diff --git a/matlab_example/citation and license.txt b/matlab_example/citation and license.txt new file mode 100755 index 0000000..a609d83 --- /dev/null +++ b/matlab_example/citation and license.txt @@ -0,0 +1,14 @@ +This dataset is posted online with the Creative Commons Attribution 4.0 International (CC BY 4.0) license. + +It requires that you cite the source of this dataset for *any* reuse: + +A. Ghaffarizadeh, S.H. Friedman, S.M. Mumenthaler, and P. Macklin. +PhysiCell: an Open Source Physics-Based Cell Simulator for 3-D Multicellular Systems. +PLoS Comput. Biol., 2017 (preprint, in review). DOI: 10.1101/088773. + +Please check http://PhysiCell.MathCancer.org for the most recent citation information as +this article undergoes peer review. + +For the full text and legal conditions of the CC BY 4.0 license, see: + +https://creativecommons.org/licenses/by/4.0/ diff --git a/matlab_example/initial_mesh0.mat b/matlab_example/initial_mesh0.mat new file mode 100644 index 0000000..917eac9 Binary files /dev/null and b/matlab_example/initial_mesh0.mat differ diff --git a/matlab_example/output00003696.xml b/matlab_example/output00003696.xml new file mode 100644 index 0000000..d7ada9b --- /dev/null +++ b/matlab_example/output00003696.xml @@ -0,0 +1,90 @@ + + + + + BioFVM + 1.1.6 + http://BioFVM.MathCancer.org + + + + + + 30239.999998 + 191255.188684 + 2017-08-27T04:28:34Z + 2017-08-27T04:28:34Z + + + + + -750.000000 -750.000000 -750.000000 750.000000 750.000000 750.000000 + -740.000000 -720.000000 -700.000000 -680.000000 -660.000000 -640.000000 -620.000000 -600.000000 -580.000000 -560.000000 -540.000000 -520.000000 -500.000000 -480.000000 -460.000000 -440.000000 -420.000000 -400.000000 -380.000000 -360.000000 -340.000000 -320.000000 -300.000000 -280.000000 -260.000000 -240.000000 -220.000000 -200.000000 -180.000000 -160.000000 -140.000000 -120.000000 -100.000000 -80.000000 -60.000000 -40.000000 -20.000000 0.000000 20.000000 40.000000 60.000000 80.000000 100.000000 120.000000 140.000000 160.000000 180.000000 200.000000 220.000000 240.000000 260.000000 280.000000 300.000000 320.000000 340.000000 360.000000 380.000000 400.000000 420.000000 440.000000 460.000000 480.000000 500.000000 520.000000 540.000000 560.000000 580.000000 600.000000 620.000000 640.000000 660.000000 680.000000 700.000000 720.000000 740.000000 + -740.000000 -720.000000 -700.000000 -680.000000 -660.000000 -640.000000 -620.000000 -600.000000 -580.000000 -560.000000 -540.000000 -520.000000 -500.000000 -480.000000 -460.000000 -440.000000 -420.000000 -400.000000 -380.000000 -360.000000 -340.000000 -320.000000 -300.000000 -280.000000 -260.000000 -240.000000 -220.000000 -200.000000 -180.000000 -160.000000 -140.000000 -120.000000 -100.000000 -80.000000 -60.000000 -40.000000 -20.000000 0.000000 20.000000 40.000000 60.000000 80.000000 100.000000 120.000000 140.000000 160.000000 180.000000 200.000000 220.000000 240.000000 260.000000 280.000000 300.000000 320.000000 340.000000 360.000000 380.000000 400.000000 420.000000 440.000000 460.000000 480.000000 500.000000 520.000000 540.000000 560.000000 580.000000 600.000000 620.000000 640.000000 660.000000 680.000000 700.000000 720.000000 740.000000 + -740.000000 -720.000000 -700.000000 -680.000000 -660.000000 -640.000000 -620.000000 -600.000000 -580.000000 -560.000000 -540.000000 -520.000000 -500.000000 -480.000000 -460.000000 -440.000000 -420.000000 -400.000000 -380.000000 -360.000000 -340.000000 -320.000000 -300.000000 -280.000000 -260.000000 -240.000000 -220.000000 -200.000000 -180.000000 -160.000000 -140.000000 -120.000000 -100.000000 -80.000000 -60.000000 -40.000000 -20.000000 0.000000 20.000000 40.000000 60.000000 80.000000 100.000000 120.000000 140.000000 160.000000 180.000000 200.000000 220.000000 240.000000 260.000000 280.000000 300.000000 320.000000 340.000000 360.000000 380.000000 400.000000 420.000000 440.000000 460.000000 480.000000 500.000000 520.000000 540.000000 560.000000 580.000000 600.000000 620.000000 640.000000 660.000000 680.000000 700.000000 720.000000 740.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 1000.000000 + 0.016000 + + + + + output00003696_microenvironment0.mat + + + + + + + + + output00003696_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + + + + + + output00003696_cells_physicell.mat + + + + + + diff --git a/matlab_example/output00003696_cells.mat b/matlab_example/output00003696_cells.mat new file mode 100644 index 0000000..8a184a3 Binary files /dev/null and b/matlab_example/output00003696_cells.mat differ diff --git a/matlab_example/output00003696_cells_physicell.mat b/matlab_example/output00003696_cells_physicell.mat new file mode 100644 index 0000000..a6df7f0 Binary files /dev/null and b/matlab_example/output00003696_cells_physicell.mat differ diff --git a/matlab_example/output00003696_microenvironment0.mat b/matlab_example/output00003696_microenvironment0.mat new file mode 100644 index 0000000..1387054 Binary files /dev/null and b/matlab_example/output00003696_microenvironment0.mat differ diff --git a/matlab_example/snapshot00003696.svg b/matlab_example/snapshot00003696.svg new file mode 100644 index 0000000..5a360c3 --- /dev/null +++ b/matlab_example/snapshot00003696.svg @@ -0,0 +1,3711 @@ + + + + + + + + Current time: 21 days, 0 hours, and 0.00 minutes, z = 0.00 μm + + + 66978 agents + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + 200 μm + + + 2 days, 5 hours, 7 minutes, and 35.5525 seconds + + + diff --git a/pyMCDS.py b/pyMCDS.py new file mode 100644 index 0000000..a34245b --- /dev/null +++ b/pyMCDS.py @@ -0,0 +1,505 @@ +import xml.etree.ElementTree as ET +import numpy as np +import pandas as pd +import scipy.io as sio +import sys +import warnings +from pathlib import Path + +class pyMCDS: + """ + This class contains a dictionary of dictionaries that contains all of the + output from a single time step of a PhysiCell Model. This class assumes that + all output files are stored in the same directory. Data is loaded by reading + the .xml file for a particular timestep. + + Parameters + ---------- + xml_name: str + String containing the name of the xml file without the path + output_path: str, optional + String containing the path (relative or absolute) to the directory + where PhysiCell output files are stored (default= ".") + + Attributes + ---------- + data : dict + Hierarchical container for all of the data retrieved by parsing the xml + file and the files referenced therein. + """ + def __init__(self, xml_file, output_path='.'): + self.data = self._read_xml(xml_file, output_path) + + ## METADATA RELATED FUNCTIONS + + def get_time(self): + return self.data['metadata']['current_time'] + + ## MESH RELATED FUNCTIONS + + def get_mesh(self, flat=False): + """ + Return a meshgrid of the computational domain. Can return either full + 3D or a 2D plane for contour plots. + + Parameters + ---------- + flat : bool + If flat is set to true, we return only the x and y meshgrid. + Otherwise we return x, y, and z + + Returns + ------- + splitting : list length=2 if flat=True, else length=3 + Contains arrays of voxel center coordinates as meshgrid with shape + [nx_voxel, ny_voxel, nz_voxel] or [nx_voxel, ny_voxel] if flat=True. + """ + if flat == True: + xx = self.data['mesh']['x_coordinates'][:, :, 0] + yy = self.data['mesh']['y_coordinates'][:, :, 0] + + return [xx, yy] + + # if we dont want a plane just return appropriate values + else: + xx = self.data['mesh']['x_coordinates'] + yy = self.data['mesh']['y_coordinates'] + zz = self.data['mesh']['z_coordinates'] + + return [xx, yy, zz] + + def get_2D_mesh(self): + """ + This function returns the x, y meshgrid as two numpy arrays. It is + identical to get_mesh with the option flat=True + + Returns + ------- + splitting : list length=2 + Contains arrays of voxel center coordinates in x and y dimensions + as meshgrid with shape [nx_voxel, ny_voxel] + """ + xx = self.data['mesh']['x_coordinates'][:, :, 0] + yy = self.data['mesh']['y_coordinates'][:, :, 0] + + return [xx, yy] + + def get_linear_voxels(self): + """ + Helper function to quickly grab voxel centers array stored linearly as + opposed to meshgrid-style. + """ + return self.data['mesh']['voxels']['centers'] + + def get_mesh_spacing(self): + """ + Returns the space in between voxel centers for the mesh in terms of the + mesh's spatial units. Assumes that voxel centers fall on integer values. + + Returns + ------- + dx : float + Distance between voxel centers in the same units as the other + spatial measurements + """ + centers = self.get_linear_voxels() + X = np.unique(centers[0, :]) + Y = np.unique(centers[1, :]) + Z = np.unique(centers[2, :]) + + dx = (X.max() - X.min()) / X.shape[0] + dy = (Y.max() - Y.min()) / Y.shape[0] + dz = (Z.max() - Z.min()) / Z.shape[0] + + if np.abs(dx - dy) > 1e-10 or np.abs(dy - dz) > 1e-10 \ + or np.abs(dx - dz) > 1e-10: + print('Warning: grid spacing may be axis dependent.') + + return round(dx) + + def get_containing_voxel_ijk(self, x, y, z): + """ + Internal function to get the meshgrid indices for the center of a voxel + that contains the given position. + + Note that pyMCDS stores meshgrids as 'cartesian' + (indexing='xy' in np.meshgrid) which means that we will have + to use these indices as [j, i, k] on the actual meshgrid objects + + Parameters + ---------- + x : float + x-coordinate for the position + y : float + y-coordinate for the position + z : float + z-coordinate for the position + + Returns + ------- + ijk : list length=3 + contains the i, j, and k indices for the containing voxel's center + """ + xx, yy, zz = self.get_mesh() + ds = self.get_mesh_spacing() + + if x > xx.max(): + warnings.warn('Position out of bounds: x out of bounds in pyMCDS._get_voxel_idx({0}, {1}, {2}). Setting x = x_max!'.format(x, y, z)) + x = xx.max() + elif x < xx.min(): + warnings.warn('Position out of bounds: x out of bounds in pyMCDS._get_voxel_idx({0}, {1}, {2}). Setting x = x_min!'.format(x, y, z)) + x = xx.min() + elif y > yy.max(): + warnings.warn('Position out of bounds: y out of bounds in pyMCDS._get_voxel_idx({0}, {1}, {2}). Setting y = y_max!'.format(x, y, z)) + y = yy.max() + elif y < yy.min(): + warnings.warn('Position out of bounds: y out of bounds in pyMCDS._get_voxel_idx({0}, {1}, {2}). Setting y = y_min!'.format(x, y, z)) + y = yy.min() + elif z > zz.max(): + warnings.warn('Position out of bounds: z out of bounds in pyMCDS._get_voxel_idx({0}, {1}, {2}). Setting z = z_max!'.format(x, y, z)) + z = zz.max() + elif z < zz.min(): + warnings.warn('Position out of bounds: z out of bounds in pyMCDS._get_voxel_idx({0}, {1}, {2}). Setting z = z_min!'.format(x, y, z)) + z = zz.min() + + i = np.round((x - xx.min()) / ds) + j = np.round((y - yy.min()) / ds) + k = np.round((z - zz.min()) / ds) + + ii, jj, kk = int(i), int(j), int(k) + + return [ii, jj, kk] + + ## MICROENVIRONMENT RELATED FUNCTIONS + + def get_substrate_names(self): + """ + Returns list of chemical species in microenvironment + + Returns + ------- + species_list : array (str), shape=[n_species,] + Contains names of chemical species in microenvironment + """ + species_list = [] + for name in self.data['continuum_variables']: + species_list.append(name) + + return species_list + + def get_concentrations(self, species_name, z_slice=None): + """ + Returns the concentration array for the specified chemical species + in the microenvironment. Can return either the whole 3D picture, or + a 2D plane of concentrations. + + Parameters + ---------- + species_name : str + Name of the chemical species for which to get concentrations + + z_slice : float + z-axis position to use as plane for 2D output. This value must match + a plane of voxel centers in the z-axis. + Returns + ------- + conc_arr : array (np.float) shape=[nx_voxels, ny_voxels, nz_voxels] + Contains the concentration of the specified chemical in each voxel. + The array spatially maps to a meshgrid of the voxel centers. + """ + if z_slice is not None: + # check to see that z_slice is a valid plane + zz = self.data['mesh']['z_coordinates'] + assert z_slice in zz, 'Specified z_slice {} not in z_coordinates'.format(z_slice) + + # do the processing if its ok + mask = zz == z_slice + full_conc = self.data['continuum_variables'][species_name]['data'] + conc_arr = full_conc[mask].reshape((zz.shape[0], zz.shape[1])) + else: + conc_arr = self.data['continuum_variables'][species_name]['data'] + + return conc_arr + + def get_concentrations_at(self, x, y, z): + """ + Return concentrations of each chemical species inside a particular voxel + that contains the point described in the arguments. + + Parameters + ---------- + x : float + x-position for the point of interest + y : float + y_position for the point of interest + z : float + z_position for the point of interest + + Returns + ------- + concs : array, shape=[n_substrates,] + array of concentrations in the order given by get_substrate_names() + """ + i, j, k = self.get_containing_voxel_ijk(x, y, z) + sub_name_list = self.get_substrate_names() + concs = np.zeros(len(sub_name_list)) + + for ix in range(len(sub_name_list)): + concs[ix] = self.get_concentrations(sub_name_list[ix])[j, i, k] + + return concs + + + ## CELL RELATED FUNCTIONS + + def get_cell_df(self): + """ + Builds DataFrame from data['discrete_cells'] + + Returns + ------- + cells_df : pd.Dataframe, shape=[n_cells, n_variables] + Dataframe containing the cell data for all cells at this time step + """ + cells_df = pd.DataFrame(self.data['discrete_cells']) + return cells_df + + def get_cell_variables(self): + """ + Returns the names of all of the cell variables tracked in ['discrete cells'] + dictionary + + Returns + ------- + var_list : list, shape=[n_variables] + Contains the names of the cell variables + """ + var_list = [] + for name in self.data['discrete_cells']: + var_list.append(name) + return var_list + + def get_cell_df_at(self, x, y, z): + """ + Returns a dataframe for cells in the same voxel as the position given by + x, y, and z. + + Parameters + ---------- + x : float + x-position for the point of interest + y : float + y_position for the point of interest + z : float + z_position for the point of interest + + Returns + ------- + vox_df : pd.DataFrame, shape=[n_cell_in_voxel, n_variables] + cell dataframe containing only cells in the same voxel as the point + specified by x, y, and z. + """ + ds = self.get_mesh_spacing() + xx, yy, zz = self.get_mesh() + i, j, k = self.get_containing_voxel_ijk(x, y, z) + x_vox = xx[j, i, k] + y_vox = yy[j, i, k] + z_vox = zz[j, i, k] + + cell_df = self.get_cell_df() + inside_voxel = ( (cell_df['position_x'] < x_vox + ds/2.) & + (cell_df['position_x'] > x_vox - ds/2.) & + (cell_df['position_y'] < y_vox + ds/2.) & + (cell_df['position_y'] > y_vox - ds/2.) & + (cell_df['position_z'] < z_vox + ds/2.) & + (cell_df['position_z'] > z_vox - ds/2.) ) + vox_df = cell_df[inside_voxel] + return vox_df + + def _read_xml(self, xml_file, output_path='.'): + """ + Does the actual work of initializing MultiCellDS by parsing the xml + """ + + output_path = Path(output_path) + xml_file = output_path / xml_file + tree = ET.parse(xml_file) + + print('Reading {}'.format(xml_file)) + + root = tree.getroot() + MCDS = {} + + # Get current simulated time + metadata_node = root.find('metadata') + time_node = metadata_node.find('current_time') + MCDS['metadata'] = {} + MCDS['metadata']['current_time'] = float(time_node.text) + MCDS['metadata']['time_units'] = time_node.get('units') + + # Get current runtime + time_node = metadata_node.find('current_runtime') + MCDS['metadata']['current_runtime'] = float(time_node.text) + MCDS['metadata']['runtime_units'] = time_node.get('units') + + # find the microenvironment node + me_node = root.find('microenvironment') + me_node = me_node.find('domain') + + # find the mesh node + mesh_node = me_node.find('mesh') + MCDS['metadata']['spatial_units'] = mesh_node.get('units') + MCDS['mesh'] = {} + + # while we're at it, find the mesh + coord_str = mesh_node.find('x_coordinates').text + delimiter = mesh_node.find('x_coordinates').get('delimiter') + x_coords = np.array(coord_str.split(delimiter), dtype=np.float) + + coord_str = mesh_node.find('y_coordinates').text + delimiter = mesh_node.find('y_coordinates').get('delimiter') + y_coords = np.array(coord_str.split(delimiter), dtype=np.float) + + coord_str = mesh_node.find('z_coordinates').text + delimiter = mesh_node.find('z_coordinates').get('delimiter') + z_coords = np.array(coord_str.split(delimiter), dtype=np.float) + + # reshape into a mesh grid + xx, yy, zz = np.meshgrid(x_coords, y_coords, z_coords) + + MCDS['mesh']['x_coordinates'] = xx + MCDS['mesh']['y_coordinates'] = yy + MCDS['mesh']['z_coordinates'] = zz + + # Voxel data must be loaded from .mat file + voxel_file = mesh_node.find('voxels').find('filename').text + voxel_path = output_path / voxel_file + try: + initial_mesh = sio.loadmat(voxel_path)['mesh'] + except: + raise FileNotFoundError( + "No such file or directory:\n'{}' referenced in '{}'".format(voxel_path, xml_file)) + sys.exit(1) + + print('Reading {}'.format(voxel_path)) + + # center of voxel specified by first three rows [ x, y, z ] + # volume specified by fourth row + MCDS['mesh']['voxels'] = {} + MCDS['mesh']['voxels']['centers'] = initial_mesh[:3, :] + MCDS['mesh']['voxels']['volumes'] = initial_mesh[3, :] + + # Continuum_variables, unlike in the matlab version the individual chemical + # species will be primarily accessed through their names e.g. + # MCDS['continuum_variables']['oxygen']['units'] + # MCDS['continuum_variables']['glucose']['data'] + MCDS['continuum_variables'] = {} + variables_node = me_node.find('variables') + file_node = me_node.find('data').find('filename') + + # micro environment data is shape [4+n, len(voxels)] where n is the number + # of species being tracked. the first 3 rows represent (x, y, z) of voxel + # centers. The fourth row contains the voxel volume. The 5th row and up will + # contain values for that species in that voxel. + me_file = file_node.text + me_path = output_path / me_file + # Changes here + try: + me_data = sio.loadmat(me_path)['multiscale_microenvironment'] + except: + raise FileNotFoundError( + "No such file or directory:\n'{}' referenced in '{}'".format(me_path, xml_file)) + sys.exit(1) + + print('Reading {}'.format(me_path)) + + var_children = variables_node.findall('variable') + + # we're going to need the linear x, y, and z coordinates later + # but we dont need to get them in the loop + X, Y, Z = np.unique(xx), np.unique(yy), np.unique(zz) + + for si, species in enumerate(var_children): + species_name = species.get('name') + MCDS['continuum_variables'][species_name] = {} + MCDS['continuum_variables'][species_name]['units'] = species.get( + 'units') + + print('Parsing {:s} data'.format(species_name)) + + # initialize array for concentration data + MCDS['continuum_variables'][species_name]['data'] = np.zeros(xx.shape) + + # travel down one level on tree + species = species.find('physical_parameter_set') + + # diffusion data for each species + MCDS['continuum_variables'][species_name]['diffusion_coefficient'] = {} + MCDS['continuum_variables'][species_name]['diffusion_coefficient']['value'] \ + = float(species.find('diffusion_coefficient').text) + MCDS['continuum_variables'][species_name]['diffusion_coefficient']['units'] \ + = species.find('diffusion_coefficient').get('units') + + # decay data for each species + MCDS['continuum_variables'][species_name]['decay_rate'] = {} + MCDS['continuum_variables'][species_name]['decay_rate']['value'] \ + = float(species.find('decay_rate').text) + MCDS['continuum_variables'][species_name]['decay_rate']['units'] \ + = species.find('decay_rate').get('units') + + # store data from microenvironment file as numpy array + # iterate over each voxel + for vox_idx in range(MCDS['mesh']['voxels']['centers'].shape[1]): + # find the center + center = MCDS['mesh']['voxels']['centers'][:, vox_idx] + + i = np.where(np.abs(center[0] - X) < 1e-10)[0][0] + j = np.where(np.abs(center[1] - Y) < 1e-10)[0][0] + k = np.where(np.abs(center[2] - Z) < 1e-10)[0][0] + + MCDS['continuum_variables'][species_name]['data'][j, i, k] \ + = me_data[4+si, vox_idx] + + # in order to get to the good stuff we have to pass through a few different + # hierarchal levels + cell_node = root.find('cellular_information') + cell_node = cell_node.find('cell_populations') + cell_node = cell_node.find('cell_population') + cell_node = cell_node.find('custom') + # we want the PhysiCell data, there is more of it + for child in cell_node.findall('simplified_data'): + if child.get('source') == 'PhysiCell': + cell_node = child + break + + MCDS['discrete_cells'] = {} + data_labels = [] + # iterate over 'label's which are children of 'labels' these will be used to + # label data arrays + for label in cell_node.find('labels').findall('label'): + # I don't like spaces in my dictionary keys + fixed_label = label.text.replace(' ', '_') + if int(label.get('size')) > 1: + # tags to differentiate repeated labels (usually space related) + dir_label = ['_x', '_y', '_z'] + for i in range(int(label.get('size'))): + data_labels.append(fixed_label + dir_label[i]) + else: + data_labels.append(fixed_label) + + # load the file + cell_file = cell_node.find('filename').text + cell_path = output_path / cell_file + try: + cell_data = sio.loadmat(cell_path)['cells'] + except: + raise FileNotFoundError( + "No such file or directory:\n'{}' referenced in '{}'".format(cell_path, xml_file)) + sys.exit(1) + + print('Reading {}'.format(cell_path)) + + for col in range(len(data_labels)): + MCDS['discrete_cells'][data_labels[col]] = cell_data[col, :] + + return MCDS diff --git a/pyMCDS_timeseries.py b/pyMCDS_timeseries.py new file mode 100644 index 0000000..9b22256 --- /dev/null +++ b/pyMCDS_timeseries.py @@ -0,0 +1,97 @@ +import numpy as np +import matplotlib.pyplot as plt +from pathlib import Path +from pyMCDS import pyMCDS + +class pyMCDS_timeseries: + ''' + This class contains a np.array of pyMCDS objects as well as functions for + extracting information from that list. + + Parameters + ---------- + output_path : string + String containing the path (relative or absolute) to the directory + containing the PhysiCell output files + + Attributes + ---------- + timeseries : array-like (pyMCDS) [n_timesteps,] + Numpy array of pyMCDS objects sorted by time. + ''' + def __init__(self, output_path='.'): + # get a generator of output xml files sorted alphanumerically + sorted_files = sorted(Path(output_path).glob('output*.xml')) + + # make a big array to keep them all, create a pyMCDS object with each + # self.timeseries = np.empty(len(sorted_files), dtype=pyMCDS) + # first we'll do a list, if its slow we'll figure out the array + ts_list = [] + for f in sorted_files: + ts_list.append(pyMCDS(f.name, output_path)) + + self.timeseries = np.array(ts_list) + + def get_times(self): + ''' + Helper function to easily return the cumulative time at each step. + + Returns + ------- + time_array : ndaray (np.float) [n_timesteps,] + Contains the 'current time' at each recorded point. + ''' + time_array = np.zeros(self.timeseries.shape[0]) + for i in range(len(self.timeseries)): + time_array[i] = self.timeseries[i].get_time() + + return time_array + + def plot_menv_total(self, species): + ''' + Plot total concentration of chemicals in the system over time. + + Parameters + ---------- + species : array-like (string) or string + Name os names of chemical species to plot + ''' + # set up arrays, quicker than lists + times = self.get_times() + total_conc = np.zeros((times.shape[0], len(species))) + # iterate over the times to fill array + for time in range(times.shape[0]): + # iterate over the chemical species to fill array + for i in range(len(species)): + conc_arr = self.timeseries[time].get_concentrations(species[i]) + total_conc[time, i] = np.sum(conc_arr) + # establish plots + fig, ax = plt.subplots(figsize=(10, 8)) + # add plot elements and show plot + for i, chem in enumerate(species): + ax.plot(times, total_conc[:, i], label=chem) + ax.set_xlabel('Time (min)') + ax.set_ylabel('Total concentration') + ax.legend() + plt.show() + + def plot_cell_type_counts(self): + ''' + Plot the absolute counts of different types of cells over time. + ''' + times = self.get_times() + unique_types = np.unique(self.timeseries[0].data['discrete_cells']['cell_type']) + cell_counts = np.zeros((times.shape[0], unique_types.shape[0])) + for time_i in range(times.shape[0]): + df = self.timeseries[time_i].get_cells_df() + counts = df['cell_type'].value_counts() + cell_counts[time_i, :] = counts + fig, ax = plt.subplots(figsize=(10, 8)) + for i in range(cell_counts.shape[1]): + ax.scatter(times, cell_counts[:, i], label=i, s=10) + ax.set_xlabel('Time (min)') + ax.set_ylabel('# of cells in system') + ax.legend() + plt.show() + + diff --git a/read_MultiCellDS_xml.py b/read_MultiCellDS_xml.py new file mode 100644 index 0000000..b1a1690 --- /dev/null +++ b/read_MultiCellDS_xml.py @@ -0,0 +1,184 @@ +import xml.etree.ElementTree as ET +import numpy as np +import pandas as pd +import scipy.io as sio +from pathlib import Path + + +def read_MultiCellDS_xml(xml_file, output_path='.'): + """ + Parses xml and returns a dictionary + """ + output_path = Path(output_path) + xml_file = output_path / xml_file + tree = ET.parse(xml_file) + + root = tree.getroot() + MCDS = {} + + # Get current simulated time + metadata_node = root.find('metadata') + time_node = metadata_node.find('current_time') + MCDS['metadata'] = {} + MCDS['metadata']['current_time'] = float(time_node.text) + MCDS['metadata']['time_units'] = time_node.get('units') + + # Get current runtime + time_node = metadata_node.find('current_runtime') + MCDS['metadata']['current_runtime'] = float(time_node.text) + MCDS['metadata']['runtime_units'] = time_node.get('units') + + # find the microenvironment node + me_node = root.find('microenvironment') + me_node = me_node.find('domain') + + # find the mesh node + mesh_node = me_node.find('mesh') + MCDS['metadata']['spatial_units'] = mesh_node.get('units') + MCDS['mesh'] = {} + + # while we're at it, find the mesh + coord_str = mesh_node.find('x_coordinates').text + delimiter = mesh_node.find('x_coordinates').get('delimiter') + x_coords = np.array(coord_str.split(delimiter), dtype=np.float) + + coord_str = mesh_node.find('y_coordinates').text + delimiter = mesh_node.find('y_coordinates').get('delimiter') + y_coords = np.array(coord_str.split(delimiter), dtype=np.float) + + coord_str = mesh_node.find('z_coordinates').text + delimiter = mesh_node.find('z_coordinates').get('delimiter') + z_coords = np.array(coord_str.split(delimiter), dtype=np.float) + + # reshape into a mesh grid + xx, yy, zz = np.meshgrid(x_coords, y_coords, z_coords) + + MCDS['mesh']['x_coordinates'] = xx + MCDS['mesh']['y_coordinates'] = yy + MCDS['mesh']['z_coordinates'] = zz + + # Voxel data must be loaded from .mat file + voxel_file = mesh_node.find('voxels').find('filename').text + voxel_path = output_path / voxel_file + try: + initial_mesh = sio.loadmat(voxel_path)['mesh'] + except: + raise FileNotFoundError( + "No such file or directory:\n'{}' referenced in '{}'".format(voxel_path, xml_file)) + sys.exit(1) + + # center of voxel specified by first three rows [ x, y, z ] + # volume specified by fourth row + MCDS['mesh']['voxels'] = {} + MCDS['mesh']['voxels']['centers'] = initial_mesh[:3, :] + MCDS['mesh']['voxels']['volumes'] = initial_mesh[3, :] + + # Continuum_variables, unlike in the matlab version the individual chemical + # species will be primarily accessed through their names e.g. + # MCDS['continuum_variables']['oxygen']['units'] + # MCDS['continuum_variables']['glucose']['data'] + MCDS['continuum_variables'] = {} + variables_node = me_node.find('variables') + file_node = me_node.find('data').find('filename') + + # micro environment data is shape [4+n, len(voxels)] where n is the number + # of species being tracked. the first 3 rows represent (x, y, z) of voxel + # centers. The fourth row contains the voxel volume. The 5th row and up will + # contain values for that species in that voxel. + me_file = file_node.text + me_path = output_path / me_file + # Changes here + try: + me_data = sio.loadmat(me_path)['multiscale_microenvironment'] + except: + raise FileNotFoundError( + "No such file or directory:\n'{}' referenced in '{}'".format(me_path, xml_file)) + sys.exit(1) + + var_children = variables_node.findall('variable') + + # we're going to need the linear x, y, and z coordinates later + # but we dont need to get them in the loop + X, Y, Z = np.unique(xx), np.unique(yy), np.unique(zz) + + for si, species in enumerate(var_children): + species_name = species.get('name') + MCDS['continuum_variables'][species_name] = {} + MCDS['continuum_variables'][species_name]['units'] = species.get( + 'units') + + # initialize array for concentration data + MCDS['continuum_variables'][species_name]['data'] = np.zeros( + xx.shape) + + # travel down one level on tree + species = species.find('physical_parameter_set') + + # diffusion data for each species + MCDS['continuum_variables'][species_name]['diffusion_coefficient'] = {} + MCDS['continuum_variables'][species_name]['diffusion_coefficient']['value'] \ + = float(species.find('diffusion_coefficient').text) + MCDS['continuum_variables'][species_name]['diffusion_coefficient']['units'] \ + = species.find('diffusion_coefficient').get('units') + + # decay data for each species + MCDS['continuum_variables'][species_name]['decay_rate'] = {} + MCDS['continuum_variables'][species_name]['decay_rate']['value'] \ + = float(species.find('decay_rate').text) + MCDS['continuum_variables'][species_name]['decay_rate']['units'] \ + = species.find('decay_rate').get('units') + + # store data from microenvironment file as numpy array + # iterate over each voxel + for vox_idx in range(MCDS['mesh']['voxels']['centers'].shape[1]): + # find the center + center = MCDS['mesh']['voxels']['centers'][:, vox_idx] + + i = np.where(np.abs(center[0] - X) < 1e-10)[0][0] + j = np.where(np.abs(center[1] - Y) < 1e-10)[0][0] + k = np.where(np.abs(center[2] - Z) < 1e-10)[0][0] + + MCDS['continuum_variables'][species_name]['data'][j, i, k] \ + = me_data[4+si, vox_idx] + + # in order to get to the good stuff we have to pass through a few different + # hierarchal levels + cell_node = root.find('cellular_information') + cell_node = cell_node.find('cell_populations') + cell_node = cell_node.find('cell_population') + cell_node = cell_node.find('custom') + # we want the PhysiCell data, there is more of it + for child in cell_node.findall('simplified_data'): + if child.get('source') == 'PhysiCell': + cell_node = child + break + + MCDS['discrete_cells'] = {} + data_labels = [] + # iterate over 'label's which are children of 'labels' these will be used to + # label data arrays + for label in cell_node.find('labels').findall('label'): + # I don't like spaces in my dictionary keys + fixed_label = label.text.replace(' ', '_') + if int(label.get('size')) > 1: + # tags to differentiate repeated labels (usually space related) + dir_label = ['_x', '_y', '_z'] + for i in range(int(label.get('size'))): + data_labels.append(fixed_label + dir_label[i]) + else: + data_labels.append(fixed_label) + + # load the file + cell_file = cell_node.find('filename').text + cell_path = output_path / cell_file + try: + cell_data = sio.loadmat(cell_path)['cells'] + except: + raise FileNotFoundError( + "No such file or directory:\n'{}' referenced in '{}'".format(cell_path, xml_file)) + sys.exit(1) + + for col in range(len(data_labels)): + MCDS['discrete_cells'][data_labels[col]] = cell_data[col, :] + + return MCDS diff --git a/test_single.py b/test_single.py new file mode 100644 index 0000000..ae2f09f --- /dev/null +++ b/test_single.py @@ -0,0 +1,8 @@ +from pyMCDS import pyMCDS + +mcds1 = pyMCDS('output00000001.xml', 'timeseries_set') +mcds2 = pyMCDS('output00000008.xml', 'timeseries_set') + +print(mcds1.get_time()) +print(mcds2.get_menv_species_list()) +print(mcds2.get_concentrations('quorum')) \ No newline at end of file diff --git a/test_timeseries.py b/test_timeseries.py new file mode 100644 index 0000000..62e7724 --- /dev/null +++ b/test_timeseries.py @@ -0,0 +1,8 @@ +from pyMCDS import * +from pyMCDS_timeseries import * + +mcds = pyMCDS_timeseries('timeseries_set') + +chem_list = mcds.timeseries[0].get_menv_species_list() +mcds.plot_menv_total(chem_list) +mcds.plot_cell_type_counts() diff --git a/timeseries_set/config.xml b/timeseries_set/config.xml new file mode 100644 index 0000000..caedea8 --- /dev/null +++ b/timeseries_set/config.xml @@ -0,0 +1,104 @@ + + + -500.0 + 500.0 + -500.0 + 500.0 + -10.0 + 10.0 + 20.0 + 20.0 + 20.0 + true + + + + 7200.0 + min + micron + + + + 4 + + + + . + + + 60 + True + + + + 30 + True + + + + false + + + + + + + + 100000.0 + 0.1 + + 100000.0 + 10.0 + + 40000.0 + 1.0 + + 25000.0 + 0.1 + + 50000.0 + 20.0 + + + 15 + 50 + 10 + 50 + + + 0.0028 + 0.001 + + 15.0 + 0.25 + 0.5 + + 100.0 + 0.1 + + + 15.0 + 0.5 + 0.125 + + 100.0 + 0.1 + + + 0.0005 + 0.0001 + + 15.0 + 1.0 + 0.25 + + 100.0 + 0.1 + + + 100.0 + + + + + \ No newline at end of file diff --git a/timeseries_set/final.xml b/timeseries_set/final.xml new file mode 100644 index 0000000..022623e --- /dev/null +++ b/timeseries_set/final.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 7200.010000 + 121.639080 + 2019-08-30T19:50:09Z + 2019-08-30T19:50:09Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + final_microenvironment0.mat + + + + + + + + + final_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + final_cells_physicell.mat + + + + + + diff --git a/timeseries_set/final_cells.mat b/timeseries_set/final_cells.mat new file mode 100644 index 0000000..2f83f1a Binary files /dev/null and b/timeseries_set/final_cells.mat differ diff --git a/timeseries_set/final_cells_physicell.mat b/timeseries_set/final_cells_physicell.mat new file mode 100644 index 0000000..08e88fa Binary files /dev/null and b/timeseries_set/final_cells_physicell.mat differ diff --git a/timeseries_set/final_microenvironment0.mat b/timeseries_set/final_microenvironment0.mat new file mode 100644 index 0000000..110f2aa Binary files /dev/null and b/timeseries_set/final_microenvironment0.mat differ diff --git a/timeseries_set/initial.xml b/timeseries_set/initial.xml new file mode 100644 index 0000000..c683da6 --- /dev/null +++ b/timeseries_set/initial.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 0.000000 + 0.008113 + 2019-08-30T19:48:08Z + 2019-08-30T19:48:08Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + initial_microenvironment0.mat + + + + + + + + + initial_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + initial_cells_physicell.mat + + + + + + diff --git a/timeseries_set/initial_cells.mat b/timeseries_set/initial_cells.mat new file mode 100644 index 0000000..00c174a Binary files /dev/null and b/timeseries_set/initial_cells.mat differ diff --git a/timeseries_set/initial_cells_physicell.mat b/timeseries_set/initial_cells_physicell.mat new file mode 100644 index 0000000..9507b33 Binary files /dev/null and b/timeseries_set/initial_cells_physicell.mat differ diff --git a/timeseries_set/initial_mesh0.mat b/timeseries_set/initial_mesh0.mat new file mode 100644 index 0000000..a6ebd75 Binary files /dev/null and b/timeseries_set/initial_mesh0.mat differ diff --git a/timeseries_set/initial_microenvironment0.mat b/timeseries_set/initial_microenvironment0.mat new file mode 100644 index 0000000..195d58b Binary files /dev/null and b/timeseries_set/initial_microenvironment0.mat differ diff --git a/timeseries_set/output00000000.xml b/timeseries_set/output00000000.xml new file mode 100644 index 0000000..57dd82a --- /dev/null +++ b/timeseries_set/output00000000.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 0.000000 + 0.000039 + 2019-08-30T19:48:08Z + 2019-08-30T19:48:08Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000000_microenvironment0.mat + + + + + + + + + output00000000_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000000_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000000_cells.mat b/timeseries_set/output00000000_cells.mat new file mode 100644 index 0000000..00c174a Binary files /dev/null and b/timeseries_set/output00000000_cells.mat differ diff --git a/timeseries_set/output00000000_cells_physicell.mat b/timeseries_set/output00000000_cells_physicell.mat new file mode 100644 index 0000000..9507b33 Binary files /dev/null and b/timeseries_set/output00000000_cells_physicell.mat differ diff --git a/timeseries_set/output00000000_microenvironment0.mat b/timeseries_set/output00000000_microenvironment0.mat new file mode 100644 index 0000000..195d58b Binary files /dev/null and b/timeseries_set/output00000000_microenvironment0.mat differ diff --git a/timeseries_set/output00000001.xml b/timeseries_set/output00000001.xml new file mode 100644 index 0000000..e012bcf --- /dev/null +++ b/timeseries_set/output00000001.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 60.000000 + 0.697068 + 2019-08-30T19:48:08Z + 2019-08-30T19:48:08Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000001_microenvironment0.mat + + + + + + + + + output00000001_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000001_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000001_cells.mat b/timeseries_set/output00000001_cells.mat new file mode 100644 index 0000000..54d5cd3 Binary files /dev/null and b/timeseries_set/output00000001_cells.mat differ diff --git a/timeseries_set/output00000001_cells_physicell.mat b/timeseries_set/output00000001_cells_physicell.mat new file mode 100644 index 0000000..a4ea344 Binary files /dev/null and b/timeseries_set/output00000001_cells_physicell.mat differ diff --git a/timeseries_set/output00000001_microenvironment0.mat b/timeseries_set/output00000001_microenvironment0.mat new file mode 100644 index 0000000..e3c0a6a Binary files /dev/null and b/timeseries_set/output00000001_microenvironment0.mat differ diff --git a/timeseries_set/output00000002.xml b/timeseries_set/output00000002.xml new file mode 100644 index 0000000..3079fcc --- /dev/null +++ b/timeseries_set/output00000002.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 120.000000 + 1.408538 + 2019-08-30T19:48:09Z + 2019-08-30T19:48:09Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000002_microenvironment0.mat + + + + + + + + + output00000002_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000002_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000002_cells.mat b/timeseries_set/output00000002_cells.mat new file mode 100644 index 0000000..f04b05b Binary files /dev/null and b/timeseries_set/output00000002_cells.mat differ diff --git a/timeseries_set/output00000002_cells_physicell.mat b/timeseries_set/output00000002_cells_physicell.mat new file mode 100644 index 0000000..aeca3e3 Binary files /dev/null and b/timeseries_set/output00000002_cells_physicell.mat differ diff --git a/timeseries_set/output00000002_microenvironment0.mat b/timeseries_set/output00000002_microenvironment0.mat new file mode 100644 index 0000000..062475f Binary files /dev/null and b/timeseries_set/output00000002_microenvironment0.mat differ diff --git a/timeseries_set/output00000003.xml b/timeseries_set/output00000003.xml new file mode 100644 index 0000000..e268a4a --- /dev/null +++ b/timeseries_set/output00000003.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 180.000000 + 2.119007 + 2019-08-30T19:48:10Z + 2019-08-30T19:48:10Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000003_microenvironment0.mat + + + + + + + + + output00000003_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000003_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000003_cells.mat b/timeseries_set/output00000003_cells.mat new file mode 100644 index 0000000..b9ff5fb Binary files /dev/null and b/timeseries_set/output00000003_cells.mat differ diff --git a/timeseries_set/output00000003_cells_physicell.mat b/timeseries_set/output00000003_cells_physicell.mat new file mode 100644 index 0000000..8f7ee17 Binary files /dev/null and b/timeseries_set/output00000003_cells_physicell.mat differ diff --git a/timeseries_set/output00000003_microenvironment0.mat b/timeseries_set/output00000003_microenvironment0.mat new file mode 100644 index 0000000..544a02b Binary files /dev/null and b/timeseries_set/output00000003_microenvironment0.mat differ diff --git a/timeseries_set/output00000004.xml b/timeseries_set/output00000004.xml new file mode 100644 index 0000000..45e144a --- /dev/null +++ b/timeseries_set/output00000004.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 240.000000 + 2.835217 + 2019-08-30T19:48:11Z + 2019-08-30T19:48:11Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000004_microenvironment0.mat + + + + + + + + + output00000004_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000004_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000004_cells.mat b/timeseries_set/output00000004_cells.mat new file mode 100644 index 0000000..e2b289b Binary files /dev/null and b/timeseries_set/output00000004_cells.mat differ diff --git a/timeseries_set/output00000004_cells_physicell.mat b/timeseries_set/output00000004_cells_physicell.mat new file mode 100644 index 0000000..cf8498b Binary files /dev/null and b/timeseries_set/output00000004_cells_physicell.mat differ diff --git a/timeseries_set/output00000004_microenvironment0.mat b/timeseries_set/output00000004_microenvironment0.mat new file mode 100644 index 0000000..8202c3a Binary files /dev/null and b/timeseries_set/output00000004_microenvironment0.mat differ diff --git a/timeseries_set/output00000005.xml b/timeseries_set/output00000005.xml new file mode 100644 index 0000000..b5b79bc --- /dev/null +++ b/timeseries_set/output00000005.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 300.000000 + 3.559556 + 2019-08-30T19:48:11Z + 2019-08-30T19:48:11Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000005_microenvironment0.mat + + + + + + + + + output00000005_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000005_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000005_cells.mat b/timeseries_set/output00000005_cells.mat new file mode 100644 index 0000000..809c16f Binary files /dev/null and b/timeseries_set/output00000005_cells.mat differ diff --git a/timeseries_set/output00000005_cells_physicell.mat b/timeseries_set/output00000005_cells_physicell.mat new file mode 100644 index 0000000..e30d1c1 Binary files /dev/null and b/timeseries_set/output00000005_cells_physicell.mat differ diff --git a/timeseries_set/output00000005_microenvironment0.mat b/timeseries_set/output00000005_microenvironment0.mat new file mode 100644 index 0000000..44d9fea Binary files /dev/null and b/timeseries_set/output00000005_microenvironment0.mat differ diff --git a/timeseries_set/output00000006.xml b/timeseries_set/output00000006.xml new file mode 100644 index 0000000..6a5c819 --- /dev/null +++ b/timeseries_set/output00000006.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 360.000000 + 4.285737 + 2019-08-30T19:48:12Z + 2019-08-30T19:48:12Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000006_microenvironment0.mat + + + + + + + + + output00000006_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000006_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000006_cells.mat b/timeseries_set/output00000006_cells.mat new file mode 100644 index 0000000..99e575a Binary files /dev/null and b/timeseries_set/output00000006_cells.mat differ diff --git a/timeseries_set/output00000006_cells_physicell.mat b/timeseries_set/output00000006_cells_physicell.mat new file mode 100644 index 0000000..ebc6c14 Binary files /dev/null and b/timeseries_set/output00000006_cells_physicell.mat differ diff --git a/timeseries_set/output00000006_microenvironment0.mat b/timeseries_set/output00000006_microenvironment0.mat new file mode 100644 index 0000000..fd85d67 Binary files /dev/null and b/timeseries_set/output00000006_microenvironment0.mat differ diff --git a/timeseries_set/output00000007.xml b/timeseries_set/output00000007.xml new file mode 100644 index 0000000..a3bc267 --- /dev/null +++ b/timeseries_set/output00000007.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 420.000000 + 5.040470 + 2019-08-30T19:48:13Z + 2019-08-30T19:48:13Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000007_microenvironment0.mat + + + + + + + + + output00000007_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000007_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000007_cells.mat b/timeseries_set/output00000007_cells.mat new file mode 100644 index 0000000..0f1b93f Binary files /dev/null and b/timeseries_set/output00000007_cells.mat differ diff --git a/timeseries_set/output00000007_cells_physicell.mat b/timeseries_set/output00000007_cells_physicell.mat new file mode 100644 index 0000000..e7592e4 Binary files /dev/null and b/timeseries_set/output00000007_cells_physicell.mat differ diff --git a/timeseries_set/output00000007_microenvironment0.mat b/timeseries_set/output00000007_microenvironment0.mat new file mode 100644 index 0000000..1809c59 Binary files /dev/null and b/timeseries_set/output00000007_microenvironment0.mat differ diff --git a/timeseries_set/output00000008.xml b/timeseries_set/output00000008.xml new file mode 100644 index 0000000..4898292 --- /dev/null +++ b/timeseries_set/output00000008.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 480.000000 + 5.801004 + 2019-08-30T19:48:14Z + 2019-08-30T19:48:14Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000008_microenvironment0.mat + + + + + + + + + output00000008_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000008_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000008_cells.mat b/timeseries_set/output00000008_cells.mat new file mode 100644 index 0000000..d10cd54 Binary files /dev/null and b/timeseries_set/output00000008_cells.mat differ diff --git a/timeseries_set/output00000008_cells_physicell.mat b/timeseries_set/output00000008_cells_physicell.mat new file mode 100644 index 0000000..c01f13e Binary files /dev/null and b/timeseries_set/output00000008_cells_physicell.mat differ diff --git a/timeseries_set/output00000008_microenvironment0.mat b/timeseries_set/output00000008_microenvironment0.mat new file mode 100644 index 0000000..556c50c Binary files /dev/null and b/timeseries_set/output00000008_microenvironment0.mat differ diff --git a/timeseries_set/output00000009.xml b/timeseries_set/output00000009.xml new file mode 100644 index 0000000..e54b994 --- /dev/null +++ b/timeseries_set/output00000009.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 540.000000 + 10.479122 + 2019-08-30T19:48:18Z + 2019-08-30T19:48:18Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000009_microenvironment0.mat + + + + + + + + + output00000009_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000009_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000009_cells.mat b/timeseries_set/output00000009_cells.mat new file mode 100644 index 0000000..c79799a Binary files /dev/null and b/timeseries_set/output00000009_cells.mat differ diff --git a/timeseries_set/output00000009_cells_physicell.mat b/timeseries_set/output00000009_cells_physicell.mat new file mode 100644 index 0000000..d4c1ae8 Binary files /dev/null and b/timeseries_set/output00000009_cells_physicell.mat differ diff --git a/timeseries_set/output00000009_microenvironment0.mat b/timeseries_set/output00000009_microenvironment0.mat new file mode 100644 index 0000000..3c57414 Binary files /dev/null and b/timeseries_set/output00000009_microenvironment0.mat differ diff --git a/timeseries_set/output00000010.xml b/timeseries_set/output00000010.xml new file mode 100644 index 0000000..e637e85 --- /dev/null +++ b/timeseries_set/output00000010.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 600.000000 + 15.184489 + 2019-08-30T19:48:23Z + 2019-08-30T19:48:23Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000010_microenvironment0.mat + + + + + + + + + output00000010_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000010_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000010_cells.mat b/timeseries_set/output00000010_cells.mat new file mode 100644 index 0000000..58a0378 Binary files /dev/null and b/timeseries_set/output00000010_cells.mat differ diff --git a/timeseries_set/output00000010_cells_physicell.mat b/timeseries_set/output00000010_cells_physicell.mat new file mode 100644 index 0000000..fbb12f9 Binary files /dev/null and b/timeseries_set/output00000010_cells_physicell.mat differ diff --git a/timeseries_set/output00000010_microenvironment0.mat b/timeseries_set/output00000010_microenvironment0.mat new file mode 100644 index 0000000..2bdad58 Binary files /dev/null and b/timeseries_set/output00000010_microenvironment0.mat differ diff --git a/timeseries_set/output00000011.xml b/timeseries_set/output00000011.xml new file mode 100644 index 0000000..2e7d6e1 --- /dev/null +++ b/timeseries_set/output00000011.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 660.000000 + 17.103263 + 2019-08-30T19:48:25Z + 2019-08-30T19:48:25Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000011_microenvironment0.mat + + + + + + + + + output00000011_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000011_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000011_cells.mat b/timeseries_set/output00000011_cells.mat new file mode 100644 index 0000000..36bab31 Binary files /dev/null and b/timeseries_set/output00000011_cells.mat differ diff --git a/timeseries_set/output00000011_cells_physicell.mat b/timeseries_set/output00000011_cells_physicell.mat new file mode 100644 index 0000000..65e9b2a Binary files /dev/null and b/timeseries_set/output00000011_cells_physicell.mat differ diff --git a/timeseries_set/output00000011_microenvironment0.mat b/timeseries_set/output00000011_microenvironment0.mat new file mode 100644 index 0000000..2954e28 Binary files /dev/null and b/timeseries_set/output00000011_microenvironment0.mat differ diff --git a/timeseries_set/output00000012.xml b/timeseries_set/output00000012.xml new file mode 100644 index 0000000..55eb7bc --- /dev/null +++ b/timeseries_set/output00000012.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 720.000000 + 18.267284 + 2019-08-30T19:48:26Z + 2019-08-30T19:48:26Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000012_microenvironment0.mat + + + + + + + + + output00000012_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000012_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000012_cells.mat b/timeseries_set/output00000012_cells.mat new file mode 100644 index 0000000..09c1748 Binary files /dev/null and b/timeseries_set/output00000012_cells.mat differ diff --git a/timeseries_set/output00000012_cells_physicell.mat b/timeseries_set/output00000012_cells_physicell.mat new file mode 100644 index 0000000..e0d8c4b Binary files /dev/null and b/timeseries_set/output00000012_cells_physicell.mat differ diff --git a/timeseries_set/output00000012_microenvironment0.mat b/timeseries_set/output00000012_microenvironment0.mat new file mode 100644 index 0000000..d6f2098 Binary files /dev/null and b/timeseries_set/output00000012_microenvironment0.mat differ diff --git a/timeseries_set/output00000013.xml b/timeseries_set/output00000013.xml new file mode 100644 index 0000000..e7e19ed --- /dev/null +++ b/timeseries_set/output00000013.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 780.000000 + 19.032297 + 2019-08-30T19:48:27Z + 2019-08-30T19:48:27Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000013_microenvironment0.mat + + + + + + + + + output00000013_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000013_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000013_cells.mat b/timeseries_set/output00000013_cells.mat new file mode 100644 index 0000000..4ad2421 Binary files /dev/null and b/timeseries_set/output00000013_cells.mat differ diff --git a/timeseries_set/output00000013_cells_physicell.mat b/timeseries_set/output00000013_cells_physicell.mat new file mode 100644 index 0000000..5e90a21 Binary files /dev/null and b/timeseries_set/output00000013_cells_physicell.mat differ diff --git a/timeseries_set/output00000013_microenvironment0.mat b/timeseries_set/output00000013_microenvironment0.mat new file mode 100644 index 0000000..8856e71 Binary files /dev/null and b/timeseries_set/output00000013_microenvironment0.mat differ diff --git a/timeseries_set/output00000014.xml b/timeseries_set/output00000014.xml new file mode 100644 index 0000000..ffa6f9e --- /dev/null +++ b/timeseries_set/output00000014.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 840.000000 + 19.799742 + 2019-08-30T19:48:28Z + 2019-08-30T19:48:28Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000014_microenvironment0.mat + + + + + + + + + output00000014_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000014_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000014_cells.mat b/timeseries_set/output00000014_cells.mat new file mode 100644 index 0000000..bd59e35 Binary files /dev/null and b/timeseries_set/output00000014_cells.mat differ diff --git a/timeseries_set/output00000014_cells_physicell.mat b/timeseries_set/output00000014_cells_physicell.mat new file mode 100644 index 0000000..c095fb7 Binary files /dev/null and b/timeseries_set/output00000014_cells_physicell.mat differ diff --git a/timeseries_set/output00000014_microenvironment0.mat b/timeseries_set/output00000014_microenvironment0.mat new file mode 100644 index 0000000..8c63355 Binary files /dev/null and b/timeseries_set/output00000014_microenvironment0.mat differ diff --git a/timeseries_set/output00000015.xml b/timeseries_set/output00000015.xml new file mode 100644 index 0000000..12d7a90 --- /dev/null +++ b/timeseries_set/output00000015.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 900.000000 + 20.568130 + 2019-08-30T19:48:28Z + 2019-08-30T19:48:28Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000015_microenvironment0.mat + + + + + + + + + output00000015_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000015_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000015_cells.mat b/timeseries_set/output00000015_cells.mat new file mode 100644 index 0000000..45b6f2f Binary files /dev/null and b/timeseries_set/output00000015_cells.mat differ diff --git a/timeseries_set/output00000015_cells_physicell.mat b/timeseries_set/output00000015_cells_physicell.mat new file mode 100644 index 0000000..63ed82e Binary files /dev/null and b/timeseries_set/output00000015_cells_physicell.mat differ diff --git a/timeseries_set/output00000015_microenvironment0.mat b/timeseries_set/output00000015_microenvironment0.mat new file mode 100644 index 0000000..e100fb8 Binary files /dev/null and b/timeseries_set/output00000015_microenvironment0.mat differ diff --git a/timeseries_set/output00000016.xml b/timeseries_set/output00000016.xml new file mode 100644 index 0000000..049033d --- /dev/null +++ b/timeseries_set/output00000016.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 960.000000 + 21.341812 + 2019-08-30T19:48:29Z + 2019-08-30T19:48:29Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000016_microenvironment0.mat + + + + + + + + + output00000016_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000016_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000016_cells.mat b/timeseries_set/output00000016_cells.mat new file mode 100644 index 0000000..5f6bac6 Binary files /dev/null and b/timeseries_set/output00000016_cells.mat differ diff --git a/timeseries_set/output00000016_cells_physicell.mat b/timeseries_set/output00000016_cells_physicell.mat new file mode 100644 index 0000000..da4bec7 Binary files /dev/null and b/timeseries_set/output00000016_cells_physicell.mat differ diff --git a/timeseries_set/output00000016_microenvironment0.mat b/timeseries_set/output00000016_microenvironment0.mat new file mode 100644 index 0000000..23d20f0 Binary files /dev/null and b/timeseries_set/output00000016_microenvironment0.mat differ diff --git a/timeseries_set/output00000017.xml b/timeseries_set/output00000017.xml new file mode 100644 index 0000000..e960c7e --- /dev/null +++ b/timeseries_set/output00000017.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 1020.000000 + 22.118372 + 2019-08-30T19:48:30Z + 2019-08-30T19:48:30Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000017_microenvironment0.mat + + + + + + + + + output00000017_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000017_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000017_cells.mat b/timeseries_set/output00000017_cells.mat new file mode 100644 index 0000000..216f8b0 Binary files /dev/null and b/timeseries_set/output00000017_cells.mat differ diff --git a/timeseries_set/output00000017_cells_physicell.mat b/timeseries_set/output00000017_cells_physicell.mat new file mode 100644 index 0000000..18a422a Binary files /dev/null and b/timeseries_set/output00000017_cells_physicell.mat differ diff --git a/timeseries_set/output00000017_microenvironment0.mat b/timeseries_set/output00000017_microenvironment0.mat new file mode 100644 index 0000000..c2a5fa2 Binary files /dev/null and b/timeseries_set/output00000017_microenvironment0.mat differ diff --git a/timeseries_set/output00000018.xml b/timeseries_set/output00000018.xml new file mode 100644 index 0000000..20a79ac --- /dev/null +++ b/timeseries_set/output00000018.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 1080.000000 + 22.895817 + 2019-08-30T19:48:31Z + 2019-08-30T19:48:31Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000018_microenvironment0.mat + + + + + + + + + output00000018_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000018_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000018_cells.mat b/timeseries_set/output00000018_cells.mat new file mode 100644 index 0000000..7885639 Binary files /dev/null and b/timeseries_set/output00000018_cells.mat differ diff --git a/timeseries_set/output00000018_cells_physicell.mat b/timeseries_set/output00000018_cells_physicell.mat new file mode 100644 index 0000000..5c5e079 Binary files /dev/null and b/timeseries_set/output00000018_cells_physicell.mat differ diff --git a/timeseries_set/output00000018_microenvironment0.mat b/timeseries_set/output00000018_microenvironment0.mat new file mode 100644 index 0000000..6281758 Binary files /dev/null and b/timeseries_set/output00000018_microenvironment0.mat differ diff --git a/timeseries_set/output00000019.xml b/timeseries_set/output00000019.xml new file mode 100644 index 0000000..68737b9 --- /dev/null +++ b/timeseries_set/output00000019.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 1140.000000 + 23.677404 + 2019-08-30T19:48:31Z + 2019-08-30T19:48:31Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000019_microenvironment0.mat + + + + + + + + + output00000019_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000019_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000019_cells.mat b/timeseries_set/output00000019_cells.mat new file mode 100644 index 0000000..39fb70e Binary files /dev/null and b/timeseries_set/output00000019_cells.mat differ diff --git a/timeseries_set/output00000019_cells_physicell.mat b/timeseries_set/output00000019_cells_physicell.mat new file mode 100644 index 0000000..502251b Binary files /dev/null and b/timeseries_set/output00000019_cells_physicell.mat differ diff --git a/timeseries_set/output00000019_microenvironment0.mat b/timeseries_set/output00000019_microenvironment0.mat new file mode 100644 index 0000000..e437116 Binary files /dev/null and b/timeseries_set/output00000019_microenvironment0.mat differ diff --git a/timeseries_set/output00000020.xml b/timeseries_set/output00000020.xml new file mode 100644 index 0000000..c2bac22 --- /dev/null +++ b/timeseries_set/output00000020.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 1200.000000 + 24.461455 + 2019-08-30T19:48:32Z + 2019-08-30T19:48:32Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000020_microenvironment0.mat + + + + + + + + + output00000020_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000020_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000020_cells.mat b/timeseries_set/output00000020_cells.mat new file mode 100644 index 0000000..e733765 Binary files /dev/null and b/timeseries_set/output00000020_cells.mat differ diff --git a/timeseries_set/output00000020_cells_physicell.mat b/timeseries_set/output00000020_cells_physicell.mat new file mode 100644 index 0000000..902d5d7 Binary files /dev/null and b/timeseries_set/output00000020_cells_physicell.mat differ diff --git a/timeseries_set/output00000020_microenvironment0.mat b/timeseries_set/output00000020_microenvironment0.mat new file mode 100644 index 0000000..825059c Binary files /dev/null and b/timeseries_set/output00000020_microenvironment0.mat differ diff --git a/timeseries_set/output00000021.xml b/timeseries_set/output00000021.xml new file mode 100644 index 0000000..a7017cc --- /dev/null +++ b/timeseries_set/output00000021.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 1260.000000 + 25.251732 + 2019-08-30T19:48:33Z + 2019-08-30T19:48:33Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000021_microenvironment0.mat + + + + + + + + + output00000021_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000021_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000021_cells.mat b/timeseries_set/output00000021_cells.mat new file mode 100644 index 0000000..0454f0f Binary files /dev/null and b/timeseries_set/output00000021_cells.mat differ diff --git a/timeseries_set/output00000021_cells_physicell.mat b/timeseries_set/output00000021_cells_physicell.mat new file mode 100644 index 0000000..1053a28 Binary files /dev/null and b/timeseries_set/output00000021_cells_physicell.mat differ diff --git a/timeseries_set/output00000021_microenvironment0.mat b/timeseries_set/output00000021_microenvironment0.mat new file mode 100644 index 0000000..9a7122d Binary files /dev/null and b/timeseries_set/output00000021_microenvironment0.mat differ diff --git a/timeseries_set/output00000022.xml b/timeseries_set/output00000022.xml new file mode 100644 index 0000000..3886fee --- /dev/null +++ b/timeseries_set/output00000022.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 1320.000000 + 26.045643 + 2019-08-30T19:48:34Z + 2019-08-30T19:48:34Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000022_microenvironment0.mat + + + + + + + + + output00000022_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000022_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000022_cells.mat b/timeseries_set/output00000022_cells.mat new file mode 100644 index 0000000..e8aa146 Binary files /dev/null and b/timeseries_set/output00000022_cells.mat differ diff --git a/timeseries_set/output00000022_cells_physicell.mat b/timeseries_set/output00000022_cells_physicell.mat new file mode 100644 index 0000000..638d7c2 Binary files /dev/null and b/timeseries_set/output00000022_cells_physicell.mat differ diff --git a/timeseries_set/output00000022_microenvironment0.mat b/timeseries_set/output00000022_microenvironment0.mat new file mode 100644 index 0000000..0da2d11 Binary files /dev/null and b/timeseries_set/output00000022_microenvironment0.mat differ diff --git a/timeseries_set/output00000023.xml b/timeseries_set/output00000023.xml new file mode 100644 index 0000000..04f848e --- /dev/null +++ b/timeseries_set/output00000023.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 1380.000000 + 26.837936 + 2019-08-30T19:48:35Z + 2019-08-30T19:48:35Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000023_microenvironment0.mat + + + + + + + + + output00000023_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000023_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000023_cells.mat b/timeseries_set/output00000023_cells.mat new file mode 100644 index 0000000..88ca7ca Binary files /dev/null and b/timeseries_set/output00000023_cells.mat differ diff --git a/timeseries_set/output00000023_cells_physicell.mat b/timeseries_set/output00000023_cells_physicell.mat new file mode 100644 index 0000000..bf0c19d Binary files /dev/null and b/timeseries_set/output00000023_cells_physicell.mat differ diff --git a/timeseries_set/output00000023_microenvironment0.mat b/timeseries_set/output00000023_microenvironment0.mat new file mode 100644 index 0000000..4e49363 Binary files /dev/null and b/timeseries_set/output00000023_microenvironment0.mat differ diff --git a/timeseries_set/output00000024.xml b/timeseries_set/output00000024.xml new file mode 100644 index 0000000..48bdc29 --- /dev/null +++ b/timeseries_set/output00000024.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 1440.000000 + 27.642156 + 2019-08-30T19:48:35Z + 2019-08-30T19:48:35Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000024_microenvironment0.mat + + + + + + + + + output00000024_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000024_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000024_cells.mat b/timeseries_set/output00000024_cells.mat new file mode 100644 index 0000000..46db1a5 Binary files /dev/null and b/timeseries_set/output00000024_cells.mat differ diff --git a/timeseries_set/output00000024_cells_physicell.mat b/timeseries_set/output00000024_cells_physicell.mat new file mode 100644 index 0000000..40b9ef4 Binary files /dev/null and b/timeseries_set/output00000024_cells_physicell.mat differ diff --git a/timeseries_set/output00000024_microenvironment0.mat b/timeseries_set/output00000024_microenvironment0.mat new file mode 100644 index 0000000..24552cb Binary files /dev/null and b/timeseries_set/output00000024_microenvironment0.mat differ diff --git a/timeseries_set/output00000025.xml b/timeseries_set/output00000025.xml new file mode 100644 index 0000000..457b282 --- /dev/null +++ b/timeseries_set/output00000025.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 1500.000000 + 28.448561 + 2019-08-30T19:48:36Z + 2019-08-30T19:48:36Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000025_microenvironment0.mat + + + + + + + + + output00000025_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000025_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000025_cells.mat b/timeseries_set/output00000025_cells.mat new file mode 100644 index 0000000..6161f25 Binary files /dev/null and b/timeseries_set/output00000025_cells.mat differ diff --git a/timeseries_set/output00000025_cells_physicell.mat b/timeseries_set/output00000025_cells_physicell.mat new file mode 100644 index 0000000..7e6082c Binary files /dev/null and b/timeseries_set/output00000025_cells_physicell.mat differ diff --git a/timeseries_set/output00000025_microenvironment0.mat b/timeseries_set/output00000025_microenvironment0.mat new file mode 100644 index 0000000..5a07a35 Binary files /dev/null and b/timeseries_set/output00000025_microenvironment0.mat differ diff --git a/timeseries_set/output00000026.xml b/timeseries_set/output00000026.xml new file mode 100644 index 0000000..a8c80a0 --- /dev/null +++ b/timeseries_set/output00000026.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 1560.000000 + 29.246580 + 2019-08-30T19:48:37Z + 2019-08-30T19:48:37Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000026_microenvironment0.mat + + + + + + + + + output00000026_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000026_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000026_cells.mat b/timeseries_set/output00000026_cells.mat new file mode 100644 index 0000000..e2b4e26 Binary files /dev/null and b/timeseries_set/output00000026_cells.mat differ diff --git a/timeseries_set/output00000026_cells_physicell.mat b/timeseries_set/output00000026_cells_physicell.mat new file mode 100644 index 0000000..159d6d7 Binary files /dev/null and b/timeseries_set/output00000026_cells_physicell.mat differ diff --git a/timeseries_set/output00000026_microenvironment0.mat b/timeseries_set/output00000026_microenvironment0.mat new file mode 100644 index 0000000..0acd979 Binary files /dev/null and b/timeseries_set/output00000026_microenvironment0.mat differ diff --git a/timeseries_set/output00000027.xml b/timeseries_set/output00000027.xml new file mode 100644 index 0000000..ff6e039 --- /dev/null +++ b/timeseries_set/output00000027.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 1620.000000 + 30.056340 + 2019-08-30T19:48:38Z + 2019-08-30T19:48:38Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000027_microenvironment0.mat + + + + + + + + + output00000027_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000027_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000027_cells.mat b/timeseries_set/output00000027_cells.mat new file mode 100644 index 0000000..40e39e4 Binary files /dev/null and b/timeseries_set/output00000027_cells.mat differ diff --git a/timeseries_set/output00000027_cells_physicell.mat b/timeseries_set/output00000027_cells_physicell.mat new file mode 100644 index 0000000..bd1f6e6 Binary files /dev/null and b/timeseries_set/output00000027_cells_physicell.mat differ diff --git a/timeseries_set/output00000027_microenvironment0.mat b/timeseries_set/output00000027_microenvironment0.mat new file mode 100644 index 0000000..6af5e27 Binary files /dev/null and b/timeseries_set/output00000027_microenvironment0.mat differ diff --git a/timeseries_set/output00000028.xml b/timeseries_set/output00000028.xml new file mode 100644 index 0000000..a748af1 --- /dev/null +++ b/timeseries_set/output00000028.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 1680.000000 + 30.881546 + 2019-08-30T19:48:39Z + 2019-08-30T19:48:39Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000028_microenvironment0.mat + + + + + + + + + output00000028_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000028_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000028_cells.mat b/timeseries_set/output00000028_cells.mat new file mode 100644 index 0000000..6adbf50 Binary files /dev/null and b/timeseries_set/output00000028_cells.mat differ diff --git a/timeseries_set/output00000028_cells_physicell.mat b/timeseries_set/output00000028_cells_physicell.mat new file mode 100644 index 0000000..f1d99c7 Binary files /dev/null and b/timeseries_set/output00000028_cells_physicell.mat differ diff --git a/timeseries_set/output00000028_microenvironment0.mat b/timeseries_set/output00000028_microenvironment0.mat new file mode 100644 index 0000000..77871eb Binary files /dev/null and b/timeseries_set/output00000028_microenvironment0.mat differ diff --git a/timeseries_set/output00000029.xml b/timeseries_set/output00000029.xml new file mode 100644 index 0000000..b07d5b6 --- /dev/null +++ b/timeseries_set/output00000029.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 1740.000000 + 31.693659 + 2019-08-30T19:48:39Z + 2019-08-30T19:48:39Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000029_microenvironment0.mat + + + + + + + + + output00000029_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000029_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000029_cells.mat b/timeseries_set/output00000029_cells.mat new file mode 100644 index 0000000..7f60fe7 Binary files /dev/null and b/timeseries_set/output00000029_cells.mat differ diff --git a/timeseries_set/output00000029_cells_physicell.mat b/timeseries_set/output00000029_cells_physicell.mat new file mode 100644 index 0000000..69abf57 Binary files /dev/null and b/timeseries_set/output00000029_cells_physicell.mat differ diff --git a/timeseries_set/output00000029_microenvironment0.mat b/timeseries_set/output00000029_microenvironment0.mat new file mode 100644 index 0000000..0c330f4 Binary files /dev/null and b/timeseries_set/output00000029_microenvironment0.mat differ diff --git a/timeseries_set/output00000030.xml b/timeseries_set/output00000030.xml new file mode 100644 index 0000000..c234263 --- /dev/null +++ b/timeseries_set/output00000030.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 1800.000000 + 32.505888 + 2019-08-30T19:48:40Z + 2019-08-30T19:48:40Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000030_microenvironment0.mat + + + + + + + + + output00000030_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000030_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000030_cells.mat b/timeseries_set/output00000030_cells.mat new file mode 100644 index 0000000..128bba9 Binary files /dev/null and b/timeseries_set/output00000030_cells.mat differ diff --git a/timeseries_set/output00000030_cells_physicell.mat b/timeseries_set/output00000030_cells_physicell.mat new file mode 100644 index 0000000..e6b58e4 Binary files /dev/null and b/timeseries_set/output00000030_cells_physicell.mat differ diff --git a/timeseries_set/output00000030_microenvironment0.mat b/timeseries_set/output00000030_microenvironment0.mat new file mode 100644 index 0000000..a18e430 Binary files /dev/null and b/timeseries_set/output00000030_microenvironment0.mat differ diff --git a/timeseries_set/output00000031.xml b/timeseries_set/output00000031.xml new file mode 100644 index 0000000..32439d5 --- /dev/null +++ b/timeseries_set/output00000031.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 1860.000000 + 33.329764 + 2019-08-30T19:48:41Z + 2019-08-30T19:48:41Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000031_microenvironment0.mat + + + + + + + + + output00000031_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000031_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000031_cells.mat b/timeseries_set/output00000031_cells.mat new file mode 100644 index 0000000..5a71570 Binary files /dev/null and b/timeseries_set/output00000031_cells.mat differ diff --git a/timeseries_set/output00000031_cells_physicell.mat b/timeseries_set/output00000031_cells_physicell.mat new file mode 100644 index 0000000..623dc9a Binary files /dev/null and b/timeseries_set/output00000031_cells_physicell.mat differ diff --git a/timeseries_set/output00000031_microenvironment0.mat b/timeseries_set/output00000031_microenvironment0.mat new file mode 100644 index 0000000..6fa1f66 Binary files /dev/null and b/timeseries_set/output00000031_microenvironment0.mat differ diff --git a/timeseries_set/output00000032.xml b/timeseries_set/output00000032.xml new file mode 100644 index 0000000..c3d1b1f --- /dev/null +++ b/timeseries_set/output00000032.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 1920.000000 + 34.158284 + 2019-08-30T19:48:42Z + 2019-08-30T19:48:42Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000032_microenvironment0.mat + + + + + + + + + output00000032_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000032_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000032_cells.mat b/timeseries_set/output00000032_cells.mat new file mode 100644 index 0000000..90d2c24 Binary files /dev/null and b/timeseries_set/output00000032_cells.mat differ diff --git a/timeseries_set/output00000032_cells_physicell.mat b/timeseries_set/output00000032_cells_physicell.mat new file mode 100644 index 0000000..42389c6 Binary files /dev/null and b/timeseries_set/output00000032_cells_physicell.mat differ diff --git a/timeseries_set/output00000032_microenvironment0.mat b/timeseries_set/output00000032_microenvironment0.mat new file mode 100644 index 0000000..3461c5f Binary files /dev/null and b/timeseries_set/output00000032_microenvironment0.mat differ diff --git a/timeseries_set/output00000033.xml b/timeseries_set/output00000033.xml new file mode 100644 index 0000000..ca2e448 --- /dev/null +++ b/timeseries_set/output00000033.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 1980.000000 + 34.991060 + 2019-08-30T19:48:43Z + 2019-08-30T19:48:43Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000033_microenvironment0.mat + + + + + + + + + output00000033_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000033_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000033_cells.mat b/timeseries_set/output00000033_cells.mat new file mode 100644 index 0000000..d1f9739 Binary files /dev/null and b/timeseries_set/output00000033_cells.mat differ diff --git a/timeseries_set/output00000033_cells_physicell.mat b/timeseries_set/output00000033_cells_physicell.mat new file mode 100644 index 0000000..d9bd646 Binary files /dev/null and b/timeseries_set/output00000033_cells_physicell.mat differ diff --git a/timeseries_set/output00000033_microenvironment0.mat b/timeseries_set/output00000033_microenvironment0.mat new file mode 100644 index 0000000..ba3179f Binary files /dev/null and b/timeseries_set/output00000033_microenvironment0.mat differ diff --git a/timeseries_set/output00000034.xml b/timeseries_set/output00000034.xml new file mode 100644 index 0000000..2c8bfc5 --- /dev/null +++ b/timeseries_set/output00000034.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 2040.000000 + 35.826088 + 2019-08-30T19:48:44Z + 2019-08-30T19:48:44Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000034_microenvironment0.mat + + + + + + + + + output00000034_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000034_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000034_cells.mat b/timeseries_set/output00000034_cells.mat new file mode 100644 index 0000000..18304b0 Binary files /dev/null and b/timeseries_set/output00000034_cells.mat differ diff --git a/timeseries_set/output00000034_cells_physicell.mat b/timeseries_set/output00000034_cells_physicell.mat new file mode 100644 index 0000000..4f7508f Binary files /dev/null and b/timeseries_set/output00000034_cells_physicell.mat differ diff --git a/timeseries_set/output00000034_microenvironment0.mat b/timeseries_set/output00000034_microenvironment0.mat new file mode 100644 index 0000000..8195513 Binary files /dev/null and b/timeseries_set/output00000034_microenvironment0.mat differ diff --git a/timeseries_set/output00000035.xml b/timeseries_set/output00000035.xml new file mode 100644 index 0000000..198dafc --- /dev/null +++ b/timeseries_set/output00000035.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 2100.000000 + 36.666132 + 2019-08-30T19:48:44Z + 2019-08-30T19:48:44Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000035_microenvironment0.mat + + + + + + + + + output00000035_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000035_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000035_cells.mat b/timeseries_set/output00000035_cells.mat new file mode 100644 index 0000000..591d5c8 Binary files /dev/null and b/timeseries_set/output00000035_cells.mat differ diff --git a/timeseries_set/output00000035_cells_physicell.mat b/timeseries_set/output00000035_cells_physicell.mat new file mode 100644 index 0000000..79db61f Binary files /dev/null and b/timeseries_set/output00000035_cells_physicell.mat differ diff --git a/timeseries_set/output00000035_microenvironment0.mat b/timeseries_set/output00000035_microenvironment0.mat new file mode 100644 index 0000000..21dca68 Binary files /dev/null and b/timeseries_set/output00000035_microenvironment0.mat differ diff --git a/timeseries_set/output00000036.xml b/timeseries_set/output00000036.xml new file mode 100644 index 0000000..be76015 --- /dev/null +++ b/timeseries_set/output00000036.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 2160.000000 + 37.508236 + 2019-08-30T19:48:45Z + 2019-08-30T19:48:45Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000036_microenvironment0.mat + + + + + + + + + output00000036_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000036_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000036_cells.mat b/timeseries_set/output00000036_cells.mat new file mode 100644 index 0000000..34e6eb1 Binary files /dev/null and b/timeseries_set/output00000036_cells.mat differ diff --git a/timeseries_set/output00000036_cells_physicell.mat b/timeseries_set/output00000036_cells_physicell.mat new file mode 100644 index 0000000..b3ac089 Binary files /dev/null and b/timeseries_set/output00000036_cells_physicell.mat differ diff --git a/timeseries_set/output00000036_microenvironment0.mat b/timeseries_set/output00000036_microenvironment0.mat new file mode 100644 index 0000000..4dbd248 Binary files /dev/null and b/timeseries_set/output00000036_microenvironment0.mat differ diff --git a/timeseries_set/output00000037.xml b/timeseries_set/output00000037.xml new file mode 100644 index 0000000..82d70ab --- /dev/null +++ b/timeseries_set/output00000037.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 2220.000000 + 38.352664 + 2019-08-30T19:48:46Z + 2019-08-30T19:48:46Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000037_microenvironment0.mat + + + + + + + + + output00000037_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000037_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000037_cells.mat b/timeseries_set/output00000037_cells.mat new file mode 100644 index 0000000..f45109d Binary files /dev/null and b/timeseries_set/output00000037_cells.mat differ diff --git a/timeseries_set/output00000037_cells_physicell.mat b/timeseries_set/output00000037_cells_physicell.mat new file mode 100644 index 0000000..8eb7d28 Binary files /dev/null and b/timeseries_set/output00000037_cells_physicell.mat differ diff --git a/timeseries_set/output00000037_microenvironment0.mat b/timeseries_set/output00000037_microenvironment0.mat new file mode 100644 index 0000000..589dfc5 Binary files /dev/null and b/timeseries_set/output00000037_microenvironment0.mat differ diff --git a/timeseries_set/output00000038.xml b/timeseries_set/output00000038.xml new file mode 100644 index 0000000..3edc193 --- /dev/null +++ b/timeseries_set/output00000038.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 2280.000000 + 39.200052 + 2019-08-30T19:48:47Z + 2019-08-30T19:48:47Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000038_microenvironment0.mat + + + + + + + + + output00000038_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000038_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000038_cells.mat b/timeseries_set/output00000038_cells.mat new file mode 100644 index 0000000..82626f0 Binary files /dev/null and b/timeseries_set/output00000038_cells.mat differ diff --git a/timeseries_set/output00000038_cells_physicell.mat b/timeseries_set/output00000038_cells_physicell.mat new file mode 100644 index 0000000..b95e27d Binary files /dev/null and b/timeseries_set/output00000038_cells_physicell.mat differ diff --git a/timeseries_set/output00000038_microenvironment0.mat b/timeseries_set/output00000038_microenvironment0.mat new file mode 100644 index 0000000..0a87af9 Binary files /dev/null and b/timeseries_set/output00000038_microenvironment0.mat differ diff --git a/timeseries_set/output00000039.xml b/timeseries_set/output00000039.xml new file mode 100644 index 0000000..2f361bc --- /dev/null +++ b/timeseries_set/output00000039.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 2340.000000 + 40.045661 + 2019-08-30T19:48:48Z + 2019-08-30T19:48:48Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000039_microenvironment0.mat + + + + + + + + + output00000039_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000039_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000039_cells.mat b/timeseries_set/output00000039_cells.mat new file mode 100644 index 0000000..5ae19ca Binary files /dev/null and b/timeseries_set/output00000039_cells.mat differ diff --git a/timeseries_set/output00000039_cells_physicell.mat b/timeseries_set/output00000039_cells_physicell.mat new file mode 100644 index 0000000..112653b Binary files /dev/null and b/timeseries_set/output00000039_cells_physicell.mat differ diff --git a/timeseries_set/output00000039_microenvironment0.mat b/timeseries_set/output00000039_microenvironment0.mat new file mode 100644 index 0000000..856b98c Binary files /dev/null and b/timeseries_set/output00000039_microenvironment0.mat differ diff --git a/timeseries_set/output00000040.xml b/timeseries_set/output00000040.xml new file mode 100644 index 0000000..211a6bd --- /dev/null +++ b/timeseries_set/output00000040.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 2400.000000 + 40.905996 + 2019-08-30T19:48:49Z + 2019-08-30T19:48:49Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000040_microenvironment0.mat + + + + + + + + + output00000040_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000040_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000040_cells.mat b/timeseries_set/output00000040_cells.mat new file mode 100644 index 0000000..7834f95 Binary files /dev/null and b/timeseries_set/output00000040_cells.mat differ diff --git a/timeseries_set/output00000040_cells_physicell.mat b/timeseries_set/output00000040_cells_physicell.mat new file mode 100644 index 0000000..6f25f76 Binary files /dev/null and b/timeseries_set/output00000040_cells_physicell.mat differ diff --git a/timeseries_set/output00000040_microenvironment0.mat b/timeseries_set/output00000040_microenvironment0.mat new file mode 100644 index 0000000..0f4309f Binary files /dev/null and b/timeseries_set/output00000040_microenvironment0.mat differ diff --git a/timeseries_set/output00000041.xml b/timeseries_set/output00000041.xml new file mode 100644 index 0000000..0171e4e --- /dev/null +++ b/timeseries_set/output00000041.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 2460.000000 + 41.763984 + 2019-08-30T19:48:49Z + 2019-08-30T19:48:49Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000041_microenvironment0.mat + + + + + + + + + output00000041_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000041_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000041_cells.mat b/timeseries_set/output00000041_cells.mat new file mode 100644 index 0000000..de8dad7 Binary files /dev/null and b/timeseries_set/output00000041_cells.mat differ diff --git a/timeseries_set/output00000041_cells_physicell.mat b/timeseries_set/output00000041_cells_physicell.mat new file mode 100644 index 0000000..021a35a Binary files /dev/null and b/timeseries_set/output00000041_cells_physicell.mat differ diff --git a/timeseries_set/output00000041_microenvironment0.mat b/timeseries_set/output00000041_microenvironment0.mat new file mode 100644 index 0000000..d6253a8 Binary files /dev/null and b/timeseries_set/output00000041_microenvironment0.mat differ diff --git a/timeseries_set/output00000042.xml b/timeseries_set/output00000042.xml new file mode 100644 index 0000000..af7e6e1 --- /dev/null +++ b/timeseries_set/output00000042.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 2520.000000 + 42.628745 + 2019-08-30T19:48:50Z + 2019-08-30T19:48:50Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000042_microenvironment0.mat + + + + + + + + + output00000042_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000042_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000042_cells.mat b/timeseries_set/output00000042_cells.mat new file mode 100644 index 0000000..19c6027 Binary files /dev/null and b/timeseries_set/output00000042_cells.mat differ diff --git a/timeseries_set/output00000042_cells_physicell.mat b/timeseries_set/output00000042_cells_physicell.mat new file mode 100644 index 0000000..c5a1320 Binary files /dev/null and b/timeseries_set/output00000042_cells_physicell.mat differ diff --git a/timeseries_set/output00000042_microenvironment0.mat b/timeseries_set/output00000042_microenvironment0.mat new file mode 100644 index 0000000..b685e13 Binary files /dev/null and b/timeseries_set/output00000042_microenvironment0.mat differ diff --git a/timeseries_set/output00000043.xml b/timeseries_set/output00000043.xml new file mode 100644 index 0000000..e97d8c2 --- /dev/null +++ b/timeseries_set/output00000043.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 2580.000000 + 43.561326 + 2019-08-30T19:48:51Z + 2019-08-30T19:48:51Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000043_microenvironment0.mat + + + + + + + + + output00000043_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000043_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000043_cells.mat b/timeseries_set/output00000043_cells.mat new file mode 100644 index 0000000..1d5443b Binary files /dev/null and b/timeseries_set/output00000043_cells.mat differ diff --git a/timeseries_set/output00000043_cells_physicell.mat b/timeseries_set/output00000043_cells_physicell.mat new file mode 100644 index 0000000..821185e Binary files /dev/null and b/timeseries_set/output00000043_cells_physicell.mat differ diff --git a/timeseries_set/output00000043_microenvironment0.mat b/timeseries_set/output00000043_microenvironment0.mat new file mode 100644 index 0000000..a57baab Binary files /dev/null and b/timeseries_set/output00000043_microenvironment0.mat differ diff --git a/timeseries_set/output00000044.xml b/timeseries_set/output00000044.xml new file mode 100644 index 0000000..a29b555 --- /dev/null +++ b/timeseries_set/output00000044.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 2640.000000 + 44.437147 + 2019-08-30T19:48:52Z + 2019-08-30T19:48:52Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000044_microenvironment0.mat + + + + + + + + + output00000044_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000044_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000044_cells.mat b/timeseries_set/output00000044_cells.mat new file mode 100644 index 0000000..a7bee1e Binary files /dev/null and b/timeseries_set/output00000044_cells.mat differ diff --git a/timeseries_set/output00000044_cells_physicell.mat b/timeseries_set/output00000044_cells_physicell.mat new file mode 100644 index 0000000..d237997 Binary files /dev/null and b/timeseries_set/output00000044_cells_physicell.mat differ diff --git a/timeseries_set/output00000044_microenvironment0.mat b/timeseries_set/output00000044_microenvironment0.mat new file mode 100644 index 0000000..edd6447 Binary files /dev/null and b/timeseries_set/output00000044_microenvironment0.mat differ diff --git a/timeseries_set/output00000045.xml b/timeseries_set/output00000045.xml new file mode 100644 index 0000000..735a08b --- /dev/null +++ b/timeseries_set/output00000045.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 2700.000000 + 45.318563 + 2019-08-30T19:48:53Z + 2019-08-30T19:48:53Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000045_microenvironment0.mat + + + + + + + + + output00000045_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000045_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000045_cells.mat b/timeseries_set/output00000045_cells.mat new file mode 100644 index 0000000..b1ef1e3 Binary files /dev/null and b/timeseries_set/output00000045_cells.mat differ diff --git a/timeseries_set/output00000045_cells_physicell.mat b/timeseries_set/output00000045_cells_physicell.mat new file mode 100644 index 0000000..fbad7d1 Binary files /dev/null and b/timeseries_set/output00000045_cells_physicell.mat differ diff --git a/timeseries_set/output00000045_microenvironment0.mat b/timeseries_set/output00000045_microenvironment0.mat new file mode 100644 index 0000000..58af3a2 Binary files /dev/null and b/timeseries_set/output00000045_microenvironment0.mat differ diff --git a/timeseries_set/output00000046.xml b/timeseries_set/output00000046.xml new file mode 100644 index 0000000..b24789a --- /dev/null +++ b/timeseries_set/output00000046.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 2760.000000 + 46.206996 + 2019-08-30T19:48:54Z + 2019-08-30T19:48:54Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000046_microenvironment0.mat + + + + + + + + + output00000046_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000046_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000046_cells.mat b/timeseries_set/output00000046_cells.mat new file mode 100644 index 0000000..bd37db5 Binary files /dev/null and b/timeseries_set/output00000046_cells.mat differ diff --git a/timeseries_set/output00000046_cells_physicell.mat b/timeseries_set/output00000046_cells_physicell.mat new file mode 100644 index 0000000..61aa40e Binary files /dev/null and b/timeseries_set/output00000046_cells_physicell.mat differ diff --git a/timeseries_set/output00000046_microenvironment0.mat b/timeseries_set/output00000046_microenvironment0.mat new file mode 100644 index 0000000..e3b08f9 Binary files /dev/null and b/timeseries_set/output00000046_microenvironment0.mat differ diff --git a/timeseries_set/output00000047.xml b/timeseries_set/output00000047.xml new file mode 100644 index 0000000..d2f0d57 --- /dev/null +++ b/timeseries_set/output00000047.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 2820.000000 + 47.097286 + 2019-08-30T19:48:55Z + 2019-08-30T19:48:55Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000047_microenvironment0.mat + + + + + + + + + output00000047_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000047_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000047_cells.mat b/timeseries_set/output00000047_cells.mat new file mode 100644 index 0000000..8b97be2 Binary files /dev/null and b/timeseries_set/output00000047_cells.mat differ diff --git a/timeseries_set/output00000047_cells_physicell.mat b/timeseries_set/output00000047_cells_physicell.mat new file mode 100644 index 0000000..d0b71ce Binary files /dev/null and b/timeseries_set/output00000047_cells_physicell.mat differ diff --git a/timeseries_set/output00000047_microenvironment0.mat b/timeseries_set/output00000047_microenvironment0.mat new file mode 100644 index 0000000..e03b752 Binary files /dev/null and b/timeseries_set/output00000047_microenvironment0.mat differ diff --git a/timeseries_set/output00000048.xml b/timeseries_set/output00000048.xml new file mode 100644 index 0000000..8c8d189 --- /dev/null +++ b/timeseries_set/output00000048.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 2880.000000 + 47.976250 + 2019-08-30T19:48:56Z + 2019-08-30T19:48:56Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000048_microenvironment0.mat + + + + + + + + + output00000048_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000048_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000048_cells.mat b/timeseries_set/output00000048_cells.mat new file mode 100644 index 0000000..1f61267 Binary files /dev/null and b/timeseries_set/output00000048_cells.mat differ diff --git a/timeseries_set/output00000048_cells_physicell.mat b/timeseries_set/output00000048_cells_physicell.mat new file mode 100644 index 0000000..ab7e8e8 Binary files /dev/null and b/timeseries_set/output00000048_cells_physicell.mat differ diff --git a/timeseries_set/output00000048_microenvironment0.mat b/timeseries_set/output00000048_microenvironment0.mat new file mode 100644 index 0000000..b739df8 Binary files /dev/null and b/timeseries_set/output00000048_microenvironment0.mat differ diff --git a/timeseries_set/output00000049.xml b/timeseries_set/output00000049.xml new file mode 100644 index 0000000..b94c144 --- /dev/null +++ b/timeseries_set/output00000049.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 2940.000000 + 48.874005 + 2019-08-30T19:48:57Z + 2019-08-30T19:48:57Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000049_microenvironment0.mat + + + + + + + + + output00000049_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000049_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000049_cells.mat b/timeseries_set/output00000049_cells.mat new file mode 100644 index 0000000..5aa4cc5 Binary files /dev/null and b/timeseries_set/output00000049_cells.mat differ diff --git a/timeseries_set/output00000049_cells_physicell.mat b/timeseries_set/output00000049_cells_physicell.mat new file mode 100644 index 0000000..f30a3a7 Binary files /dev/null and b/timeseries_set/output00000049_cells_physicell.mat differ diff --git a/timeseries_set/output00000049_microenvironment0.mat b/timeseries_set/output00000049_microenvironment0.mat new file mode 100644 index 0000000..caf6c46 Binary files /dev/null and b/timeseries_set/output00000049_microenvironment0.mat differ diff --git a/timeseries_set/output00000050.xml b/timeseries_set/output00000050.xml new file mode 100644 index 0000000..ef8a3e5 --- /dev/null +++ b/timeseries_set/output00000050.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 3000.000000 + 49.778471 + 2019-08-30T19:48:57Z + 2019-08-30T19:48:57Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000050_microenvironment0.mat + + + + + + + + + output00000050_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000050_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000050_cells.mat b/timeseries_set/output00000050_cells.mat new file mode 100644 index 0000000..b38dc19 Binary files /dev/null and b/timeseries_set/output00000050_cells.mat differ diff --git a/timeseries_set/output00000050_cells_physicell.mat b/timeseries_set/output00000050_cells_physicell.mat new file mode 100644 index 0000000..6e02653 Binary files /dev/null and b/timeseries_set/output00000050_cells_physicell.mat differ diff --git a/timeseries_set/output00000050_microenvironment0.mat b/timeseries_set/output00000050_microenvironment0.mat new file mode 100644 index 0000000..21a4c83 Binary files /dev/null and b/timeseries_set/output00000050_microenvironment0.mat differ diff --git a/timeseries_set/output00000051.xml b/timeseries_set/output00000051.xml new file mode 100644 index 0000000..d8f442b --- /dev/null +++ b/timeseries_set/output00000051.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 3060.000000 + 50.693398 + 2019-08-30T19:48:58Z + 2019-08-30T19:48:58Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000051_microenvironment0.mat + + + + + + + + + output00000051_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000051_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000051_cells.mat b/timeseries_set/output00000051_cells.mat new file mode 100644 index 0000000..b55e21b Binary files /dev/null and b/timeseries_set/output00000051_cells.mat differ diff --git a/timeseries_set/output00000051_cells_physicell.mat b/timeseries_set/output00000051_cells_physicell.mat new file mode 100644 index 0000000..287e2d8 Binary files /dev/null and b/timeseries_set/output00000051_cells_physicell.mat differ diff --git a/timeseries_set/output00000051_microenvironment0.mat b/timeseries_set/output00000051_microenvironment0.mat new file mode 100644 index 0000000..85abc01 Binary files /dev/null and b/timeseries_set/output00000051_microenvironment0.mat differ diff --git a/timeseries_set/output00000052.xml b/timeseries_set/output00000052.xml new file mode 100644 index 0000000..78409b1 --- /dev/null +++ b/timeseries_set/output00000052.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 3120.000000 + 51.601683 + 2019-08-30T19:48:59Z + 2019-08-30T19:48:59Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000052_microenvironment0.mat + + + + + + + + + output00000052_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000052_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000052_cells.mat b/timeseries_set/output00000052_cells.mat new file mode 100644 index 0000000..2560864 Binary files /dev/null and b/timeseries_set/output00000052_cells.mat differ diff --git a/timeseries_set/output00000052_cells_physicell.mat b/timeseries_set/output00000052_cells_physicell.mat new file mode 100644 index 0000000..530f347 Binary files /dev/null and b/timeseries_set/output00000052_cells_physicell.mat differ diff --git a/timeseries_set/output00000052_microenvironment0.mat b/timeseries_set/output00000052_microenvironment0.mat new file mode 100644 index 0000000..9670a01 Binary files /dev/null and b/timeseries_set/output00000052_microenvironment0.mat differ diff --git a/timeseries_set/output00000053.xml b/timeseries_set/output00000053.xml new file mode 100644 index 0000000..918310b --- /dev/null +++ b/timeseries_set/output00000053.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 3180.000000 + 52.514112 + 2019-08-30T19:49:00Z + 2019-08-30T19:49:00Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000053_microenvironment0.mat + + + + + + + + + output00000053_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000053_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000053_cells.mat b/timeseries_set/output00000053_cells.mat new file mode 100644 index 0000000..3abf5e7 Binary files /dev/null and b/timeseries_set/output00000053_cells.mat differ diff --git a/timeseries_set/output00000053_cells_physicell.mat b/timeseries_set/output00000053_cells_physicell.mat new file mode 100644 index 0000000..110132c Binary files /dev/null and b/timeseries_set/output00000053_cells_physicell.mat differ diff --git a/timeseries_set/output00000053_microenvironment0.mat b/timeseries_set/output00000053_microenvironment0.mat new file mode 100644 index 0000000..16c5b30 Binary files /dev/null and b/timeseries_set/output00000053_microenvironment0.mat differ diff --git a/timeseries_set/output00000054.xml b/timeseries_set/output00000054.xml new file mode 100644 index 0000000..3572f9b --- /dev/null +++ b/timeseries_set/output00000054.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 3240.000000 + 53.454756 + 2019-08-30T19:49:01Z + 2019-08-30T19:49:01Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000054_microenvironment0.mat + + + + + + + + + output00000054_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000054_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000054_cells.mat b/timeseries_set/output00000054_cells.mat new file mode 100644 index 0000000..2fdb541 Binary files /dev/null and b/timeseries_set/output00000054_cells.mat differ diff --git a/timeseries_set/output00000054_cells_physicell.mat b/timeseries_set/output00000054_cells_physicell.mat new file mode 100644 index 0000000..9aaf1b6 Binary files /dev/null and b/timeseries_set/output00000054_cells_physicell.mat differ diff --git a/timeseries_set/output00000054_microenvironment0.mat b/timeseries_set/output00000054_microenvironment0.mat new file mode 100644 index 0000000..ffc29b8 Binary files /dev/null and b/timeseries_set/output00000054_microenvironment0.mat differ diff --git a/timeseries_set/output00000055.xml b/timeseries_set/output00000055.xml new file mode 100644 index 0000000..b4726ed --- /dev/null +++ b/timeseries_set/output00000055.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 3300.000000 + 54.378665 + 2019-08-30T19:49:02Z + 2019-08-30T19:49:02Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000055_microenvironment0.mat + + + + + + + + + output00000055_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000055_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000055_cells.mat b/timeseries_set/output00000055_cells.mat new file mode 100644 index 0000000..318e77e Binary files /dev/null and b/timeseries_set/output00000055_cells.mat differ diff --git a/timeseries_set/output00000055_cells_physicell.mat b/timeseries_set/output00000055_cells_physicell.mat new file mode 100644 index 0000000..9148616 Binary files /dev/null and b/timeseries_set/output00000055_cells_physicell.mat differ diff --git a/timeseries_set/output00000055_microenvironment0.mat b/timeseries_set/output00000055_microenvironment0.mat new file mode 100644 index 0000000..48cef90 Binary files /dev/null and b/timeseries_set/output00000055_microenvironment0.mat differ diff --git a/timeseries_set/output00000056.xml b/timeseries_set/output00000056.xml new file mode 100644 index 0000000..6ee6605 --- /dev/null +++ b/timeseries_set/output00000056.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 3360.000000 + 55.305750 + 2019-08-30T19:49:03Z + 2019-08-30T19:49:03Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000056_microenvironment0.mat + + + + + + + + + output00000056_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000056_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000056_cells.mat b/timeseries_set/output00000056_cells.mat new file mode 100644 index 0000000..977e780 Binary files /dev/null and b/timeseries_set/output00000056_cells.mat differ diff --git a/timeseries_set/output00000056_cells_physicell.mat b/timeseries_set/output00000056_cells_physicell.mat new file mode 100644 index 0000000..065e355 Binary files /dev/null and b/timeseries_set/output00000056_cells_physicell.mat differ diff --git a/timeseries_set/output00000056_microenvironment0.mat b/timeseries_set/output00000056_microenvironment0.mat new file mode 100644 index 0000000..8ab90f2 Binary files /dev/null and b/timeseries_set/output00000056_microenvironment0.mat differ diff --git a/timeseries_set/output00000057.xml b/timeseries_set/output00000057.xml new file mode 100644 index 0000000..4e66131 --- /dev/null +++ b/timeseries_set/output00000057.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 3420.000000 + 56.232518 + 2019-08-30T19:49:04Z + 2019-08-30T19:49:04Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000057_microenvironment0.mat + + + + + + + + + output00000057_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000057_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000057_cells.mat b/timeseries_set/output00000057_cells.mat new file mode 100644 index 0000000..5a7c28a Binary files /dev/null and b/timeseries_set/output00000057_cells.mat differ diff --git a/timeseries_set/output00000057_cells_physicell.mat b/timeseries_set/output00000057_cells_physicell.mat new file mode 100644 index 0000000..50c35d5 Binary files /dev/null and b/timeseries_set/output00000057_cells_physicell.mat differ diff --git a/timeseries_set/output00000057_microenvironment0.mat b/timeseries_set/output00000057_microenvironment0.mat new file mode 100644 index 0000000..30b3ae2 Binary files /dev/null and b/timeseries_set/output00000057_microenvironment0.mat differ diff --git a/timeseries_set/output00000058.xml b/timeseries_set/output00000058.xml new file mode 100644 index 0000000..bed5d2d --- /dev/null +++ b/timeseries_set/output00000058.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 3480.000000 + 57.161220 + 2019-08-30T19:49:05Z + 2019-08-30T19:49:05Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000058_microenvironment0.mat + + + + + + + + + output00000058_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000058_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000058_cells.mat b/timeseries_set/output00000058_cells.mat new file mode 100644 index 0000000..9a75f2e Binary files /dev/null and b/timeseries_set/output00000058_cells.mat differ diff --git a/timeseries_set/output00000058_cells_physicell.mat b/timeseries_set/output00000058_cells_physicell.mat new file mode 100644 index 0000000..805ed27 Binary files /dev/null and b/timeseries_set/output00000058_cells_physicell.mat differ diff --git a/timeseries_set/output00000058_microenvironment0.mat b/timeseries_set/output00000058_microenvironment0.mat new file mode 100644 index 0000000..0e167b6 Binary files /dev/null and b/timeseries_set/output00000058_microenvironment0.mat differ diff --git a/timeseries_set/output00000059.xml b/timeseries_set/output00000059.xml new file mode 100644 index 0000000..937284a --- /dev/null +++ b/timeseries_set/output00000059.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 3540.000000 + 58.090264 + 2019-08-30T19:49:06Z + 2019-08-30T19:49:06Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000059_microenvironment0.mat + + + + + + + + + output00000059_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000059_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000059_cells.mat b/timeseries_set/output00000059_cells.mat new file mode 100644 index 0000000..cb7aa17 Binary files /dev/null and b/timeseries_set/output00000059_cells.mat differ diff --git a/timeseries_set/output00000059_cells_physicell.mat b/timeseries_set/output00000059_cells_physicell.mat new file mode 100644 index 0000000..30b6cd9 Binary files /dev/null and b/timeseries_set/output00000059_cells_physicell.mat differ diff --git a/timeseries_set/output00000059_microenvironment0.mat b/timeseries_set/output00000059_microenvironment0.mat new file mode 100644 index 0000000..851715a Binary files /dev/null and b/timeseries_set/output00000059_microenvironment0.mat differ diff --git a/timeseries_set/output00000060.xml b/timeseries_set/output00000060.xml new file mode 100644 index 0000000..e7f5482 --- /dev/null +++ b/timeseries_set/output00000060.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 3600.000000 + 59.021605 + 2019-08-30T19:49:07Z + 2019-08-30T19:49:07Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000060_microenvironment0.mat + + + + + + + + + output00000060_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000060_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000060_cells.mat b/timeseries_set/output00000060_cells.mat new file mode 100644 index 0000000..460e7e9 Binary files /dev/null and b/timeseries_set/output00000060_cells.mat differ diff --git a/timeseries_set/output00000060_cells_physicell.mat b/timeseries_set/output00000060_cells_physicell.mat new file mode 100644 index 0000000..898df67 Binary files /dev/null and b/timeseries_set/output00000060_cells_physicell.mat differ diff --git a/timeseries_set/output00000060_microenvironment0.mat b/timeseries_set/output00000060_microenvironment0.mat new file mode 100644 index 0000000..31106f7 Binary files /dev/null and b/timeseries_set/output00000060_microenvironment0.mat differ diff --git a/timeseries_set/output00000061.xml b/timeseries_set/output00000061.xml new file mode 100644 index 0000000..2b5500f --- /dev/null +++ b/timeseries_set/output00000061.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 3660.000000 + 59.956561 + 2019-08-30T19:49:08Z + 2019-08-30T19:49:08Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000061_microenvironment0.mat + + + + + + + + + output00000061_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000061_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000061_cells.mat b/timeseries_set/output00000061_cells.mat new file mode 100644 index 0000000..7fa9403 Binary files /dev/null and b/timeseries_set/output00000061_cells.mat differ diff --git a/timeseries_set/output00000061_cells_physicell.mat b/timeseries_set/output00000061_cells_physicell.mat new file mode 100644 index 0000000..b1c13fd Binary files /dev/null and b/timeseries_set/output00000061_cells_physicell.mat differ diff --git a/timeseries_set/output00000061_microenvironment0.mat b/timeseries_set/output00000061_microenvironment0.mat new file mode 100644 index 0000000..b62fdc7 Binary files /dev/null and b/timeseries_set/output00000061_microenvironment0.mat differ diff --git a/timeseries_set/output00000062.xml b/timeseries_set/output00000062.xml new file mode 100644 index 0000000..6ab2fca --- /dev/null +++ b/timeseries_set/output00000062.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 3720.000000 + 60.896879 + 2019-08-30T19:49:09Z + 2019-08-30T19:49:09Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000062_microenvironment0.mat + + + + + + + + + output00000062_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000062_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000062_cells.mat b/timeseries_set/output00000062_cells.mat new file mode 100644 index 0000000..42b0df6 Binary files /dev/null and b/timeseries_set/output00000062_cells.mat differ diff --git a/timeseries_set/output00000062_cells_physicell.mat b/timeseries_set/output00000062_cells_physicell.mat new file mode 100644 index 0000000..2a32ee0 Binary files /dev/null and b/timeseries_set/output00000062_cells_physicell.mat differ diff --git a/timeseries_set/output00000062_microenvironment0.mat b/timeseries_set/output00000062_microenvironment0.mat new file mode 100644 index 0000000..ace16a6 Binary files /dev/null and b/timeseries_set/output00000062_microenvironment0.mat differ diff --git a/timeseries_set/output00000063.xml b/timeseries_set/output00000063.xml new file mode 100644 index 0000000..0fe79b7 --- /dev/null +++ b/timeseries_set/output00000063.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 3780.000000 + 61.829876 + 2019-08-30T19:49:10Z + 2019-08-30T19:49:10Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000063_microenvironment0.mat + + + + + + + + + output00000063_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000063_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000063_cells.mat b/timeseries_set/output00000063_cells.mat new file mode 100644 index 0000000..0ddb61e Binary files /dev/null and b/timeseries_set/output00000063_cells.mat differ diff --git a/timeseries_set/output00000063_cells_physicell.mat b/timeseries_set/output00000063_cells_physicell.mat new file mode 100644 index 0000000..2cba16a Binary files /dev/null and b/timeseries_set/output00000063_cells_physicell.mat differ diff --git a/timeseries_set/output00000063_microenvironment0.mat b/timeseries_set/output00000063_microenvironment0.mat new file mode 100644 index 0000000..c8c89c5 Binary files /dev/null and b/timeseries_set/output00000063_microenvironment0.mat differ diff --git a/timeseries_set/output00000064.xml b/timeseries_set/output00000064.xml new file mode 100644 index 0000000..18a9ead --- /dev/null +++ b/timeseries_set/output00000064.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 3840.000000 + 62.778078 + 2019-08-30T19:49:10Z + 2019-08-30T19:49:10Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000064_microenvironment0.mat + + + + + + + + + output00000064_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000064_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000064_cells.mat b/timeseries_set/output00000064_cells.mat new file mode 100644 index 0000000..6f6f474 Binary files /dev/null and b/timeseries_set/output00000064_cells.mat differ diff --git a/timeseries_set/output00000064_cells_physicell.mat b/timeseries_set/output00000064_cells_physicell.mat new file mode 100644 index 0000000..6be07b5 Binary files /dev/null and b/timeseries_set/output00000064_cells_physicell.mat differ diff --git a/timeseries_set/output00000064_microenvironment0.mat b/timeseries_set/output00000064_microenvironment0.mat new file mode 100644 index 0000000..b2d5520 Binary files /dev/null and b/timeseries_set/output00000064_microenvironment0.mat differ diff --git a/timeseries_set/output00000065.xml b/timeseries_set/output00000065.xml new file mode 100644 index 0000000..e965600 --- /dev/null +++ b/timeseries_set/output00000065.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 3900.000000 + 63.729013 + 2019-08-30T19:49:11Z + 2019-08-30T19:49:11Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000065_microenvironment0.mat + + + + + + + + + output00000065_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000065_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000065_cells.mat b/timeseries_set/output00000065_cells.mat new file mode 100644 index 0000000..2278150 Binary files /dev/null and b/timeseries_set/output00000065_cells.mat differ diff --git a/timeseries_set/output00000065_cells_physicell.mat b/timeseries_set/output00000065_cells_physicell.mat new file mode 100644 index 0000000..21e0aeb Binary files /dev/null and b/timeseries_set/output00000065_cells_physicell.mat differ diff --git a/timeseries_set/output00000065_microenvironment0.mat b/timeseries_set/output00000065_microenvironment0.mat new file mode 100644 index 0000000..84df498 Binary files /dev/null and b/timeseries_set/output00000065_microenvironment0.mat differ diff --git a/timeseries_set/output00000066.xml b/timeseries_set/output00000066.xml new file mode 100644 index 0000000..b13445f --- /dev/null +++ b/timeseries_set/output00000066.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 3960.000000 + 64.685561 + 2019-08-30T19:49:12Z + 2019-08-30T19:49:12Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000066_microenvironment0.mat + + + + + + + + + output00000066_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000066_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000066_cells.mat b/timeseries_set/output00000066_cells.mat new file mode 100644 index 0000000..5194308 Binary files /dev/null and b/timeseries_set/output00000066_cells.mat differ diff --git a/timeseries_set/output00000066_cells_physicell.mat b/timeseries_set/output00000066_cells_physicell.mat new file mode 100644 index 0000000..e3e2da4 Binary files /dev/null and b/timeseries_set/output00000066_cells_physicell.mat differ diff --git a/timeseries_set/output00000066_microenvironment0.mat b/timeseries_set/output00000066_microenvironment0.mat new file mode 100644 index 0000000..8554870 Binary files /dev/null and b/timeseries_set/output00000066_microenvironment0.mat differ diff --git a/timeseries_set/output00000067.xml b/timeseries_set/output00000067.xml new file mode 100644 index 0000000..16fc2bf --- /dev/null +++ b/timeseries_set/output00000067.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 4020.000000 + 65.633208 + 2019-08-30T19:49:13Z + 2019-08-30T19:49:13Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000067_microenvironment0.mat + + + + + + + + + output00000067_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000067_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000067_cells.mat b/timeseries_set/output00000067_cells.mat new file mode 100644 index 0000000..d79a09d Binary files /dev/null and b/timeseries_set/output00000067_cells.mat differ diff --git a/timeseries_set/output00000067_cells_physicell.mat b/timeseries_set/output00000067_cells_physicell.mat new file mode 100644 index 0000000..4352264 Binary files /dev/null and b/timeseries_set/output00000067_cells_physicell.mat differ diff --git a/timeseries_set/output00000067_microenvironment0.mat b/timeseries_set/output00000067_microenvironment0.mat new file mode 100644 index 0000000..25741ed Binary files /dev/null and b/timeseries_set/output00000067_microenvironment0.mat differ diff --git a/timeseries_set/output00000068.xml b/timeseries_set/output00000068.xml new file mode 100644 index 0000000..0d44b49 --- /dev/null +++ b/timeseries_set/output00000068.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 4080.000000 + 66.593176 + 2019-08-30T19:49:14Z + 2019-08-30T19:49:14Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000068_microenvironment0.mat + + + + + + + + + output00000068_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000068_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000068_cells.mat b/timeseries_set/output00000068_cells.mat new file mode 100644 index 0000000..e1fd59e Binary files /dev/null and b/timeseries_set/output00000068_cells.mat differ diff --git a/timeseries_set/output00000068_cells_physicell.mat b/timeseries_set/output00000068_cells_physicell.mat new file mode 100644 index 0000000..b4b064b Binary files /dev/null and b/timeseries_set/output00000068_cells_physicell.mat differ diff --git a/timeseries_set/output00000068_microenvironment0.mat b/timeseries_set/output00000068_microenvironment0.mat new file mode 100644 index 0000000..8c3895a Binary files /dev/null and b/timeseries_set/output00000068_microenvironment0.mat differ diff --git a/timeseries_set/output00000069.xml b/timeseries_set/output00000069.xml new file mode 100644 index 0000000..d3ffa65 --- /dev/null +++ b/timeseries_set/output00000069.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 4140.000000 + 67.546722 + 2019-08-30T19:49:15Z + 2019-08-30T19:49:15Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000069_microenvironment0.mat + + + + + + + + + output00000069_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000069_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000069_cells.mat b/timeseries_set/output00000069_cells.mat new file mode 100644 index 0000000..8316105 Binary files /dev/null and b/timeseries_set/output00000069_cells.mat differ diff --git a/timeseries_set/output00000069_cells_physicell.mat b/timeseries_set/output00000069_cells_physicell.mat new file mode 100644 index 0000000..20e4292 Binary files /dev/null and b/timeseries_set/output00000069_cells_physicell.mat differ diff --git a/timeseries_set/output00000069_microenvironment0.mat b/timeseries_set/output00000069_microenvironment0.mat new file mode 100644 index 0000000..118ba08 Binary files /dev/null and b/timeseries_set/output00000069_microenvironment0.mat differ diff --git a/timeseries_set/output00000070.xml b/timeseries_set/output00000070.xml new file mode 100644 index 0000000..6b39903 --- /dev/null +++ b/timeseries_set/output00000070.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 4200.000000 + 68.524022 + 2019-08-30T19:49:16Z + 2019-08-30T19:49:16Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000070_microenvironment0.mat + + + + + + + + + output00000070_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000070_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000070_cells.mat b/timeseries_set/output00000070_cells.mat new file mode 100644 index 0000000..b0d62ae Binary files /dev/null and b/timeseries_set/output00000070_cells.mat differ diff --git a/timeseries_set/output00000070_cells_physicell.mat b/timeseries_set/output00000070_cells_physicell.mat new file mode 100644 index 0000000..94becfe Binary files /dev/null and b/timeseries_set/output00000070_cells_physicell.mat differ diff --git a/timeseries_set/output00000070_microenvironment0.mat b/timeseries_set/output00000070_microenvironment0.mat new file mode 100644 index 0000000..a5e854f Binary files /dev/null and b/timeseries_set/output00000070_microenvironment0.mat differ diff --git a/timeseries_set/output00000071.xml b/timeseries_set/output00000071.xml new file mode 100644 index 0000000..a6e84d9 --- /dev/null +++ b/timeseries_set/output00000071.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 4260.000000 + 69.499203 + 2019-08-30T19:49:17Z + 2019-08-30T19:49:17Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000071_microenvironment0.mat + + + + + + + + + output00000071_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000071_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000071_cells.mat b/timeseries_set/output00000071_cells.mat new file mode 100644 index 0000000..0eee5f8 Binary files /dev/null and b/timeseries_set/output00000071_cells.mat differ diff --git a/timeseries_set/output00000071_cells_physicell.mat b/timeseries_set/output00000071_cells_physicell.mat new file mode 100644 index 0000000..df92be1 Binary files /dev/null and b/timeseries_set/output00000071_cells_physicell.mat differ diff --git a/timeseries_set/output00000071_microenvironment0.mat b/timeseries_set/output00000071_microenvironment0.mat new file mode 100644 index 0000000..08f924d Binary files /dev/null and b/timeseries_set/output00000071_microenvironment0.mat differ diff --git a/timeseries_set/output00000072.xml b/timeseries_set/output00000072.xml new file mode 100644 index 0000000..e4dbe75 --- /dev/null +++ b/timeseries_set/output00000072.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 4320.000000 + 70.539921 + 2019-08-30T19:49:18Z + 2019-08-30T19:49:18Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000072_microenvironment0.mat + + + + + + + + + output00000072_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000072_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000072_cells.mat b/timeseries_set/output00000072_cells.mat new file mode 100644 index 0000000..e54df54 Binary files /dev/null and b/timeseries_set/output00000072_cells.mat differ diff --git a/timeseries_set/output00000072_cells_physicell.mat b/timeseries_set/output00000072_cells_physicell.mat new file mode 100644 index 0000000..4b63cb2 Binary files /dev/null and b/timeseries_set/output00000072_cells_physicell.mat differ diff --git a/timeseries_set/output00000072_microenvironment0.mat b/timeseries_set/output00000072_microenvironment0.mat new file mode 100644 index 0000000..fbc99c4 Binary files /dev/null and b/timeseries_set/output00000072_microenvironment0.mat differ diff --git a/timeseries_set/output00000073.xml b/timeseries_set/output00000073.xml new file mode 100644 index 0000000..939960b --- /dev/null +++ b/timeseries_set/output00000073.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 4380.000000 + 71.524075 + 2019-08-30T19:49:19Z + 2019-08-30T19:49:19Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000073_microenvironment0.mat + + + + + + + + + output00000073_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000073_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000073_cells.mat b/timeseries_set/output00000073_cells.mat new file mode 100644 index 0000000..a0d42ab Binary files /dev/null and b/timeseries_set/output00000073_cells.mat differ diff --git a/timeseries_set/output00000073_cells_physicell.mat b/timeseries_set/output00000073_cells_physicell.mat new file mode 100644 index 0000000..e32ed10 Binary files /dev/null and b/timeseries_set/output00000073_cells_physicell.mat differ diff --git a/timeseries_set/output00000073_microenvironment0.mat b/timeseries_set/output00000073_microenvironment0.mat new file mode 100644 index 0000000..7ffddb2 Binary files /dev/null and b/timeseries_set/output00000073_microenvironment0.mat differ diff --git a/timeseries_set/output00000074.xml b/timeseries_set/output00000074.xml new file mode 100644 index 0000000..8bd1069 --- /dev/null +++ b/timeseries_set/output00000074.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 4440.000000 + 72.504903 + 2019-08-30T19:49:20Z + 2019-08-30T19:49:20Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000074_microenvironment0.mat + + + + + + + + + output00000074_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000074_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000074_cells.mat b/timeseries_set/output00000074_cells.mat new file mode 100644 index 0000000..e11ee69 Binary files /dev/null and b/timeseries_set/output00000074_cells.mat differ diff --git a/timeseries_set/output00000074_cells_physicell.mat b/timeseries_set/output00000074_cells_physicell.mat new file mode 100644 index 0000000..8047926 Binary files /dev/null and b/timeseries_set/output00000074_cells_physicell.mat differ diff --git a/timeseries_set/output00000074_microenvironment0.mat b/timeseries_set/output00000074_microenvironment0.mat new file mode 100644 index 0000000..0ecfa18 Binary files /dev/null and b/timeseries_set/output00000074_microenvironment0.mat differ diff --git a/timeseries_set/output00000075.xml b/timeseries_set/output00000075.xml new file mode 100644 index 0000000..76f8ce6 --- /dev/null +++ b/timeseries_set/output00000075.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 4500.000000 + 73.494637 + 2019-08-30T19:49:21Z + 2019-08-30T19:49:21Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000075_microenvironment0.mat + + + + + + + + + output00000075_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000075_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000075_cells.mat b/timeseries_set/output00000075_cells.mat new file mode 100644 index 0000000..fc718bf Binary files /dev/null and b/timeseries_set/output00000075_cells.mat differ diff --git a/timeseries_set/output00000075_cells_physicell.mat b/timeseries_set/output00000075_cells_physicell.mat new file mode 100644 index 0000000..29faf1d Binary files /dev/null and b/timeseries_set/output00000075_cells_physicell.mat differ diff --git a/timeseries_set/output00000075_microenvironment0.mat b/timeseries_set/output00000075_microenvironment0.mat new file mode 100644 index 0000000..46c71bc Binary files /dev/null and b/timeseries_set/output00000075_microenvironment0.mat differ diff --git a/timeseries_set/output00000076.xml b/timeseries_set/output00000076.xml new file mode 100644 index 0000000..819f9ec --- /dev/null +++ b/timeseries_set/output00000076.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 4560.000000 + 74.492929 + 2019-08-30T19:49:22Z + 2019-08-30T19:49:22Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000076_microenvironment0.mat + + + + + + + + + output00000076_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000076_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000076_cells.mat b/timeseries_set/output00000076_cells.mat new file mode 100644 index 0000000..0769587 Binary files /dev/null and b/timeseries_set/output00000076_cells.mat differ diff --git a/timeseries_set/output00000076_cells_physicell.mat b/timeseries_set/output00000076_cells_physicell.mat new file mode 100644 index 0000000..4594537 Binary files /dev/null and b/timeseries_set/output00000076_cells_physicell.mat differ diff --git a/timeseries_set/output00000076_microenvironment0.mat b/timeseries_set/output00000076_microenvironment0.mat new file mode 100644 index 0000000..708f9a9 Binary files /dev/null and b/timeseries_set/output00000076_microenvironment0.mat differ diff --git a/timeseries_set/output00000077.xml b/timeseries_set/output00000077.xml new file mode 100644 index 0000000..9ac847c --- /dev/null +++ b/timeseries_set/output00000077.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 4620.000000 + 75.476328 + 2019-08-30T19:49:23Z + 2019-08-30T19:49:23Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000077_microenvironment0.mat + + + + + + + + + output00000077_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000077_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000077_cells.mat b/timeseries_set/output00000077_cells.mat new file mode 100644 index 0000000..ab03d37 Binary files /dev/null and b/timeseries_set/output00000077_cells.mat differ diff --git a/timeseries_set/output00000077_cells_physicell.mat b/timeseries_set/output00000077_cells_physicell.mat new file mode 100644 index 0000000..85095e4 Binary files /dev/null and b/timeseries_set/output00000077_cells_physicell.mat differ diff --git a/timeseries_set/output00000077_microenvironment0.mat b/timeseries_set/output00000077_microenvironment0.mat new file mode 100644 index 0000000..4f6e2c8 Binary files /dev/null and b/timeseries_set/output00000077_microenvironment0.mat differ diff --git a/timeseries_set/output00000078.xml b/timeseries_set/output00000078.xml new file mode 100644 index 0000000..7539f77 --- /dev/null +++ b/timeseries_set/output00000078.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 4680.000000 + 76.482312 + 2019-08-30T19:49:24Z + 2019-08-30T19:49:24Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000078_microenvironment0.mat + + + + + + + + + output00000078_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000078_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000078_cells.mat b/timeseries_set/output00000078_cells.mat new file mode 100644 index 0000000..e8f4fdc Binary files /dev/null and b/timeseries_set/output00000078_cells.mat differ diff --git a/timeseries_set/output00000078_cells_physicell.mat b/timeseries_set/output00000078_cells_physicell.mat new file mode 100644 index 0000000..8546e7c Binary files /dev/null and b/timeseries_set/output00000078_cells_physicell.mat differ diff --git a/timeseries_set/output00000078_microenvironment0.mat b/timeseries_set/output00000078_microenvironment0.mat new file mode 100644 index 0000000..b85e331 Binary files /dev/null and b/timeseries_set/output00000078_microenvironment0.mat differ diff --git a/timeseries_set/output00000079.xml b/timeseries_set/output00000079.xml new file mode 100644 index 0000000..995ab64 --- /dev/null +++ b/timeseries_set/output00000079.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 4740.000000 + 77.489238 + 2019-08-30T19:49:25Z + 2019-08-30T19:49:25Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000079_microenvironment0.mat + + + + + + + + + output00000079_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000079_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000079_cells.mat b/timeseries_set/output00000079_cells.mat new file mode 100644 index 0000000..d0be5f9 Binary files /dev/null and b/timeseries_set/output00000079_cells.mat differ diff --git a/timeseries_set/output00000079_cells_physicell.mat b/timeseries_set/output00000079_cells_physicell.mat new file mode 100644 index 0000000..2acd45f Binary files /dev/null and b/timeseries_set/output00000079_cells_physicell.mat differ diff --git a/timeseries_set/output00000079_microenvironment0.mat b/timeseries_set/output00000079_microenvironment0.mat new file mode 100644 index 0000000..cb2283c Binary files /dev/null and b/timeseries_set/output00000079_microenvironment0.mat differ diff --git a/timeseries_set/output00000080.xml b/timeseries_set/output00000080.xml new file mode 100644 index 0000000..2a1a2fa --- /dev/null +++ b/timeseries_set/output00000080.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 4800.000000 + 78.479059 + 2019-08-30T19:49:26Z + 2019-08-30T19:49:26Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000080_microenvironment0.mat + + + + + + + + + output00000080_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000080_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000080_cells.mat b/timeseries_set/output00000080_cells.mat new file mode 100644 index 0000000..af5943c Binary files /dev/null and b/timeseries_set/output00000080_cells.mat differ diff --git a/timeseries_set/output00000080_cells_physicell.mat b/timeseries_set/output00000080_cells_physicell.mat new file mode 100644 index 0000000..bae8e43 Binary files /dev/null and b/timeseries_set/output00000080_cells_physicell.mat differ diff --git a/timeseries_set/output00000080_microenvironment0.mat b/timeseries_set/output00000080_microenvironment0.mat new file mode 100644 index 0000000..b2bf2ca Binary files /dev/null and b/timeseries_set/output00000080_microenvironment0.mat differ diff --git a/timeseries_set/output00000081.xml b/timeseries_set/output00000081.xml new file mode 100644 index 0000000..55e265d --- /dev/null +++ b/timeseries_set/output00000081.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 4860.000000 + 79.494480 + 2019-08-30T19:49:27Z + 2019-08-30T19:49:27Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000081_microenvironment0.mat + + + + + + + + + output00000081_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000081_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000081_cells.mat b/timeseries_set/output00000081_cells.mat new file mode 100644 index 0000000..e6f8846 Binary files /dev/null and b/timeseries_set/output00000081_cells.mat differ diff --git a/timeseries_set/output00000081_cells_physicell.mat b/timeseries_set/output00000081_cells_physicell.mat new file mode 100644 index 0000000..a6dca91 Binary files /dev/null and b/timeseries_set/output00000081_cells_physicell.mat differ diff --git a/timeseries_set/output00000081_microenvironment0.mat b/timeseries_set/output00000081_microenvironment0.mat new file mode 100644 index 0000000..310a827 Binary files /dev/null and b/timeseries_set/output00000081_microenvironment0.mat differ diff --git a/timeseries_set/output00000082.xml b/timeseries_set/output00000082.xml new file mode 100644 index 0000000..0a22609 --- /dev/null +++ b/timeseries_set/output00000082.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 4920.000000 + 80.499311 + 2019-08-30T19:49:28Z + 2019-08-30T19:49:28Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000082_microenvironment0.mat + + + + + + + + + output00000082_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000082_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000082_cells.mat b/timeseries_set/output00000082_cells.mat new file mode 100644 index 0000000..edb2917 Binary files /dev/null and b/timeseries_set/output00000082_cells.mat differ diff --git a/timeseries_set/output00000082_cells_physicell.mat b/timeseries_set/output00000082_cells_physicell.mat new file mode 100644 index 0000000..403e29f Binary files /dev/null and b/timeseries_set/output00000082_cells_physicell.mat differ diff --git a/timeseries_set/output00000082_microenvironment0.mat b/timeseries_set/output00000082_microenvironment0.mat new file mode 100644 index 0000000..3dec9c2 Binary files /dev/null and b/timeseries_set/output00000082_microenvironment0.mat differ diff --git a/timeseries_set/output00000083.xml b/timeseries_set/output00000083.xml new file mode 100644 index 0000000..2c8a62a --- /dev/null +++ b/timeseries_set/output00000083.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 4980.000000 + 81.523922 + 2019-08-30T19:49:29Z + 2019-08-30T19:49:29Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000083_microenvironment0.mat + + + + + + + + + output00000083_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000083_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000083_cells.mat b/timeseries_set/output00000083_cells.mat new file mode 100644 index 0000000..89bf4ba Binary files /dev/null and b/timeseries_set/output00000083_cells.mat differ diff --git a/timeseries_set/output00000083_cells_physicell.mat b/timeseries_set/output00000083_cells_physicell.mat new file mode 100644 index 0000000..0710c5a Binary files /dev/null and b/timeseries_set/output00000083_cells_physicell.mat differ diff --git a/timeseries_set/output00000083_microenvironment0.mat b/timeseries_set/output00000083_microenvironment0.mat new file mode 100644 index 0000000..9243be8 Binary files /dev/null and b/timeseries_set/output00000083_microenvironment0.mat differ diff --git a/timeseries_set/output00000084.xml b/timeseries_set/output00000084.xml new file mode 100644 index 0000000..212566e --- /dev/null +++ b/timeseries_set/output00000084.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 5040.000000 + 82.554279 + 2019-08-30T19:49:30Z + 2019-08-30T19:49:30Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000084_microenvironment0.mat + + + + + + + + + output00000084_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000084_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000084_cells.mat b/timeseries_set/output00000084_cells.mat new file mode 100644 index 0000000..f5172d3 Binary files /dev/null and b/timeseries_set/output00000084_cells.mat differ diff --git a/timeseries_set/output00000084_cells_physicell.mat b/timeseries_set/output00000084_cells_physicell.mat new file mode 100644 index 0000000..2de813a Binary files /dev/null and b/timeseries_set/output00000084_cells_physicell.mat differ diff --git a/timeseries_set/output00000084_microenvironment0.mat b/timeseries_set/output00000084_microenvironment0.mat new file mode 100644 index 0000000..1ea39fa Binary files /dev/null and b/timeseries_set/output00000084_microenvironment0.mat differ diff --git a/timeseries_set/output00000085.xml b/timeseries_set/output00000085.xml new file mode 100644 index 0000000..cc7f2ef --- /dev/null +++ b/timeseries_set/output00000085.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 5100.000000 + 83.567615 + 2019-08-30T19:49:31Z + 2019-08-30T19:49:31Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000085_microenvironment0.mat + + + + + + + + + output00000085_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000085_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000085_cells.mat b/timeseries_set/output00000085_cells.mat new file mode 100644 index 0000000..fbdcb71 Binary files /dev/null and b/timeseries_set/output00000085_cells.mat differ diff --git a/timeseries_set/output00000085_cells_physicell.mat b/timeseries_set/output00000085_cells_physicell.mat new file mode 100644 index 0000000..e501e8d Binary files /dev/null and b/timeseries_set/output00000085_cells_physicell.mat differ diff --git a/timeseries_set/output00000085_microenvironment0.mat b/timeseries_set/output00000085_microenvironment0.mat new file mode 100644 index 0000000..a7ff410 Binary files /dev/null and b/timeseries_set/output00000085_microenvironment0.mat differ diff --git a/timeseries_set/output00000086.xml b/timeseries_set/output00000086.xml new file mode 100644 index 0000000..de15ef1 --- /dev/null +++ b/timeseries_set/output00000086.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 5160.000000 + 84.608408 + 2019-08-30T19:49:32Z + 2019-08-30T19:49:32Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000086_microenvironment0.mat + + + + + + + + + output00000086_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000086_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000086_cells.mat b/timeseries_set/output00000086_cells.mat new file mode 100644 index 0000000..816bd04 Binary files /dev/null and b/timeseries_set/output00000086_cells.mat differ diff --git a/timeseries_set/output00000086_cells_physicell.mat b/timeseries_set/output00000086_cells_physicell.mat new file mode 100644 index 0000000..f542047 Binary files /dev/null and b/timeseries_set/output00000086_cells_physicell.mat differ diff --git a/timeseries_set/output00000086_microenvironment0.mat b/timeseries_set/output00000086_microenvironment0.mat new file mode 100644 index 0000000..9b26964 Binary files /dev/null and b/timeseries_set/output00000086_microenvironment0.mat differ diff --git a/timeseries_set/output00000087.xml b/timeseries_set/output00000087.xml new file mode 100644 index 0000000..f052759 --- /dev/null +++ b/timeseries_set/output00000087.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 5220.000000 + 85.651495 + 2019-08-30T19:49:33Z + 2019-08-30T19:49:33Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000087_microenvironment0.mat + + + + + + + + + output00000087_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000087_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000087_cells.mat b/timeseries_set/output00000087_cells.mat new file mode 100644 index 0000000..7e28551 Binary files /dev/null and b/timeseries_set/output00000087_cells.mat differ diff --git a/timeseries_set/output00000087_cells_physicell.mat b/timeseries_set/output00000087_cells_physicell.mat new file mode 100644 index 0000000..22d8693 Binary files /dev/null and b/timeseries_set/output00000087_cells_physicell.mat differ diff --git a/timeseries_set/output00000087_microenvironment0.mat b/timeseries_set/output00000087_microenvironment0.mat new file mode 100644 index 0000000..99295d0 Binary files /dev/null and b/timeseries_set/output00000087_microenvironment0.mat differ diff --git a/timeseries_set/output00000088.xml b/timeseries_set/output00000088.xml new file mode 100644 index 0000000..c7747b8 --- /dev/null +++ b/timeseries_set/output00000088.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 5280.000000 + 86.696159 + 2019-08-30T19:49:34Z + 2019-08-30T19:49:34Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000088_microenvironment0.mat + + + + + + + + + output00000088_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000088_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000088_cells.mat b/timeseries_set/output00000088_cells.mat new file mode 100644 index 0000000..1d99eda Binary files /dev/null and b/timeseries_set/output00000088_cells.mat differ diff --git a/timeseries_set/output00000088_cells_physicell.mat b/timeseries_set/output00000088_cells_physicell.mat new file mode 100644 index 0000000..7247ba2 Binary files /dev/null and b/timeseries_set/output00000088_cells_physicell.mat differ diff --git a/timeseries_set/output00000088_microenvironment0.mat b/timeseries_set/output00000088_microenvironment0.mat new file mode 100644 index 0000000..78ca84f Binary files /dev/null and b/timeseries_set/output00000088_microenvironment0.mat differ diff --git a/timeseries_set/output00000089.xml b/timeseries_set/output00000089.xml new file mode 100644 index 0000000..c073c9f --- /dev/null +++ b/timeseries_set/output00000089.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 5340.000000 + 87.755786 + 2019-08-30T19:49:35Z + 2019-08-30T19:49:35Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000089_microenvironment0.mat + + + + + + + + + output00000089_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000089_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000089_cells.mat b/timeseries_set/output00000089_cells.mat new file mode 100644 index 0000000..579e530 Binary files /dev/null and b/timeseries_set/output00000089_cells.mat differ diff --git a/timeseries_set/output00000089_cells_physicell.mat b/timeseries_set/output00000089_cells_physicell.mat new file mode 100644 index 0000000..280657b Binary files /dev/null and b/timeseries_set/output00000089_cells_physicell.mat differ diff --git a/timeseries_set/output00000089_microenvironment0.mat b/timeseries_set/output00000089_microenvironment0.mat new file mode 100644 index 0000000..d067d9e Binary files /dev/null and b/timeseries_set/output00000089_microenvironment0.mat differ diff --git a/timeseries_set/output00000090.xml b/timeseries_set/output00000090.xml new file mode 100644 index 0000000..4748fa8 --- /dev/null +++ b/timeseries_set/output00000090.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 5400.000000 + 88.798083 + 2019-08-30T19:49:37Z + 2019-08-30T19:49:37Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000090_microenvironment0.mat + + + + + + + + + output00000090_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000090_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000090_cells.mat b/timeseries_set/output00000090_cells.mat new file mode 100644 index 0000000..836cb44 Binary files /dev/null and b/timeseries_set/output00000090_cells.mat differ diff --git a/timeseries_set/output00000090_cells_physicell.mat b/timeseries_set/output00000090_cells_physicell.mat new file mode 100644 index 0000000..f5e3b3a Binary files /dev/null and b/timeseries_set/output00000090_cells_physicell.mat differ diff --git a/timeseries_set/output00000090_microenvironment0.mat b/timeseries_set/output00000090_microenvironment0.mat new file mode 100644 index 0000000..93634be Binary files /dev/null and b/timeseries_set/output00000090_microenvironment0.mat differ diff --git a/timeseries_set/output00000091.xml b/timeseries_set/output00000091.xml new file mode 100644 index 0000000..1d3f8ca --- /dev/null +++ b/timeseries_set/output00000091.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 5460.000000 + 89.843181 + 2019-08-30T19:49:38Z + 2019-08-30T19:49:38Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000091_microenvironment0.mat + + + + + + + + + output00000091_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000091_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000091_cells.mat b/timeseries_set/output00000091_cells.mat new file mode 100644 index 0000000..91d3ce8 Binary files /dev/null and b/timeseries_set/output00000091_cells.mat differ diff --git a/timeseries_set/output00000091_cells_physicell.mat b/timeseries_set/output00000091_cells_physicell.mat new file mode 100644 index 0000000..2297e6b Binary files /dev/null and b/timeseries_set/output00000091_cells_physicell.mat differ diff --git a/timeseries_set/output00000091_microenvironment0.mat b/timeseries_set/output00000091_microenvironment0.mat new file mode 100644 index 0000000..7925c48 Binary files /dev/null and b/timeseries_set/output00000091_microenvironment0.mat differ diff --git a/timeseries_set/output00000092.xml b/timeseries_set/output00000092.xml new file mode 100644 index 0000000..b37895c --- /dev/null +++ b/timeseries_set/output00000092.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 5520.000000 + 90.894552 + 2019-08-30T19:49:39Z + 2019-08-30T19:49:39Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000092_microenvironment0.mat + + + + + + + + + output00000092_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000092_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000092_cells.mat b/timeseries_set/output00000092_cells.mat new file mode 100644 index 0000000..dd94991 Binary files /dev/null and b/timeseries_set/output00000092_cells.mat differ diff --git a/timeseries_set/output00000092_cells_physicell.mat b/timeseries_set/output00000092_cells_physicell.mat new file mode 100644 index 0000000..f5083c9 Binary files /dev/null and b/timeseries_set/output00000092_cells_physicell.mat differ diff --git a/timeseries_set/output00000092_microenvironment0.mat b/timeseries_set/output00000092_microenvironment0.mat new file mode 100644 index 0000000..2226fae Binary files /dev/null and b/timeseries_set/output00000092_microenvironment0.mat differ diff --git a/timeseries_set/output00000093.xml b/timeseries_set/output00000093.xml new file mode 100644 index 0000000..32dbe34 --- /dev/null +++ b/timeseries_set/output00000093.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 5580.000000 + 91.935500 + 2019-08-30T19:49:40Z + 2019-08-30T19:49:40Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000093_microenvironment0.mat + + + + + + + + + output00000093_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000093_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000093_cells.mat b/timeseries_set/output00000093_cells.mat new file mode 100644 index 0000000..ac663d1 Binary files /dev/null and b/timeseries_set/output00000093_cells.mat differ diff --git a/timeseries_set/output00000093_cells_physicell.mat b/timeseries_set/output00000093_cells_physicell.mat new file mode 100644 index 0000000..52b9e69 Binary files /dev/null and b/timeseries_set/output00000093_cells_physicell.mat differ diff --git a/timeseries_set/output00000093_microenvironment0.mat b/timeseries_set/output00000093_microenvironment0.mat new file mode 100644 index 0000000..cc28126 Binary files /dev/null and b/timeseries_set/output00000093_microenvironment0.mat differ diff --git a/timeseries_set/output00000094.xml b/timeseries_set/output00000094.xml new file mode 100644 index 0000000..6dca745 --- /dev/null +++ b/timeseries_set/output00000094.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 5640.000000 + 92.974341 + 2019-08-30T19:49:41Z + 2019-08-30T19:49:41Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000094_microenvironment0.mat + + + + + + + + + output00000094_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000094_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000094_cells.mat b/timeseries_set/output00000094_cells.mat new file mode 100644 index 0000000..bad7a59 Binary files /dev/null and b/timeseries_set/output00000094_cells.mat differ diff --git a/timeseries_set/output00000094_cells_physicell.mat b/timeseries_set/output00000094_cells_physicell.mat new file mode 100644 index 0000000..d13c5f6 Binary files /dev/null and b/timeseries_set/output00000094_cells_physicell.mat differ diff --git a/timeseries_set/output00000094_microenvironment0.mat b/timeseries_set/output00000094_microenvironment0.mat new file mode 100644 index 0000000..ebece7a Binary files /dev/null and b/timeseries_set/output00000094_microenvironment0.mat differ diff --git a/timeseries_set/output00000095.xml b/timeseries_set/output00000095.xml new file mode 100644 index 0000000..03a83eb --- /dev/null +++ b/timeseries_set/output00000095.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 5700.000000 + 94.014903 + 2019-08-30T19:49:42Z + 2019-08-30T19:49:42Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000095_microenvironment0.mat + + + + + + + + + output00000095_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000095_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000095_cells.mat b/timeseries_set/output00000095_cells.mat new file mode 100644 index 0000000..f768970 Binary files /dev/null and b/timeseries_set/output00000095_cells.mat differ diff --git a/timeseries_set/output00000095_cells_physicell.mat b/timeseries_set/output00000095_cells_physicell.mat new file mode 100644 index 0000000..5c64937 Binary files /dev/null and b/timeseries_set/output00000095_cells_physicell.mat differ diff --git a/timeseries_set/output00000095_microenvironment0.mat b/timeseries_set/output00000095_microenvironment0.mat new file mode 100644 index 0000000..5c91e32 Binary files /dev/null and b/timeseries_set/output00000095_microenvironment0.mat differ diff --git a/timeseries_set/output00000096.xml b/timeseries_set/output00000096.xml new file mode 100644 index 0000000..6119566 --- /dev/null +++ b/timeseries_set/output00000096.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 5760.000000 + 95.078017 + 2019-08-30T19:49:43Z + 2019-08-30T19:49:43Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000096_microenvironment0.mat + + + + + + + + + output00000096_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000096_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000096_cells.mat b/timeseries_set/output00000096_cells.mat new file mode 100644 index 0000000..b8de232 Binary files /dev/null and b/timeseries_set/output00000096_cells.mat differ diff --git a/timeseries_set/output00000096_cells_physicell.mat b/timeseries_set/output00000096_cells_physicell.mat new file mode 100644 index 0000000..20744ee Binary files /dev/null and b/timeseries_set/output00000096_cells_physicell.mat differ diff --git a/timeseries_set/output00000096_microenvironment0.mat b/timeseries_set/output00000096_microenvironment0.mat new file mode 100644 index 0000000..52b38db Binary files /dev/null and b/timeseries_set/output00000096_microenvironment0.mat differ diff --git a/timeseries_set/output00000097.xml b/timeseries_set/output00000097.xml new file mode 100644 index 0000000..d4548b5 --- /dev/null +++ b/timeseries_set/output00000097.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 5820.000000 + 96.140427 + 2019-08-30T19:49:44Z + 2019-08-30T19:49:44Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000097_microenvironment0.mat + + + + + + + + + output00000097_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000097_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000097_cells.mat b/timeseries_set/output00000097_cells.mat new file mode 100644 index 0000000..f816a0d Binary files /dev/null and b/timeseries_set/output00000097_cells.mat differ diff --git a/timeseries_set/output00000097_cells_physicell.mat b/timeseries_set/output00000097_cells_physicell.mat new file mode 100644 index 0000000..5e29f17 Binary files /dev/null and b/timeseries_set/output00000097_cells_physicell.mat differ diff --git a/timeseries_set/output00000097_microenvironment0.mat b/timeseries_set/output00000097_microenvironment0.mat new file mode 100644 index 0000000..49074a6 Binary files /dev/null and b/timeseries_set/output00000097_microenvironment0.mat differ diff --git a/timeseries_set/output00000098.xml b/timeseries_set/output00000098.xml new file mode 100644 index 0000000..691b89d --- /dev/null +++ b/timeseries_set/output00000098.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 5880.000000 + 97.207759 + 2019-08-30T19:49:45Z + 2019-08-30T19:49:45Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000098_microenvironment0.mat + + + + + + + + + output00000098_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000098_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000098_cells.mat b/timeseries_set/output00000098_cells.mat new file mode 100644 index 0000000..c459683 Binary files /dev/null and b/timeseries_set/output00000098_cells.mat differ diff --git a/timeseries_set/output00000098_cells_physicell.mat b/timeseries_set/output00000098_cells_physicell.mat new file mode 100644 index 0000000..9a84b8f Binary files /dev/null and b/timeseries_set/output00000098_cells_physicell.mat differ diff --git a/timeseries_set/output00000098_microenvironment0.mat b/timeseries_set/output00000098_microenvironment0.mat new file mode 100644 index 0000000..17ab421 Binary files /dev/null and b/timeseries_set/output00000098_microenvironment0.mat differ diff --git a/timeseries_set/output00000099.xml b/timeseries_set/output00000099.xml new file mode 100644 index 0000000..d4802e6 --- /dev/null +++ b/timeseries_set/output00000099.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 5940.000000 + 98.291814 + 2019-08-30T19:49:46Z + 2019-08-30T19:49:46Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000099_microenvironment0.mat + + + + + + + + + output00000099_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000099_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000099_cells.mat b/timeseries_set/output00000099_cells.mat new file mode 100644 index 0000000..c48a5df Binary files /dev/null and b/timeseries_set/output00000099_cells.mat differ diff --git a/timeseries_set/output00000099_cells_physicell.mat b/timeseries_set/output00000099_cells_physicell.mat new file mode 100644 index 0000000..096eb06 Binary files /dev/null and b/timeseries_set/output00000099_cells_physicell.mat differ diff --git a/timeseries_set/output00000099_microenvironment0.mat b/timeseries_set/output00000099_microenvironment0.mat new file mode 100644 index 0000000..dbc378d Binary files /dev/null and b/timeseries_set/output00000099_microenvironment0.mat differ diff --git a/timeseries_set/output00000100.xml b/timeseries_set/output00000100.xml new file mode 100644 index 0000000..4f74e26 --- /dev/null +++ b/timeseries_set/output00000100.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 6000.000000 + 99.366052 + 2019-08-30T19:49:47Z + 2019-08-30T19:49:47Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000100_microenvironment0.mat + + + + + + + + + output00000100_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000100_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000100_cells.mat b/timeseries_set/output00000100_cells.mat new file mode 100644 index 0000000..1394ca7 Binary files /dev/null and b/timeseries_set/output00000100_cells.mat differ diff --git a/timeseries_set/output00000100_cells_physicell.mat b/timeseries_set/output00000100_cells_physicell.mat new file mode 100644 index 0000000..7403504 Binary files /dev/null and b/timeseries_set/output00000100_cells_physicell.mat differ diff --git a/timeseries_set/output00000100_microenvironment0.mat b/timeseries_set/output00000100_microenvironment0.mat new file mode 100644 index 0000000..033acc8 Binary files /dev/null and b/timeseries_set/output00000100_microenvironment0.mat differ diff --git a/timeseries_set/output00000101.xml b/timeseries_set/output00000101.xml new file mode 100644 index 0000000..0a80e9f --- /dev/null +++ b/timeseries_set/output00000101.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 6060.000000 + 100.419406 + 2019-08-30T19:49:48Z + 2019-08-30T19:49:48Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000101_microenvironment0.mat + + + + + + + + + output00000101_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000101_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000101_cells.mat b/timeseries_set/output00000101_cells.mat new file mode 100644 index 0000000..9809503 Binary files /dev/null and b/timeseries_set/output00000101_cells.mat differ diff --git a/timeseries_set/output00000101_cells_physicell.mat b/timeseries_set/output00000101_cells_physicell.mat new file mode 100644 index 0000000..736c032 Binary files /dev/null and b/timeseries_set/output00000101_cells_physicell.mat differ diff --git a/timeseries_set/output00000101_microenvironment0.mat b/timeseries_set/output00000101_microenvironment0.mat new file mode 100644 index 0000000..69adfcf Binary files /dev/null and b/timeseries_set/output00000101_microenvironment0.mat differ diff --git a/timeseries_set/output00000102.xml b/timeseries_set/output00000102.xml new file mode 100644 index 0000000..60c7cab --- /dev/null +++ b/timeseries_set/output00000102.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 6120.000000 + 101.502463 + 2019-08-30T19:49:49Z + 2019-08-30T19:49:49Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000102_microenvironment0.mat + + + + + + + + + output00000102_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000102_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000102_cells.mat b/timeseries_set/output00000102_cells.mat new file mode 100644 index 0000000..ee403dc Binary files /dev/null and b/timeseries_set/output00000102_cells.mat differ diff --git a/timeseries_set/output00000102_cells_physicell.mat b/timeseries_set/output00000102_cells_physicell.mat new file mode 100644 index 0000000..c788403 Binary files /dev/null and b/timeseries_set/output00000102_cells_physicell.mat differ diff --git a/timeseries_set/output00000102_microenvironment0.mat b/timeseries_set/output00000102_microenvironment0.mat new file mode 100644 index 0000000..799d621 Binary files /dev/null and b/timeseries_set/output00000102_microenvironment0.mat differ diff --git a/timeseries_set/output00000103.xml b/timeseries_set/output00000103.xml new file mode 100644 index 0000000..ddf3e75 --- /dev/null +++ b/timeseries_set/output00000103.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 6180.000000 + 102.591853 + 2019-08-30T19:49:50Z + 2019-08-30T19:49:50Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000103_microenvironment0.mat + + + + + + + + + output00000103_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000103_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000103_cells.mat b/timeseries_set/output00000103_cells.mat new file mode 100644 index 0000000..f99ea25 Binary files /dev/null and b/timeseries_set/output00000103_cells.mat differ diff --git a/timeseries_set/output00000103_cells_physicell.mat b/timeseries_set/output00000103_cells_physicell.mat new file mode 100644 index 0000000..2ddbe8f Binary files /dev/null and b/timeseries_set/output00000103_cells_physicell.mat differ diff --git a/timeseries_set/output00000103_microenvironment0.mat b/timeseries_set/output00000103_microenvironment0.mat new file mode 100644 index 0000000..0439ecc Binary files /dev/null and b/timeseries_set/output00000103_microenvironment0.mat differ diff --git a/timeseries_set/output00000104.xml b/timeseries_set/output00000104.xml new file mode 100644 index 0000000..f92c50a --- /dev/null +++ b/timeseries_set/output00000104.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 6240.000000 + 103.674117 + 2019-08-30T19:49:51Z + 2019-08-30T19:49:51Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000104_microenvironment0.mat + + + + + + + + + output00000104_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000104_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000104_cells.mat b/timeseries_set/output00000104_cells.mat new file mode 100644 index 0000000..ea7f38d Binary files /dev/null and b/timeseries_set/output00000104_cells.mat differ diff --git a/timeseries_set/output00000104_cells_physicell.mat b/timeseries_set/output00000104_cells_physicell.mat new file mode 100644 index 0000000..44c59e6 Binary files /dev/null and b/timeseries_set/output00000104_cells_physicell.mat differ diff --git a/timeseries_set/output00000104_microenvironment0.mat b/timeseries_set/output00000104_microenvironment0.mat new file mode 100644 index 0000000..9dd4915 Binary files /dev/null and b/timeseries_set/output00000104_microenvironment0.mat differ diff --git a/timeseries_set/output00000105.xml b/timeseries_set/output00000105.xml new file mode 100644 index 0000000..151baf6 --- /dev/null +++ b/timeseries_set/output00000105.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 6300.000000 + 104.764301 + 2019-08-30T19:49:52Z + 2019-08-30T19:49:52Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000105_microenvironment0.mat + + + + + + + + + output00000105_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000105_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000105_cells.mat b/timeseries_set/output00000105_cells.mat new file mode 100644 index 0000000..acabd9a Binary files /dev/null and b/timeseries_set/output00000105_cells.mat differ diff --git a/timeseries_set/output00000105_cells_physicell.mat b/timeseries_set/output00000105_cells_physicell.mat new file mode 100644 index 0000000..1d45161 Binary files /dev/null and b/timeseries_set/output00000105_cells_physicell.mat differ diff --git a/timeseries_set/output00000105_microenvironment0.mat b/timeseries_set/output00000105_microenvironment0.mat new file mode 100644 index 0000000..accc6a5 Binary files /dev/null and b/timeseries_set/output00000105_microenvironment0.mat differ diff --git a/timeseries_set/output00000106.xml b/timeseries_set/output00000106.xml new file mode 100644 index 0000000..a79eae9 --- /dev/null +++ b/timeseries_set/output00000106.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 6360.000000 + 105.865725 + 2019-08-30T19:49:54Z + 2019-08-30T19:49:54Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000106_microenvironment0.mat + + + + + + + + + output00000106_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000106_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000106_cells.mat b/timeseries_set/output00000106_cells.mat new file mode 100644 index 0000000..7401e0b Binary files /dev/null and b/timeseries_set/output00000106_cells.mat differ diff --git a/timeseries_set/output00000106_cells_physicell.mat b/timeseries_set/output00000106_cells_physicell.mat new file mode 100644 index 0000000..3545f2b Binary files /dev/null and b/timeseries_set/output00000106_cells_physicell.mat differ diff --git a/timeseries_set/output00000106_microenvironment0.mat b/timeseries_set/output00000106_microenvironment0.mat new file mode 100644 index 0000000..f4d6755 Binary files /dev/null and b/timeseries_set/output00000106_microenvironment0.mat differ diff --git a/timeseries_set/output00000107.xml b/timeseries_set/output00000107.xml new file mode 100644 index 0000000..d168d03 --- /dev/null +++ b/timeseries_set/output00000107.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 6420.000000 + 106.957703 + 2019-08-30T19:49:55Z + 2019-08-30T19:49:55Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000107_microenvironment0.mat + + + + + + + + + output00000107_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000107_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000107_cells.mat b/timeseries_set/output00000107_cells.mat new file mode 100644 index 0000000..02b2bfe Binary files /dev/null and b/timeseries_set/output00000107_cells.mat differ diff --git a/timeseries_set/output00000107_cells_physicell.mat b/timeseries_set/output00000107_cells_physicell.mat new file mode 100644 index 0000000..f0deebb Binary files /dev/null and b/timeseries_set/output00000107_cells_physicell.mat differ diff --git a/timeseries_set/output00000107_microenvironment0.mat b/timeseries_set/output00000107_microenvironment0.mat new file mode 100644 index 0000000..4a2caa3 Binary files /dev/null and b/timeseries_set/output00000107_microenvironment0.mat differ diff --git a/timeseries_set/output00000108.xml b/timeseries_set/output00000108.xml new file mode 100644 index 0000000..9db5164 --- /dev/null +++ b/timeseries_set/output00000108.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 6480.000000 + 108.031505 + 2019-08-30T19:49:56Z + 2019-08-30T19:49:56Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000108_microenvironment0.mat + + + + + + + + + output00000108_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000108_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000108_cells.mat b/timeseries_set/output00000108_cells.mat new file mode 100644 index 0000000..3823ef7 Binary files /dev/null and b/timeseries_set/output00000108_cells.mat differ diff --git a/timeseries_set/output00000108_cells_physicell.mat b/timeseries_set/output00000108_cells_physicell.mat new file mode 100644 index 0000000..fb282a9 Binary files /dev/null and b/timeseries_set/output00000108_cells_physicell.mat differ diff --git a/timeseries_set/output00000108_microenvironment0.mat b/timeseries_set/output00000108_microenvironment0.mat new file mode 100644 index 0000000..8c16b47 Binary files /dev/null and b/timeseries_set/output00000108_microenvironment0.mat differ diff --git a/timeseries_set/output00000109.xml b/timeseries_set/output00000109.xml new file mode 100644 index 0000000..63f8498 --- /dev/null +++ b/timeseries_set/output00000109.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 6540.000000 + 109.127637 + 2019-08-30T19:49:57Z + 2019-08-30T19:49:57Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000109_microenvironment0.mat + + + + + + + + + output00000109_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000109_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000109_cells.mat b/timeseries_set/output00000109_cells.mat new file mode 100644 index 0000000..9474277 Binary files /dev/null and b/timeseries_set/output00000109_cells.mat differ diff --git a/timeseries_set/output00000109_cells_physicell.mat b/timeseries_set/output00000109_cells_physicell.mat new file mode 100644 index 0000000..9b774b8 Binary files /dev/null and b/timeseries_set/output00000109_cells_physicell.mat differ diff --git a/timeseries_set/output00000109_microenvironment0.mat b/timeseries_set/output00000109_microenvironment0.mat new file mode 100644 index 0000000..88500ce Binary files /dev/null and b/timeseries_set/output00000109_microenvironment0.mat differ diff --git a/timeseries_set/output00000110.xml b/timeseries_set/output00000110.xml new file mode 100644 index 0000000..a0034d7 --- /dev/null +++ b/timeseries_set/output00000110.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 6600.000000 + 110.264063 + 2019-08-30T19:49:58Z + 2019-08-30T19:49:58Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000110_microenvironment0.mat + + + + + + + + + output00000110_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000110_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000110_cells.mat b/timeseries_set/output00000110_cells.mat new file mode 100644 index 0000000..c12dc10 Binary files /dev/null and b/timeseries_set/output00000110_cells.mat differ diff --git a/timeseries_set/output00000110_cells_physicell.mat b/timeseries_set/output00000110_cells_physicell.mat new file mode 100644 index 0000000..1c72c04 Binary files /dev/null and b/timeseries_set/output00000110_cells_physicell.mat differ diff --git a/timeseries_set/output00000110_microenvironment0.mat b/timeseries_set/output00000110_microenvironment0.mat new file mode 100644 index 0000000..032afb2 Binary files /dev/null and b/timeseries_set/output00000110_microenvironment0.mat differ diff --git a/timeseries_set/output00000111.xml b/timeseries_set/output00000111.xml new file mode 100644 index 0000000..b8810f1 --- /dev/null +++ b/timeseries_set/output00000111.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 6660.000000 + 111.349105 + 2019-08-30T19:49:59Z + 2019-08-30T19:49:59Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000111_microenvironment0.mat + + + + + + + + + output00000111_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000111_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000111_cells.mat b/timeseries_set/output00000111_cells.mat new file mode 100644 index 0000000..a64a954 Binary files /dev/null and b/timeseries_set/output00000111_cells.mat differ diff --git a/timeseries_set/output00000111_cells_physicell.mat b/timeseries_set/output00000111_cells_physicell.mat new file mode 100644 index 0000000..9bcd901 Binary files /dev/null and b/timeseries_set/output00000111_cells_physicell.mat differ diff --git a/timeseries_set/output00000111_microenvironment0.mat b/timeseries_set/output00000111_microenvironment0.mat new file mode 100644 index 0000000..146342e Binary files /dev/null and b/timeseries_set/output00000111_microenvironment0.mat differ diff --git a/timeseries_set/output00000112.xml b/timeseries_set/output00000112.xml new file mode 100644 index 0000000..d673b72 --- /dev/null +++ b/timeseries_set/output00000112.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 6720.000000 + 112.460258 + 2019-08-30T19:50:00Z + 2019-08-30T19:50:00Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000112_microenvironment0.mat + + + + + + + + + output00000112_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000112_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000112_cells.mat b/timeseries_set/output00000112_cells.mat new file mode 100644 index 0000000..4c96271 Binary files /dev/null and b/timeseries_set/output00000112_cells.mat differ diff --git a/timeseries_set/output00000112_cells_physicell.mat b/timeseries_set/output00000112_cells_physicell.mat new file mode 100644 index 0000000..4185f7d Binary files /dev/null and b/timeseries_set/output00000112_cells_physicell.mat differ diff --git a/timeseries_set/output00000112_microenvironment0.mat b/timeseries_set/output00000112_microenvironment0.mat new file mode 100644 index 0000000..0b0dee7 Binary files /dev/null and b/timeseries_set/output00000112_microenvironment0.mat differ diff --git a/timeseries_set/output00000113.xml b/timeseries_set/output00000113.xml new file mode 100644 index 0000000..3d45cb2 --- /dev/null +++ b/timeseries_set/output00000113.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 6780.000000 + 113.579615 + 2019-08-30T19:50:01Z + 2019-08-30T19:50:01Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000113_microenvironment0.mat + + + + + + + + + output00000113_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000113_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000113_cells.mat b/timeseries_set/output00000113_cells.mat new file mode 100644 index 0000000..7a2b158 Binary files /dev/null and b/timeseries_set/output00000113_cells.mat differ diff --git a/timeseries_set/output00000113_cells_physicell.mat b/timeseries_set/output00000113_cells_physicell.mat new file mode 100644 index 0000000..0759d1e Binary files /dev/null and b/timeseries_set/output00000113_cells_physicell.mat differ diff --git a/timeseries_set/output00000113_microenvironment0.mat b/timeseries_set/output00000113_microenvironment0.mat new file mode 100644 index 0000000..53cd820 Binary files /dev/null and b/timeseries_set/output00000113_microenvironment0.mat differ diff --git a/timeseries_set/output00000114.xml b/timeseries_set/output00000114.xml new file mode 100644 index 0000000..f25365f --- /dev/null +++ b/timeseries_set/output00000114.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 6840.000000 + 114.711567 + 2019-08-30T19:50:02Z + 2019-08-30T19:50:02Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000114_microenvironment0.mat + + + + + + + + + output00000114_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000114_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000114_cells.mat b/timeseries_set/output00000114_cells.mat new file mode 100644 index 0000000..7fefb00 Binary files /dev/null and b/timeseries_set/output00000114_cells.mat differ diff --git a/timeseries_set/output00000114_cells_physicell.mat b/timeseries_set/output00000114_cells_physicell.mat new file mode 100644 index 0000000..3bd9774 Binary files /dev/null and b/timeseries_set/output00000114_cells_physicell.mat differ diff --git a/timeseries_set/output00000114_microenvironment0.mat b/timeseries_set/output00000114_microenvironment0.mat new file mode 100644 index 0000000..46c86d5 Binary files /dev/null and b/timeseries_set/output00000114_microenvironment0.mat differ diff --git a/timeseries_set/output00000115.xml b/timeseries_set/output00000115.xml new file mode 100644 index 0000000..7f71892 --- /dev/null +++ b/timeseries_set/output00000115.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 6900.000000 + 115.842844 + 2019-08-30T19:50:04Z + 2019-08-30T19:50:04Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000115_microenvironment0.mat + + + + + + + + + output00000115_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000115_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000115_cells.mat b/timeseries_set/output00000115_cells.mat new file mode 100644 index 0000000..accf5a8 Binary files /dev/null and b/timeseries_set/output00000115_cells.mat differ diff --git a/timeseries_set/output00000115_cells_physicell.mat b/timeseries_set/output00000115_cells_physicell.mat new file mode 100644 index 0000000..fb5f970 Binary files /dev/null and b/timeseries_set/output00000115_cells_physicell.mat differ diff --git a/timeseries_set/output00000115_microenvironment0.mat b/timeseries_set/output00000115_microenvironment0.mat new file mode 100644 index 0000000..fca9ef5 Binary files /dev/null and b/timeseries_set/output00000115_microenvironment0.mat differ diff --git a/timeseries_set/output00000116.xml b/timeseries_set/output00000116.xml new file mode 100644 index 0000000..a7f94c0 --- /dev/null +++ b/timeseries_set/output00000116.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 6960.000000 + 116.978925 + 2019-08-30T19:50:05Z + 2019-08-30T19:50:05Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000116_microenvironment0.mat + + + + + + + + + output00000116_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000116_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000116_cells.mat b/timeseries_set/output00000116_cells.mat new file mode 100644 index 0000000..86d694f Binary files /dev/null and b/timeseries_set/output00000116_cells.mat differ diff --git a/timeseries_set/output00000116_cells_physicell.mat b/timeseries_set/output00000116_cells_physicell.mat new file mode 100644 index 0000000..89600df Binary files /dev/null and b/timeseries_set/output00000116_cells_physicell.mat differ diff --git a/timeseries_set/output00000116_microenvironment0.mat b/timeseries_set/output00000116_microenvironment0.mat new file mode 100644 index 0000000..54ffc52 Binary files /dev/null and b/timeseries_set/output00000116_microenvironment0.mat differ diff --git a/timeseries_set/output00000117.xml b/timeseries_set/output00000117.xml new file mode 100644 index 0000000..63c203d --- /dev/null +++ b/timeseries_set/output00000117.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 7020.000000 + 118.118935 + 2019-08-30T19:50:06Z + 2019-08-30T19:50:06Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000117_microenvironment0.mat + + + + + + + + + output00000117_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000117_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000117_cells.mat b/timeseries_set/output00000117_cells.mat new file mode 100644 index 0000000..6fe0ebb Binary files /dev/null and b/timeseries_set/output00000117_cells.mat differ diff --git a/timeseries_set/output00000117_cells_physicell.mat b/timeseries_set/output00000117_cells_physicell.mat new file mode 100644 index 0000000..e0e2e48 Binary files /dev/null and b/timeseries_set/output00000117_cells_physicell.mat differ diff --git a/timeseries_set/output00000117_microenvironment0.mat b/timeseries_set/output00000117_microenvironment0.mat new file mode 100644 index 0000000..fda3098 Binary files /dev/null and b/timeseries_set/output00000117_microenvironment0.mat differ diff --git a/timeseries_set/output00000118.xml b/timeseries_set/output00000118.xml new file mode 100644 index 0000000..9e72235 --- /dev/null +++ b/timeseries_set/output00000118.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 7080.000000 + 119.280203 + 2019-08-30T19:50:07Z + 2019-08-30T19:50:07Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000118_microenvironment0.mat + + + + + + + + + output00000118_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000118_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000118_cells.mat b/timeseries_set/output00000118_cells.mat new file mode 100644 index 0000000..f0b3071 Binary files /dev/null and b/timeseries_set/output00000118_cells.mat differ diff --git a/timeseries_set/output00000118_cells_physicell.mat b/timeseries_set/output00000118_cells_physicell.mat new file mode 100644 index 0000000..064faf6 Binary files /dev/null and b/timeseries_set/output00000118_cells_physicell.mat differ diff --git a/timeseries_set/output00000118_microenvironment0.mat b/timeseries_set/output00000118_microenvironment0.mat new file mode 100644 index 0000000..2315228 Binary files /dev/null and b/timeseries_set/output00000118_microenvironment0.mat differ diff --git a/timeseries_set/output00000119.xml b/timeseries_set/output00000119.xml new file mode 100644 index 0000000..47f050a --- /dev/null +++ b/timeseries_set/output00000119.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 7140.000000 + 120.418228 + 2019-08-30T19:50:08Z + 2019-08-30T19:50:08Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000119_microenvironment0.mat + + + + + + + + + output00000119_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000119_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000119_cells.mat b/timeseries_set/output00000119_cells.mat new file mode 100644 index 0000000..b4ef64b Binary files /dev/null and b/timeseries_set/output00000119_cells.mat differ diff --git a/timeseries_set/output00000119_cells_physicell.mat b/timeseries_set/output00000119_cells_physicell.mat new file mode 100644 index 0000000..f2f382b Binary files /dev/null and b/timeseries_set/output00000119_cells_physicell.mat differ diff --git a/timeseries_set/output00000119_microenvironment0.mat b/timeseries_set/output00000119_microenvironment0.mat new file mode 100644 index 0000000..6e3f36f Binary files /dev/null and b/timeseries_set/output00000119_microenvironment0.mat differ diff --git a/timeseries_set/output00000120.xml b/timeseries_set/output00000120.xml new file mode 100644 index 0000000..39459b9 --- /dev/null +++ b/timeseries_set/output00000120.xml @@ -0,0 +1,106 @@ + + + + + BioFVM + 1.1.7 + http://BioFVM.MathCancer.org + + + + + + 7200.000000 + 121.576197 + 2019-08-30T19:50:09Z + 2019-08-30T19:50:09Z + + + + + -500.000000 -500.000000 -10.000000 500.000000 500.000000 10.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + -490.000000 -470.000000 -450.000000 -430.000000 -410.000000 -390.000000 -370.000000 -350.000000 -330.000000 -310.000000 -290.000000 -270.000000 -250.000000 -230.000000 -210.000000 -190.000000 -170.000000 -150.000000 -130.000000 -110.000000 -90.000000 -70.000000 -50.000000 -30.000000 -10.000000 10.000000 30.000000 50.000000 70.000000 90.000000 110.000000 130.000000 150.000000 170.000000 190.000000 210.000000 230.000000 250.000000 270.000000 290.000000 310.000000 330.000000 350.000000 370.000000 390.000000 410.000000 430.000000 450.000000 470.000000 490.000000 + 0.000000 + + initial_mesh0.mat + + + + + + + 100000.000000 + 0.100000 + + + + + + 100000.000000 + 10.000000 + + + + + + 40000.000000 + 1.000000 + + + + + + 25000.000000 + 0.100000 + + + + + + 50000.000000 + 20.000000 + + + + + output00000120_microenvironment0.mat + + + + + + + + + output00000120_cells.mat + + + + + + + + + + + + + + + + + + + + + + + + output00000120_cells_physicell.mat + + + + + + diff --git a/timeseries_set/output00000120_cells.mat b/timeseries_set/output00000120_cells.mat new file mode 100644 index 0000000..3585884 Binary files /dev/null and b/timeseries_set/output00000120_cells.mat differ diff --git a/timeseries_set/output00000120_cells_physicell.mat b/timeseries_set/output00000120_cells_physicell.mat new file mode 100644 index 0000000..439baf7 Binary files /dev/null and b/timeseries_set/output00000120_cells_physicell.mat differ diff --git a/timeseries_set/output00000120_microenvironment0.mat b/timeseries_set/output00000120_microenvironment0.mat new file mode 100644 index 0000000..8de6f95 Binary files /dev/null and b/timeseries_set/output00000120_microenvironment0.mat differ diff --git a/timeseries_set/read_MultiCellDS_xml.py b/timeseries_set/read_MultiCellDS_xml.py new file mode 100644 index 0000000..87ea2bb --- /dev/null +++ b/timeseries_set/read_MultiCellDS_xml.py @@ -0,0 +1,171 @@ +# %% +import xml.etree.ElementTree as TE +import numpy as np +import pandas as pd +import scipy.io as sio +from pathlib import Path + +def read_MultiCellDS_xml(file_name, output_dir = '.'): + + output_path = Path(output_dir) + xml_file = output_path / 'output00000001.xml' + try: + tree = TE.parse(xml_file) + except: + print('Data File:', xml_file, 'not found!') + exit(0) + + root = tree.getroot() + MCDS = {} + + # Get current simulated time + metadata_node = root.find('metadata') + time_node = metadata_node.find('current_time') + MCDS['metadata'] = {} + MCDS['metadata']['current_time'] = float(time_node.text) + MCDS['metadata']['time_units'] = time_node.get('units') + + # Get current runtime + time_node = metadata_node.find('current_runtime') + MCDS['metadata']['current_runtime'] = float(time_node.text) + MCDS['metadata']['runtime_units'] = time_node.get('units') + + # find the microenvironment node + me_node = root.find('microenvironment') + me_node = me_node.find('domain') + + # find the mesh node + mesh_node = me_node.find('mesh') + MCDS['metadata']['spatial_units'] = mesh_node.get('units') + MCDS['mesh'] = {} + + # check for cartesian mesh + cartesian = False + mesh_type = mesh_node.get('type') + if mesh_type == 'Cartesian': + cartesian = True + + # while we're at it, find the mesh + coord_str = mesh_node.find('x_coordinates').text + delimiter = mesh_node.find('x_coordinates').get('delimiter') + x_coords = np.array(coord_str.split(delimiter), dtype=np.float) + + coord_str = mesh_node.find('y_coordinates').text + delimiter = mesh_node.find('y_coordinates').get('delimiter') + y_coords = np.array(coord_str.split(delimiter), dtype=np.float) + + coord_str = mesh_node.find('z_coordinates').text + delimiter = mesh_node.find('z_coordinates').get('delimiter') + z_coords = np.array(coord_str.split(delimiter), dtype=np.float) + + # reshape into a mesh grid + xx, yy, zz = np.meshgrid(x_coords, y_coords, z_coords) + + MCDS['mesh']['x_coordinates'] = xx + MCDS['mesh']['y_coordinates'] = yy + MCDS['mesh']['z_coordinates'] = zz + + # Voxel data must be loaded from .mat file + voxel_file = mesh_node.find('voxels').find('filename').text + voxel_path = output_path / voxel_file + try: + initial_mesh = sio.loadmat(voxel_path)['mesh'] + except: + print('Data file', voxel_path, 'missing!') + print('Referenced in', xml_file) + exit(0) + + # center of voxel specified by first three rows [ x, y, z ] + # volume specified by fourth row + MCDS['mesh']['voxels'] = {} + MCDS['mesh']['voxels']['centers'] = initial_mesh[:3, :] + MCDS['mesh']['voxels']['volumes'] = initial_mesh[3, :] + + # Continuum_variables, unlike in the matlab version the individual chemical + # species will be primarily accessed through their names e.g. + # MCDS['continuum_variables']['oxygen']['units'] + # MCDS['continuum_variables']['glucose']['data'] + MCDS['continuum_variables'] = {} + variables_node = me_node.find('variables') + file_node = me_node.find('data').find('filename') + + # micro environment data is shape [4+n, len(voxels)] where n is the number + # of species being tracked. the first 3 rows represent (x, y, z) of voxel centers. + # The fourth row contains the voxel volume. The 5th row and up will contain values + # for that species in that voxel. + me_file = file_node.text + me_path = output_path / me_file + try: + me_data = sio.loadmat(me_path)['multiscale_microenvironment'] + except: + print('Data file', me_path, 'missing!') + print('Referenced in', xml_file) + exit(0) + + var_children = variables_node.findall('variable') + + for i, species in enumerate(var_children): + species_name = species.get('name') + MCDS['continuum_variables'][species_name] = {} + MCDS['continuum_variables'][species_name]['units'] = species.get('units') + + # travel down one level on tree + species = species.find('physical_parameter_set') + + # diffusion data for each species + MCDS['continuum_variables'][species_name]['diffusion_coefficient'] = {} + MCDS['continuum_variables'][species_name]['diffusion_coefficient']['value'] \ + = float(species.find('diffusion_coefficient').text) + MCDS['continuum_variables'][species_name]['diffusion_coefficient']['units'] \ + = species.find('diffusion_coefficient').get('units') + + # decay data for each species + MCDS['continuum_variables'][species_name]['decay_rate'] = {} + MCDS['continuum_variables'][species_name]['decay_rate']['value'] \ + = float(species.find('decay_rate').text) + MCDS['continuum_variables'][species_name]['decay_rate']['units'] \ + = species.find('decay_rate').get('units') + + # store data from microenvironment file as numpy array + MCDS['continuum_variables'][species_name]['data'] \ + = me_data[4+i, :].reshape(xx.shape) + + # in order to get to the good stuff we have to pass through a few different + # hierarchal levels + cell_node = root.find('cellular_information') + cell_node = cell_node.find('cell_populations') + cell_node = cell_node.find('cell_population') + cell_node = cell_node.find('custom') + # we want the PhysiCell data, there is more of it + for child in cell_node.findall('simplified_data'): + if child.get('source') == 'PhysiCell': + cell_node = child + break + + MCDS['discrete_cells'] = {} + df_labels = [] + # iterate over 'label's which are children of 'labels' these will be used to + # label dataframe columns + for label in cell_node.find('labels').findall('label'): + if int(label.get('size')) > 1: + dir_label = ['_x', '_y', '_z'] + for i in range(int(label.get('size'))): + df_labels.append(label.text + dir_label[i]) + else: + df_labels.append(label.text) + + # load the file, we want it transposed from the matlab format + cell_file = cell_node.find('filename').text + cell_path = output_path / cell_file + try: + cell_data = sio.loadmat(cell_path)['cells'].T + except: + print('Data file', cell_path, 'missing!') + print('Referenced in', xml_file) + exit(0) + + # we will save the cell information as a dataframe in the MCDS object + cell_df = pd.DataFrame(cell_data, columns=df_labels) + MCDS['discrete_cells']['data_df'] = cell_df + + return MCDS