How to use the porespy.tools.make_contiguous function in porespy

To help you get started, we’ve selected a few porespy examples, based on popular ways it is used in public projects.

Secure your code as it's written. Use Snyk Code to scan source code in minutes - no build needed - and fix issues immediately.

github PMEAL / porespy / test / unit / test_tools.py View on Github external
def test_make_contiguous_contiguity(self):
        cont_im = ps.tools.make_contiguous(self.im)
        assert sp.all(sp.arange(sp.unique(self.im).size) == sp.unique(cont_im))
github PMEAL / porespy / test / unit / test_tools.py View on Github external
def test_make_contiguous_size(self):
        cont_im = ps.tools.make_contiguous(self.im)
        assert sp.unique(self.im).size == sp.unique(cont_im).size
github PMEAL / porespy / test / unit / test_tools.py View on Github external
def test_make_contiguous_size(self):
        cont_im = ps.tools.make_contiguous(self.im)
        assert sp.unique(self.im).size == sp.unique(cont_im).size
github PMEAL / porespy / test / unit / test_tools.py View on Github external
def test_make_contiguous_negs(self):
        im = sp.array([[0, 0, 1, 3], [-2, -4, 1, 3], [-4, 3, 5, 0]])
        a = ps.tools.make_contiguous(im, keep_zeros=True).max()
        b = ps.tools.make_contiguous(im, keep_zeros=False).max()
        assert a == b
github PMEAL / porespy / test / unit / test_tools.py View on Github external
def test_make_contiguous_contiguity(self):
        cont_im = ps.tools.make_contiguous(self.im)
        assert sp.all(sp.arange(sp.unique(self.im).size) == sp.unique(cont_im))
github PMEAL / porespy / test / unit / test_tools.py View on Github external
def test_make_contiguous_negs(self):
        im = sp.array([[0, 0, 1, 3], [-2, -4, 1, 3], [-4, 3, 5, 0]])
        a = ps.tools.make_contiguous(im, keep_zeros=True).max()
        b = ps.tools.make_contiguous(im, keep_zeros=False).max()
        assert a == b
github PMEAL / porespy / porespy / network_extraction / __snow__.py View on Github external
if f is not None:
        if im.ndim == 2:
            faces = [(int('left' in f)*3, int('right' in f)*3),
                     (int(('front') in f)*3 or int(('bottom') in f)*3,
                      int(('back') in f)*3 or int(('top') in f)*3)]

        if im.ndim == 3:
            faces = [(int('left' in f)*3, int('right' in f)*3),
                     (int('front' in f)*3, int('back' in f)*3),
                     (int('top' in f)*3, int('bottom' in f)*3)]
        dt = sp.pad(dt, pad_width=faces, mode='edge')
        im = sp.pad(im, pad_width=faces, mode='edge')
    else:
        dt = dt
    regions = regions*im
    regions = make_contiguous(regions)
    # -------------------------------------------------------------------------
    # Extract void and throat information from image
    net = regions_to_network(im=regions, dt=dt, voxel_size=voxel_size)
    # -------------------------------------------------------------------------
    # Extract marching cube surface area and interfacial area of regions
    if marching_cubes_area:
        areas = region_surface_areas(regions=regions, voxel_size=voxel_size)
        net['pore.surface_area'] = areas
        interface_area = region_interface_areas(regions=regions, areas=areas,
                                                voxel_size=voxel_size)
        net['throat.area'] = interface_area.area
    # -------------------------------------------------------------------------
    # Find void to void connections of boundary and internal voids
    boundary_labels = net['pore.label'] > b_num
    loc1 = net['throat.conns'][:, 0] < b_num
    loc2 = net['throat.conns'][:, 1] >= b_num
github PMEAL / porespy / porespy / networks / __funcs__.py View on Github external
regions = sp.pad(regions, 2, 'edge')

            # Remove unselected faces
            if 'left' not in faces:
                regions = regions[3:, :]  # x
            if 'right' not in faces:
                regions = regions[:-3, :]
            if 'front' not in faces and 'bottom' not in faces:
                regions = regions[:, 3:]  # y
            if 'back' not in faces and 'top' not in faces:
                regions = regions[:, :-3]
        else:
            print('add_boundary_regions works only on 2D and 3D images')
        # ---------------------------------------------------------------------
        # Make labels contiguous
        regions = make_contiguous(regions)
    else:
        regions = regions

    return regions
github PMEAL / porespy / porespy / networks / __snow_n__.py View on Github external
# -------------------------------------------------------------------------
    # Add boundary regions
    f = boundary_faces
    regions = add_boundary_regions(regions=snow.regions, faces=f)
    # -------------------------------------------------------------------------
    # Padding distance transform to extract geometrical properties
    dt = pad_faces(im=snow.dt, faces=f)
    # -------------------------------------------------------------------------
    # For only one phase extraction with boundary regions
    phases_num = sp.unique(im).astype(int)
    phases_num = sp.trim_zeros(phases_num)
    if len(phases_num) == 1:
        if f is not None:
            snow.im = pad_faces(im=snow.im, faces=f)
        regions = regions * (snow.im.astype(bool))
        regions = make_contiguous(regions)
    # -------------------------------------------------------------------------
    # Extract N phases sites and bond information from image
    net = regions_to_network(im=regions, dt=dt, voxel_size=voxel_size)
    # -------------------------------------------------------------------------
    # Extract marching cube surface area and interfacial area of regions
    if marching_cubes_area:
        areas = region_surface_areas(regions=regions)
        interface_area = region_interface_areas(regions=regions, areas=areas,
                                                voxel_size=voxel_size)
        net['pore.surface_area'] = areas * voxel_size ** 2
        net['throat.area'] = interface_area.area
    # -------------------------------------------------------------------------
    # Find interconnection and interfacial area between ith and jth phases
    net = add_phase_interconnections(net=net, snow_partitioning_n=snow,
                                     marching_cubes_area=marching_cubes_area,
                                     alias=al)