"""
@author: Anthony Soulain (University of Sydney)

-------------------------------------------------------------------------
AMICAL: Aperture Masking Interferometry Calibration and Analysis Library
-------------------------------------------------------------------------

Set of functions to work with spectraly dispersed (IFU) NRM data.

-------------------------------------------------------------------------
"""
import warnings

import numpy as np
from astropy.io import fits
from matplotlib import pyplot as plt
from tqdm import tqdm

from .data_processing import select_clean_data
from .get_infos_obs import get_wavelength

warnings.warn(
    "The amical.ifu module is deprecated "
    "and will be removed in a future version. "
    "Please do not rely on it.",
    category=UserWarning,
    stacklevel=2,
)


def get_lambda(i_wl=None, filtname="YH", instrument="SPHERE-IFS"):
    """Get spectral information for the given instrumental IFU setup.
    i_wl can be an integer or a list of 2 integers used to display the
    requested spectral channel."""
    wl = get_wavelength(instrument, filtname) * 1e6

    if np.isnan(wl.any()):
        return None

    print(f"\nInstrument: {instrument}, spectral range: {filtname}")
    print("-----------------------------")
    print(
        f"spectral coverage: {wl[0]:2.2f} - {wl[-1]:2.2f} µm (step = {np.diff(wl)[0]:2.2f})"
    )

    one_wl = True
    if type(i_wl) is list:
        one_wl = False
        wl_range = wl[i_wl[0] : i_wl[1]]
        sp_range = np.arange(i_wl[0], i_wl[1], 1)
    elif i_wl is None:
        one_wl = False
        sp_range = np.arange(len(wl))
        wl_range = wl

    plt.figure(figsize=(4, 3))
    plt.title("--- SPECTRAL INFORMATION (IFU)---")
    plt.plot(wl, label="All spectral channels")
    if one_wl:
        plt.plot(
            np.arange(len(wl))[i_wl],
            wl[i_wl],
            "ro",
            label="Selected (%2.2f µm)" % wl[i_wl],
        )
    else:
        plt.plot(
            sp_range,
            wl_range,
            lw=5,
            alpha=0.5,
            label=f"Selected ({wl_range[0]:2.2f}-{wl_range[-1]:2.2f} µm)",
        )
    plt.legend()
    plt.xlabel("Spectral channel")
    plt.ylabel("Wavelength [µm]")
    plt.tight_layout()

    if one_wl:
        output = np.round(wl[i_wl], 2)
    else:
        output = np.round(wl_range)
    return output


def clean_data(
    list_file,
    isz=256,
    r1=100,
    dr=10,
    edge=0,
    bad_map=None,
    add_bad=None,
    offx=0,
    offy=0,
    clip_fact=0.5,
    apod=True,
    sky=True,
    window=None,
    f_kernel=3,
    verbose=False,
    ihdu=0,
    display=False,
):
    """Clean data using the standard procedure amical.select_clean_data()
    for each file in list_file. For IFU mode of SPHERE, the different frames
    are stored in different files and need to be reshaped into the appropriate
    4D datacube (i.e.: `cube_lambda.shape = [ndit, nlambda, isz,
    isz]`). Check amical.select_clean_data() for details about input parameters.
    """

    clean_param = {
        "isz": isz,
        "r1": r1,
        "dr": dr,
        "edge": edge,
        "clip": False,
        "bad_map": bad_map,
        "add_bad": add_bad,
        "offx": offx,
        "offy": offy,
        "clip_fact": clip_fact,
        "apod": apod,
        "sky": sky,
        "window": window,
        "f_kernel": f_kernel,
        "verbose": verbose,
        "ihdu": ihdu,
        "display": display,
    }

    # Add check to create default add_bad list (not use mutable data)
    if add_bad is None:
        add_bad = []

    with fits.open(list_file[0]) as fd:
        hdr = fd[0].header

    nlambda = hdr["NAXIS3"]
    nframe = len(list_file)

    cube_lambda = np.zeros([nframe, nlambda, isz, isz])

    for i in tqdm(
        range(len(list_file)), desc="Format/clean IFU (%s)" % (hdr["OBJECT"]), ncols=100
    ):
        cube_cleaned = select_clean_data(list_file[i], **clean_param)
        cube_lambda[i] = cube_cleaned

    return cube_lambda
