def make_tiles(self):
#====================
log('Tiling {}...'.format(self.__id))
source_kind = self.__raster_layer.source_kind
if source_kind == 'image':
tile_extractor = ImageTiler(self.__raster_layer, self.__tile_set)
elif source_kind == 'pdf':
tile_extractor = PDFTiler(self.__raster_layer, self.__tile_set)
elif source_kind == 'svg':
if self.__raster_layer.local_world_to_base is None:
tile_extractor = SVGTiler(self.__raster_layer, self.__tile_set)
else:
tile_extractor = SVGImageTiler(self.__raster_layer, self.__tile_set)
else:
raise TypeError('Unsupported kind of background tile source: {}'.format(source_kind))
return self.__make_zoomed_tiles(tile_extractor)
def __finish_make(self):
#=======================
# We are finished with the knowledge base
settings['KNOWLEDGE_STORE'].close()
# Show what the map is about
if self.__flatmap.models is not None:
log('Generated map: {} for {}'.format(self.id,
self.__flatmap.models))
else:
log('Generated map: {}'.format(self.id))
## FIX v's errorCheck
for filename in self.__geojson_files:
if settings.get('saveGeoJSON', False):
print(filename)
else:
os.remove(filename)
def process(self):
#=================
for n in range(len(self.__slides)):
slide = self.__slides[n]
slide_number = n + 1
slide_layer = PowerpointSlide(self, slide, slide_number)
log('Slide {}, {}'.format(slide_number, slide_layer.id))
if settings.get('saveDrawML'):
xml = open(os.path.join(self.flatmap.map_directory,
'{}.xml'.format(slide_layer.id)), 'w')
xml.write(slide.element.xml)
xml.close()
slide_layer.process()
for error in self.errors:
log.warn(error)
else:
self.add_layer(slide_layer)
def __make_zoomed_tiles(self, tile_extractor):
#=============================================
mbtiles = MBTiles(self.__database_path, True, True)
mbtiles.add_metadata(id=self.__id)
zoom = self.__max_zoom
log('Tiling zoom level {} for {}'.format(zoom, self.__id))
progress_bar = ProgressBar(total=len(self.__tile_set),
unit='tiles', ncols=40,
bar_format='{l_bar}{bar}| {n_fmt}/{total_fmt}')
for tile in self.__tile_set:
tile_image = tile_extractor.get_tile(tile)
alpha_image = add_alpha(tile_image)
if not_empty(alpha_image):
mbtiles.save_tile_as_png(zoom, tile.x, tile.y, alpha_image)
progress_bar.update(1)
progress_bar.close()
self.__make_overview_tiles(mbtiles, zoom, self.__tile_set.start_coords,
self.__tile_set.end_coords)
mbtiles.close(compress=True)
def __output_geojson(self):
#==========================
log('Outputting GeoJson features...')
for layer in self.__flatmap.layers:
if layer.exported:
log('Layer: {}'.format(layer.id))
geojson_output = GeoJSONOutput(layer, self.__flatmap.area,
self.__map_dir)
saved_layer = geojson_output.save(
layer.features, settings.get('saveGeoJSON', False))
for (layer_name, filename) in saved_layer.items():
self.__geojson_files.append(filename)
self.__tippe_inputs.append({
'file':
filename,
'layer':
layer_name,
'description':
'{} -- {}'.format(layer.description, layer_name)
})
self.__flatmap.update_annotations(layer.annotations)
def __make_vector_tiles(self, compressed=True):
#==============================================
# Generate Mapbox vector tiles
if len(self.__tippe_inputs) == 0:
raise ValueError('No selectable layers found...')
log('Running tippecanoe...')
tippe_command = [
'tippecanoe',
'--force',
'--projection=EPSG:4326',
'--buffer=100',
'--minimum-zoom={}'.format(self.__zoom[0]),
'--maximum-zoom={}'.format(self.__zoom[1]),
'--no-tile-size-limit',
'--output={}'.format(self.__mbtiles_file),
]
if not compressed:
tippe_command.append('--no-tile-compression')
if settings.get('quiet', False):
tippe_command.append('--quiet')
tippe_command += list([
"-L{}".format(json.dumps(input)) for input in self.__tippe_inputs
])
if settings.get('showTippe', False):
print(' \\\n '.join(tippe_command))
subprocess.run(tippe_command)
# `tippecanoe` uses the bounding box containing all features as the
# map bounds, which is not the same as the extracted bounds, so update
# the map's metadata
tile_db = MBTiles(self.__mbtiles_file)
tile_db.add_metadata(compressed=compressed)
tile_db.update_metadata(
center=','.join([str(x) for x in self.__centre]),
bounds=','.join([str(x) for x in self.__extent]))
tile_db.execute("COMMIT")
tile_db.close()
self.__upload_files.append('index.mbtiles')
def __init__(self, options):
# ``silent`` implies not ``verbose``
if options.get('silent', False):
options['verbose'] = False
# Setup logging
log_file = options.get('logFile')
if log_file is None:
log_path = options.get('logPath')
if log_path is not None:
log_file = os.path.join(log_path, '{}.log'.format(os.getpid()))
configure_logging(log_file,
verbose=options.get('verbose', False),
silent=options.get('silent', False),
debug=options.get('debug', False))
log('Mapmaker {}'.format(__version__))
# Default base output directory to ``./flatmaps``.
if 'output' not in options:
options['output'] = './flatmaps'
# Check zoom settings are valid
min_zoom = options.get('minZoom', 2)
max_zoom = options.get('maxZoom', 10)
initial_zoom = options.get('initialZoom', 4)
if min_zoom < 0 or min_zoom > max_zoom:
raise ValueError(
'Min zoom must be between 0 and {}'.format(max_zoom))
if max_zoom < min_zoom or max_zoom > 15:
raise ValueError(
'Max zoom must be between {} and 15'.format(min_zoom))
if initial_zoom < min_zoom or initial_zoom > max_zoom:
raise ValueError('Initial zoom must be between {} and {}'.format(
min_zoom, max_zoom))
self.__zoom = (min_zoom, max_zoom, initial_zoom)
# Save options into global ``settings`` dict
settings.update(options)
# Check we have been given a map source and get our manifest
if 'source' in options:
self.__manifest = Manifest(options['source'],
options.get('singleSvg', False))
else:
raise ValueError('No source manifest specified')
self.__id = options.get('id', self.__manifest.id)
if self.__id is None:
raise ValueError('No id given for map')
log('Making map: {}'.format(self.__id))
# Make sure our output directories exist
map_base = options.get('output')
if not os.path.exists(map_base):
os.makedirs(map_base)
self.__map_dir = os.path.join(map_base, self.__id)
if options.get('clean', False):
shutil.rmtree(self.__map_dir, True)
if not os.path.exists(self.__map_dir):
os.makedirs(self.__map_dir)
# The vector tiles' database that is created by `tippecanoe`
self.__mbtiles_file = os.path.join(self.__map_dir, 'index.mbtiles')
self.__geojson_files = []
self.__tippe_inputs = []
# Raster tile layers
self.__raster_layers = []
# Our source of knowledge, updated with information
# about maps we've made, held in a global place
settings['KNOWLEDGE_STORE'] = KnowledgeStore(map_base)
# The map we are making
self.__flatmap = FlatMap(self.__manifest, self)
def geometry(self) -> [GeometricShape]:
"""
Returns:
A list of geometric objects. This are LineStrings describing paths
between nodes and possibly additional features (e.g. way markers)
of the paths.
"""
display_bezier_points = True #False ### To come from settings...
if self.__path_layout == 'automatic':
log("Automated pathway layout. Path ID: ", self.__path_id)
evaluate_settings = self.__sheath.settings()
# TODO: use evenly-distributed offsets for the final product.
number_of_neurons = len(evaluate_settings['derivatives'])
# locations = [0.01 + x*(0.99-0.01)/number_of_neurons for x in range(number_of_neurons)]
location = 0.5
geometry = []
for scaffold, path_id, derivative in zip(
evaluate_settings['scaffolds'],
evaluate_settings['path_ids'],
evaluate_settings['derivatives']):
scaffold.generate()
connectivity = Connectivity(path_id, scaffold, derivative,
location)
auto_beziers = connectivity.get_neuron_line_beziers()
path = BezierPath.fromSegments(auto_beziers)
geometry.append(
GeometricShape(
shapely.geometry.LineString(bezier_sample(path))))
end_nodes = set(self.__source_nodes)
end_nodes.update(self.__target_nodes)
for node in end_nodes:
for edge in self.__graph.edges(node, data=True):
if edge[2].get('type') == 'terminal':
line = self.__line_from_edge(edge)
if line is not None:
geometry.append(GeometricShape(line))
if display_bezier_points:
for beziers in self.__sheath.path_beziers.values():
for bezier in beziers:
bz_pts = tuple([p.x, p.y] for p in bezier.points)
for pt in [bz_pts[0], bz_pts[3]]:
geometry.append(
GeometricShape(GeometricShape.circle(pt), {
'type': 'bezier',
'kind': 'bezier-end'
}))
for pt in bz_pts[1:3]:
geometry.append(
GeometricShape(GeometricShape.circle(pt), {
'type': 'bezier',
'kind': 'bezier-control'
}))
geometry.append(
GeometricShape(GeometricShape.line(*bz_pts[0:2]),
{'type': 'bezier'}))
geometry.append(
GeometricShape(GeometricShape.line(*bz_pts[2:4]),
{'type': 'bezier'}))
return geometry
# Fallback is centreline layout
geometry = []
for edge in self.__graph.edges.data():
nerve = edge[2].get('nerve')
properties = {'nerve': nerve} if nerve is not None else None
bezier = edge[2].get('geometry')
if self.__path_layout != 'linear' and bezier is not None:
geometry.append(
GeometricShape(
shapely.geometry.LineString(bezier_sample(bezier)),
properties))
else:
line = self.__line_from_edge(edge)
if line is not None:
geometry.append(GeometricShape(line, properties))
return geometry
def __save_metadata(self):
#=========================
log('Creating index and style files...')
tile_db = MBTiles(self.__mbtiles_file)
# Save the URL of the map's manifest
tile_db.add_metadata(source=self.__manifest.url)
# What the map models
if self.__models is not None:
tile_db.add_metadata(describes=self.__models)
# Save layer details in metadata
tile_db.add_metadata(layers=json.dumps(self.__layer_metadata()))
# Save pathway details in metadata
tile_db.add_metadata(
pathways=json.dumps(self.__map_properties.resolved_pathways))
# Save annotations in metadata
tile_db.add_metadata(annotations=json.dumps(self.__annotations))
# Save command used to run mapmaker
tile_db.add_metadata(created_by=self.__creator)
# Save the maps creation time
tile_db.add_metadata(created=datetime.datetime.utcnow().isoformat())
# Commit updates to the database
tile_db.execute("COMMIT")
#* ## TODO: set ``layer.properties`` for annotations...
#* ##update_RDF(options['map_base'], options['map_id'], source, annotations)
# Get list of all image sources from all layers
raster_layers = []
for layer in self.__layer_dict.values():
raster_layers.extend(layer.raster_layers)
map_index = {
'id': self.__id,
'source': self.__manifest.url,
'min-zoom': self.__zoom[0],
'max-zoom': self.__zoom[1],
'bounds': self.__extent,
'version': FLATMAP_VERSION,
'image_layer': len(raster_layers) > 0 ## For compatibility
}
if self.__models is not None:
map_index['describes'] = self.__models
# Create `index.json` for building a map in the viewer
with open(os.path.join(self.__map_dir, 'index.json'),
'w') as output_file:
json.dump(map_index, output_file)
# Create style file
metadata = tile_db.metadata()
style_dict = MapStyle.style(raster_layers, metadata, self.__zoom)
with open(os.path.join(self.__map_dir, 'style.json'),
'w') as output_file:
json.dump(style_dict, output_file)
# Create TileJSON file
json_source = tile_json(self.__id, self.__zoom, self.__extent)
with open(os.path.join(self.__map_dir, 'tilejson.json'),
'w') as output_file:
json.dump(json_source, output_file)
tile_db.close()
self.__upload_files.extend(
['index.json', 'style.json', 'tilejson.json'])
def __init__(self, options):
# ``silent`` implies ``quiet``
if options.get('silent', False):
options['quiet'] = True
# Setup logging
configure_logging(options.get('logFile'),
quiet=options.get('quiet', False),
silent=options.get('silent', False))
# Check we have been given a map source
if 'source' in options:
self.__manifest = Manifest(options['source'])
else:
raise ValueError('No map source specified')
# Default base output directory to ``./flatmaps``.
if 'output' not in options:
options['output'] = './flatmaps'
# Check zoom settings are valid
min_zoom = options.get('minZoom', 2)
max_zoom = options.get('maxZoom', 10)
initial_zoom = options.get('initialZoom', 4)
if min_zoom < 0 or min_zoom > max_zoom:
raise ValueError(
'Min zoom must be between 0 and {}'.format(max_zoom))
if max_zoom < min_zoom or max_zoom > 15:
raise ValueError(
'Max zoom must be between {} and 15'.format(min_zoom))
if initial_zoom < min_zoom or initial_zoom > max_zoom:
raise ValueError('Initial zoom must be between {} and {}'.format(
min_zoom, max_zoom))
self.__zoom = (min_zoom, max_zoom, initial_zoom)
# Save options into global ``settings`` dict
settings.update(options)
log('Mapmaker {}'.format(__version__))
self.__id = options.get('id', self.__manifest.id)
if self.__id is None:
raise ValueError('No `id` given for map')
log('Making map: {}'.format(self.id))
self.__models = self.__manifest.models
# Make sure our output directories exist
map_base = options.get('output')
if not os.path.exists(map_base):
os.makedirs(map_base)
self.__map_dir = os.path.join(map_base, self.__id)
if options.get('clean', False):
shutil.rmtree(self.__map_dir, True)
if not os.path.exists(self.__map_dir):
os.makedirs(self.__map_dir)
# The vector tiles' database that is created by `tippecanoe`
self.__mbtiles_file = os.path.join(self.__map_dir, 'index.mbtiles')
self.__geojson_files = []
self.__tippe_inputs = []
self.__upload_files = []
# Properties about map features
self.__map_properties = JsonProperties(self.__manifest)
self.__layer_dict = OrderedDict()
self.__visible_layer_count = 0
self.__annotations = {}
self.__creator = 'mapmaker' ## FIX, add version info creator
self.__map_area = None
self.__extent = None
self.__centre = None
self.__last_feature_id = 0
self.__class_to_feature = defaultdict(list)
self.__id_to_feature = {}