bin.build_pathway Namespace Reference

Namespaces
	py
	The atrial-model-generation tool is an almost automatic workflow for the generation of patient-specific volumetric atrial models.

Classes
class	Pathway

Functions
def	argument_parser ()
def	jobID (args)
def	check_binary_mesh (job, meshname)
def	parse_mt_query_file (filename, pt_type)
def	parse_meshtool_tag_file (filename)
def	displace_nodes (mesh_points, raw_nodes_list)
def	write_nodes (filename, nodes_list)
def	closest_node (query_point, point_set, thr=0.0)
def	gen_conn_dict (mesh_points, nodes_list, base_filename)
def	compute_paths (job, args, meshname, nodes, tags=None, build_split=True)
def	main (args, job)

Variables
string	MESHTOOL = 'meshtool'
string	MGTAGREG = 'mgtagreg'
tuple	NODES_ORDER = ('insert', 'exit', 'insert2', 'exit2','con_insert', 'con_exit')
dictionary	CONNECTIONS_DEFAULT_SPLIT
dictionary	CONNECTIONS_DEFAULT = {'split':{'conn': ['insert', 'exit']}}
dictionary	SEARCH_CONNECTION = {'insert','exit'}

Function Documentation

argument_parser()

def bin.build_pathway.argument_parser

(

)

check_binary_mesh()

def bin.build_pathway.check_binary_mesh	(		job,
			meshname
	)

closest_node()

def bin.build_pathway.closest_node	(		query_point,
			point_set,
			thr = 0.0
	)

compute_paths()

def bin.build_pathway.compute_paths	(		job,
			args,
			meshname,
			nodes,
			tags = None,
			build_split = True
	)

displace_nodes()

def bin.build_pathway.displace_nodes	(		mesh_points,
			raw_nodes_list
	)

gen_conn_dict()

def bin.build_pathway.gen_conn_dict	(		mesh_points,
			nodes_list,
			base_filename
	)

jobID()

def bin.build_pathway.jobID

(

args

)

main()

def bin.build_pathway.main	(		args,
			job
	)

parse_meshtool_tag_file()

def bin.build_pathway.parse_meshtool_tag_file

(

filename

)

parse_mt_query_file()

def bin.build_pathway.parse_mt_query_file	(		filename,
			pt_type
	)

write_nodes()

def bin.build_pathway.write_nodes	(		filename,
			nodes_list
	)

Variable Documentation

CONNECTIONS_DEFAULT

dictionary bin.build_pathway.CONNECTIONS_DEFAULT = {'split':{'conn': ['insert', 'exit']}}

CONNECTIONS_DEFAULT_SPLIT

dictionary bin.build_pathway.CONNECTIONS_DEFAULT_SPLIT

Initial value:

=  {'3':{'conn': ['con_insert', 'insert']},
                        '4':{'conn': ['con_insert', 'insert2']},
                        'split':{'conn': ['con_insert', 'con_exit']},
                        '5':{'conn': ['con_exit', 'exit']},
                        '6':{'conn': ['con_exit', 'exit2']}}

MESHTOOL

string bin.build_pathway.MESHTOOL = 'meshtool'

MGTAGREG

string bin.build_pathway.MGTAGREG = 'mgtagreg'

NODES_ORDER

tuple bin.build_pathway.NODES_ORDER = ('insert', 'exit', 'insert2', 'exit2','con_insert', 'con_exit')

SEARCH_CONNECTION

dictionary bin.build_pathway.SEARCH_CONNECTION = {'insert','exit'}