# Copyright 2015 Novo Nordisk Foundation Center for Biosustainability, DTU.
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
# http://www.apache.org/licenses/LICENSE-2.0
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# 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.
import json
import escher
from uuid import uuid4
try:
from IPython.display import Javascript, display
except ImportError:
pass
def _builders_var():
js = Javascript("if(window.escher_builders == undefined) {\n"
"\twindow.escher_builders = {};\n"
"}")
display(js)
[docs]class NotebookBuilder(escher.Builder):
def __init__(self, *args, **kwargs):
kwargs['id'] = "escher_" + str(uuid4()).replace("-", "_")
super(NotebookBuilder, self).__init__(*args, **kwargs)
[docs] def update(self, reaction_data=None, metabolite_data=None, gene_data=None, reaction_scale=None):
self.gene_data = gene_data if gene_data is not None else self.gene_data
self.reaction_data = reaction_data if reaction_data is not None else self.reaction_data
self.metabolite_data = metabolite_data if metabolite_data is not None else self.metabolite_data
js = Javascript('var reaction_data_{the_id} = {reaction_data};\n'
'var metabolite_data_{the_id} = {metabolite_data};\n'
'var gene_data_{the_id} = {gene_data};\n'
'var builder = window.escher_builders["{the_id}"];\n'
'if(builder) {{\n'
'\tbuilder.options.reaction_scale = {reaction_scale}\n'
'\tbuilder.set_reaction_data(reaction_data_{the_id});\n'
'\tbuilder.set_metabolite_data(metabolite_data_{the_id});\n'
'\tbuilder.set_gene_data(gene_data_{the_id});\n'
'}}'.format(
the_id=self.the_id,
reaction_data=(json.dumps(self.reaction_data) if self.reaction_data else 'null'),
metabolite_data=(json.dumps(self.metabolite_data) if self.metabolite_data else 'null'),
gene_data=(json.dumps(self.gene_data) if self.gene_data else 'null'),
reaction_scale=json.dumps(reaction_scale) if reaction_scale else 'builder.options.reaction_scale'))
display(js)
def _draw_js(self, the_id, enable_editing, menu, enable_keys, dev,
fill_screen, scroll_behavior, never_ask_before_quit,
static_site_index_json):
_builders_var()
draw = ("options = {{\n"
"\tenable_editing: {enable_editing},\n"
"\tmenu: {menu},\n"
"\tenable_keys: {enable_keys},\n"
"\tscroll_behavior: {scroll_behavior},\n"
"\tfill_screen: {fill_screen},\n"
"\treaction_data: reaction_data_{the_id},\n"
"\tmetabolite_data: metabolite_data_{the_id},\n"
"\tgene_data: gene_data_{the_id},\n"
"\tnever_ask_before_quit: {never_ask_before_quit}\n").format(
the_id=the_id,
enable_editing=json.dumps(enable_editing),
menu=json.dumps(menu),
enable_keys=json.dumps(enable_keys),
scroll_behavior=json.dumps(scroll_behavior),
fill_screen=json.dumps(fill_screen),
never_ask_before_quit=json.dumps(never_ask_before_quit))
# Add the specified options
for option in self.options:
val = getattr(self, option)
if val is None:
continue
draw += ",\t{option}: {value}\n".format(option=option, value=json.dumps(val))
draw += "};\n\n"
# dev needs escher.
dev_str = '' if dev else 'escher.'
# parse the url in javascript, for building a static site
draw += ('window.escher_builders["{the_id}"] = {dev_str}Builder(\n'
'\tmap_data_{the_id},\n'
'\tmodel_data_{the_id},\n'
'\tembedded_css_{the_id},\n'
'\td3.select("#{the_id}"),\n'
'\toptions);\n'.format(dev_str=dev_str, the_id=the_id))
return draw
def _repr_html_(self):
return display(self)
