Variables
tuple	parser

string	help = 'Size for the spiculated mass'

tuple	lesion_size = parser.parse_args()

string	hpc_cluster_ip = "192.168.45.21"

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

string	density = "dense"

int	num_cases = 3

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

list	lesion_only_materials

string	spectrum_file = "./Victre/projection/spectrum/W28kVp_Rh50um_Be1mm_Al2mm_MTF.spc"

list	seed = all_seeds[n]

	phantom_file = phantoms_folder+density+\

string	lesion_file = "lesions/spiculated/mass_-308854003_size{:.2f}.h5"

tuple	pline

dictionary	roi_sizes

int	n = 4

Variable Documentation

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

string run_pipeline_lesionsizes.density = "dense"

string run_pipeline_lesionsizes.help = 'Size for the spiculated mass'

string run_pipeline_lesionsizes.hpc_cluster_ip = "192.168.45.21"

string run_pipeline_lesionsizes.lesion_file = "lesions/spiculated/mass_-308854003_size{:.2f}.h5"

list run_pipeline_lesionsizes.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]
                           }
                          ]

float run_pipeline_lesionsizes.lesion_size = parser.parse_args()

int run_pipeline_lesionsizes.n = 4

int run_pipeline_lesionsizes.num_cases = 3

tuple run_pipeline_lesionsizes.parser

Initial value:

1 = argparse.ArgumentParser(

2 description='Runs the VICTRE pipeline for a specific mass size')

run_pipeline_lesionsizes.phantom_file = phantoms_folder+density+\

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

tuple run_pipeline_lesionsizes.pline

Initial value:

 = Victre.Pipeline(ip=hpc_cluster_ip,
                             seed=seed,
                             phantom_file=phantom_file,
                             lesion_file=lesion_file,
                             spectrum_file=spectrum_file,
                             materials=lesion_only_materials)

run_pipeline_lesionsizes.roi_sizes

Initial value:

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

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

list run_pipeline_lesionsizes.seed = all_seeds[n]

string run_pipeline_lesionsizes.spectrum_file = "./Victre/projection/spectrum/W28kVp_Rh50um_Be1mm_Al2mm_MTF.spc"

Variables

Variable Documentation