.orbfit_management import compute_df_orbit_param - -# constant to locate the ram file system -ram_dir = "/media/virtuelram/" - - -def compute_orbital_element(traj_df): - - orbit_elem = om.compute_df_orbit_param(traj_df, int(mp.cpu_count() - 2), ram_dir) - return traj_df.merge(orbit_elem, on="trajectory_id") - - -def write_target_json(trajectory_df): - tr_gb = trajectory_df.groupby(["trajectory_id"]).first().reset_index() - - for _, rows in tr_gb.iterrows(): - dict_param = dict() - dict_param["type"] = "Asteroid" - dynamical_parameters = dict() - - dynamical_parameters["ref_epoch"] = rows["ref_epoch"] - dynamical_parameters["semi_major_axis"] = rows["a"] - dynamical_parameters["eccentricity"] = rows["e"] - dynamical_parameters["inclination"] = rows["i"] - - # dynamical_parameters["node_longitude"] = rows["Node"] - # dynamical_parameters["perihelion_argument"] = rows["Peri"] - # dynamical_parameters["mean_anomaly"] = rows["M"] - - dynamical_parameters["node_longitude"] = rows["long. node"] - dynamical_parameters["perihelion_argument"] = rows["arg. peric"] - dynamical_parameters["mean_anomaly"] = rows["mean anomaly"] - - dict_param["dynamical_parameters"] = dynamical_parameters - - with open( - os.path.join(ram_dir, "@aster_{}.json".format(rows["trajectory_id"])), "w" - ) as outfile: - json.dump(dict_param, outfile, indent=4) - - -def generate_ephemeris(trajectory_df): - - url = "https://ssp.imcce.fr/webservices/miriade/api/ephemcc.php" - write_target_json(trajectory_df) - - all_param_path = glob.glob(os.path.join(ram_dir, "@aster_*.json")) - - all_ephem = [] - - for path in all_param_path: - - trajectory_id = int(path.split(".")[0].split("_")[1]) - jd = trajectory_df[trajectory_df["trajectory_id"] == trajectory_id][ - "jd_ephem" - ].values - - params = { - "-name": "", - "-type": "Asteroid", - "-tscale": "UTC", - "-observer": "I41", - "-theory": "INPOP", - "-teph": 1, - "-tcoor": 5, - "-oscelem": "MPCORB", - "-mime": "json", - "-output": "--jd", - "-from": "MiriadeDoc", - } - - files = { - "target": open(path, "rb").read(), - "epochs": ("epochs", "\n".join(["%.6f" % epoch for epoch in jd])), - } - - r = requests.post(url, params=params, files=files, timeout=2000) - - j = r.json() - ephem = pd.DataFrame.from_dict(j["data"]) - - coord = SkyCoord(ephem["RA"], ephem["DEC"], unit=(u.deg, u.deg)) - - ephem["cRA"] = coord.ra.value * 15 - ephem["cDec"] = coord.dec.value - ephem["trajectory_id"] = trajectory_id - all_ephem.append(ephem) - - os.remove(path) - - return pd.concat(all_ephem) - - -if __name__ == "__main__": - print("ephem") - - n_trajectories = 30 - n_points = 3 - - print("Load sso data") - df_sso = load_data("Solar System MPC", nb_indirection=0) - - gb_ssn = df_sso.groupby(["ssnamenr"]).agg({"candid": len}).sort_values(["candid"]) - all_track = gb_ssn[gb_ssn["candid"] == n_points].reset_index()["ssnamenr"].values - mpc = df_sso[df_sso["ssnamenr"].isin(all_track[:n_trajectories])][ - ["ra", "dec", "dcmag", "fid", "jd", "nid", "candid", "ssnamenr"] - ] - all_ssnamenr = np.unique(mpc["ssnamenr"].values) - ssnamenr_translate = { - ssn: i for ssn, i in zip(all_ssnamenr, range(len(all_ssnamenr))) - } - mpc["trajectory_id"] = mpc.apply( - lambda x: ssnamenr_translate[x["ssnamenr"]], axis=1 - ) - mpc["ssnamenr"] = mpc["ssnamenr"].astype("string") - - mpc = mpc.sort_values(["ssnamenr", "jd"]).reset_index(drop=True) - - t_before = t.time() - orbit_results = compute_df_orbit_param(mpc, 10, ram_dir) - - multiprocess_time = t.time() - t_before - print("total multiprocessing orbfit time: {}".format(multiprocess_time)) - - mpc_orb = mpc.merge(orbit_results, on="trajectory_id") - mpc_orb["jd_ephem"] = mpc["jd"] - - # print("MPC DATABASE loading") - # t_before = t.time() - # mpc_database = utils.get_mpc_database() - # print("MPC DATABASE end loading, elapsed time: {}".format(t.time() - t_before)) - - # print("cross match with mpc database") - # cross_match_mpc = mpc.merge( - # mpc_database, how="inner", left_on="ssnamenr", right_on="Number" - # ) - - # cross_match_mpc["jd_ephem"] = cross_match_mpc["jd"] - - # print( - # cross_match_mpc[ - # [ - # "ra", - # "dec", - # "jd", - # "jd_ephem", - # "ssnamenr", - # "trajectory_id", - # "a", - # "e", - # "i", - # "Peri", - # "Node", - # "M", - # ] - # ] - # ) - # print() - # print() - - ephemeris = generate_ephemeris(mpc_orb) - - mpc_orb["jd"] = np.around(mpc_orb["jd"].values, decimals=6) - - ephemeris["trajectory_id"] = ephemeris["trajectory_id"].astype(int) - - ephem_and_obs = ephemeris.merge( - mpc_orb, left_on=("trajectory_id", "Date"), right_on=("trajectory_id", "jd") - ) - - # fmt: off - deltaRAcosDEC = (ephem_and_obs["ra"] - ephem_and_obs["cRA"]) * np.cos(np.radians(ephem_and_obs["dec"])) * 3600 - # fmt: on - - deltaDEC = (ephem_and_obs["dec"] - ephem_and_obs["cDec"]) * 3600 - - colors = ["#15284F", "#F5622E"] - - fig, ax = plt.subplots(figsize=(10, 10), sharex=True,) - - fig.suptitle( - "Trajectories / ephemeris : {} trajectories of {} points".format( - n_trajectories, n_points - ) - ) - - ax.scatter( - ephem_and_obs["ra"], - ephem_and_obs["dec"], - label="ZTF", - alpha=0.2, - color=colors[1], - ) - - ax.plot( - ephem_and_obs["cRA"], - ephem_and_obs["cDec"], - ls="", - color="black", - marker="x", - alpha=0.2, - label="Ephemerides", - ) - ax.legend(loc="best") - ax.set_xlabel("RA ($^o$)") - ax.set_ylabel("DEC ($^o$)") - - axins = ax.inset_axes([0.2, 0.2, 0.45, 0.45]) - - axins.plot(deltaRAcosDEC, deltaDEC, ls="", color=colors[0], marker="x", alpha=0.5) - axins.errorbar( - np.mean(deltaRAcosDEC), - np.mean(deltaDEC), - xerr=np.std(deltaRAcosDEC), - yerr=np.std(deltaDEC), - ) - axins.axhline(0, ls="--", color="black") - axins.axvline(0, ls="--", color="black") - axins.set_xlabel(r"$\Delta$RA ($^{\prime\prime}$)") - axins.set_ylabel(r"$\Delta$DEC ($^{\prime\prime}$)") - - plt.show() diff --git a/fink_fat/orbit_fitting/mpcobs_files.py b/fink_fat/orbit_fitting/mpcobs_files.py new file mode 100644 index 00000000..144eac7d --- /dev/null +++ b/fink_fat/orbit_fitting/mpcobs_files.py @@ -0,0 +1,532 @@ +from astropy.time import Time +from astropy.coordinates import SkyCoord +import astropy.units as u +import numpy as np + + +def time_to_decimal(time): + """ + Get the decimal part of a date. + + Parameters + ---------- + time : array + a time with hms format split by ':' + + Returns + ------- + decimal_time : string + the decimal part of a date. + + Examples + -------- + >>> time = [20, 17, 40.088] + >>> time_to_decimal(time) + '73040' + """ + return str(int(time[0]) * 3600 + int(time[1]) * 60 + int(time[0])) + + +def split_string(string, char_split="-"): + """ + Split char based on char_split + + Parameters + ---------- + string : string + string to be split + char_split : string + characters used for the spliting + + Returns + ------- + string splited : list + a list with all splited members + + Examples + -------- + >>> test = "a-b-c-d" + >>> split_string(test) + ['a', 'b', 'c', 'd'] + """ + return string.split(char_split) + + +def join_string(list_string, join_string): + """ + Join string based on join_string + + Parameters + ---------- + list_string : string list + list of string to be join + join_string : string + characters used for the joining + + Returns + ------- + string joined : string + a string where all elements of the list string have been join with join_string between them + + Examples + -------- + >>> test = ["a", "b", "c", "d"] + >>> join_string(test, "/") + 'a/b/c/d' + """ + return join_string.join(list_string) + + +def concat_date(list_date): + """ + Concatenation of a date to be conform to mpc format + + Parameters + --------- + list_date : string list + all elements from a date + + Returns + ------- + string mpc format : string + a date string in mpc format + + Examples + -------- + >>> ld = ["1969", "07", "20", ".", "73040"] + >>> concat_date(ld) + '1969 07 20.73040' + + >>> ld = ["2021", "11", "03", ".", "4503"] + >>> concat_date(ld) + '2021 11 03.45030' + + >>> ld = ["2021", "04", "2", ".", "453"] + >>> concat_date(ld) + '2021 04 02.45300' + """ + + first_list = join_string(list_date[-3:], "") + + date_float = format(float(first_list), ".5f").rjust(8, "0") + + return join_string(list_date[:2] + [date_float], " ") + + +def band_to_str(band): + """ + Small filter band conversion + + Parameters + ---------- + band : integer + the integer designation of the ZTF band filter + + Returns + ------- + band string : string + the band designation r or g + + Examples + -------- + >>> band_to_str(1) + 'g' + + >>> band_to_str(2) + 'r' + + >>> band_to_str(0) + """ + if band == 1: + return "g" + elif band == 2: + return "r" + + +half_month_letter = { + "01": ["A", "B"], + "02": ["C", "D"], + "03": ["E", "F"], + "04": ["G", "H"], + "05": ["J", "K"], + "06": ["L", "M"], + "07": ["N", "O"], + "08": ["P", "Q"], + "09": ["R", "S"], + "10": ["T", "U"], + "11": ["V", "W"], + "12": ["X", "Y"], +} + + +def second_letter(i, uppercase=True): + """ + Create the second letter of the mpc provisional designation. + Return all alphabet letter based on i but only skip the i. + + Paramters + --------- + i : integer + letter rank in the alphabet + uppercase : boolean + if set to true, return the letter in uppercase + + Returns + ------- + letter : string + the ith alphabet letter + + Examples + -------- + >>> second_letter(1) + 'A' + >>> second_letter(25) + 'Z' + >>> second_letter(1, False) + 'a' + >>> second_letter(25, False) + 'z' + >>> second_letter(9) + 'J' + >>> second_letter(9, False) + 'j' + >>> second_letter(8) + 'H' + >>> second_letter(10) + 'K' + """ + if uppercase: + case = 64 + else: + case = 96 + + if i <= 8: + return chr(i + case) + elif i <= 25: + return chr(i + case + 1) + + +def left_shift(number, n): + """ + Left shift on 10 base number. + + Parameters + ---------- + number : integer + the number to be shift + n : integer + the number of digit to shift + + Returns + ------- + shifted number : integer + the number left shifted by n digit + + Examples + -------- + >>> left_shift(152, 1) + 15 + >>> left_shift(14589, 3) + 14 + """ + return number // 10 ** n + + +def right_shift(number, n): + """ + Right shift on 10 base number. + + Parameters + ---------- + number : integer + the number to be shift + n : integer + the number of digit to shift + + Returns + ------- + shifted number : integer + the number right shifted by n digit + + Examples + -------- + >>> right_shift(123, 1) + 3 + >>> right_shift(0, 1) + 0 + >>> right_shift(1234, 2) + 34 + """ + return number % 10 ** n + + +def letter_cycle(cycle): + """ + Return the cycle letter of the provisional designation from the MPC format + + Parameters + ---------- + cycle : integer + the number of time that the second letter have cycle throught the alphabet + + Returns + ------- + second letter : string + the second letter corresponding to the cycle + + Examples + -------- + >>> letter_cycle(10) + 'A' + >>> letter_cycle(19) + 'J' + >>> letter_cycle(35) + 'Z' + >>> letter_cycle(44) + 'j' + >>> letter_cycle(60) + 'z' + """ + cycle -= 10 + r = (cycle - 1) // 25 + if r > 0: + cycle %= 25 + + if cycle == 0: + cycle = 25 + + return second_letter(cycle, uppercase=False) + else: + if cycle == 0: + cycle = 1 + elif cycle <= 8 and cycle >= 1: + cycle += 1 + return second_letter(cycle) + + +def make_cycle(cycle): + """ + Return the last two symbol of the provisional designation corresponding to the cycle. + + Parameters + ---------- + cycle : integer + the number of time that the second letter have cycle throught the alphabet + + Returns + ------- + the cycle : string + the last two symbol of the provisional designation + + Examples + -------- + >>> make_cycle(0) + '00' + >>> make_cycle(10) + '10' + >>> make_cycle(108) + 'A8' + >>> make_cycle(110) + 'B0' + >>> make_cycle(127) + 'C7' + >>> make_cycle(162) + 'G2' + >>> make_cycle(193) + 'J3' + >>> make_cycle(348) + 'Y8' + >>> make_cycle(355) + 'Z5' + >>> make_cycle(360) + 'a0' + >>> make_cycle(418) + 'f8' + >>> make_cycle(439) + 'h9' + >>> make_cycle(440) + 'j0' + """ + if cycle <= 9: + return "0" + str(cycle) + elif cycle <= 99: + return str(cycle) + else: + digit = left_shift(cycle, 1) + unit = right_shift(cycle, 1) + return str(letter_cycle(digit)) + str(unit) + + +def make_designation(time, discovery_number): + """ + Return the provisional designation from mpc standard + + Parameters + ---------- + time : string + the reference trajectory time + discovery_number : integer + the trajectory identifier + + Returns + ------- + provisional designation : string + the provisional designation to assign to this trajectory + + Examples + -------- + >>> make_designation("2021-05-22 07:33:02.111", 0) + 'K21K00A' + >>> make_designation("2021-05-22 07:33:02.111", 24) + 'K21K00Z' + >>> make_designation("2021-05-22 07:33:02.111", 25) + 'K21K01A' + >>> make_designation("2021-05-22 07:33:02.111", 49) + 'K21K01Z' + >>> make_designation("2021-05-22 07:33:02.111", 50) + 'K21K02A' + >>> make_designation("2021-05-22 07:33:02.111", 8999) + 'K21KZ9Z' + >>> make_designation("2021-05-22 07:33:02.111", 9000) + 'K21Ka0A' + >>> make_designation("2021-01-01 07:33:02.111", 0) + 'K21A00A' + >>> make_designation("2022-07-04 07:33:02.111", 0) + 'K22N00A' + """ + time_split = time.split(" ")[0].split("-") + year = time_split[0][-2:] + + half_month = half_month_letter[time_split[1]] + if int(time_split[2]) <= 15: + half_month = half_month[0] + else: + half_month = half_month[1] + + order = discovery_number % 25 + 1 + cycle = int(discovery_number / 25) + return "K" + year + half_month + make_cycle(cycle) + second_letter(order) + + +def make_date(date): + """ + Convert date from hmsdms to mpc format + + Parameters + --------- + date : string + hmsdms date format + + Returns + ------- + mpc date : string + mpc date format + + Examples + -------- + >>> date = "20-07-1969 20:17:40.088" + >>> make_date(date) + '20 07 1969.73040' + """ + d = date.split(" ") + return concat_date(d[0].split("-") + ["."] + [time_to_decimal(d[1].split(":"))]) + + +def write_observation_file(ram_dir, obs_df): + """ + Write an observation file to mpc standard from a dataframe containing all the observations of one trajectories + + Parameters + ---------- + ram_dir : string + the path where to write the file + + obs_df : dataframe + the observation dataframe + have to contains the following columns : + ra, dec, dcmag, fid, jd, trajectory_id + + Returns + ------- + prov_desig : string + the provisional designation assign to the trajectory + + Examples + -------- + >>> os.mkdir("mpcobs") + >>> test_obs = pd.DataFrame({ + ... "ra" : [0, 1], + ... "dec": [0, 1], + ... "dcmag" : [17.4, 17.6], + ... "fid": [1, 2], + ... "jd" : [2440423.34352, 2440423.34387], + ... "trajectory_id" : [0, 0] + ... }) + + >>> write_observation_file("", test_obs) + 'K69O00A' + + >>> filecmp.cmp("mpcobs/K69O00A.obs", "fink_fat/test/K69O00A_test.obs") + True + + >>> shutil.rmtree("mpcobs") + """ + obs_df = obs_df.sort_values("jd") + ra = obs_df["ra"] + dec = obs_df["dec"] + dcmag = obs_df["dcmag"] + band = obs_df["fid"] + date = obs_df["jd"] + traj_id = obs_df["trajectory_id"].values[0] + + coord = SkyCoord(ra, dec, unit=u.degree).to_string("hmsdms", precision=2, pad=True) + translation_rules = {ord(i): " " for i in "hmd"} + translation_rules[ord("s")] = "" + coord = [el.translate(translation_rules) for el in coord] + + t = Time(date.astype(np.double), format="jd") + date = t.iso + prov_desig = make_designation(date[0], traj_id) + + date = [make_date(d) for d in date] + res = [join_string([el1] + [el2], " ") for el1, el2 in zip(date, coord)] + + res = [ + " " + + prov_desig + + " C" # how the observation was made : C means CCD + + el + + " " + + str(round(mag, 1)) + + " " + + band_to_str(b) + + " I41" # ZTF observation code + for el, mag, b in zip(res, dcmag, band) + ] + + res[0] = res[0][:12] + "*" + res[0][13:] + + dir_path = ram_dir + "mpcobs/" + with open(dir_path + prov_desig + ".obs", "wt") as file: + file.write(join_string(res, "\n")) + + return prov_desig + + +if __name__ == "__main__": # pragma: no cover + import sys + import doctest + from pandas.testing import assert_frame_equal # noqa: F401 + import fink_fat.test.test_sample as ts # noqa: F401 + from unittest import TestCase # noqa: F401 + import shutil # noqa: F401 + import filecmp # noqa: F401 + import stat # noqa: F401 + import os # noqa: F401 + import pandas as pd # noqa: F401 + + if "unittest.util" in __import__("sys").modules: + # Show full diff in self.assertEqual. + __import__("sys").modules["unittest.util"]._MAX_LENGTH = 999999999 + + sys.exit(doctest.testmod()[0]) diff --git a/fink_fat/orbit_fitting/orbfit_ephem.py b/fink_fat/orbit_fitting/orbfit_ephem.py new file mode 100644 index 00000000..e69de29b diff --git a/fink_fat/orbit_fitting/orbfit_files.py b/fink_fat/orbit_fitting/orbfit_files.py new file mode 100644 index 00000000..a0479a80 --- /dev/null +++ b/fink_fat/orbit_fitting/orbfit_files.py @@ -0,0 +1,778 @@ +import os +import traceback +import logging +from glob import glob +import numpy as np + +from fink_fat import __file__ + + +def write_inp(ram_dir, first_designation, second_designation=None): + """ + Write the input files of Orbfit. + Two designations can be given to perform an orbit fitting for two trajectory arcs. + + Parameters + ---------- + ram_dir : string + the path where to write the temporary file generated by orbfit. + first_designation : string + the provisional designation of the first arc + second_designation : string + the provisional designation of the second arc + + Return + ------ + None + + Examples + -------- + >>> write_inp("fink_fat/test/", "DESIG1") + >>> filecmp.cmp("fink_fat/test/DESIG1.inp", "fink_fat/test/DESIG1_test.inp") + True + + >>> write_inp("fink_fat/test/", "DESIG1", "DESIG2") + >>> filecmp.cmp("fink_fat/test/DESIG1_DESIG2.inp", "fink_fat/test/DESIG1_DESIG2_test.inp") + True + + >>> os.remove("fink_fat/test/DESIG1.inp") + >>> os.remove("fink_fat/test/DESIG1_DESIG2.inp") + """ + if second_designation is None: + with open(ram_dir + first_designation + ".inp", "wt") as file: + file.write(ram_dir + first_designation) + else: + with open( + ram_dir + first_designation + "_" + second_designation + ".inp", "wt" + ) as file: + file.write(ram_dir + first_designation + "_" + second_designation) + + +def oop_options( + file, + ram_dir, + first_desig, + second_desig=None, + prop_epoch=None, + n_triplets=10, + noise_ntrials=10, + with_ephem=0, + start_ephem=None, + end_ephem=None, + step_ephem=None, + obscode=None, + verbose=1, + init_orb_file=None +): + """ + Write the lines of the OrbFit options file. + + Parameters + ---------- + file : file object + the file descriptor for the OrbFit options file. + ram_dir : string + the path where to write the temporary file generated by orbfit. + first_designation : string + the provisional designation of the first arc + second_designation : string + the provisional designation of the second arc + prop_epoch : string + Epoch at which output orbital elements + Epochs can be specified in Julian Days, Modified Julian Days or + calendar date/time, according to the following examples + prop_epoch = CAL 1998/Jun/18 22:35:40.00 UTC + or = CAL 1998/06/18 22:35:40.00 UTC + or = JD 2450983.44143519 UTC + or = MJD 50982.94143519 UTC ! MJD with fractional part + or = MJD 50982 81340.00 UTC ! integer MJD & secs within day) + n_triplets : integer + max number of triplets of observations to be tried for the initial orbit determination + noise_ntrials : integer + number of trials for each triplet for the initial orbit determination + with_ephem : integer + Compute the ephemeris or not: + 0: no ephemeris + 1: compute ephemeris is possible + 2: always compute ephemeris + start_ephem : string + start date to compute the ephemeris, same format as the prop_epoch keyword. + end_epehm : string + start date to compute the ephemeris. + step_ephem : float + Ephemeris stepsize in days + obscode : integer + Observatory code for which ephemeris has to be computed, required for applying topocentric correction. + Observatory codes can be found here : https://en.wikipedia.org/wiki/List_of_observatory_codes + Take only the observatory code before 999 (those without letters). + verbose : integer + Verbosity levels of Orbfit + 1 = summary information on the solution found + 2 = summary information on all trials + 3 = debug + init_orb_file : string + path where are located a .oel file corresponding to the current trajectory. + Used to skip the orbit fitting. + + + Returns + ------- + None + + Examples + -------- + >>> file = open("fink_fat/test/test.oop", "w") + >>> oop_options(file, "fink_fat/test/", "DESIG1") + >>> file.close() + >>> filecmp.cmp("fink_fat/test/test.oop", "fink_fat/test/DESIG1_test.oop") + True + + >>> os.remove("fink_fat/test/test.oop") + + >>> file = open("fink_fat/test/test.oop", "w") + >>> oop_options(file, "fink_fat/test/", "DESIG1", "DESIG2", "JD 2450983.44143519 UTC", 24, 12, 1, "JD 2450993.44143519 UTC", "JD 2451003.44143519 UTC", 5.3, 675) + >>> file.close() + >>> filecmp.cmp("fink_fat/test/test.oop", "fink_fat/test/DESIG1_DESIG2_test.oop") + True + + >>> os.remove("fink_fat/test/test.oop") + + >>> file = open("fink_fat/test/test.oop", "w") + >>> oop_options(file, "fink_fat/test/", "DESIG1", "DESIG2", "JD 2450983.44143519 UTC", -3, -10, 1, "JD 2450993.44143519 UTC", "JD 2451003.44143519 UTC", -2, 675) + >>> file.close() + + >>> filecmp.cmp("fink_fat/test/test.oop", "fink_fat/test/DESIG1_DESIG2_neg_test.oop") + True + + >>> os.remove("fink_fat/test/test.oop") + + >>> file = open("fink_fat/test/test.oop", "w") + >>> oop_options(file, "fink_fat/test/", "DESIG1", with_ephem=10, verbose=10) + >>> file.close() + + >>> filecmp.cmp("fink_fat/test/test.oop", "fink_fat/test/DESIG1_no_ephem_test.oop") + True + + >>> os.remove("fink_fat/test/test.oop") + + >>> file = open("fink_fat/test/test.oop", "w") + >>> oop_options(file, "fink_fat/test/", "DESIG1", init_orb_file="toto/") + >>> file.close() + + >>> filecmp.cmp("fink_fat/test/test.oop", "fink_fat/test/DESIG1_init_test.oop") + True + + >>> os.remove("fink_fat/test/test.oop") + """ + # write output options + file.write("output.\n") + file.write("\t.elements = 'KEP'\n") + if prop_epoch is not None: + file.write("\t.epoch = {}\n".format(prop_epoch)) + + # write init_orb options + file.write("init_orbdet.\n") + if verbose not in [1, 2, 3]: + verbose = 1 + file.write("\t.verbose = {}\n".format(verbose)) + if n_triplets <= 0: + n_triplets = 10 + file.write("\t.n_triplets = {}\n".format(n_triplets)) + if noise_ntrials <= 0: + noise_ntrials = 10 + file.write("\t.noise.ntrials = {}\n".format(noise_ntrials)) + + # write operations options + file.write("operations.\n") + if init_orb_file is not None: + orb_det_and_diff_cor = 0 + else: + orb_det_and_diff_cor = 2 + file.write("\t.init_orbdet = {}\n".format(orb_det_and_diff_cor)) + file.write("\t.diffcor = {}\n".format(orb_det_and_diff_cor)) + if second_desig is None: + file.write("\t.ident = 0\n") + else: + file.write("\t.ident = 2\n") + + if with_ephem not in [0, 1, 2]: + with_ephem = 0 + file.write("\t.ephem = {}\n".format(with_ephem)) + + if with_ephem in [1, 2]: + # write ephem options + file.write("ephem.\n") + file.write("\t.epoch.start = {}\n".format(start_ephem)) + file.write("\t.epoch.end = {}\n".format(end_ephem)) + if step_ephem is not None: + if step_ephem <= 0: + step_ephem = 1 + file.write("\t.step = {}\n".format(step_ephem)) + file.write("\t.obscode = {}\n".format(obscode)) + file.write("\t.timescale = UTC\n") + file.write( + "\t.fields = cal,mjd,coord,mag,delta,r,elong,phase,glat,appmot,skyerr\n" + ) + + # write error model options + file.write("error_model.\n") + file.write("\t.name='fcct14'\n") + + # write additional options + file.write("IERS.\n") + file.write("\t.extrapolation = .T.\n") + + # write reject options + file.write("reject.\n") + file.write("\t.rejopp = .FALSE.\n") + + # write propagation options + file.write("propag.\n") + file.write("\t.iast = 17\n") + file.write("\t.npoint = 600\n") + file.write("\t.dmea = 0.2d0\n") + file.write("\t.dter = 0.05d0\n") + + # write location files options + file.write("\t.filbe=" + ram_dir + "AST17\n") + file.write("\noutput_files.\n") + + if second_desig is None: + file.write("\t.elem = " + ram_dir + first_desig + ".oel\n") + else: + file.write("\t.elem = " + ram_dir + first_desig + "_" + second_desig + ".oel\n") + + file.write("object1.\n") + file.write("\t.obs_dir = " + ram_dir + "mpcobs\n") + file.write("\t.name = " + first_desig) + if init_orb_file is not None: + file.write("\n\t.inc_files = " + init_orb_file + "\n") + + if second_desig is not None: + # write second object location + file.write("\nobject2.\n") + file.write("\t.obs_dir = " + ram_dir + "mpcobs\n") + file.write("\t.name = " + second_desig) + + +def write_oop( + ram_dir, + first_designation, + second_designation=None, + prop_epoch=None, + n_triplets=10, + noise_ntrials=10, + with_ephem=0, + start_ephem=None, + end_ephem=None, + step_ephem=None, + obscode=None, + verbose=1, + init_orb_file=None +): + """ + Write the option file of OrbFit. + + Parameters + ---------- + ram_dir : string + the path where to write the temporary file generated by orbfit. + first_designation : string + the provisional designation of the first arc + second_designation : string + the provisional designation of the second arc + prop_epoch : string + Epoch at which output orbital elements + Epochs can be specified in Julian Days, Modified Julian Days or + calendar date/time, according to the following examples + prop_epoch = CAL 1998/Jun/18 22:35:40.00 UTC + or = CAL 1998/06/18 22:35:40.00 UTC + or = JD 2450983.44143519 UTC + or = MJD 50982.94143519 UTC ! MJD with fractional part + or = MJD 50982 81340.00 UTC ! integer MJD & secs within day) + n_triplets : integer + max number of triplets of observations to be tried for the initial orbit determination + noise_ntrials : integer + number of trials for each triplet for the initial orbit determination + with_ephem : integer + Compute the ephemeris or not: + 0: no ephemeris + 1: compute ephemeris is possible + 2: always compute ephemeris + start_ephem : string + start date to compute the ephemeris, same format as the prop_epoch keyword. + end_epehm : string + start date to compute the ephemeris. + step_ephem : float + Ephemeris stepsize in days + obscode : integer + Observatory code for which ephemeris has to be computed, required for applying topocentric correction. + Observatory codes can be found here : https://en.wikipedia.org/wiki/List_of_observatory_codes + Take only the observatory code before 999 (those without letters). + verbose : integer + Verbosity levels of Orbfit + 1 = summary information on the solution found + 2 = summary information on all trials + 3 = debug + init_orb_file : string + path where are located a .oel file corresponding to the current trajectory. + Used to skip the orbit fitting. + + Return + ------ + None + + Examples + -------- + >>> write_oop("fink_fat/test/", "DESIG1") + >>> filecmp.cmp("fink_fat/test/DESIG1.oop", "fink_fat/test/DESIG1_test.oop") + True + + >>> os.remove("fink_fat/test/DESIG1.oop") + + >>> write_oop("fink_fat/test/", "DESIG1", "DESIG2") + >>> filecmp.cmp("fink_fat/test/DESIG1_DESIG2.oop", "fink_fat/test/DESIG1_DESIG2_test2.oop") + True + + >>> os.remove("fink_fat/test/DESIG1_DESIG2.oop") + """ + if second_designation is None: + with open(ram_dir + first_designation + ".oop", "w") as file: + oop_options( + file, + ram_dir, + first_designation, + prop_epoch=prop_epoch, + n_triplets=n_triplets, + noise_ntrials=noise_ntrials, + with_ephem=with_ephem, + start_ephem=start_ephem, + end_ephem=end_ephem, + step_ephem=step_ephem, + obscode=obscode, + verbose=verbose, + init_orb_file=init_orb_file + ) + else: + with open( + ram_dir + first_designation + "_" + second_designation + ".oop", "w" + ) as file: + oop_options( + file, + ram_dir, + first_designation, + second_desig=second_designation, + prop_epoch=prop_epoch, + n_triplets=n_triplets, + noise_ntrials=noise_ntrials, + with_ephem=with_ephem, + start_ephem=start_ephem, + end_ephem=end_ephem, + step_ephem=step_ephem, + obscode=obscode, + verbose=verbose, + init_orb_file=init_orb_file + ) + + +def prep_orbitfit(ram_dir): + """ + Preparation for OrbFit computation + + Copy the AST17 ephemeris files needed for the orbfit computation to the correct location. + Set their permissions to be read by OrbFit. + + Parameters + ---------- + ram_dir : string + path where to write file + + Returns + ------- + + Examples + -------- + + >>> prep_orbitfit("") + + >>> os.path.islink("AST17.bai") + True + + >>> os.path.islink("AST17.bep") + True + + >>> shutil.rmtree("mpcobs") + >>> os.remove("AST17.bai") + >>> os.remove("AST17.bep") + """ + + try: + fink_fat_path = os.path.dirname(__file__) + orbfit_path = os.path.join(fink_fat_path, "orbit_fitting") + dir_path = ram_dir + "mpcobs/" + + if not os.path.isdir(dir_path): + os.mkdir(dir_path) + + if not os.path.islink(ram_dir + "AST17.bai"): + os.symlink( + os.path.join(orbfit_path, "AST17.bai_431_fcct"), ram_dir + "AST17.bai" + ) + + if not os.path.islink(ram_dir + "AST17.bep"): + os.symlink( + os.path.join(orbfit_path, "AST17.bep_431_fcct"), ram_dir + "AST17.bep" + ) + except Exception: # pragma: no cover + logging.error(traceback.format_exc()) + + +def rm_files(files): + """ + Remove all files contains in the files parameters + + Parameters + files : string list + A list of files path (typically return by the glob library) + + Return + ------ + None + """ + for path_f in files: + os.remove(path_f) + + +def obs_clean(ram_dir, prov_desig): + """ + Remove all the temporary file named as prov_desig created during the OrbFit process. + + Parameters + ---------- + ram_dir : string + Path where files are located + prov_desig : string + the provisional designation of the trajectory that triggered the OrbFit process. + + Returns + ------- + None + + Examples + -------- + + >>> prov_desig = "A000001" + >>> open(prov_desig + ".oel", 'a').close() + >>> open(prov_desig + ".err", 'a').close() + + # >>> os.makedirs("mpcobs") + >>> open("mpcobs/" + prov_desig + ".obs", 'a').close() + >>> open("mpcobs/" + prov_desig + ".rwo", 'a').close() + + >>> obs_clean("", prov_desig) + + >>> os.rmdir("mpcobs") + """ + + rm_files(glob(ram_dir + prov_desig + ".*")) + rm_files(glob(ram_dir + "mpcobs/" + prov_desig + ".*")) + + +def final_clean(ram_dir): + """ + Remove the residuals files used by OrbFit + + Parameters + ---------- + ram_dir : string + Path where files are located + + Returns + ------- + None + + Examples + -------- + >>> prep_orbitfit("") + + >>> os.path.islink("AST17.bai") + True + >>> os.path.islink("AST17.bep") + True + + >>> final_clean("") + + >>> os.path.exists("AST17.bai") + False + >>> os.path.exists("AST17.bep") + False + """ + + for p in glob(ram_dir + "*.bai"): + os.unlink(p) + + for p in glob(ram_dir + "*.bep"): + os.unlink(p) + + rm_files(glob(ram_dir + "*.log")) + + +def get_orb_and_rms(lines, index_orb, index_rms): + """ + Read the orbital and the rms at the specified index. + + Parameters + ---------- + lines : string list + lines of the .oel files return by OrbFit + index_orb : integer + index of the line where is located the orbital elements + index_rms : integer + index of the line where is located the rms + + Returns + ------- + orb_params_rms : float list + a list containing the 6 keplerian orbital elements and their rms readed from the .oel files + + Examples + -------- + + """ + orb_params = " ".join(lines[index_orb].strip().split()).split(" ") + if len(lines) > index_rms: + rms = " ".join(lines[index_rms].strip().split()).split(" ") + + for i_error in range(2, len(rms)): + tmp_error = rms[i_error] + if tmp_error[-4] != "E": + rms[i_error] = tmp_error[:-4] + "E" + tmp_error[-4:] + else: # pragma: no cover + rms = [-1, -1, -1, -1, -1, -1, -1, -1] + + return orb_params[1:] + rms[2:] + + +def read_oel_lines(lines, second_desig=False): + """ + Convert the lines from the .oel file generate by OrbFit into list. + + Parameters + ---------- + lines : string list + Lines from a .oel file + + Returns + ------- + orb_params_list : float list + reference epoch, orbital parameters and their errors + + Examples + -------- + >>> file = open("fink_fat/test/K21E00A_test.oel", "r") + >>> lines = file.readlines() + >>> read_oel_lines(lines) + [2459274.881182641, '1.2989984390232820E+00', '0.237563404272872', '3.0006189587041', '139.1486265719337', '316.7163361462099', '42.4810617056960', '2.63690E-155', '2.15639E-155', '0.00000E+00', '1.50627E-153', '4.02731E-159', '0.00000E+00'] + + >>> file.close() + + >>> file = open("fink_fat/test/K19V00D_K20X01J_test.oel", "r") + >>> lines = file.readlines() + >>> read_oel_lines(lines, True) + [2459752.003580741, 'K19V00D', '5.2086582985661405E+00', '0.041037517072330', '20.4845468192319', '315.8436056618594', '126.7174037870516', '7.0363794445434', '2.35603E-04', '3.46490E-05', '1.04465E-04', '7.88344E-04', '6.53409E-02', '5.72363E-02', 'K20X01J', '5.2122586158728774E+00', '0.043339815768804', '20.4718394776065', '315.8521946724863', '124.1615864980219', '9.5592054339815', '5.43003E-04', '7.69670E-05', '7.18353E-05', '7.45307E-04', '6.50158E-02', '5.84310E-02', 'K19V00D=K20X01J', '5.2324744800289800E+00', '0.047273267080124', '20.4776234947047', '315.7811350105440', '125.9308606763452', '7.9896140760145', '8.45403E-04', '7.46487E-05', '8.08826E-05', '8.42129E-04', '1.31115E-01', '1.17070E-01'] + + >>> file.close() + """ + if len(lines) <= 2: # pragma: no cover + raise Exception("Not enough lines") + ref_mjd = float(lines[9].strip().split()[1]) + # conversion from modified julian date to julian date + ref_jd = ref_mjd + 2400000.5 + + orb_params_rms = get_orb_and_rms(lines, 8, 13) + + if second_desig: + if len(lines) < 34 or len(lines) < 58: # pragma: no cover + raise Exception("Not enough lines") + first_desig = lines[6].rstrip() + second_desig = lines[31].rstrip() + merge_desig = lines[56].rstrip() + orb_rms_second = get_orb_and_rms(lines, 33, 38) + orb_rms_merge = get_orb_and_rms(lines, 58, 62) + orb_params_list = ( + [ref_jd] + + [first_desig] + + orb_params_rms + + [second_desig] + + orb_rms_second + + [merge_desig] + + orb_rms_merge + ) + return orb_params_list + + orb_params_list = [ref_jd] + orb_params_rms + return orb_params_list + + +def read_oel(ram_dir, first_desig, second_desig=None): + """ + Read the .oel file return by orbfit. This file contains the orbital elements, the reference epoch of the orbit computation and + the rms of the orbital elements + + Parameters + ---------- + ram_dir : string + Path where the files are located + prov_desig : string + the provisional designation of the trajectory that triggered the OrbFit process. + + Returns + ------- + orb_elem : integer list + A list with the reference epoch first then the orbital elements and finally the rms. + + Examples + -------- + >>> read_oel("fink_fat/test/", "K21E00A_test") + [2459274.881182641, '1.2989984390232820E+00', '0.237563404272872', '3.0006189587041', '139.1486265719337', '316.7163361462099', '42.4810617056960', '2.63690E-155', '2.15639E-155', '0.00000E+00', '1.50627E-153', '4.02731E-159', '0.00000E+00'] + + >>> read_oel("", "") + [-1.0, -1.0, -1.0, -1.0, -1.0, -1.0, -1.0, -1.0, -1.0, -1.0, -1.0, -1.0, -1.0] + + >>> read_oel("fink_fat/test/call_orbfit/", "K21H00A") + [2459345.797868819, '3.1514694062448680E+00', '0.113946062348132', '1.6879159876457', '38.1016474068882', '136.1915246941109', '46.5628893357021', '7.94527E-03', '1.83696E-02', '4.77846E-02', '3.17863E-01', '1.34503E+01', '9.82298E+00'] + + >>> read_oel("fink_fat/test/", "K20K00H", "K20R01N") + [2459752.003580741, 'K20K00H', '3.2770176197522716E+00', '0.489813406860185', '35.4071377670066', '226.6207914399979', '31.7464752385818', '155.1565090050280', '1.87409E-03', '3.06154E-04', '2.61077E-03', '6.34970E-03', '1.72381E-02', '1.47562E-01', 'K20R01N', '3.2383542557794258E+00', '0.481691420534986', '35.4276816300695', '226.5233903480844', '31.5657299503385', '158.2732975448453', '8.93757E-05', '1.30080E-05', '3.24117E-04', '3.15449E-04', '2.50948E-03', '7.41469E-03', 'K20K00H=K20R01N', '3.2349020268784363E+00', '0.482351607052538', '35.4236361556923', '226.5195200701270', '31.4737170165724', '158.4560587571972', '1.15171E-04', '1.79974E-05', '4.67414E-04', '3.35064E-04', '3.15876E-03', '1.04831E-02'] + + """ + try: + if second_desig is None: + with open(ram_dir + first_desig + ".oel") as file: + lines = file.readlines() + return read_oel_lines(lines) + else: + with open(ram_dir + first_desig + "_" + second_desig + ".oel") as file: + lines = file.readlines() + return read_oel_lines(lines, second_desig=True) + + except FileNotFoundError: + if second_desig is None: + return list(np.ones(13, dtype=np.float64) * -1) + else: # pragma: no cover + return list(np.ones(40, dtype=np.float64) * -1) + except Exception as e: # pragma: no cover + if second_desig is not None: + return list(np.ones(40, dtype=np.float64) * -1) + print("----") + print(e) + print() + print("ERROR READ OEL FILE: {}".format(first_desig)) + print() + print(lines) + print() + print() + logging.error(traceback.format_exc()) + print("----") + return list(np.ones(13, dtype=np.float64) * -1) + + +def read_rwo(ram_dir, prov_desig, nb_obs): + """ + Read the .rwo file return by orbfit. This file contains the observations of the trajectories and the goodness of the fit computed by OrbFit. + Return the chi values for each observations. + + Parameters + ---------- + ram_dir : string + Path where files are located + prov_desig : string + the provisional designation of the trajectory that triggered the OrbFit process. + + Returns + ------- + chi : integer list + The list of all chi values of each observations. + + Examples + -------- + >>> read_rwo("fink_fat/test/call_orbfit/", "K19V00D_test", 156) + array([1.5800e+00, 6.1000e-01, 3.0000e-01, 2.0000e-01, 1.3603e+02, + 3.7000e-01, 9.1000e-01, 3.9000e-01, 1.0200e+00, 1.1800e+00, + 3.7970e+02, 1.2840e+01, 2.6970e+01, 5.2242e+02, 5.5700e+00, + 1.6100e+00, 2.1200e+00, 2.5000e+00, 9.7000e-01, 1.3900e+00, + 3.5000e-01, 1.9400e+00, 4.4000e-01, 1.3400e+00, 1.7600e+00, + 2.3000e-01, 1.0100e+00, 1.5000e+00, 1.2400e+00, 9.9000e-01, + 1.3300e+00, 5.2000e-01, 1.2700e+00, 9.0000e-01, 3.3000e-01, + 8.4000e-01, 9.0000e-02, 7.9000e-01, 1.1800e+00, 4.7000e-01, + 1.2400e+00, 3.9000e-01, 5.0000e-02, 1.2500e+00, 1.4700e+00, + 1.2600e+00, 1.0200e+00, 1.2000e+00, 1.8500e+00, 4.1000e-01, + 3.9000e-01, 1.2400e+00, 4.0000e-02, 5.3000e-01, 6.8000e-01, + 1.9700e+00, 4.8000e-01, 8.1000e-01, 1.3400e+00, 3.6000e-01, + 2.8300e+00, 4.3700e+00, 4.2000e-01, 2.2000e-01, 6.9000e-01, + 1.8700e+00, 2.2500e+00, 1.7100e+00, 3.6000e-01, 3.2300e+00, + 8.7000e-01, 6.1000e-01, 1.9000e-01, 9.5000e-01, 1.5500e+00, + 2.0700e+00, 1.7400e+00, 4.6000e-01, 8.0000e-01, 3.4200e+00, + 1.2700e+00, 1.3800e+00, 2.5700e+00, 3.2100e+00, 7.1000e-01, + 1.4000e+00, 3.3500e+00, 5.8000e-01, 5.8000e-01, 2.9000e-01, + 4.0000e-01, 1.4800e+00, 1.6300e+00, 4.3000e+00, 4.5000e-01, + 6.5000e-01, 6.6000e-01, 9.4000e-01, 1.2500e+00, 7.9000e-01, + 1.9900e+00, 2.1000e-01, 2.8100e+00, 3.2600e+00, 5.7000e-01, + 3.6000e+00, 1.2000e+00, 3.8800e+00, 5.0100e+00, 2.6200e+00, + 4.2000e-01, 2.5300e+00, 2.3100e+00, 2.3000e-01, 3.5700e+00, + 1.4900e+00, 2.5000e+00, 1.0700e+00, 1.5700e+00, 1.1800e+00, + 1.3700e+00, 3.9500e+00, 1.8500e+00, 3.4000e+00, 2.1700e+00, + 5.2600e+00, 1.3400e+00, 4.0700e+00, 4.0800e+00, 1.9100e+00, + 2.8300e+00, 3.5400e+00, 3.7200e+00, 1.7000e+00, 1.9900e+00, + 3.4900e+00, 3.7400e+00, 2.9400e+00, 3.6100e+00, 3.6000e+00, + 4.3300e+00, 3.9500e+00, 9.0600e+00, 6.3700e+00, 5.4900e+00, + 5.9200e+00, 6.1100e+00, 6.6400e+00, 6.4100e+00, 7.5700e+00, + 7.5900e+00, 1.1230e+01, 7.1400e+00, 7.2500e+00, 9.1000e+00, + 9.0600e+00, 9.1800e+00], dtype=float32) + + >>> read_rwo("", "", 0) + [] + + >>> read_rwo("fink_fat/test/call_orbfit/", "K19V00D", 4) + [-1.0, -1.0, -1.0, -1.0] + """ + try: + with open(ram_dir + "mpcobs/" + prov_desig + ".rwo") as file: + lines = file.readlines() + + chi_obs = [obs_l.strip().split(" ")[-3] for obs_l in lines[7:]] + + return np.array(chi_obs).astype(np.float32) + except FileNotFoundError: + return list(np.ones(nb_obs, dtype=np.float64) * -1) + except ValueError: # pragma: no cover + return list(np.ones(nb_obs, dtype=np.float64) * -1) + except Exception as e: # pragma: no cover + print("----") + print(e) + print() + print("ERROR READ RWO FILE: {}".format(prov_desig)) + print() + print(lines) + print() + print() + logging.error(traceback.format_exc()) + print("----") + return list(np.ones(nb_obs, dtype=np.float64) * -1) + + +if __name__ == "__main__": # pragma: no cover + import sys + import doctest + from pandas.testing import assert_frame_equal # noqa: F401 + import fink_fat.test.test_sample as ts # noqa: F401 + from unittest import TestCase # noqa: F401 + import shutil # noqa: F401 + import filecmp # noqa: F401 + import stat # noqa: F401 + + if "unittest.util" in __import__("sys").modules: + # Show full diff in self.assertEqual. + __import__("sys").modules["unittest.util"]._MAX_LENGTH = 999999999 + + sys.exit(doctest.testmod()[0]) diff --git a/fink_fat/orbit_fitting/orbfit_local.py b/fink_fat/orbit_fitting/orbfit_local.py index 98b32c8a..b2c0ee37 100644 --- a/fink_fat/orbit_fitting/orbfit_local.py +++ b/fink_fat/orbit_fitting/orbfit_local.py @@ -1,649 +1,19 @@ -from glob import glob import signal import numpy as np import pandas as pd -from astropy.time import Time -from astropy.coordinates import SkyCoord -import astropy.units as u -from shutil import copyfile, rmtree -import re +from shutil import rmtree import subprocess import os import multiprocessing as mp -from fink_fat import __file__ + +import fink_fat.orbit_fitting.orbfit_files as of +import fink_fat.orbit_fitting.mpcobs_files as mf import traceback import logging -def time_to_decimal(time): - """ - Get the decimal part of a date. - - Parameters - ---------- - time : array - a time with hms format split by ':' - - Returns - ------- - decimal_time : string - the decimal part of a date. - - Examples - -------- - >>> time = [20, 17, 40.088] - >>> time_to_decimal(time) - '73040' - """ - return str(int(time[0]) * 3600 + int(time[1]) * 60 + int(time[0])) - - -def split_string(string, char_split="-"): - """ - Split char based on char_split - - Parameters - ---------- - string : string - string to be split - char_split : string - characters used for the spliting - - Returns - ------- - string splited : list - a list with all splited members - - Examples - -------- - >>> test = "a-b-c-d" - >>> split_string(test) - ['a', 'b', 'c', 'd'] - """ - return string.split(char_split) - - -def join_string(list_string, join_string): - """ - Join string based on join_string - - Parameters - ---------- - list_string : string list - list of string to be join - join_string : string - characters used for the joining - - Returns - ------- - string joined : string - a string where all elements of the list string have been join with join_string between them - - Examples - -------- - >>> test = ["a", "b", "c", "d"] - >>> join_string(test, "/") - 'a/b/c/d' - """ - return join_string.join(list_string) - - -def concat_date(list_date): - """ - Concatenation of a date to be conform to mpc format - - Parameters - --------- - list_date : string list - all elements from a date - - Returns - ------- - string mpc format : string - a date string in mpc format - - Examples - -------- - >>> ld = ["1969", "07", "20", ".", "73040"] - >>> concat_date(ld) - '1969 07 20.73040' - - >>> ld = ["2021", "11", "03", ".", "4503"] - >>> concat_date(ld) - '2021 11 03.45030' - - >>> ld = ["2021", "04", "2", ".", "453"] - >>> concat_date(ld) - '2021 04 02.45300' - """ - - first_list = join_string(list_date[-3:], "") - - date_float = format(float(first_list), ".5f").rjust(8, "0") - - return join_string(list_date[:2] + [date_float], " ") - - -def band_to_str(band): - """ - Small filter band conversion - - Parameters - ---------- - band : integer - the integer designation of the ZTF band filter - - Returns - ------- - band string : string - the band designation r or g - - Examples - -------- - >>> band_to_str(1) - 'g' - - >>> band_to_str(2) - 'r' - - >>> band_to_str(0) - """ - if band == 1: - return "g" - elif band == 2: - return "r" - - -half_month_letter = { - "01": ["A", "B"], - "02": ["C", "D"], - "03": ["E", "F"], - "04": ["G", "H"], - "05": ["J", "K"], - "06": ["L", "M"], - "07": ["N", "O"], - "08": ["P", "Q"], - "09": ["R", "S"], - "10": ["T", "U"], - "11": ["V", "W"], - "12": ["X", "Y"], -} - - -def second_letter(i, uppercase=True): - """ - Create the second letter of the mpc provisional designation. - Return all alphabet letter based on i but only skip the i. - - Paramters - --------- - i : integer - letter rank in the alphabet - uppercase : boolean - if set to true, return the letter in uppercase - - Returns - ------- - letter : string - the ith alphabet letter - - Examples - -------- - >>> second_letter(1) - 'A' - >>> second_letter(25) - 'Z' - >>> second_letter(1, False) - 'a' - >>> second_letter(25, False) - 'z' - >>> second_letter(9) - 'J' - >>> second_letter(9, False) - 'j' - >>> second_letter(8) - 'H' - >>> second_letter(10) - 'K' - """ - if uppercase: - case = 64 - else: - case = 96 - - if i <= 8: - return chr(i + case) - elif i <= 25: - return chr(i + case + 1) - - -def left_shift(number, n): - """ - Left shift on 10 base number. - - Parameters - ---------- - number : integer - the number to be shift - n : integer - the number of digit to shift - - Returns - ------- - shifted number : integer - the number left shifted by n digit - - Examples - -------- - >>> left_shift(152, 1) - 15 - >>> left_shift(14589, 3) - 14 - """ - return number // 10 ** n - - -def right_shift(number, n): - """ - Right shift on 10 base number. - - Parameters - ---------- - number : integer - the number to be shift - n : integer - the number of digit to shift - - Returns - ------- - shifted number : integer - the number right shifted by n digit - - Examples - -------- - >>> right_shift(123, 1) - 3 - >>> right_shift(0, 1) - 0 - >>> right_shift(1234, 2) - 34 - """ - return number % 10 ** n - - -def letter_cycle(cycle): - """ - Return the cycle letter of the provisional designation from the MPC format - - Parameters - ---------- - cycle : integer - the number of time that the second letter have cycle throught the alphabet - - Returns - ------- - second letter : string - the second letter corresponding to the cycle - - Examples - -------- - >>> letter_cycle(10) - 'A' - >>> letter_cycle(19) - 'J' - >>> letter_cycle(35) - 'Z' - >>> letter_cycle(44) - 'j' - >>> letter_cycle(60) - 'z' - """ - cycle -= 10 - r = (cycle - 1) // 25 - if r > 0: - cycle %= 25 - - if cycle == 0: - cycle = 25 - - return second_letter(cycle, uppercase=False) - else: - if cycle == 0: - cycle = 1 - elif cycle <= 8 and cycle >= 1: - cycle += 1 - return second_letter(cycle) - - -def make_cycle(cycle): - """ - Return the last two symbol of the provisional designation corresponding to the cycle. - - Parameters - ---------- - cycle : integer - the number of time that the second letter have cycle throught the alphabet - - Returns - ------- - the cycle : string - the last two symbol of the provisional designation - - Examples - -------- - >>> make_cycle(0) - '00' - >>> make_cycle(10) - '10' - >>> make_cycle(108) - 'A8' - >>> make_cycle(110) - 'B0' - >>> make_cycle(127) - 'C7' - >>> make_cycle(162) - 'G2' - >>> make_cycle(193) - 'J3' - >>> make_cycle(348) - 'Y8' - >>> make_cycle(355) - 'Z5' - >>> make_cycle(360) - 'a0' - >>> make_cycle(418) - 'f8' - >>> make_cycle(439) - 'h9' - >>> make_cycle(440) - 'j0' - """ - if cycle <= 9: - return "0" + str(cycle) - elif cycle <= 99: - return str(cycle) - else: - digit = left_shift(cycle, 1) - unit = right_shift(cycle, 1) - return str(letter_cycle(digit)) + str(unit) - - -def make_designation(time, discovery_number): - """ - Return the provisional designation from mpc standard - - Parameters - ---------- - time : string - the reference trajectory time - discovery_number : integer - the trajectory identifier - - Returns - ------- - provisional designation : string - the provisional designation to assign to this trajectory - - Examples - -------- - >>> make_designation("2021-05-22 07:33:02.111", 0) - 'K21K00A' - >>> make_designation("2021-05-22 07:33:02.111", 24) - 'K21K00Z' - >>> make_designation("2021-05-22 07:33:02.111", 25) - 'K21K01A' - >>> make_designation("2021-05-22 07:33:02.111", 49) - 'K21K01Z' - >>> make_designation("2021-05-22 07:33:02.111", 50) - 'K21K02A' - >>> make_designation("2021-05-22 07:33:02.111", 8999) - 'K21KZ9Z' - >>> make_designation("2021-05-22 07:33:02.111", 9000) - 'K21Ka0A' - >>> make_designation("2021-01-01 07:33:02.111", 0) - 'K21A00A' - >>> make_designation("2022-07-04 07:33:02.111", 0) - 'K22N00A' - """ - time_split = time.split(" ")[0].split("-") - year = time_split[0][-2:] - - half_month = half_month_letter[time_split[1]] - if int(time_split[2]) <= 15: - half_month = half_month[0] - else: - half_month = half_month[1] - - order = discovery_number % 25 + 1 - cycle = int(discovery_number / 25) - return "K" + year + half_month + make_cycle(cycle) + second_letter(order) - - -def make_date(date): - """ - Convert date from hmsdms to mpc format - - Parameters - --------- - date : string - hmsdms date format - - Returns - ------- - mpc date : string - mpc date format - - Examples - -------- - >>> date = "20-07-1969 20:17:40.088" - >>> make_date(date) - '20 07 1969.73040' - """ - d = date.split(" ") - return concat_date(d[0].split("-") + ["."] + [time_to_decimal(d[1].split(":"))]) - - -def write_observation_file(ram_dir, obs_df): - """ - Write an observation file to mpc standard from a dataframe containing all the observations of one trajectories - - Parameters - ---------- - ram_dir : string - the path where to write the file - - obs_df : dataframe - the observation dataframe - have to contains the following columns : - ra, dec, dcmag, fid, jd, trajectory_id - - Returns - ------- - prov_desig : string - the provisional designation assign to the trajectory - - Examples - -------- - >>> os.mkdir("mpcobs") - >>> test_obs = pd.DataFrame({ - ... "ra" : [0, 1], - ... "dec": [0, 1], - ... "dcmag" : [17.4, 17.6], - ... "fid": [1, 2], - ... "jd" : [2440423.34352, 2440423.34387], - ... "trajectory_id" : [0, 0] - ... }) - - >>> write_observation_file("", test_obs) - 'K69O00A' - - >>> filecmp.cmp("mpcobs/K69O00A.obs", "fink_fat/test/K69O00A_test.obs") - True - - >>> shutil.rmtree("mpcobs/") - """ - obs_df = obs_df.sort_values(["trajectory_id", "jd"]) - ra = obs_df["ra"] - dec = obs_df["dec"] - dcmag = obs_df["dcmag"] - band = obs_df["fid"] - date = obs_df["jd"] - traj_id = obs_df["trajectory_id"].values[0] - - coord = SkyCoord(ra, dec, unit=u.degree).to_string("hmsdms") - translation_rules = {ord(i): " " for i in "hmd"} - translation_rules[ord("s")] = "" - coord = [el.translate(translation_rules) for el in coord] - - coord = [ - re.sub(r"(\d+)\.(\d+)", lambda matchobj: matchobj.group()[:5], s) for s in coord - ] - - t = Time(date.astype(np.double), format="jd") - date = t.iso - prov_desig = make_designation(date[0], traj_id) - - date = [make_date(d) for d in date] - res = [join_string([el1] + [el2], " ") for el1, el2 in zip(date, coord)] - res = [ - " " - + prov_desig - + " C" # how the observation was made : C means CCD - + el - + " " - + str(round(mag, 1)) - + " " - + band_to_str(b) - + " I41" # ZTF observation code - for el, mag, b in zip(res, dcmag, band) - ] - - dir_path = ram_dir + "mpcobs/" - with open(dir_path + prov_desig + ".obs", "wt") as file: - file.write(join_string(res, "\n")) - - return prov_desig - - -def write_inp(ram_dir, provisional_designation): - """ - Write the input file of orbit - - Parameters - ---------- - ram_dir : string - path where to write the file - - provisional_designation : string - the provisional designation of the trajectory - - Returns - ------- - None - - Examples - -------- - >>> write_inp("", 'K69O00A') - - >>> with open("K69O00A.inp", "r") as file: - ... file.read() - 'K69O00A' - - >>> os.remove("K69O00A.inp") - """ - with open(ram_dir + provisional_designation + ".inp", "wt") as file: - file.write(ram_dir + provisional_designation) - - -def write_oop(ram_dir, provisional_designation): - """ - Write the option configuration file for the OrbFit computation - - Parameters - ---------- - ram_dir : string - path where to write the file - provisional_designation : string - the provisional designation of the trajectory - - Returns - ------- - None - - Examples - -------- - >>> write_oop("", "K69O00A") - - >>> filecmp.cmp("K69O00A.oop", "fink_fat/test/K69O00A_test.oop") - True - - >>> os.remove("K69O00A.oop") - """ - fink_fat_path = os.path.dirname(__file__) - oop_template = os.path.join(fink_fat_path, "orbit_fitting", "template.oop") - - copyfile(oop_template, ram_dir + provisional_designation + ".oop") - with open(ram_dir + provisional_designation + ".oop", "a") as file: - file.write(".filbe=" + ram_dir + "AST17") - file.write("\noutput_files.\n") - file.write("\t.elem = " + ram_dir + provisional_designation + ".oel\n") - file.write("object1.\n") - file.write("\t.obs_dir = " + ram_dir + "mpcobs\n") - file.write("\t.obs_fname = " + provisional_designation) - - -def prep_orbitfit(ram_dir): - """ - Preparation for OrbFit computation - - Copy the AST17 ephemeris files needed for the orbfit computation to the correct location. - Set their permissions to be read by OrbFit. - - Parameters - ---------- - ram_dir : string - path where to write file - - Returns - ------- - - Examples - -------- - - >>> prep_orbitfit("") - - >>> st = os.stat("AST17.bai") - >>> stat.filemode(st.st_mode) - '-rwxrwxrwx' - - >>> st = os.stat("AST17.bep") - >>> stat.filemode(st.st_mode) - '-rwxrwxrwx' - - >>> shutil.rmtree("mpcobs") - >>> os.remove("AST17.bai") - >>> os.remove("AST17.bep") - """ - - try: - fink_fat_path = os.path.dirname(__file__) - orbfit_path = os.path.join(fink_fat_path, "orbit_fitting") - dir_path = ram_dir + "mpcobs/" - - if not os.path.isdir(dir_path): - os.mkdir(dir_path) - - copyfile(os.path.join(orbfit_path, "AST17.bai_431_fcct"), ram_dir + "AST17.bai") - os.chmod(ram_dir + "AST17.bai", 0o777) - - copyfile(os.path.join(orbfit_path, "AST17.bep_431_fcct"), ram_dir + "AST17.bep") - os.chmod(ram_dir + "AST17.bep", 0o777) - except Exception: - logging.error(traceback.format_exc()) - - -def call_orbitfit(ram_dir, provisional_designation): +def call_orbitfit(ram_dir, first_designation, second_designation=None): """ Call the OrbFit software in a subprocess. Kill it after 2 second if OrbFit are blocked. @@ -671,16 +41,43 @@ def call_orbitfit(ram_dir, provisional_designation): >>> os.remove("fink_fat/test/call_orbfit/K21E00A.olg") >>> os.remove("fink_fat/test/call_orbfit/K21E00A.pro") >>> os.remove("fink_fat/test/call_orbfit/mpcobs/K21E00A.rwo") + >>> os.remove("fink_fat/test/call_orbfit/K21E00A.oel") + + >>> call_orbitfit("fink_fat/test/call_orbfit/", "K19V01E", "K20V02K") + + >>> os.path.exists("fink_fat/test/call_orbfit/K19V01E_K20V02K.oel") + True + + >>> os.remove("fink_fat/test/call_orbfit/K19V01E_K20V02K.odc") + >>> os.remove("fink_fat/test/call_orbfit/K19V01E_K20V02K.olg") + >>> os.remove("fink_fat/test/call_orbfit/K19V01E_K20V02K.pro") + >>> os.remove("fink_fat/test/call_orbfit/mpcobs/K19V01E.rwo") + >>> os.remove("fink_fat/test/call_orbfit/mpcobs/K20V02K.rwo") + >>> os.remove("fink_fat/test/call_orbfit/K19V01E_K20V02K.oel") + >>> os.remove("fink_fat/test/call_orbfit/K19V01E_K20V02K.err") """ orbitfit_path = os.path.join(os.environ["ORBFIT_HOME"], "bin", "") - command = ( - orbitfit_path - + "orbfit.x < " - + ram_dir - + provisional_designation - + ".inp " - + ">/dev/null 2>&1" - ) + + if second_designation is None: + command = ( + orbitfit_path + + "orbfit.x < " + + ram_dir + + first_designation + + ".inp " + + ">/dev/null 2>&1" + ) + else: + command = ( + orbitfit_path + + "orbfit.x < " + + ram_dir + + first_designation + + "_" + + second_designation + + ".inp " + + ">/dev/null 2>&1" + ) with subprocess.Popen( command, shell=True, stdout=subprocess.DEVNULL, preexec_fn=os.setsid @@ -688,207 +85,13 @@ def call_orbitfit(ram_dir, provisional_designation): try: output = process.communicate(timeout=5)[0] return output - except subprocess.TimeoutExpired: + except subprocess.TimeoutExpired: # pragma: no cover os.killpg(process.pid, signal.SIGINT) # send signal to the process group output = process.communicate()[0] return output -def rm_files(files): - """ - Remove all files contains in the files parameters - - Parameters - files : string list - A list of files path (typically return by the glob library) - - Return - ------ - None - """ - for path_f in files: - os.remove(path_f) - - -def obs_clean(ram_dir, prov_desig): - """ - Remove all the temporary file named as prov_desig created during the OrbFit process. - - Parameters - ---------- - ram_dir : string - Path where files are located - prov_desig : string - the provisional designation of the trajectory that triggered the OrbFit process. - - Returns - ------- - None - - Examples - -------- - - >>> prov_desig = "A000001" - >>> open(prov_desig + ".oel", 'a').close() - >>> open(prov_desig + ".err", 'a').close() - - >>> os.makedirs("mpcobs") - >>> open("mpcobs/" + prov_desig + ".obs", 'a').close() - >>> open("mpcobs/" + prov_desig + ".rwo", 'a').close() - - >>> obs_clean("", prov_desig) - - >>> os.rmdir("mpcobs") - """ - - rm_files(glob(ram_dir + prov_desig + ".*")) - rm_files(glob(ram_dir + "mpcobs/" + prov_desig + ".*")) - - -def final_clean(ram_dir): - """ - Remove the residuals files used by OrbFit - - Parameters - ---------- - ram_dir : string - Path where files are located - - Returns - ------- - None - - Examples - -------- - >>> prep_orbitfit("") - - >>> os.path.exists("AST17.bai") - True - >>> os.path.exists("AST17.bep") - True - >>> os.path.exists("mpcobs") - True - - >>> final_clean("") - - >>> os.path.exists("AST17.bai") - False - >>> os.path.exists("AST17.bep") - False - >>> os.path.exists("mpcobs") - False - """ - rm_files(glob(ram_dir + "*.bai")) - rm_files(glob(ram_dir + "*.bep")) - rm_files(glob(ram_dir + "*.log")) - - os.rmdir(ram_dir + "mpcobs") - - -def read_oel(ram_dir, prov_desig): - """ - Read the .oel file return by orbfit. This file contains the orbital elements, the reference epoch of the orbit computation and - the rms of the orbital elements - - Parameters - ---------- - ram_dir : string - Path where files are located - prov_desig : string - the provisional designation of the trajectory that triggered the OrbFit process. - - Returns - ------- - orb_elem : integer list - A list with the reference epoch first then the orbital elements and finally the rms. - - Examples - -------- - >>> read_oel("fink_fat/test/call_orbfit/", "K21E00A") - [2459274.810893373, '1.5833993623527698E+00', '0.613559993695898', '5.9440877456670', '343.7960539272898', '270.1931234374459', '333.9557366497585', -1, -1, -1, -1, -1, -1] - - >>> read_oel("", "") - [-1.0, -1.0, -1.0, -1.0, -1.0, -1.0, -1.0, -1.0, -1.0, -1.0, -1.0, -1.0, -1.0] - - >>> read_oel("fink_fat/test/call_orbfit/", "K21H00A") - [2459345.797868819, '3.1514694062448680E+00', '0.113946062348132', '1.6879159876457', '38.1016474068882', '136.1915246941109', '46.5628893357021', '7.94527E-03', '1.83696E-02', '4.77846E-02', '3.17863E-01', '1.34503E+01', '9.82298E+00'] - """ - try: - with open(ram_dir + prov_desig + ".oel") as file: - lines = file.readlines() - - ref_mjd = float(lines[8].strip().split()[1]) - # conversion from modified julian date to julian date - ref_jd = ref_mjd + 2400000.5 - - orb_params = " ".join(lines[7].strip().split()).split(" ") - if len(lines) > 12: - rms = " ".join(lines[12].strip().split()).split(" ") - else: - rms = [-1, -1, -1, -1, -1, -1, -1, -1] - return [ref_jd] + orb_params[1:] + rms[2:] - except FileNotFoundError: - return list(np.ones(13, dtype=np.float64) * -1) - except Exception as e: - print("----") - print(e) - print() - print("ERROR READ OEL FILE: {}".format(prov_desig)) - print() - print(lines) - print() - print() - logging.error(traceback.format_exc()) - print("----") - return list(np.ones(13, dtype=np.float64) * -1) - - -def read_rwo(ram_dir, prov_desig, nb_obs): - """ - Read the .rwo file return by orbfit. This file contains the observations of the trajectories and the goodness of the fit computed by OrbFit. - Return the chi values for each observations. - - Parameters - ---------- - ram_dir : string - Path where files are located - prov_desig : string - the provisional designation of the trajectory that triggered the OrbFit process. - - Returns - ------- - chi : integer list - The list of all chi values of each observations. - - Examples - -------- - """ - try: - with open(ram_dir + "mpcobs/" + prov_desig + ".rwo") as file: - lines = file.readlines() - - chi_obs = [obs_l.strip().split(" ")[-3] for obs_l in lines[7:]] - - return np.array(chi_obs).astype(np.float32) - except FileNotFoundError: - return list(np.ones(nb_obs, dtype=np.float64) * -1) - except ValueError: - return list(np.ones(nb_obs, dtype=np.float64) * -1) - except Exception as e: - print("----") - print(e) - print() - print("ERROR READ RWO FILE: {}".format(prov_desig)) - print() - print(lines) - print() - print() - logging.error(traceback.format_exc()) - print("----") - return list(np.ones(nb_obs, dtype=np.float64) * -1) - - -def get_orbit_param(ram_dir, df): +def get_orbit_param(ram_dir, df, n_triplets, noise_ntrials, prop_epoch=None, verbose=1): """ Compute the orbital elements of one trajectory. @@ -898,6 +101,17 @@ def get_orbit_param(ram_dir, df): Path where files are located df : dataframe All the observation of the trajectory. An observation file will be write in the MPC format based on the observations contains in this dataframe. + n_triplets : integer + max number of triplets of observations to be tried for the initial orbit determination + noise_ntrials : integer + number of trials for each triplet for the initial orbit determination + prop_epoch : float + Epoch at which output orbital elements in JD. + verbose : integer + Verbosity levels of Orbfit + 1 = summary information on the solution found + 2 = summary information on all trials + 3 = debug Returns ------- @@ -907,6 +121,7 @@ def get_orbit_param(ram_dir, df): Examples -------- + >>> import fink_fat.orbit_fitting.orbfit_files as of >>> df = pd.DataFrame({ ... 'ra': [169.8604675, 169.8568848, 169.8336664, 169.8297121, 169.8296555], ... 'dec': [15.2063604, 15.2103091, 15.2360481, 15.2403893, 15.24049], @@ -916,10 +131,19 @@ def get_orbit_param(ram_dir, df): ... 'trajectory_id': [0, 0, 0, 0, 0] ... }) - >>> prep_orbitfit("") - >>> get_orbit_param("", df) - [[0, 'K21E00A', 2459274.810893373, '1.5833993623527698E+00', '0.613559993695898', '5.9440877456670', '343.7960539272898', '270.1931234374459', '333.9557366497585', -1, -1, -1, -1, -1, -1, -1.0]] - >>> final_clean("") + >>> of.prep_orbitfit("") + >>> res = get_orbit_param("", df, 15, 15) + >>> res[0][:9] + [0, 'K21E00A', 2459274.881182641, '1.2731835539687217E+00', '0.206413338170746', '2.7535934287416', '137.2985320438607', '321.1224023053072', '43.2327613057881'] + + >>> of.final_clean("") + + >>> of.prep_orbitfit("") + >>> res = get_orbit_param("", df, 15, 15, prop_epoch=2459752.16319) + >>> res[0][:9] + [0, 'K21E00A', 2459752.163990741, '1.2731741718578882E+00', '0.206162998389323', '2.7531115133717', '137.2874441097704', '321.1518212593283', '10.6664371694522'] + + >>> of.final_clean("") """ all_traj_id = np.unique(df["trajectory_id"].values) @@ -927,13 +151,30 @@ def get_orbit_param(ram_dir, df): results = [] for traj_id in all_traj_id: df_one_traj = df[df["trajectory_id"] == traj_id] - prov_desig = write_observation_file(ram_dir, df_one_traj) - write_inp(ram_dir, prov_desig) - write_oop(ram_dir, prov_desig) + prov_desig = mf.write_observation_file(ram_dir, df_one_traj) + of.write_inp(ram_dir, prov_desig) + if prop_epoch is None: + of.write_oop( + ram_dir, + prov_desig, + prop_epoch="JD {} UTC".format(df_one_traj["jd"].values[-1]), + n_triplets=n_triplets, + noise_ntrials=noise_ntrials, + verbose=verbose, + ) + else: + of.write_oop( + ram_dir, + prov_desig, + prop_epoch="JD {} UTC".format(prop_epoch), + n_triplets=n_triplets, + noise_ntrials=noise_ntrials, + verbose=verbose, + ) try: call_orbitfit(ram_dir, prov_desig) - except Exception as e: + except Exception as e: # pragma: no cover print(e) print("ERROR CALLING ORBFIT: {}".format(prov_desig)) print() @@ -944,18 +185,18 @@ def get_orbit_param(ram_dir, df): print() print(df_one_traj) - chi_values = read_rwo(ram_dir, prov_desig, len(df_one_traj)) + chi_values = of.read_rwo(ram_dir, prov_desig, len(df_one_traj)) # reduced the chi values chi_reduced = np.sum(np.array(chi_values)) / len(df_one_traj) results.append( - [traj_id, prov_desig] + read_oel(ram_dir, prov_desig) + [chi_reduced] + [traj_id, prov_desig] + of.read_oel(ram_dir, prov_desig) + [chi_reduced] ) try: - obs_clean(ram_dir, prov_desig) - except FileNotFoundError: + of.obs_clean(ram_dir, prov_desig) + except FileNotFoundError: # pragma: no cover print("ERROR CLEANING ORBFIT: {}".format(prov_desig)) print(prov_desig) print() @@ -1015,7 +256,15 @@ def orbit_elem_dataframe(orbit_elem): return df_orb_elem -def compute_df_orbit_param(trajectory_df, cpu_count, ram_dir): +def compute_df_orbit_param( + trajectory_df, + cpu_count, + ram_dir, + n_triplets=10, + noise_ntrials=10, + prop_epoch=None, + verbose=1, +): """ Compute the orbital elements of a set of trajectories. Computation are done in parallel. @@ -1027,6 +276,17 @@ def compute_df_orbit_param(trajectory_df, cpu_count, ram_dir): the number of core for the parallel computation ram_dir : string Path where files are located + n_triplets : integer + max number of triplets of observations to be tried for the initial orbit determination + noise_ntrials : integer + number of trials for each triplet for the initial orbit determination + prop_epoch : float + Epoch at which output orbital elements in JD. + verbose : integer + Verbosity levels of Orbfit + 1 = summary information on the solution found + 2 = summary information on all trials + 3 = debug Returns ------- @@ -1042,7 +302,7 @@ def compute_df_orbit_param(trajectory_df, cpu_count, ram_dir): >>> assert_frame_equal(orb_elem, ts.orbfit_output) """ - prep_orbitfit(ram_dir) + # of.prep_orbitfit(ram_dir) all_traj_id = np.unique(trajectory_df["trajectory_id"].values) @@ -1055,10 +315,17 @@ def compute_df_orbit_param(trajectory_df, cpu_count, ram_dir): for chunk_dir in chunk_ramdir: os.mkdir(chunk_dir) - prep_orbitfit(chunk_dir) + of.prep_orbitfit(chunk_dir) chunks = [ - (chunk_dir, trajectory_df[trajectory_df["trajectory_id"].isin(tr_chunk)]) + ( + chunk_dir, + trajectory_df[trajectory_df["trajectory_id"].isin(tr_chunk)], + n_triplets, + noise_ntrials, + prop_epoch, + verbose, + ) for tr_chunk, chunk_dir in zip(trajectory_id_chunks, chunk_ramdir) if len(tr_chunk) > 0 ] @@ -1073,11 +340,11 @@ def compute_df_orbit_param(trajectory_df, cpu_count, ram_dir): for chunk_dir in chunk_ramdir: rmtree(chunk_dir) - final_clean(ram_dir) + of.final_clean(ram_dir) if len(results) > 0: return orbit_elem_dataframe(np.array(results)) - else: + else: # pragma: no cover return pd.DataFrame( columns=[ "trajectory_id", diff --git a/fink_fat/orbit_fitting/orbfit_merger.py b/fink_fat/orbit_fitting/orbfit_merger.py index 1358f564..971537f9 100644 --- a/fink_fat/orbit_fitting/orbfit_merger.py +++ b/fink_fat/orbit_fitting/orbfit_merger.py @@ -2,384 +2,18 @@ import numpy as np import os from sklearn.neighbors import NearestNeighbors -from fink_fat.orbit_fitting.orbfit_local import prep_orbitfit -from fink_fat.orbit_fitting.orbfit_local import rm_files from glob import glob -import signal -from astropy.time import Time -from astropy.coordinates import SkyCoord -import astropy.units as u from shutil import rmtree -import re -import subprocess import multiprocessing as mp -import traceback -import logging - import fink_fat.orbit_fitting.orbfit_local as ol +import fink_fat.orbit_fitting.orbfit_files as of +import fink_fat.orbit_fitting.mpcobs_files as mf -def write_inp(ram_dir, first_designation, second_designation): - """ - Write the input files of Orbfit in orbit identification mode. Two designations need to be given corresponding to the both arcs. - - Parameters - ---------- - ram_dir : string - the path where to write the temporary file generated by orbfit. - first_designation : string - the provisional designation of the first arc - second_designation : string - the provisional designation of the second arc - - Return - ------ - None - """ - with open( - ram_dir + first_designation + "_" + second_designation + ".inp", "wt" - ) as file: - file.write(ram_dir + first_designation + "_" + second_designation) - - -def write_oop(ram_dir, first_designation, second_designation): - """ - Write the option file of OrbFit in orbit identification mode. Two designations need to be given corresponding to the both arcs. - - Parameters - ---------- - ram_dir : string - the path where to write the temporary file generated by orbfit. - first_designation : string - the provisional designation of the first arc - second_designation : string - the provisional designation of the second arc - - Return - ------ - None - """ - with open( - ram_dir + first_designation + "_" + second_designation + ".oop", "w" - ) as file: - # write output options - file.write("output.\n") - file.write("\t.elements = 'KEP'\n") - - # write operations options - file.write("operations.\n") - file.write("\t.init_orbdet = 2\n") - file.write("\t.diffcor = 2\n") - file.write("\t.ident = 2\n") - file.write("\t.ephem = 0\n") - - # write error model options - file.write("error_model.\n") - file.write("\t.name='fcct14'\n") - - # write additional options - file.write("IERS.\n") - file.write("\t.extrapolation = .T.\n") - - # write reject options - file.write("reject.\n") - file.write("\t.rejopp = .FALSE.\n") - - # write propagation options - file.write("propag.\n") - file.write("\t.iast = 17\n") - file.write("\t.npoint = 600\n") - file.write("\t.dmea = 0.2d0\n") - file.write("\t.dter = 0.05d0\n") - - # write location files options - file.write(".filbe=" + ram_dir + "AST17\n") - file.write("\noutput_files.\n") - file.write( - "\t.elem = " - + ram_dir - + first_designation - + "_" - + second_designation - + ".oel\n" - ) - file.write("object1.\n") - file.write("\t.obs_dir = " + ram_dir + "mpcobs\n") - file.write("\t.name = " + first_designation) - - # write second object location - file.write("\nobject2.\n") - file.write("\t.obs_dir = " + ram_dir + "mpcobs\n") - file.write("\t.name = " + second_designation) - - -def write_observation_file(ram_dir, obs_df): - """ - Write an observation file to mpc standard from a dataframe containing all the observations of one trajectories - - Parameters - ---------- - ram_dir : string - the path where to write the file - - obs_df : dataframe - the observation dataframe - have to contains the following columns : - ra, dec, dcmag, fid, jd, trajectory_id - - Returns - ------- - prov_desig : string - the provisional designation assign to the trajectory - - Examples - -------- - >>> os.mkdir("mpcobs") - >>> test_obs = pd.DataFrame({ - ... "ra" : [0, 1], - ... "dec": [0, 1], - ... "dcmag" : [17.4, 17.6], - ... "fid": [1, 2], - ... "jd" : [2440423.34352, 2440423.34387], - ... "trajectory_id" : [0, 0] - ... }) - - >>> write_observation_file("", test_obs) - 'K69O00A' - - >>> filecmp.cmp("mpcobs/K69O00A.obs", "fink_fat/test/K69O00A_test.obs") - True - - >>> shutil.rmtree("mpcobs/") - """ - - obs_df = obs_df.sort_values(["trajectory_id", "jd"]) - ra = obs_df["ra"] - dec = obs_df["dec"] - dcmag = obs_df["dcmag"] - band = obs_df["fid"] - date = obs_df["jd"] - traj_id = obs_df["trajectory_id"].values[0] - - coord = SkyCoord(ra, dec, unit=u.degree).to_string("hmsdms") - translation_rules = {ord(i): " " for i in "hmd"} - translation_rules[ord("s")] = "" - - coord = [el.translate(translation_rules) for el in coord] - - coord = [ - re.sub(r"(\d+)\.(\d+)", lambda matchobj: matchobj.group()[:5], s) for s in coord - ] - - t = Time(date.astype(np.double), format="jd") - date = t.iso - prov_desig = ol.make_designation(date[0], traj_id) - - date = [ol.make_date(d) for d in date] - - res = [ol.join_string([el1] + [el2], " ") for el1, el2 in zip(date, coord)] - - res = [ - " " - + prov_desig - + " C" # how the observation was made : C means CCD - + el - + " " - + str(round(mag, 1)) - + " " - + ol.band_to_str(b) - + " I41" # ZTF observation code - for el, mag, b in zip(res, dcmag, band) - ] - - res[0] = res[0][:12] + "*" + res[0][13:] - - dir_path = ram_dir + "mpcobs/" - with open(dir_path + prov_desig + ".obs", "wt") as file: - file.write(ol.join_string(res, "\n")) - - return prov_desig - - -def call_orbitfit(ram_dir, first_designation, second_designation): - """ - Call the OrbFit software in a subprocess. Kill it after 5 second if OrbFit are blocked. - This function is for the orbit identification mode where two designations corresponding to the both arc need to be given. - - Parameters - ---------- - ram_dir : string - path where to write the file. - first_designation : string - the provisional designation of the first arc. - second_designation : string - the provisional designation of the second arc. - - Returns - ------- - output : integer - return status of the orbfit process - - Examples - -------- - - >>> call_orbitfit("fink_fat/test/call_orbfit/", "K21E00A") - - >>> os.path.exists("fink_fat/test/call_orbfit/K21E00A.oel") - True - - >>> os.remove("fink_fat/test/call_orbfit/K21E00A.odc") - >>> os.remove("fink_fat/test/call_orbfit/K21E00A.olg") - >>> os.remove("fink_fat/test/call_orbfit/K21E00A.pro") - >>> os.remove("fink_fat/test/call_orbfit/mpcobs/K21E00A.rwo") - """ - orbitfit_path = os.path.join(os.environ["ORBFIT_HOME"], "bin", "") - command = ( - orbitfit_path - + "orbfit.x < " - + ram_dir - + first_designation - + "_" - + second_designation - + ".inp " - + ">/dev/null 2>&1" - ) - - with subprocess.Popen( - command, shell=True, stdout=subprocess.DEVNULL, preexec_fn=os.setsid - ) as process: - try: - output = process.communicate(timeout=5)[0] - return output - except subprocess.TimeoutExpired: - os.killpg(process.pid, signal.SIGINT) # send signal to the process group - output = process.communicate()[0] - return output - - -def read_oel(ram_dir, first_desig, second_desig): - """ - Read the .oel file return by orbfit. This file contains the orbital elements, the reference epoch of the orbit computation and - the rms of the orbital elements - - Parameters - ---------- - ram_dir : string - Path where files are located - prov_desig : string - the provisional designation of the trajectory that triggered the OrbFit process. - - Returns - ------- - orb_elem : integer list - A list with the reference epoch first then the orbital elements and finally the rms. - - Examples - -------- - >>> read_oel("fink_fat/test/call_orbfit/", "K21E00A") - [2459274.810893373, '1.5833993623527698E+00', '0.613559993695898', '5.9440877456670', '343.7960539272898', '270.1931234374459', '333.9557366497585', -1, -1, -1, -1, -1, -1] - - >>> read_oel("", "") - [-1.0, -1.0, -1.0, -1.0, -1.0, -1.0, -1.0, -1.0, -1.0, -1.0, -1.0, -1.0, -1.0] - - >>> read_oel("fink_fat/test/call_orbfit/", "K21H00A") - [2459345.797868819, '3.1514694062448680E+00', '0.113946062348132', '1.6879159876457', '38.1016474068882', '136.1915246941109', '46.5628893357021', '7.94527E-03', '1.83696E-02', '4.77846E-02', '3.17863E-01', '1.34503E+01', '9.82298E+00'] - """ - try: - with open(ram_dir + first_desig + "_" + second_desig + ".oel") as file: - lines = file.readlines() - - ref_mjd = float(lines[8].strip().split()[1]) - # conversion from modified julian date to julian date - ref_jd = ref_mjd + 2400000.5 - - orb_params = " ".join(lines[7].strip().split()).split(" ") - if len(lines) > 12: - rms = " ".join(lines[12].strip().split()).split(" ") - else: - rms = [-1, -1, -1, -1, -1, -1, -1, -1] - return [ref_jd] + orb_params[1:] + rms[2:] - except FileNotFoundError: - return list(np.ones(13, dtype=np.float64) * -1) - except Exception as e: - print("----") - print(e) - print() - print("ERROR READ OEL FILE: {}".format(first_desig + "_" + second_desig)) - print() - print(lines) - print() - print() - logging.error(traceback.format_exc()) - print("----") - return list(np.ones(13, dtype=np.float64) * -1) - - -def detect_ident(ram_dir, first_desig, second_desig): - """ - Read the .olg files return by orbfit. The .olg files is the log files of OrbFit. It contains the information if the orbit identification - have been a success and the keplerian orbital elements of the merged trajectories. - - Parameters - ---------- - ram_dir : string - Path where the temporary files of Orbfit are written. - first_desig : string - the provisional designation of the first arc. - second_desig : string - the provisional designation of the second arc. - """ - try: - with open(ram_dir + first_desig + "_" + second_desig + ".olg") as file: - lines = file.readlines() - - try: - for i in range(len(lines)): - if ( - first_desig + "=" + second_desig in lines[i] - and "Differential correction" in lines[i] - and lines[i + 1].strip() != "FAILED" - ): - - orb_res = [] - - for j in range(i + 2, i + 8): - - numeric_const_pattern = r""" - [-+]? # optional sign - (?: - (?: \d* \. \d+ ) # .1 .12 .123 etc 9.1 etc 98.1 etc - | - (?: \d+ \.? ) # 1. 12. 123. etc 1 12 123 etc - ) - # followed by optional exponent part if desired - (?: [Ee] [+-]? \d+ ) ? - """ - - rx = re.compile(numeric_const_pattern, re.VERBOSE) - - get_orb_str = rx.findall(lines[j])[0] - orb_res.append(float(get_orb_str)) - - ref_mjd = float(rx.findall(lines[i + 8])[0]) - # conversion from modified julian date to julian date - ref_jd = ref_mjd + 2400000.5 - - orb_res.append(ref_jd) - return orb_res - except Exception: - return list(np.ones(7, dtype=np.float64) * -1) - - return list(np.ones(7, dtype=np.float64) * -1) - - except FileNotFoundError: - return list(np.ones(7, dtype=np.float64) * -1) - - -def parallel_merger(ram_dir, trajectory_df, orb_cand, indices): +def parallel_merger(ram_dir, trajectory_df, orb_cand, indices, prop_epoch): """ Function used for the parallel computation of Orbfit in orbit identification mode. Try all the combination of trajectories return by the nearest neighbor algorithm. @@ -393,13 +27,27 @@ def parallel_merger(ram_dir, trajectory_df, orb_cand, indices): orb_cand : dataframe The set of orbital elements of each trajectories indices : integer - Indices of the orb_cand parameters used to recover the neighborhood of a trajectories + Indices of the orb_cand parameters used to recover the neighborhood of a trajectories. + prop_epoch : float + Epoch at which output orbital elements in JD. Return ------ res_orb : dataframe The results of the orbit identification. The dataframe contains the trajectories of the both arcs involved in the merge and the orbitals elements of the new merged trajectories. + + Examples + -------- + >>> merge_file = open('fink_fat/test/merge_test/merge_data.pickle', 'rb') + >>> merge_data = pickle.load(merge_file) + >>> os.makedirs("chunkid_0/mpcobs/") + + >>> parallel_merger(*merge_data) + [[2459752.003580741, 0, '2.4238086390916203E+00', '0.269164770785356', '25.6894257030655', '335.5592066316808', '251.8641715562610', '287.2148986522243', '6.42137E-05', '2.01103E-05', '7.82872E-04', '1.06443E-03', '8.46007E-03', '1.96242E-02', 30, '2.4184111483160988E+00', '0.267570739798363', '25.6575323148178', '335.5804344016931', '251.8205861139055', '287.9142383344984', '1.00962E-04', '4.12691E-05', '7.29526E-05', '7.69820E-04', '2.10740E-03', 'K20M00A_K21A01F', 'K20M00A=K21A01F', '2.4193869692732242E+00', '0.267263915046098', '25.6520543897533', '335.5009168460746', '251.7607054960978', '288.0667606295705', '2.82103E-04', '9.26884E-05', '2.51249E-04', '4.43638E-04', '4.76105E-03', '2.58625E-02'], [2459752.003580741, 29, '3.0452145924429099E+00', '0.065606648677047', '23.3374231190184', '267.4524661689092', '128.7655075980927', '101.3033609159210', '6.18848E-04', '8.87126E-05', '7.53815E-04', '7.18789E-03', '1.63296E-01', '1.08993E-01', 59, '3.0509605762796492E+00', '0.068572028897144', '23.3167627278706', '267.5385575735852', '130.8180167064951', '99.1979965927759', '4.29550E-04', '1.04754E-04', '2.98456E-04', '8.04180E-04', '4.46305E-02', 'K19V01E_K20V02K', 'K19V01E=K20V02K', '3.0425223319646371E+00', '0.066444480517143', '23.3221026518435', '267.5088738794881', '130.2270472077813', '100.1547290834541', '2.75905E-04', '7.90609E-05', '7.69444E-04', '3.31889E-03', '3.51691E-02', '3.21688E-02'], [2459752.003580741, 30, '2.4184111431953395E+00', '0.267570741616777', '25.6575323561144', '335.5804344791498', '251.8205858956849', '287.9142389123562', '1.00957E-04', '4.12670E-05', '7.29480E-05', '7.69737E-04', '2.10729E-03', '6.20331E-03', 0, '2.4238086412407203E+00', '0.269164770589233', '25.6894256560389', '335.5592065429524', '251.8641720787436', '287.2148978126605', '6.42137E-05', '2.01101E-05', '7.82866E-04', '1.06442E-03', '8.46004E-03', 'K21A01F_K20M00A', 'K21A01F=K20M00A', '2.4193869694207026E+00', '0.267263914985993', '25.6520544000150', '335.5009168774209', '251.7607054287975', '288.0667606790379', '2.82090E-04', '9.26841E-05', '2.51233E-04', '4.43628E-04', '4.76081E-03', '2.58613E-02'], [2459752.003580741, 59, '3.0509604188329651E+00', '0.068571983469542', '23.3167628061171', '267.5385569049111', '130.8180092135307', '99.1980116026713', '4.29555E-04', '1.04755E-04', '2.98465E-04', '8.04201E-04', '4.46309E-02', '5.91528E-02', 29, '3.0452146848792898E+00', '0.065606644259685', '23.3374225384160', '267.4524729115861', '128.7654708169027', '101.3033825001779', '6.18835E-04', '8.87085E-05', '7.53780E-04', '7.18783E-03', '1.63293E-01', 'K20V02K_K19V01E', 'K20V02K=K19V01E', '3.0425223182949446E+00', '0.066444467499287', '23.3221026916831', '267.5088744082560', '130.2270556368874', '100.1547219079311', '2.75901E-04', '7.90590E-05', '7.69436E-04', '3.31884E-03', '3.51693E-02', '3.21699E-02']] + + >>> rmtree("chunkid_0") + >>> of.rm_files(glob("*.rwo")) """ res_orb = [] @@ -407,39 +55,47 @@ def parallel_merger(ram_dir, trajectory_df, orb_cand, indices): for i in range(len(indices)): neighbor_traj = list(orb_cand.iloc[indices[i]]["trajectory_id"]) - prep_orbitfit(ram_dir) + of.prep_orbitfit(ram_dir) first_traj = trajectory_df[trajectory_df["trajectory_id"] == neighbor_traj[0]] - first_obj = write_observation_file(ram_dir, first_traj) + first_obj = mf.write_observation_file(ram_dir, first_traj) # for each trajectories in the neighborhood of the ith trajectories for other_traj in neighbor_traj[1:]: second_traj = trajectory_df[trajectory_df["trajectory_id"] == other_traj] - second_obj = write_observation_file(ram_dir, second_traj) + second_obj = mf.write_observation_file(ram_dir, second_traj) - write_inp(ram_dir, first_obj, second_obj) - write_oop(ram_dir, first_obj, second_obj) + of.write_inp(ram_dir, first_obj, second_obj) + of.write_oop( + ram_dir, + first_obj, + second_obj, + prop_epoch="JD {} UTC".format(prop_epoch), + ) - call_orbitfit(ram_dir, first_obj, second_obj) + ol.call_orbitfit(ram_dir, first_obj, second_obj) - res_orb.append( - [neighbor_traj[0], other_traj] - + detect_ident(ram_dir, first_obj, second_obj) - ) + readed_orb = of.read_oel(ram_dir, first_obj, second_obj) + readed_orb[1] = neighbor_traj[0] + readed_orb[14] = other_traj + readed_orb[26] = first_obj + "_" + second_obj + res_orb.append(readed_orb) - rm_files(glob.glob(os.path.join(ram_dir, "*.err"))) - rm_files(glob.glob(os.path.join(ram_dir, "*.inp"))) - rm_files(glob.glob(os.path.join(ram_dir, "*.oop"))) - rm_files(glob.glob(os.path.join(ram_dir, "*.pro"))) - rm_files(glob.glob(os.path.join(ram_dir, "*.odc"))) + of.rm_files(glob(os.path.join(ram_dir, "*.err"))) + of.rm_files(glob(os.path.join(ram_dir, "*.inp"))) + of.rm_files(glob(os.path.join(ram_dir, "*.oop"))) + of.rm_files(glob(os.path.join(ram_dir, "*.pro"))) + of.rm_files(glob(os.path.join(ram_dir, "*.odc"))) return res_orb -def merge_orbit(observations, orbit_candidate, ram_dir, nb_neighbors, cpu_count): +def merge_orbit( + observations, orbit_candidate, ram_dir, nb_neighbors, cpu_count, prop_epoch +): """ Call OrbFit with the orbit identification mode activated. OrbFit is call with an observations files containing two sets of observations, one for the first orbital arcs and one for the second. @@ -462,11 +118,21 @@ def merge_orbit(observations, orbit_candidate, ram_dir, nb_neighbors, cpu_count) The number of trajectories in the nearest neighborhood of all trajectories. Increase this parameters will increase the computation time. cpu_count : integer The number of cpu core used for the parallel computation + prop_epoch : float + Epoch at which output orbital elements in JD. Return ------ df_orb_elem : dataframe The set of orbital parameters of the merged trajectories. It contains also the trajectory_id of both merged trajectories. + + Examples + -------- + + >>> merge_test_path = "fink_fat/test/merge_test/" + >>> merge_res = merge_orbit(pd.read_parquet(merge_test_path + "obs_merge.parquet"), pd.read_parquet(merge_test_path + "orb_merge.parquet"), "", 2, 1, 2459752.00278) + + >>> assert_frame_equal(merge_res, pd.read_parquet(merge_test_path + "merge_test_results.parquet")) """ orb_features = np.array(orbit_candidate[["a", "e", "i"]]) @@ -485,10 +151,10 @@ def merge_orbit(observations, orbit_candidate, ram_dir, nb_neighbors, cpu_count) for chunk_dir in chunk_ramdir: os.mkdir(chunk_dir) - prep_orbitfit(chunk_dir) + of.prep_orbitfit(chunk_dir) chunks = [ - (chunk_dir, observations, orbit_candidate, tr_chunk) + (chunk_dir, observations, orbit_candidate, tr_chunk, prop_epoch) for tr_chunk, chunk_dir in zip(trajectory_id_chunks, chunk_ramdir) if len(tr_chunk) > 0 ] @@ -500,257 +166,72 @@ def merge_orbit(observations, orbit_candidate, ram_dir, nb_neighbors, cpu_count) for chunk_dir in chunk_ramdir: rmtree(chunk_dir) - rm_files(glob.glob("*.rwo")) + of.rm_files(glob(ram_dir + "*.rwo")) results = [el2 for el1 in results for el2 in el1] column_name = [ + "ref_epoch", "trajectory_id_1", + "a1", + "e1", + "i1", + "long. node1", + "arg. peric1", + "mean anomaly1", + "rms_a1", + "rms_e1", + "rms_i1", + "rms_long. node1", + "rms_arg. peric1", + "rms_mean anomaly1", "trajectory_id_2", - "a", - "e", - "i", - "long. node", - "arg. peric", - "mean anomaly", - "ref_epoch", + "a2", + "e2", + "i2", + "long. node2", + "arg. peric2", + "mean anomaly2", + "rms_a2", + "rms_e2", + "rms_i2", + "rms_long. node2", + "rms_arg. peric2", + "rms_mean anomaly2", + "traj_merge", + "a_merge", + "e_merge", + "i_merge", + "long. node_merge", + "arg. peric_merge", + "mean anomaly_merge", + "rms_a_merge", + "rms_e_merge", + "rms_i_merge", + "rms_long. node_merge", + "rms_arg. peric_merge", + "rms_mean anomaly_merge", ] df_orb_elem = pd.DataFrame(results, columns=column_name,) - return df_orb_elem[df_orb_elem["a"] != -1.0] - - -def remove_mirror(pdf): - """ - Remove the mirror associations that can occurs in the dataframe return by the orbit identification - - Mirrors means (A <-> B and B <-> A) - - Parameters - ---------- - pdf : dataframe - The dataframe return by the orbit identification where trajectory_id_1 are for the first arcs and trajectory_id_2 are for the second arcs. - - Return - ------ - pdf : dataframe - The mirrors associations have been removed, keep only one of them. - """ - return pdf.loc[ - pd.DataFrame( - np.sort(pdf[["trajectory_id_1", "trajectory_id_2"]], 1), index=pdf.index - ) - .drop_duplicates(keep="first") - .index - ].sort_values(["trajectory_id_2"]) - - -def remove_transitive(pdf): - """ - Remove the transitive associations that can occurs in the dataframe return by the orbit identification - - Transitive means (A <-> B and B <-> C => A <-> C) - Parameters - ---------- - pdf : dataframe - The dataframe return by the orbit identification where trajectory_id_1 are for the first arcs and trajectory_id_2 are for the second arcs. - - Return - ------ - pdf : dataframe - The trajectory_id_2 replaced by the trajectory_id_1 of the first arcs involved in the transitive associations - """ - transitive_left = pdf["trajectory_id_1"].isin(pdf["trajectory_id_2"]) - - transitive_id = pdf[pdf["trajectory_id_2"].isin(pdf["trajectory_id_1"])][ - "trajectory_id_1" - ].values - - pdf.loc[transitive_left, "trajectory_id_1"] = transitive_id - - return pdf - - -def merge_obs_id(pdf_obs, pdf_traj_merge): - """ - Merge the observations of the both arcs to return only one single trajectories for each merged trajectories. - - Parameters - ---------- - pdf_obs : dataframe - The original observations dataframe - pdf_traj_merge : dataframe - The dataframe return by the orbit identification. It contains mainly the trajectory id of the both arcs - - Return - ------ - tmp_pdf_obs : dataframe - A copy of the original observations dataframe. The trajectory_id of the second arcs have been replaced by the one of the first arcs. - """ - second_traj = pdf_obs[ - pdf_obs["trajectory_id"].isin(pdf_traj_merge["trajectory_id_2"]) - ] - - second_traj_size = second_traj.groupby(["trajectory_id"]).count()["ra"].to_numpy() - - tr_id_repeat = np.repeat( - pdf_traj_merge["trajectory_id_1"].to_numpy(), second_traj_size - ) - - tmp_pdf_obs = pdf_obs.copy() - - tmp_pdf_obs.loc[ - tmp_pdf_obs["trajectory_id"].isin(pdf_traj_merge["trajectory_id_2"]), - "trajectory_id", - ] = tr_id_repeat - - return tmp_pdf_obs - - -def merge_orb_id(orb_cand, confirmed_merger, pdf_traj_merge): - """ - Modification of the orbital elements dataframe to take into account of the merging. - Remove the orbital elements of the second arcs and replaces the orbital elements of the first arcs - by those of the merger. - - Parameters - ---------- - orb_cand : dataframe - the orginal orbital elements dataframe - confirmed_merger : dataframe - the orbital elements of the merged trajectories confirmed return by the second call to orbfit - pdf_traj_merge : dataframe - the trajectory_id of the both arcs with their orbitals elements return by the orbit identification - - Return - ------ - orb_cand : dataframe - The orbit elements dataframe where the second arcs of the confirmed merger have been removed and the orbital elements - of the first arcs have been replaced by those of the merger. - """ - - # get the tmp merger view of the confirmed merger - tmp_merger = pdf_traj_merge[ - pdf_traj_merge["trajectory_id_1"].isin(confirmed_merger["trajectory_id"]) - ] - - # remove the second orbital elements and observation arcs of the merger - orb_cand = orb_cand[~orb_cand["trajectory_id"].isin(tmp_merger["trajectory_id_2"])] - - # get the orbital elements of the first confirmed arcs - merged_traj_id = orb_cand["trajectory_id"].isin(tmp_merger["trajectory_id_1"]) - - column_name = [ - "ref_epoch", - "a", - "e", - "i", - "long. node", - "arg. peric", - "mean anomaly", - "rms_a", - "rms_e", - "rms_i", - "rms_long. node", - "rms_arg. peric", - "rms_mean anomaly", - "chi_reduced", - ] - - # replaces the orbital elements by the merger ones - orb_cand.loc[merged_traj_id, column_name] = confirmed_merger[column_name].to_numpy() - - return orb_cand - - -def orbit_identification(obs_cand, orbit_elem_cand, ram_dir, nb_neighbor, cpu_count): - """ - Call orbfit to merge two trajectories candidates. Create two observations files and orbfit try to match a single orbit - based on the two orbitals arcs (the two trajectories). Orbfit is able to return orbital elements for the merged trajectories - but, due to a lack of documentation from Orbfit, a second call to orbfit is performed to return a better set of orbital elements for the - merged trajectories. - - Parameters - ---------- - obs_cand : dataframe - The set of observations of each trajectories candidates. - orbit_elem_cand : dataframe - The set of orbital elements of each trajectories candidates - ram_dir : string - path where to write the temporary files generated by Orbfit - nb_neighbor : integer - The number of neighbor used to associates the trajectories - cpu_count : integer - The number of cpu core used by the parallel orbfit computation - - Return - ------ - new_obs_cand : dataframe - The observations dataframe, the trajectories that may belong to the same solar system objects have been merged together - new_orbit_cand : dataframe - The dataframe with the orbital elements, the orbital elements of the second arcs have been discarded and the orbital elements - of the first arcs have been replaced by those of the merger. - """ - - # call orbfit to merge two orbitals arcs - merge_results = merge_orbit( - obs_cand, orbit_elem_cand, ram_dir, nb_neighbor, cpu_count - ) - - # (A <-> B means A associated with B) - # remove the mirror (A <-> B and B <-> A) and transitive (A <-> B and B <-> C => A <-> C) - merge_traj = remove_mirror(merge_results) - merge_traj = remove_transitive(merge_traj) - - # the trajectory_id of the second arcs are replaced with the trajectory_id of the first arcs - merged_obs_cand = merge_obs_id(obs_cand, merge_traj) - - # get the new merged trajectories - new_traj = merged_obs_cand[ - merged_obs_cand["trajectory_id"].isin(merge_traj["trajectory_id_1"]) - ] - - # call orbfit to get the new orbital paramters of the merged trajectories even if the orbit identification return orbital elements. - new_orb = ol.compute_df_orbit_param(new_traj, cpu_count, ram_dir) - confirmed_merger = new_orb[(new_orb["a"] != -1.0) & (new_orb["rms_a"] != -1.0)] - - new_orbit_cand = merge_orb_id(orbit_elem_cand, confirmed_merger, merge_traj) - - # get the both trajectory_id merged arcs - tmp_confirmed_merger = merge_traj[ - merge_traj["trajectory_id_1"].isin(confirmed_merger["trajectory_id"]) - ] - - # remove the both merged arcs from the observations dataframe - obs_cand = obs_cand[ - ~obs_cand["trajectory_id"].isin(tmp_confirmed_merger["trajectory_id_1"]) - ] - obs_cand = obs_cand[ - ~obs_cand["trajectory_id"].isin(tmp_confirmed_merger["trajectory_id_2"]) - ] - - # get the observations of the confirmed merger - confirmed_obs = new_traj[ - new_traj["trajectory_id"].isin(confirmed_merger["trajectory_id"]) - ] - # concat the old observations with the observations of the merged observations - new_obs_cand = pd.concat([obs_cand, confirmed_obs]) - - return new_obs_cand, new_orbit_cand - - -# if __name__ == "__main__": - -# ram_dir = "/media/virtuelram/" # "/tmp/ramdisk/" - -# path_data = "~/Documents/Doctorat/Asteroids/test_asteroids_candidates/ZTF/hope_without_bug/asteroids_candidates_resultats/candidates" - -# obs_cand = pd.read_parquet(os.path.join(path_data, "trajectory_orb.parquet")).sort_values(["trajectory_id"]) - -# orbit_candidate = pd.read_parquet(os.path.join(path_data, "orbital.parquet")).reset_index(drop=True) + return df_orb_elem[df_orb_elem["a1"] != -1.0] -# orbit_candidate["chi_reduced"] = np.ones(len(orbit_candidate)) * -1.0 +if __name__ == "__main__": # pragma: no cover + import sys + import doctest + from pandas.testing import assert_frame_equal # noqa: F401 + import fink_fat.test.test_sample as ts # noqa: F401 + from unittest import TestCase # noqa: F401 + import shutil # noqa: F401 + import filecmp # noqa: F401 + import stat # noqa: F401 + # import pickle # noqa: F401 + import pickle5 as pickle # noqa: F401 -# obs_cand_with_merger, orb_cand_with_merger = orbit_identification(obs_cand, orbit_candidate, "/media/virtuelram/", 5, 10) + if "unittest.util" in __import__("sys").modules: + # Show full diff in self.assertEqual. + __import__("sys").modules["unittest.util"]._MAX_LENGTH = 999999999 -# print(orb_cand_with_merger.sort_values(["chi_reduced"])) + sys.exit(doctest.testmod()[0]) diff --git a/fink_fat/test/DESIG1_DESIG2_neg_test.oop b/fink_fat/test/DESIG1_DESIG2_neg_test.oop new file mode 100644 index 00000000..f6b7024e --- /dev/null +++ b/fink_fat/test/DESIG1_DESIG2_neg_test.oop @@ -0,0 +1,40 @@ +output. + .elements = 'KEP' + .epoch = JD 2450983.44143519 UTC +init_orbdet. + .verbose = 1 + .n_triplets = 10 + .noise.ntrials = 10 +operations. + .init_orbdet = 2 + .diffcor = 2 + .ident = 2 + .ephem = 1 +ephem. + .epoch.start = JD 2450993.44143519 UTC + .epoch.end = JD 2451003.44143519 UTC + .step = 1 + .obscode = 675 + .timescale = UTC + .fields = cal,mjd,coord,mag,delta,r,elong,phase,glat,appmot,skyerr +error_model. + .name='fcct14' +IERS. + .extrapolation = .T. +reject. + .rejopp = .FALSE. +propag. + .iast = 17 + .npoint = 600 + .dmea = 0.2d0 + .dter = 0.05d0 + .filbe=fink_fat/test/AST17 + +output_files. + .elem = fink_fat/test/DESIG1_DESIG2.oel +object1. + .obs_dir = fink_fat/test/mpcobs + .name = DESIG1 +object2. + .obs_dir = fink_fat/test/mpcobs + .name = DESIG2 \ No newline at end of file diff --git a/fink_fat/test/DESIG1_DESIG2_test.inp b/fink_fat/test/DESIG1_DESIG2_test.inp new file mode 100644 index 00000000..97ca3883 --- /dev/null +++ b/fink_fat/test/DESIG1_DESIG2_test.inp @@ -0,0 +1 @@ +fink_fat/test/DESIG1_DESIG2 \ No newline at end of file diff --git a/fink_fat/test/DESIG1_DESIG2_test.oop b/fink_fat/test/DESIG1_DESIG2_test.oop new file mode 100644 index 00000000..df53ede1 --- /dev/null +++ b/fink_fat/test/DESIG1_DESIG2_test.oop @@ -0,0 +1,40 @@ +output. + .elements = 'KEP' + .epoch = JD 2450983.44143519 UTC +init_orbdet. + .verbose = 1 + .n_triplets = 24 + .noise.ntrials = 12 +operations. + .init_orbdet = 2 + .diffcor = 2 + .ident = 2 + .ephem = 1 +ephem. + .epoch.start = JD 2450993.44143519 UTC + .epoch.end = JD 2451003.44143519 UTC + .step = 5.3 + .obscode = 675 + .timescale = UTC + .fields = cal,mjd,coord,mag,delta,r,elong,phase,glat,appmot,skyerr +error_model. + .name='fcct14' +IERS. + .extrapolation = .T. +reject. + .rejopp = .FALSE. +propag. + .iast = 17 + .npoint = 600 + .dmea = 0.2d0 + .dter = 0.05d0 + .filbe=fink_fat/test/AST17 + +output_files. + .elem = fink_fat/test/DESIG1_DESIG2.oel +object1. + .obs_dir = fink_fat/test/mpcobs + .name = DESIG1 +object2. + .obs_dir = fink_fat/test/mpcobs + .name = DESIG2 \ No newline at end of file diff --git a/fink_fat/test/DESIG1_DESIG2_test2.oop b/fink_fat/test/DESIG1_DESIG2_test2.oop new file mode 100644 index 00000000..6eaf10ad --- /dev/null +++ b/fink_fat/test/DESIG1_DESIG2_test2.oop @@ -0,0 +1,32 @@ +output. + .elements = 'KEP' +init_orbdet. + .verbose = 1 + .n_triplets = 10 + .noise.ntrials = 10 +operations. + .init_orbdet = 2 + .diffcor = 2 + .ident = 2 + .ephem = 0 +error_model. + .name='fcct14' +IERS. + .extrapolation = .T. +reject. + .rejopp = .FALSE. +propag. + .iast = 17 + .npoint = 600 + .dmea = 0.2d0 + .dter = 0.05d0 + .filbe=fink_fat/test/AST17 + +output_files. + .elem = fink_fat/test/DESIG1_DESIG2.oel +object1. + .obs_dir = fink_fat/test/mpcobs + .name = DESIG1 +object2. + .obs_dir = fink_fat/test/mpcobs + .name = DESIG2 \ No newline at end of file diff --git a/fink_fat/test/DESIG1_init_test.oop b/fink_fat/test/DESIG1_init_test.oop new file mode 100644 index 00000000..e3bec925 --- /dev/null +++ b/fink_fat/test/DESIG1_init_test.oop @@ -0,0 +1,30 @@ +output. + .elements = 'KEP' +init_orbdet. + .verbose = 1 + .n_triplets = 10 + .noise.ntrials = 10 +operations. + .init_orbdet = 0 + .diffcor = 0 + .ident = 0 + .ephem = 0 +error_model. + .name='fcct14' +IERS. + .extrapolation = .T. +reject. + .rejopp = .FALSE. +propag. + .iast = 17 + .npoint = 600 + .dmea = 0.2d0 + .dter = 0.05d0 + .filbe=fink_fat/test/AST17 + +output_files. + .elem = fink_fat/test/DESIG1.oel +object1. + .obs_dir = fink_fat/test/mpcobs + .name = DESIG1 + .inc_files = toto/ diff --git a/fink_fat/test/DESIG1_no_ephem_test.oop b/fink_fat/test/DESIG1_no_ephem_test.oop new file mode 100644 index 00000000..14cc8e4c --- /dev/null +++ b/fink_fat/test/DESIG1_no_ephem_test.oop @@ -0,0 +1,29 @@ +output. + .elements = 'KEP' +init_orbdet. + .verbose = 1 + .n_triplets = 10 + .noise.ntrials = 10 +operations. + .init_orbdet = 2 + .diffcor = 2 + .ident = 0 + .ephem = 0 +error_model. + .name='fcct14' +IERS. + .extrapolation = .T. +reject. + .rejopp = .FALSE. +propag. + .iast = 17 + .npoint = 600 + .dmea = 0.2d0 + .dter = 0.05d0 + .filbe=fink_fat/test/AST17 + +output_files. + .elem = fink_fat/test/DESIG1.oel +object1. + .obs_dir = fink_fat/test/mpcobs + .name = DESIG1 \ No newline at end of file diff --git a/fink_fat/test/DESIG1_test.inp b/fink_fat/test/DESIG1_test.inp new file mode 100644 index 00000000..e78b5568 --- /dev/null +++ b/fink_fat/test/DESIG1_test.inp @@ -0,0 +1 @@ +fink_fat/test/DESIG1 \ No newline at end of file diff --git a/fink_fat/test/DESIG1_test.oop b/fink_fat/test/DESIG1_test.oop new file mode 100644 index 00000000..14cc8e4c --- /dev/null +++ b/fink_fat/test/DESIG1_test.oop @@ -0,0 +1,29 @@ +output. + .elements = 'KEP' +init_orbdet. + .verbose = 1 + .n_triplets = 10 + .noise.ntrials = 10 +operations. + .init_orbdet = 2 + .diffcor = 2 + .ident = 0 + .ephem = 0 +error_model. + .name='fcct14' +IERS. + .extrapolation = .T. +reject. + .rejopp = .FALSE. +propag. + .iast = 17 + .npoint = 600 + .dmea = 0.2d0 + .dter = 0.05d0 + .filbe=fink_fat/test/AST17 + +output_files. + .elem = fink_fat/test/DESIG1.oel +object1. + .obs_dir = fink_fat/test/mpcobs + .name = DESIG1 \ No newline at end of file diff --git a/fink_fat/test/K19V00D_K20X01J_test.oel b/fink_fat/test/K19V00D_K20X01J_test.oel new file mode 100644 index 00000000..dff4a83c --- /dev/null +++ b/fink_fat/test/K19V00D_K20X01J_test.oel @@ -0,0 +1,79 @@ +! Propagated orbits +format = 'OEF2.0' ! file format +rectype = 'ML' ! record type (1L/ML) +refsys = ECLM J2000 ! default reference system +END_OF_HEADER +! Orbital elements of object K19V00D (computed with least squares fit) +K19V00D +! Keplerian elements: a, e, i, long. node, arg. peric., mean anomaly + KEP 5.2086582985661405E+00 0.041037517072330 20.4845468192319 315.8436056618594 126.7174037870516 7.0363794445434 + MJD 59751.503580741 TDT + MAG 0.000 0.000 +! Non-grav parameters: model used, actual number in use, dimension + LSP 0 0 6 +! RMS 2.35603E-04 3.46490E-05 1.04465E-04 7.88344E-04 6.53409E-02 5.72363E-02 +! EIG 2.57927E-07 6.25428E-07 4.34869E-06 1.34429E-05 1.05794E-04 1.53101E-03 +! WEA 0.13985 -0.00907 0.00070 0.00348 -0.74474 0.65247 + COV 5.550889260266226E-08 1.298066551831277E-10 9.579213197454184E-09 + COV 3.398834818406765E-08 -1.386451383193374E-05 1.227794793796013E-05 + COV 1.200552438740644E-09 -1.960615043188784E-09 -1.414571983711398E-08 + COV 9.469921237791093E-07 -7.868206910870742E-07 1.091298466443114E-08 + COV 7.434476338649097E-08 -4.049236002056951E-06 3.462751998859764E-06 + COV 6.214862498805945E-07 -2.053788051885902E-05 1.721758414916055E-05 + COV 4.269427002456625E-03 -3.738648476061508E-03 3.275996069638152E-03 + NOR 2.243647329717226E+11 -1.211688247639275E+12 -3.045191878659430E+08 + NOR 1.265960238670402E+10 1.348240503025121E+10 1.418833809383491E+10 + NOR 6.592390137381579E+12 1.046870168019454E+09 -6.941265957481163E+10 + NOR -7.402147828437871E+10 -7.798688219155554E+10 7.729559526705066E+08 + NOR -8.182804304746896E+07 -1.385882944925780E+06 -5.758349000878780E+05 + NOR 7.486064488035752E+08 7.877775292112293E+08 8.310657586528956E+08 + NOR 8.410252657938005E+08 8.873518288257015E+08 9.363946652307260E+08 +! Orbital elements of object K20X01J (computed with least squares fit) +K20X01J +! Keplerian elements: a, e, i, long. node, arg. peric., mean anomaly + KEP 5.2122586158728774E+00 0.043339815768804 20.4718394776065 315.8521946724863 124.1615864980219 9.5592054339815 + MJD 59751.503580741 TDT + MAG 0.000 0.000 +! Non-grav parameters: model used, actual number in use, dimension + LSP 0 0 6 +! RMS 5.43003E-04 7.69670E-05 7.18353E-05 7.45307E-04 6.50158E-02 5.84310E-02 +! EIG 4.12016E-07 8.16638E-07 1.80084E-06 1.41254E-05 3.34363E-04 1.58638E-03 +! WEA 0.27834 0.03341 0.00026 0.00008 -0.71405 0.64152 + COV 2.948526488000916E-07 4.103321140688376E-08 2.199752654906728E-08 + COV -9.044296987755398E-08 -2.744624800951291E-05 2.455918253485948E-05 + COV 5.923915904247201E-09 3.278651368869324E-09 -1.604414989284414E-08 + COV -3.225753264782918E-06 2.880625285773529E-06 5.160311733125225E-09 + COV -3.299468986952502E-08 -1.402289526778828E-06 1.267303580693973E-06 + COV 5.554828077289463E-07 -1.796884791983769E-06 1.311575716237892E-06 + COV 4.227049343160934E-03 -3.798689545854389E-03 3.414178115535876E-03 + NOR 5.860617154857653E+10 -2.909820083536068E+11 -1.312508023343517E+08 + NOR 4.419611311201819E+09 4.722523070092490E+09 5.076671039370955E+09 + NOR 1.454793959834633E+12 5.903867568325064E+08 -2.107522220677400E+10 + NOR -2.252488665267646E+10 -2.418813287205419E+10 4.554022337801569E+08 + NOR 2.256104512630223E+07 7.605663846815778E+05 1.114517590314195E+06 + NOR 4.142957441375570E+08 4.390037322142249E+08 4.742677852457784E+08 + NOR 4.687762163248956E+08 5.064360895159545E+08 5.471797374267045E+08 +! Orbital elements of object K19V00D=K20X01J (computed with least squares fit) +K19V00D=K20X01J +! Keplerian elements: a, e, i, long. node, arg. peric., mean anomaly + KEP 5.2324744800289800E+00 0.047273267080124 20.4776234947047 315.7811350105440 125.9308606763452 7.9896140760145 + MJD 59751.503580741 TDT +! Non-grav parameters: model used, actual number in use, dimension + LSP 0 0 6 +! RMS 8.45403E-04 7.46487E-05 8.08826E-05 8.42129E-04 1.31115E-01 1.17070E-01 +! EIG 5.63651E-07 1.33298E-06 2.44374E-06 1.03237E-05 5.77510E-05 3.18256E-03 +! WEA 0.26509 0.02314 -0.00008 -0.00367 -0.71903 0.64201 + COV 7.147064283650062E-07 6.277628583624062E-08 -1.130543995192049E-08 + COV -5.697117553458682E-07 -1.105751459937023E-04 9.873863518091411E-05 + COV 5.572421824221282E-09 -9.374137341735723E-10 -5.033996829198475E-08 + COV -9.644844609591821E-06 8.613562284040885E-06 6.542002420581938E-09 + COV 1.956231221506888E-08 1.805468817962573E-06 -1.620287901438153E-06 + COV 7.091808546692601E-07 8.750403386594425E-05 -7.835257010117057E-05 + COV 1.719110834371216E-02 -1.534954613546151E-02 1.370546751046618E-02 + NOR 5.295614265343286E+10 -2.575700755602864E+11 -1.348582167506113E+07 + NOR 2.725281894383862E+09 2.897495717524186E+09 3.041015112375494E+09 + NOR 1.260993158475112E+12 -8.036325749869461E+07 -1.346648823202095E+10 + NOR -1.435828068304337E+10 -1.509455122002476E+10 1.711453345288469E+08 + NOR -6.760798460617648E+06 6.269607961893374E+05 8.314147611114753E+05 + NOR 1.811849994105587E+08 1.889577512220062E+08 2.014892884356672E+08 + NOR 2.018192194221065E+08 2.152586864300356E+08 2.298108300254872E+08 diff --git a/fink_fat/test/K20K00H_K20R01N.oel b/fink_fat/test/K20K00H_K20R01N.oel new file mode 100644 index 00000000..14572549 --- /dev/null +++ b/fink_fat/test/K20K00H_K20R01N.oel @@ -0,0 +1,79 @@ +! Propagated orbits +format = 'OEF2.0' ! file format +rectype = 'ML' ! record type (1L/ML) +refsys = ECLM J2000 ! default reference system +END_OF_HEADER +! Orbital elements of object K20K00H (computed with least squares fit) +K20K00H +! Keplerian elements: a, e, i, long. node, arg. peric., mean anomaly + KEP 3.2770176197522716E+00 0.489813406860185 35.4071377670066 226.6207914399979 31.7464752385818 155.1565090050280 + MJD 59751.503580741 TDT + MAG 0.000 0.000 +! Non-grav parameters: model used, actual number in use, dimension + LSP 0 0 6 +! RMS 1.87409E-03 3.06154E-04 2.61077E-03 6.34970E-03 1.72381E-02 1.47562E-01 +! EIG 1.98924E-07 7.01034E-07 1.05475E-05 2.55162E-05 3.72601E-05 3.21583E-03 +! WEA 0.58272 0.09499 -0.01374 0.03425 0.09324 -0.80085 + COV 3.512202861662815E-06 5.719727866738537E-07 -4.730483909598440E-06 + COV 1.182998731421845E-05 3.219695881296364E-05 -2.764929588505597E-04 + COV 9.373027292179418E-08 -7.841898696187951E-07 1.927101095890113E-06 + COV 5.233608231796607E-06 -4.509194924444451E-05 6.816129223810874E-06 + COV -1.612403751206932E-05 -4.314345866448811E-05 3.740581921474694E-04 + COV 4.031871928417140E-05 1.078515188840333E-04 -9.311831590993631E-04 + COV 2.971513279946832E-04 -2.534761070562601E-03 2.177448236358266E-02 + NOR 2.551061299642071E+12 6.105927770391380E+12 -1.056412968972179E+10 + NOR 2.979693226051690E+10 4.258655430006625E+10 5.145120761492884E+10 + NOR 1.544620134597701E+13 -6.847286416495902E+09 8.505377976421581E+10 + NOR 1.082028508456339E+11 1.258709907345088E+11 4.556724709575993E+08 + NOR 1.812849726794255E+08 -3.787224188321916E+07 -1.528073321381583E+08 + NOR 5.777001785105225E+08 6.017126612256994E+08 6.461331125152209E+08 + NOR 7.590053271464514E+08 8.795767366127985E+08 1.046638425325144E+09 +! Orbital elements of object K20R01N (computed with least squares fit) +K20R01N +! Keplerian elements: a, e, i, long. node, arg. peric., mean anomaly + KEP 3.2383542557794258E+00 0.481691420534986 35.4276816300695 226.5233903480844 31.5657299503385 158.2732975448453 + MJD 59751.503580741 TDT + MAG 0.000 0.000 +! Non-grav parameters: model used, actual number in use, dimension + LSP 0 0 6 +! RMS 8.93757E-05 1.30080E-05 3.24117E-04 3.15449E-04 2.50948E-03 7.41469E-03 +! EIG 3.72658E-07 1.44631E-06 4.18129E-06 7.03324E-06 2.12931E-05 1.62365E-04 +! WEA 0.54548 0.02939 -0.01172 0.01275 0.26414 -0.79468 + COV 7.988021777729234E-09 2.825394794582712E-10 -7.488140999616634E-09 + COV 9.345082255546856E-09 2.218213411666874E-07 -6.480606321895026E-07 + COV 1.692080664981976E-10 -2.769082770481809E-09 1.866450748313066E-09 + COV 6.611653447631479E-09 -4.211395148367111E-08 1.050518730685591E-07 + COV -9.125535624845245E-08 -1.539264925179706E-07 9.222799487723921E-07 + COV 9.950796038728680E-08 1.941236098434357E-07 -9.498088558817628E-07 + COV 6.297497315932496E-06 -1.792909653773840E-05 5.497765663288807E-05 + NOR 6.975384430806681E+11 1.679167634357205E+12 -6.086857390710949E+08 + NOR 1.028343176913269E+10 1.316004385473941E+10 1.398822732203330E+10 + NOR 4.124933311900729E+12 -2.329504290636630E+08 2.668991642776217E+10 + NOR 3.308236434021275E+10 3.420701906322012E+10 8.465623934169021E+07 + NOR 6.618229724418171E+07 -1.333836432425945E+05 -7.673724601002875E+06 + NOR 2.482186313748896E+08 2.248987969221894E+08 2.181842545385969E+08 + NOR 2.769018187215748E+08 2.746582826028970E+08 2.845792029735399E+08 +! Orbital elements of object K20K00H=K20R01N (computed with least squares fit) +K20K00H=K20R01N +! Keplerian elements: a, e, i, long. node, arg. peric., mean anomaly + KEP 3.2349020268784363E+00 0.482351607052538 35.4236361556923 226.5195200701270 31.4737170165724 158.4560587571972 + MJD 59751.503580741 TDT +! Non-grav parameters: model used, actual number in use, dimension + LSP 0 0 6 +! RMS 1.15171E-04 1.79974E-05 4.67414E-04 3.35064E-04 3.15876E-03 1.04831E-02 +! EIG 4.68501E-07 1.68948E-06 3.57643E-06 6.21957E-06 1.98887E-05 2.23057E-04 +! WEA 0.51325 0.06429 -0.02567 0.01749 0.24503 -0.81941 + COV 1.326427612606103E-08 1.509007125311902E-09 -3.412767368203991E-08 + COV 2.500747398656629E-08 3.617925616073867E-07 -1.193003676292140E-06 + COV 3.239060197273400E-10 -7.669384499413751E-09 3.810146295807054E-09 + COV 4.145408044386942E-08 -1.553236533912502E-07 2.184757104986961E-07 + COV -1.215075205242151E-07 -9.254276590514648E-07 3.572339141921480E-06 + COV 1.122677295877454E-07 6.367401488520366E-07 -2.374364779973649E-06 + COV 9.977748425662595E-06 -3.264614458278621E-05 1.098962751832563E-04 + NOR 4.468126171817535E+11 1.058180505176005E+12 -1.258043487542979E+09 + NOR 5.762039698948978E+09 7.940005059972076E+09 8.870140963267925E+09 + NOR 2.650551620579648E+12 -7.524985348442850E+08 1.647648392692585E+10 + NOR 2.083765970407060E+10 2.180406209983540E+10 6.754458794318692E+07 + NOR 3.481901425944091E+07 -3.597713722009459E+06 -1.723263086541677E+07 + NOR 1.542568142068714E+08 1.446371445340792E+08 1.310057501953964E+08 + NOR 1.799888081259147E+08 1.723557133931036E+08 1.817091899550027E+08 diff --git a/fink_fat/test/K21E00A_test.oel b/fink_fat/test/K21E00A_test.oel new file mode 100644 index 00000000..08f3dddd --- /dev/null +++ b/fink_fat/test/K21E00A_test.oel @@ -0,0 +1,30 @@ +! Propagated orbits +format = 'OEF2.0' ! file format +rectype = 'ML' ! record type (1L/ML) +refsys = ECLM J2000 ! default reference system +END_OF_HEADER +! Orbital elements of object K21E00A (Gauss(wN)) +K21E00A +! Keplerian elements: a, e, i, long. node, arg. peric., mean anomaly + KEP 1.2989984390232820E+00 0.237563404272872 3.0006189587041 139.1486265719337 316.7163361462099 42.4810617056960 + MJD 59274.381182641 TDT + MAG 0.000 0.000 +! Non-grav parameters: model used, actual number in use, dimension + LSP 0 0 6 +! RMS 2.63690-155 2.15639-155 0.00000E+00 1.50627-153 4.02731-159 0.00000E+00 +! EIG -1.00434+121 -2.84692-155 -1.50836-156 2.18413-155 4.14992-155 1.00434+121 +! WEA 0.00000 0.70711 0.00000 0.00000 0.00000 0.70711 + COV 6.953229220668007-310 6.953229220668007-310 4.530581972364231-321 + COV 0.000000000000000E+00 1.877067047386856-317 6.338125239901489-314 + COV 4.650009088590742-310 5.681754927174335-322 3.112613568799853-321 + COV 6.458781390220730-315 3.959894121417771-308 0.000000000000000E+00 + COV 2.282610503839512-306 1.613618399317511-320 2.268852204484994-306 + COV 2.268852182215943-306 6.966101311133269-308 2.268852180631682-306 + COV 1.621928089414915-317 3.631478262714833-312 0.000000000000000E+00 + NOR 2.121997814658158-314 4.650032453887930-310 8.115837663565518-312 + NOR 1.213567435459613-311 0.000000000000000E+00 0.000000000000000E+00 + NOR 1.778636325028488-322 0.000000000000000E+00 8.115796884231963-312 + NOR 1.778636325028488-322 0.000000000000000E+00 2.118074744351256-313 + NOR 2.118074744351256-313 0.000000000000000E+00 0.000000000000000E+00 + NOR 1.416473753010559-313 0.000000000000000E+00 0.000000000000000E+00 + NOR 0.000000000000000E+00 0.000000000000000E+00 0.000000000000000E+00 diff --git a/fink_fat/test/K69O00A_test.obs b/fink_fat/test/K69O00A_test.obs index 7b4ae297..f5427db8 100644 --- a/fink_fat/test/K69O00A_test.obs +++ b/fink_fat/test/K69O00A_test.obs @@ -1,2 +1,2 @@ - K69O00A C1969 07 20.72860 00 00 00 +00 00 00 17.4 g I41 - K69O00A C1969 07 20.72920 00 04 00 +01 00 00 17.6 r I41 \ No newline at end of file + K69O00A* C1969 07 20.72860 00 00 00.00 +00 00 00.00 17.4 g I41 + K69O00A C1969 07 20.72920 00 04 00.00 +01 00 00.00 17.6 r I41 \ No newline at end of file diff --git a/fink_fat/test/call_orbfit/K19V01E_K20V02K.inp b/fink_fat/test/call_orbfit/K19V01E_K20V02K.inp new file mode 100644 index 00000000..e5a4ebeb --- /dev/null +++ b/fink_fat/test/call_orbfit/K19V01E_K20V02K.inp @@ -0,0 +1 @@ +fink_fat/test/call_orbfit/K19V01E_K20V02K \ No newline at end of file diff --git a/fink_fat/test/call_orbfit/K19V01E_K20V02K.oop b/fink_fat/test/call_orbfit/K19V01E_K20V02K.oop new file mode 100644 index 00000000..3279cfca --- /dev/null +++ b/fink_fat/test/call_orbfit/K19V01E_K20V02K.oop @@ -0,0 +1,33 @@ +output. + .elements = 'KEP' + .epoch = JD 2459752.00278 UTC +init_orbdet. + .verbose = 1 + .n_triplets = 10 + .noise.ntrials = 10 +operations. + .init_orbdet = 2 + .diffcor = 2 + .ident = 2 + .ephem = 0 +error_model. + .name='fcct14' +IERS. + .extrapolation = .T. +reject. + .rejopp = .FALSE. +propag. + .iast = 17 + .npoint = 600 + .dmea = 0.2d0 + .dter = 0.05d0 + .filbe=fink_fat/test/call_orbfit/AST17 + +output_files. + .elem = fink_fat/test/call_orbfit/K19V01E_K20V02K.oel +object1. + .obs_dir = fink_fat/test/call_orbfit/mpcobs + .name = K19V01E +object2. + .obs_dir = fink_fat/test/call_orbfit/mpcobs + .name = K20V02K \ No newline at end of file diff --git a/fink_fat/test/call_orbfit/K21E00A.oel b/fink_fat/test/call_orbfit/K21E00A.oel deleted file mode 100644 index b6a1b9e9..00000000 --- a/fink_fat/test/call_orbfit/K21E00A.oel +++ /dev/null @@ -1,12 +0,0 @@ -format = 'OEF2.0' ! file format -rectype = 'ML' ! record type (1L/ML) -refsys = ECLM J2000 ! default reference system -END_OF_HEADER -! Gauss(wN) -fink_fat/test/call_orbfit/K21E00A -! Keplerian elements: a, e, i, long. node, arg. peric., mean anomaly - KEP 1.5833993623527698E+00 0.613559993695898 5.9440877456670 343.7960539272898 270.1931234374459 333.9557366497585 - MJD 59274.310893373 TDT - MAG 0.000 0.000 -! Non-grav parameters: model used, actual number in use, dimension - LSP 0 0 6 diff --git a/fink_fat/test/call_orbfit/K21H00A.oel b/fink_fat/test/call_orbfit/K21H00A.oel index cb8312b9..a8d29282 100644 --- a/fink_fat/test/call_orbfit/K21H00A.oel +++ b/fink_fat/test/call_orbfit/K21H00A.oel @@ -1,3 +1,4 @@ +! Propagated orbits ! Orbits computed with differential corrections format = 'OEF2.0' ! file format rectype = 'ML' ! record type (1L/ML) diff --git a/fink_fat/test/call_orbfit/mpcobs/K19V00D_test.rwo b/fink_fat/test/call_orbfit/mpcobs/K19V00D_test.rwo new file mode 100644 index 00000000..53eead10 --- /dev/null +++ b/fink_fat/test/call_orbfit/mpcobs/K19V00D_test.rwo @@ -0,0 +1,164 @@ +version = 2 +errmod = 'fcct14' +RMSast = 9.49108E-01 +RMSmag = 0.00000E+00 +END_OF_HEADER +! Object Obser ============= Date ============= ================== Right Ascension ================= ================= Declination ===================== ==== Magnitude ==== Ast Obs Residual SEL +! Design K T N YYYY MM DD.dddddddddd Accuracy HH MM SS.sss Accuracy RMS F Bias Resid sDD MM SS.ss Accuracy RMS F Bias Resid Val B RMS Resid Cat Cod Chi A M + 2019VD O C 2019 11 07.10682 1.000E-05 23 13 12.090 1.500E-01 1.414 F 0.000 1.149 +14 30 41.03 1.000E-02 1.414 F 0.000 1.790 15.3 r 0.70 I41 1.58 1 0 + 2019VD O C 2019 11 07.14584 1.000E-05 23 13 11.650 1.500E-01 1.414 F 0.000 0.276 +14 30 33.90 1.000E-02 1.414 F 0.000 0.778 15.8 g 0.70 I41 0.61 1 0 + 2019VD O C 2019 11 09.15964 1.000E-05 23 12 55.030 1.500E-01 1.000 F 0.000 0.106 +14 25 21.76 1.000E-02 1.000 F 0.000 0.250 15.9 g 0.70 I41 0.30 1 0 + 2019VD O C 2019 11 10.16444 1.000E-05 23 12 47.940 1.500E-01 1.000 F 0.000 0.157 +14 22 50.23 1.000E-02 1.000 F 0.000 0.081 15.9 g 0.70 I41 0.20 1 0 + 2019VD O C 2019 11 10.92420 1.000E-05 23 12 48.550 1.500E-01 1.000 F 0.000 77.521 +14 23 02.67 1.000E-02 1.000 F 0.000 125.412 15.3 r 0.70 I41 136.03 0 0 + 2019VD O C 2019 11 16.15184 1.000E-05 23 12 22.240 1.500E-01 1.414 F 0.000 0.458 +14 08 51.43 1.000E-02 1.414 F 0.000 -0.200 15.9 g 0.70 I41 0.37 1 0 + 2019VD O C 2019 11 16.20405 1.000E-05 23 12 22.080 1.500E-01 1.414 F 0.000 0.091 +14 08 43.57 1.000E-02 1.414 F 0.000 -1.230 15.4 r 0.70 I41 0.91 1 0 + 2019VD O C 2019 11 19.15484 1.000E-05 23 12 19.980 1.500E-01 1.414 F 0.000 0.149 +14 02 35.68 1.000E-02 1.414 F 0.000 -0.507 15.9 g 0.70 I41 0.39 1 0 + 2019VD O C 2019 11 19.19805 1.000E-05 23 12 19.980 1.500E-01 1.414 F 0.000 0.275 +14 02 29.63 1.000E-02 1.414 F 0.000 -1.363 15.3 r 0.70 I41 1.02 1 0 + 2019VD O C 2019 11 25.14043 1.000E-05 23 12 36.700 1.500E-01 1.000 F 0.000 -0.578 +13 51 48.45 1.000E-02 1.000 F 0.000 -0.926 16.0 g 0.70 I41 1.18 1 0 + 2019VD O C 2020 01 04.93020 1.000E-05 23 25 26.460 1.500E-01 1.000 F 0.000 -406.167 +13 49 31.79 1.000E-02 1.000 F 0.000 -88.077 16.2 g 0.70 I41 379.70 0 0 + 2019VD O C 2020 01 07.16564 1.000E-05 23 27 06.550 1.500E-01 1.000 F 0.000 -11.345 +13 54 39.05 1.000E-02 1.000 F 0.000 -8.440 15.7 r 0.70 I41 12.84 0 0 + 2019VD O C 2020 02 06.11523 1.000E-05 23 46 55.140 1.500E-01 1.000 F 0.000 -26.230 +15 20 16.34 1.000E-02 1.000 F 0.000 -16.093 15.9 r 0.70 I41 26.97 0 0 + 2019VD O C 2020 02 06.89420 1.000E-05 23 46 53.790 1.500E-01 1.000 F 0.000 -557.368 +15 20 09.47 1.000E-02 1.000 F 0.000 -204.602 16.4 g 0.70 I41 522.42 0 0 + 2019VD O C 2020 07 06.33729 1.000E-05 01 49 29.650 1.500E-01 1.414 F 0.000 -5.075 +30 50 03.20 1.000E-02 1.414 F 0.000 -6.285 15.8 r 0.70 I41 5.57 0 0 + 2019VD O C 2020 07 06.40691 1.000E-05 01 49 32.260 1.500E-01 1.414 F 0.000 -0.843 +30 50 35.06 1.000E-02 1.414 F 0.000 -2.054 16.4 g 0.70 I41 1.61 1 0 + 2019VD O C 2020 07 08.40151 1.000E-05 01 50 36.650 1.500E-01 1.000 F 0.000 -0.686 +31 03 35.79 1.000E-02 1.000 F 0.000 -1.910 16.3 g 0.70 I41 2.12 1 0 + 2019VD O C 2020 07 09.39731 1.000E-05 01 51 07.970 1.500E-01 1.000 F 0.000 -0.996 +31 10 03.57 1.000E-02 1.000 F 0.000 -2.177 15.8 r 0.70 I41 2.50 1 0 + 2019VD O C 2020 07 12.40931 1.000E-05 01 52 39.510 1.500E-01 1.000 F 0.000 -0.011 +31 29 31.49 1.000E-02 1.000 F 0.000 -0.944 15.9 r 0.70 I41 0.97 1 0 + 2019VD O C 2020 07 16.38830 1.000E-05 01 54 32.240 1.500E-01 1.414 F 0.000 -0.889 +31 54 53.78 1.000E-02 1.414 F 0.000 -1.718 16.0 r 0.70 I41 1.39 2 0 + 2019VD O C 2020 07 16.41051 1.000E-05 01 54 32.930 1.500E-01 1.414 F 0.000 0.295 +31 55 03.65 1.000E-02 1.414 F 0.000 -0.384 16.5 g 0.70 I41 0.35 1 0 + 2019VD O C 2020 07 19.37330 1.000E-05 01 55 50.490 1.500E-01 1.414 F 0.000 -1.359 +32 13 40.65 1.000E-02 1.414 F 0.000 -2.328 16.1 r 0.70 I41 1.94 1 0 + 2019VD O C 2020 07 19.40091 1.000E-05 01 55 51.290 1.500E-01 1.414 F 0.000 0.025 +32 13 52.85 1.000E-02 1.414 F 0.000 -0.615 16.6 g 0.70 I41 0.44 1 0 + 2019VD O C 2020 07 21.42611 1.000E-05 01 56 41.200 1.500E-01 1.000 F 0.000 1.018 +32 26 31.10 1.000E-02 1.000 F 0.000 0.814 16.6 g 0.70 I41 1.34 1 0 + 2019VD O C 2020 07 22.37210 1.000E-05 01 57 03.400 1.500E-01 1.414 F 0.000 -1.223 +32 32 18.97 1.000E-02 1.414 F 0.000 -2.128 16.1 r 0.70 I41 1.76 1 0 + 2019VD O C 2020 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0.21979650706685], - "i": [6.4643575931745, 1.607049951428, 6.530453217436], - "long. node": [50.5348303205253, 37.54350205425, 150.4841279350065], - "arg. peric": [210.5960462174106, 166.8803952053398, 250.4271290562264], - "mean anomaly": [342.871124394792, 22.3686256246004, 52.2712276077339], - "rms_a": [0.00136864, -1.0, 0.141996], - "rms_e": [0.00222514, -1.0, 0.014428], - "rms_i": [0.0354767, -1.0, 0.0562678], - "rms_long. node": [0.00670637, -1.0, 0.555542], - "rms_arg. peric": [1.13426, -1.0, 10.4839], - "rms_mean anomaly": [0.787228, -1.0, 9.93615], - "chi_reduced": [2.4020000457763677, -1.0, 1.9959999084472655], + "ref_epoch": [2459379.690337741, 2459377.752247541, 2459314.658242841], + "a": [2.2514725712900536, 3.1470749714647988, 2.533464307418439], + "e": [0.125549380839588, 0.092217815281976, 0.219954100645884], + "i": [6.4643740812871, 1.6114273976543, 6.5309573928027], + "long. node": [50.5348221304752, 37.5716748392527, 150.4796068063071], + "arg. peric": [210.6014645589755, 165.704255200084, 250.4568118416651], + "mean anomaly": [346.9348890616874, 28.9864266667868, 54.928009410497], + "rms_a": [0.00136847, 0.000825119, 0.142082], + "rms_e": [0.00222542, 0.000551715, 0.0144511], + "rms_i": [0.0354771, 0.0057677, 0.056263], + "rms_long. node": [0.00670661, 0.042261, 0.555455], + "rms_arg. peric": [1.13405, 1.33719, 10.4766], + "rms_mean anomaly": [0.784905, 1.10518, 10.1554], + "chi_reduced": [2.376000022888184, 1.964000129699707, 2.034000015258789], } ) diff --git a/fink_fat/test/write_obs_test.py b/fink_fat/test/write_obs_test.py new file mode 100644 index 00000000..ece2d5f8 --- /dev/null +++ b/fink_fat/test/write_obs_test.py @@ -0,0 +1,57 @@ +import numpy as np +import pandas as pd + +import filecmp +import sys +import os + +from fink_utils.photometry.vect_conversion import vect_dc_mag +from fink_fat.orbit_fitting.mpcobs_files import write_observation_file + + +if __name__ == "__main__": + + mpc_obs = pd.read_parquet("fink_fat/test/mpc_example.parquet") + + mpc_obs["dcmag"], mpc_obs["dc_magerr"] = vect_dc_mag( + mpc_obs["i:fid"], + mpc_obs["i:magpsf"], + mpc_obs["i:sigmapsf"], + mpc_obs["i:magnr"], + mpc_obs["i:sigmagnr"], + mpc_obs["i:magzpsci"], + mpc_obs["i:isdiffpos"], + ) + ssnamenr = np.unique(mpc_obs["i:ssnamenr"]) + + ssnamenr_to_trid = { + sso_name: tr_id for tr_id, sso_name in zip(np.arange(len(ssnamenr)), ssnamenr) + } + + mpc_obs["trajectory_id"] = mpc_obs.apply( + lambda x: ssnamenr_to_trid[x["i:ssnamenr"]], axis=1 + ) + + mpc_obs = mpc_obs.rename( + {"i:ra": "ra", "i:dec": "dec", "i:fid": "fid", "i:jd": "jd"}, axis=1 + ) + + os.mkdir("fink_fat/test/test_obs/mpcobs/") + + res_test = 0 + for tr_id in np.unique(mpc_obs["trajectory_id"]): + tmp_tr = mpc_obs[mpc_obs["trajectory_id"] == tr_id] + + prov_desig = write_observation_file("fink_fat/test/test_obs/", tmp_tr) + + if not filecmp.cmp( + "fink_fat/test/test_obs/mpcobs/{}.obs".format(prov_desig), + "fink_fat/test/test_obs/mpcobs_temoin/{}.obs".format(prov_desig), + ): # pragma: no cover + print("failed test: {}".format(prov_desig)) + res_test = 1 + + os.remove("fink_fat/test/test_obs/mpcobs/{}.obs".format(prov_desig)) + + os.rmdir("fink_fat/test/test_obs/mpcobs/") + sys.exit(res_test) diff --git a/run_test.sh b/run_test.sh index 416f9935..c93d1f18 100755 --- a/run_test.sh +++ b/run_test.sh @@ -34,18 +34,30 @@ do --rcfile ${ROOTPATH}/.coveragerc $filename done -echo fink_fat/orbit_fitting/orbfit_local.py -# Run test suite + coverage +# Run the test suite +for filename in fink_fat/orbit_fitting/*.py +do + if [ $filename != "fink_fat/orbit_fitting/orbfit_cluster.py" ]; then + echo $filename + # Run test suite + coverage + coverage run \ + --append \ + --source=${ROOTPATH} \ + --rcfile ${ROOTPATH}/.coveragerc $filename + fi +done + +echo bin/utils_cli.py coverage run \ --append \ --source=${ROOTPATH} \ - --rcfile ${ROOTPATH}/.coveragerc fink_fat/orbit_fitting/orbfit_local.py + --rcfile ${ROOTPATH}/.coveragerc bin/utils_cli.py -echo bin/utils_cli.py +echo fink_fat/test/write_obs_test.py coverage run \ --append \ --source=${ROOTPATH} \ - --rcfile ${ROOTPATH}/.coveragerc bin/utils_cli.py + --rcfile ${ROOTPATH}/.coveragerc fink_fat/test/write_obs_test.py echo fink_fat/test/continuous_integration.py # Run test suite + coverage diff --git a/setup.py b/setup.py index f46f3a64..fa4194cb 100644 --- a/setup.py +++ b/setup.py @@ -25,7 +25,16 @@ ] }, data_files=[ - ("fink_fat/data", ["fink_fat/data/month=03"]) + ( + "fink_fat/data", + [ + "fink_fat/data/month=03", + "fink_fat/data/month=04", + "fink_fat/data/month=05", + "fink_fat/data/month=06", + "fink_fat/data/month=07", + ], + ) ], install_requires=[ "docopt>=0.6.2",