def test_internalize_conidia_0(macrophage_list: MacrophageCellList, grid: RectangularGrid, fungus_list: FungusCellList): m_det = 0 point = Point(x=35, y=35, z=35) macrophage_list.append(MacrophageCellData.create_cell(point=point)) fungus_list.append( FungusCellData.create_cell(point=point, status=FungusCellData.Status.RESTING)) vox = grid.get_voxel(macrophage_list[0]['point']) assert len(fungus_list.get_cells_in_voxel(vox)) == 1 f_index = int(fungus_list.get_cells_in_voxel(vox)) # 0 assert f_index == 0 fungus_list[f_index]['form'] = FungusCellData.Form.CONIDIA fungus_list[f_index]['status'] = FungusCellData.Status.RESTING macrophage_list.internalize_conidia(m_det, 50, 1, grid, fungus_list) assert grid.get_voxel(fungus_list[f_index]['point']) == vox assert fungus_list.cell_data['internalized'][f_index] assert macrophage_list.len_phagosome(0) == 1
def test_internalize_conidia_none( populated_macrophage: MacrophageCellList, grid: RectangularGrid, populated_fungus: FungusCellList, ): m_det = 0 cell = populated_macrophage[0] vox = grid.get_voxel(cell['point']) assert len(populated_fungus.get_cells_in_voxel(vox)) == 1 populated_macrophage.internalize_conidia(m_det, 50, 1, grid, populated_fungus) assert populated_macrophage.len_phagosome(0) == 0 for v in cell['phagosome']: assert v == -1
def test_kill_macrophage(macrophage_list: MacrophageCellList, grid: RectangularGrid, fungus_list: FungusCellList): # should release all conidia point = Point(x=35, y=35, z=35) macrophage_list.append(MacrophageCellData.create_cell(point=point)) fungus_list.append( FungusCellData.create_cell(point=point, status=FungusCellData.Status.RESTING)) macrophage_list.internalize_conidia(1, 50, 1, grid, fungus_list) assert fungus_list.cell_data['internalized'][0] # simulate death macrophage_list.clear_all_phagosome(0, fungus_list) assert not fungus_list.cell_data['internalized'][0] assert macrophage_list.len_phagosome(0) == 0
def test_internalize_conidia_n(macrophage_list: MacrophageCellList, grid: RectangularGrid, fungus_list: FungusCellList): point = Point(x=35, y=35, z=35) macrophage_list.append(MacrophageCellData.create_cell(point=point)) fungus_list.append( FungusCellData.create_cell(point=point, status=FungusCellData.Status.RESTING)) fungus_list.append( FungusCellData.create_cell(point=point, status=FungusCellData.Status.RESTING)) point = Point(x=45, y=35, z=35) fungus_list.append( FungusCellData.create_cell(point=point, status=FungusCellData.Status.RESTING)) fungus_list.append( FungusCellData.create_cell(point=point, status=FungusCellData.Status.RESTING)) point = Point(x=55, y=35, z=35) fungus_list.append( FungusCellData.create_cell(point=point, status=FungusCellData.Status.RESTING)) fungus_list.append( FungusCellData.create_cell(point=point, status=FungusCellData.Status.RESTING)) # internalize some not all macrophage_list.internalize_conidia(1, 50, 1, grid, fungus_list) assert fungus_list.cell_data['internalized'][0] assert fungus_list.cell_data['internalized'][2] assert macrophage_list.len_phagosome(0) == 4 # internalize all macrophage_list.internalize_conidia(2, 50, 1, grid, fungus_list) assert fungus_list.cell_data['internalized'][5] assert macrophage_list.len_phagosome(0) == 6
def test_damage_conidia(macrophage_list: MacrophageCellList, grid: RectangularGrid, fungus_list: FungusCellList): kill = 2 t = 1 health = 100 point = Point(x=35, y=35, z=35) macrophage_list.append(MacrophageCellData.create_cell(point=point)) fungus_list.append( FungusCellData.create_cell(point=point, status=FungusCellData.Status.RESTING)) macrophage_list.internalize_conidia(1, 50, 1, grid, fungus_list) macrophage_list.damage_conidia(kill, t, health, fungus_list) assert fungus_list.cell_data['health'][0] == 50 macrophage_list.damage_conidia(kill, t, health, fungus_list) assert fungus_list.cell_data['health'][0] == 0
def test_internalize_and_move( macrophage_list: MacrophageCellList, grid: RectangularGrid, fungus_list: FungusCellList, cyto, tissue, ): point = Point(x=35, y=35, z=35) macrophage_list.append(MacrophageCellData.create_cell(point=point)) fungus_list.append( FungusCellData.create_cell(point=point, status=FungusCellData.Status.RESTING)) fungus_list.append( FungusCellData.create_cell(point=point, status=FungusCellData.Status.RESTING)) macrophage_list.internalize_conidia(1, 50, 1, grid, fungus_list) assert fungus_list.cell_data['internalized'][0] assert fungus_list.cell_data['internalized'][1] assert macrophage_list.len_phagosome(0) == 2 rec_r = 10 cell = macrophage_list[0] vox = grid.get_voxel(cell['point']) assert vox.z == 3 and vox.y == 3 and vox.x == 3 assert cyto.all() == 0 cyto[4, 3, 3] = 10 macrophage_list.move(rec_r, grid, cyto, tissue, fungus_list) vox = grid.get_voxel(cell['point']) assert vox.z == 4 and vox.y == 3 and vox.x == 3 for f in fungus_list: vox = grid.get_voxel(f['point']) assert vox.z == 4 and vox.y == 3 and vox.x == 3