#!/usr/bin/env python
# -*- coding: utf-8
"""Entry point to the interactive interface for pan genomes.

The massage of the data is being taken care of in the interactive module,
and this file implements the bottle callbacks."""

import os
import sys
import json
import argparse
import webbrowser
import random

from multiprocessing import Process
from bottle import route, static_file, redirect, request, BaseRequest, response
from bottle import run as run_server

import anvio
import anvio.utils as utils
import anvio.terminal as terminal
import anvio.interactive as interactive
import anvio.bottleroutes as routes

from anvio.errors import ConfigError, FilesNPathsError, DictIOError, SamplesError, HDF5Error


__author__ = "A. Murat Eren"
__copyright__ = "Copyright 2016, The anvio Project"
__credits__ = []
__license__ = "GPL 3.0"
__version__ = anvio.__version__
__maintainer__ = "A. Murat Eren"
__email__ = "a.murat.eren@gmail.com"


run = terminal.Run()
progress = terminal.Progress()


# get the absolute path for static directory under anvio
static_dir = os.path.join(os.path.dirname(utils.__file__), 'data/interactive')

# setup the command line user interface
parser = argparse.ArgumentParser(description="Start an anvi'o server to display a pan-genome")

groupA = parser.add_argument_group('INPUT FILES', "Input files from the pangenome analysis.")
groupB = parser.add_argument_group('OPTIONAL INPUTS', "Where the yay factor becomes a reality.")
groupC = parser.add_argument_group('ADDITIONAL STUFF', "Parameters to provide additional layers, views, or layer data.")
groupD = parser.add_argument_group('VISUALS RELATED', "Parameters that give access to various adjustements regarding\
                                                       the interface.")
groupE = parser.add_argument_group('SWEET PARAMS OF CONVENIENCE', "Parameters and flags that are not quite essential (but\
                                                                   nice to have).")
groupF = parser.add_argument_group('SERVER CONFIGURATION', "For power users.")

groupA.add_argument(*anvio.A('pan-db'), **anvio.K('pan-db', {'required': False}))
groupA.add_argument(*anvio.A('genomes-storage'), **anvio.K('genomes-storage', {'required': False}))
groupA.add_argument(*anvio.A('samples-information-db'), **anvio.K('samples-information-db'))
groupB.add_argument(*anvio.A('view-data'), **anvio.K('view-data'))
groupB.add_argument(*anvio.A('tree'), **anvio.K('tree'))

groupC.add_argument(*anvio.A('additional-view'), **anvio.K('additional-view'))
groupC.add_argument(*anvio.A('additional-layers'), **anvio.K('additional-layers'))
groupD.add_argument(*anvio.A('view'), **anvio.K('view'))
groupD.add_argument(*anvio.A('title'), **anvio.K('title'))
groupD.add_argument(*anvio.A('state-autoload'), **anvio.K('state-autoload'))
groupD.add_argument(*anvio.A('collection-autoload'), **anvio.K('collection-autoload'))

groupE.add_argument(*anvio.A('skip-init-functions'), **anvio.K('skip-init-functions'))
groupE.add_argument(*anvio.A('show-views'), **anvio.K('show-views'))
groupE.add_argument(*anvio.A('dry-run'), **anvio.K('dry-run'))
groupE.add_argument(*anvio.A('show-states'), **anvio.K('show-states'))
groupE.add_argument(*anvio.A('list-collections'), **anvio.K('list-collections'))
groupE.add_argument(*anvio.A('skip-auto-ordering'), **anvio.K('skip-auto-ordering'))

groupF.add_argument(*anvio.A('ip-address'), **anvio.K('ip-address'))
groupF.add_argument(*anvio.A('port-number'), **anvio.K('port-number'))
groupF.add_argument(*anvio.A('read-only'), **anvio.K('read-only'))
groupF.add_argument(*anvio.A('server-only'), **anvio.K('server-only'))

args = parser.parse_args()

unique_session_id = random.randint(0,9999999999)

try:
    ip = args.ip_address
    args.port_number = utils.get_port_num(args.port_number, ip, run=run)

    args.mode = 'pan'
    d = interactive.InputHandler(args)
except ConfigError as e:
    print(e)
    sys.exit(-1)
except FilesNPathsError as e:
    print(e)
    sys.exit(-2)
except DictIOError as e:
    print(e)
    sys.exit(-3)
except SamplesError as e:
    print(e)
    sys.exit(-4)
except HDF5Error as e:
    print(e)
    sys.exit(-5)


#######################################################################################################################
# bottle callbacks start
#######################################################################################################################

@route('/')
def redirect_to_app():
    redirect('/app/index.html')

@route('/app/:filename#.*#')
def send_static(filename):
    response = static_file(filename, root=static_dir)
    routes.set_default_headers(response, isJson=False)
    return response

@route('/data/<name>')
def send_data(name):
    routes.set_default_headers(response)
    if name == "init":
        return json.dumps( { "title": d.title,
                             "description": (d.p_meta['description']),
                             "clusterings": (d.p_meta['default_clustering'], d.p_meta['clusterings']),
                             "views": (d.default_view, dict(list(zip(list(d.views.keys()), list(d.views.keys()))))),
                             "contigLengths": dict([tuple((c, d.splits_basic_info[c]['length']),) for c in d.splits_basic_info]),
                             "defaultView": d.views[d.default_view],
                             "mode": d.mode,
                             "readOnly": args.read_only,
                             "binPrefix": "PCB_",
                             "sessionId": unique_session_id,
                             "samplesOrder": d.samples_order_dict,
                             "sampleInformation": d.samples_information_dict,
                             "sampleInformationDefaultLayerOrder": d.samples_information_default_layer_order,
                             "stateAutoload": d.state_autoload,
                             "collectionAutoload": d.collection_autoload,
                             "noPing": False,
                             "inspectionAvailable": True,
                             "sequencesAvailable": True if d.split_sequences else False})
    elif name == "description":
        return json.dumps(d.p_meta['description'])
    elif name == "clusterings":
        return json.dumps((d.p_meta['default_clustering'], d.p_meta['clusterings']), )
    elif name == "views":
        available_views = dict(list(zip(list(d.views.keys()), list(d.views.keys()))))
        return json.dumps((d.default_view, available_views), )
    elif name == "default_view":
        return json.dumps(d.views[d.default_view])
    elif name == "contig_lengths":
        split_lengths = dict([tuple((c, d.splits_basic_info[c]['length']),) for c in d.splits_basic_info])
        return json.dumps(split_lengths)
    elif name == "title":
        return json.dumps(d.title)
    elif name == "mode":
        return json.dumps(d.mode)
    elif name == "read_only":
        return json.dumps(args.read_only)
    elif name == "bin_prefix":
        return json.dumps("PCB_")
    elif name == "session_id":
        return json.dumps(unique_session_id)
    elif name == "samples_order":
        return json.dumps(d.samples_order_dict)
    elif name == "samples_information":
        return json.dumps(d.samples_information_dict)
    elif name == "samples_information_default_layer_order":
        return json.dumps(d.samples_information_default_layer_order)
    elif name == "is_inspection_available":
        return json.dumps(True)
    elif name == "is_inspection_available":
        return json.dumps(True if d.split_sequences else False)


@route('/data/view/<view_id>')
def get_view_data(view_id):
    return routes.get_view_data(args, d, request, response, view_id)

@route('/tree/<items_ordering_id>')
def get_items_ordering(items_ordering_id):
    return routes.get_items_ordering(args, d, request, response, items_ordering_id)

@route('/data/proteinclusters/<pc_name>')
def inspect_pc(pc_name):
    return routes.inspect_pc(d, pc_name)

@route('/data/get_AA_sequences_for_PC/<pc_name>')
def get_AA_sequences_for_PC(pc_name):
    return routes.get_AA_sequences_for_PC(d, pc_name)

state_for_pcs = {}

@route('/data/proteinclusters/set_state', method='POST')
def set_state():
    global state_for_pcs
    state_for_pcs = request.forms.get('state')

@route('/data/proteinclusters/get_state')
def get_parent_state():
    routes.set_default_headers(response)
    return state_for_pcs

@route('/data/hmm/<bin_name>/<gene_name>')
def get_hmm_hit_from_bin(bin_name, gene_name):
    return routes.get_hmm_hit_from_bin(args, d, request, response, bin_name, gene_name)

@route('/data/contig/<split_name>')
def get_sequence_for_split(split_name):
    return routes.get_sequence_for_split(args, d, request, response, split_name)

@route('/data/gene/<gene_callers_id>')
def get_sequence_for_gene_call(gene_callers_id):
    return routes.get_sequence_for_gene_call(args, d, request, response, gene_callers_id)

@route('/data/collections')
def collections():
    return routes.get_collections(args, d, request, response)

@route('/data/collection/<collection_source>')
def get_collection_dict(collection_source):
    return routes.get_collection_dict(args, d, request, response, collection_source)

@route('/summary/<collection_name>/:filename#.*#')
def send_summary_static(collection_name, filename):
    return routes.send_summary_static(args, d, request, response, collection_name, filename)

@route('/summarize/<collection_name>')
def gen_summary(collection_name):
    return routes.gen_summary(args, d, request, response, collection_name)

@route('/store_collection', method='POST')
def store_collections_dict():
    return routes.store_collections_dict(args, d, request, response)

@route('/store_description', method='POST')
def store_description():
    return routes.store_description(args, d, request, response)

@route('/data/proteinclusterssummary', method='POST')
def get_protein_clusters_summary():
    return routes.get_protein_clusters_summary(d, request)

@route('/state/autoload')
def state_autoload():
    return routes.state_autoload(d, response)

@route('/state/all')
def state_all():
    return routes.state_all(d, response)

@route('/state/get', method='POST')
def get_state():
    return routes.get_state(d, request, response)

@route('/state/save', method='POST')
def save_state():
    return routes.save_state(args, d, request, response)

#######################################################################################################################
# bottle callbacks end
#######################################################################################################################

# increase maximum size of form data to 100 MB
BaseRequest.MEMFILE_MAX = 1024 * 1024 * 100 

if args.dry_run:
    run.info_single('Dry run, eh? Bye!', 'red', nl_before = 1, nl_after=1)
    sys.exit()

try:
    server_process = Process(target=run_server, kwargs={'host': ip, 'port': args.port_number, 'quiet': True, 'server': 'cherrypy'})
    server_process.start()

    if not args.server_only:
        webbrowser.open_new("http://%s:%d" % (ip, args.port_number))

    run.info_single('The server is now listening the port number "%d". When you are finished, press CTRL+C to terminate the server.' % args.port_number, 'green', nl_before = 1, nl_after=1)
    server_process.join()
except KeyboardInterrupt:
    run.warning('The server is being terminated.', header='Please wait...')
    server_process.terminate()
    sys.exit(0)
