Variables
string	hpc_cluster_ip = "192.168.45.21"

string	phantoms_folder = "/gpfs_projects/VICTRE/pivotal/phantoms/withLesion/"

string	density = "dense"

tuple	all_seeds = np.loadtxt(phantoms_folder + density + "/seeds.txt")

list	lesion_only_materials

string	spectrum_file = "./Victre/projection/spectrum/W28kVp_Rh50um_Be1mm.spc"

list	seed = all_seeds[n]

	phantom_file = phantoms_folder+density+\

tuple	pline

tuple	vx_locations

string	mhd_file = phantoms_folder+density+"/pc_{:d}_crop.mhd"

	offset = None

tuple	line = f.readline()

dictionary	roi_sizes

Variable Documentation

tuple run_pipeline.all_seeds = np.loadtxt(phantoms_folder + density + "/seeds.txt")

string run_pipeline.density = "dense"

string run_pipeline.hpc_cluster_ip = "192.168.45.21"

list run_pipeline.lesion_only_materials

Initial value:

 = [{"material": "./Victre/projection/material/air__5-120keV.mcgpu.gz",
                           "density": 0.0012,
                           "voxel_id": [0, 1, 2, 29, 33, 88, 40, 125, 150, 225, 95, 50, 65, 66]
                           },
                          {"material": "./Victre/projection/material/glandular__5-120keV.mcgpu.gz",
                           "density": 1.06,
                           "voxel_id": [200]
                           },
                          {"material": "./Victre/projection/material/CalciumOxalate__5-120keV.mcgpu.gz",
                           "density": 1.781,
                           "voxel_id": [250]
                           }
                          ]

tuple run_pipeline.line = f.readline()

string run_pipeline.mhd_file = phantoms_folder+density+"/pc_{:d}_crop.mhd"

list run_pipeline.offset = None

run_pipeline.phantom_file = phantoms_folder+density+\

string run_pipeline.phantoms_folder = "/gpfs_projects/VICTRE/pivotal/phantoms/withLesion/"

tuple run_pipeline.pline

Initial value:

1 = Victre.Pipeline(ip=hpc_cluster_ip, seed=seed, materials=lesion_only_materials,

2 phantom_file=phantom_file)

Victre.Pipeline

Documentation for the Victre pipeline class.

Definition: Pipeline.py:1

dictionary run_pipeline.roi_sizes

Initial value:

1 = {Constants.VICTRE_SPICULATED: [109, 109, 9],

2 Constants.VICTRE_CLUSTERCALC: [65, 65, 5]}

list run_pipeline.seed = all_seeds[n]

string run_pipeline.spectrum_file = "./Victre/projection/spectrum/W28kVp_Rh50um_Be1mm.spc"

tuple run_pipeline.vx_locations

Initial value:

1 = np.loadtxt("{:s}/pcl_{:d}_crop.loc".format(

2 phantoms_folder + density, seed), delimiter=' ', dtype=(int), unpack=True)

Variables

Variable Documentation