# Copyright 2000 by Katharine Lindner (Cayte).
# Copyright 2016 by Markus Piotrowski.
# All rights reserved.
# This code is part of the Biopython distribution and governed by its
# license.  Please see the LICENSE file that should have been included
# as part of this package.
#
# The original SeqGui was written by Katharine Lindner (Cayte) in 2000 using
# the wxPython library for the GUI. It was rewritten by Markus Piotrowski in
# 2016 using tkinter and tkinter's themed widgets (ttk).
"""A small GUI tool to demonstrate some basic sequence operations.

SeqGui (sequence graphical user interface) is a little tool that allows
transcription, translation and back translation of a sequence that the
user can type or copy into a text field. For translation the user can select
from several codon tables which are implemented in Biopython.
It runs as a standalone application.

"""

import tkinter as tk
import tkinter.ttk as ttk

from Bio.Data import CodonTable
from Bio.Seq import back_transcribe
from Bio.Seq import transcribe
from Bio.Seq import translate

main_window = tk.Tk()
main_window.title("Greetings from Biopython")

main_menu = tk.Menu(main_window)
menue_single = tk.Menu(main_menu, tearoff=0)
main_menu.add_cascade(menu=menue_single, label="File")
menue_single.add_command(label="About")
menue_single.add_separator()
menue_single.add_command(label="Exit", command=main_window.destroy)
main_window.config(menu=main_menu)

# Left panel with parameters
param_panel = ttk.Frame(main_window, relief=tk.GROOVE, padding=5)

codon_panel = ttk.LabelFrame(param_panel, text="Codon Tables")
codon_scroller = ttk.Scrollbar(codon_panel, orient=tk.VERTICAL)
codon_list = tk.Listbox(
    codon_panel, height=5, width=25, yscrollcommand=codon_scroller.set
)

# Import actual codon tables from Biopython and sort alphabetically
codon_table_list = sorted(
    table.names[0] for n, table in CodonTable.generic_by_id.items()
)

# 'Standard' table should be first in the list
del codon_table_list[codon_table_list.index("Standard")]
codon_table_list.insert(0, "Standard")

for codon_table in codon_table_list:
    codon_list.insert(tk.END, codon_table)
codon_list.selection_set(0)
codon_list.configure(exportselection=False)
codon_scroller.config(command=codon_list.yview)

# Radiobuttons are more appropriate than another listbox here:
transform_panel = ttk.LabelFrame(param_panel, text="Transformation")

transform_var = tk.StringVar()
transform_transcribe = ttk.Radiobutton(
    transform_panel, text="Transcribe", variable=transform_var, value="transcribe"
)
transform_translate = ttk.Radiobutton(
    transform_panel, text="Translate", variable=transform_var, value="translate"
)
transform_backtranscribe = ttk.Radiobutton(
    transform_panel,
    text="Back transcribe",
    variable=transform_var,
    value="back transcribe",
)
transform_translate.invoke()

# Right panel with sequence in- and output
seq_panel = ttk.Frame(main_window, relief=tk.GROOVE, padding=5)

input_panel = ttk.LabelFrame(seq_panel, text="Original Sequence")
input_scroller = ttk.Scrollbar(input_panel, orient=tk.VERTICAL)
input_text = tk.Text(input_panel, width=39, height=5, yscrollcommand=input_scroller.set)
input_scroller.config(command=input_text.yview)

output_panel = ttk.LabelFrame(seq_panel, text="Transformed Sequence")
output_scroller = ttk.Scrollbar(output_panel, orient=tk.VERTICAL)
output_text = tk.Text(
    output_panel, width=39, height=5, yscrollcommand=output_scroller.set
)
output_scroller.config(command=output_text.yview)

# Buttons
apply_button = ttk.Button(seq_panel, text="Apply")
clear_button = ttk.Button(seq_panel, text="Clear")
close_button = ttk.Button(seq_panel, text="Close", command=main_window.destroy)


# Statusbar
statustext = tk.StringVar()
statusbar = ttk.Label(main_window, textvariable=statustext, relief=tk.GROOVE, padding=5)
statustext.set("This is the statusbar")
sizegrip = ttk.Sizegrip(statusbar)


# Event methods
def clear_output():
    """Clear the output window."""
    input_text.delete(1.0, tk.END)
    output_text.delete(1.0, tk.END)


def apply_operation():
    """Do the selected operation."""
    codon_table = codon_list.get(codon_list.curselection())
    print(f"Code: {codon_table}")

    seq = "".join(input_text.get(1.0, tk.END).split())
    print(f"Input sequence: {seq}")

    operation = transform_var.get()
    print(f"Operation: {operation}")

    if operation == "transcribe":
        result = transcribe(seq)
    elif operation == "translate":
        result = translate(seq, table=codon_table, to_stop=True)
    elif operation == "back transcribe":
        result = back_transcribe(seq)
    else:
        result = ""

    output_text.delete(1.0, tk.END)
    output_text.insert(tk.END, result)
    print(f"Result: {result}")


def set_statusbar(event):
    """Show statusbar comments from menu selection."""
    index = main_window.call(event.widget, "index", "active")
    if index == 0:
        statustext.set("More information about this program")
    elif index == 2:
        statustext.set("Terminate the program")
    else:
        statustext.set("This is the statusbar")


# Set commands and bind events
menue_single.bind("<<MenuSelect>>", set_statusbar)
apply_button.config(command=apply_operation)
clear_button.config(command=clear_output)

# Build GUI
statusbar.pack(side=tk.BOTTOM, padx=1, fill=tk.X)
sizegrip.pack(side=tk.RIGHT, padx=3, pady=4)

param_panel.pack(side=tk.LEFT, anchor=tk.N, padx=5, pady=10, fill=tk.Y)
codon_panel.pack(fill=tk.Y, expand=True)
codon_scroller.pack(side=tk.RIGHT, fill=tk.Y)
codon_list.pack(fill=tk.Y, expand=True)
transform_panel.pack(pady=10, fill=tk.X)
transform_transcribe.pack(anchor=tk.W)
transform_translate.pack(anchor=tk.W)
transform_backtranscribe.pack(anchor=tk.W)

seq_panel.pack(anchor=tk.N, padx=5, pady=10, fill=tk.BOTH, expand=True)
input_panel.pack(fill=tk.BOTH, expand=True)
input_scroller.pack(side=tk.RIGHT, fill=tk.Y)
input_text.pack(fill=tk.BOTH, expand=True)
output_panel.pack(pady=10, fill=tk.BOTH, expand=True)
output_scroller.pack(side=tk.RIGHT, fill=tk.Y)
output_text.pack(fill=tk.BOTH, expand=True)
apply_button.pack(side=tk.LEFT)
clear_button.pack(side=tk.LEFT, padx=10)
close_button.pack(side=tk.LEFT)

main_window.mainloop()
