Make fragments

The first step of the scene reconstruction system is to create fragments from short RGBD sequences.

Input arguments

The script runs with python run_system.py [config] --make. In [config], ["path_dataset"] should have subfolders image and depth to store the color images and depth images respectively. We assume the color images and the depth images are synchronized and registered. In [config], the optional argument ["path_intrinsic"] specifies path to a json file that stores the camera intrinsic matrix (See Read camera intrinsic for details). If it is not given, the PrimeSense factory setting is used instead.

Register RGBD image pairs

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# examples/Python/ReconstructionSystem/make_fragments.py


def register_one_rgbd_pair(s, t, color_files, depth_files,
        intrinsic, with_opencv, config):
    source_rgbd_image = read_rgbd_image(
            color_files[s], depth_files[s], True, config)
    target_rgbd_image = read_rgbd_image(
            color_files[t], depth_files[t], True, config)

    option = OdometryOption()
    option.max_depth_diff = config["max_depth_diff"]
    if abs(s-t) is not 1:
        if with_opencv:
            success_5pt, odo_init = pose_estimation(
                    source_rgbd_image, target_rgbd_image, intrinsic, False)
            if success_5pt:
                [success, trans, info] = compute_rgbd_odometry(
                        source_rgbd_image, target_rgbd_image, intrinsic,
                        odo_init, RGBDOdometryJacobianFromHybridTerm(), option)
                return [success, trans, info]
        return [False, np.identity(4), np.identity(6)]
    else:
        odo_init = np.identity(4)
        [success, trans, info] = compute_rgbd_odometry(
                source_rgbd_image, target_rgbd_image, intrinsic, odo_init,
                RGBDOdometryJacobianFromHybridTerm(), option)

The function reads a pair of RGBD images and registers the source_rgbd_image to the target_rgbd_image. Open3D function compute_rgbd_odometry is called to align the RGBD images. For adjacent RGBD images, an identity matrix is used as initialization. For non-adjacent RGBD images, wide baseline matching is used as an initialization. In particular, function pose_estimation computes OpenCV ORB feature to match sparse features over wide baseline images, then performs 5-point RANSAC to estimate a rough alignment. It is used as the initialization of compute_rgbd_odometry.

Multiway registration

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# examples/Python/ReconstructionSystem/make_fragments.py


def make_posegraph_for_fragment(path_dataset, sid, eid, color_files,
        depth_files, fragment_id, n_fragments, intrinsic, with_opencv, config):
    set_verbosity_level(VerbosityLevel.Error)
    pose_graph = PoseGraph()
    trans_odometry = np.identity(4)
    pose_graph.nodes.append(PoseGraphNode(trans_odometry))
    for s in range(sid, eid):
        for t in range(s + 1, eid):
            # odometry
            if t == s + 1:
                print("Fragment %03d / %03d :: RGBD matching between frame : %d and %d"
                        % (fragment_id, n_fragments-1, s, t))
                [success, trans, info] = register_one_rgbd_pair(s, t,
                        color_files, depth_files, intrinsic,
                        with_opencv, config)
                trans_odometry = np.dot(trans, trans_odometry)
                trans_odometry_inv = np.linalg.inv(trans_odometry)
                pose_graph.nodes.append(PoseGraphNode(trans_odometry_inv))
                pose_graph.edges.append(
                        PoseGraphEdge(s-sid, t-sid, trans, info,
                                uncertain = False))

            # keyframe loop closure
            if s % config['n_keyframes_per_n_frame'] == 0 \
                    and t % config['n_keyframes_per_n_frame'] == 0:
                print("Fragment %03d / %03d :: RGBD matching between frame : %d and %d"
                        % (fragment_id, n_fragments-1, s, t))
                [success, trans, info] = register_one_rgbd_pair(s, t,
                        color_files, depth_files, intrinsic,
                        with_opencv, config)
                if success:
                    pose_graph.edges.append(
                            PoseGraphEdge(s-sid, t-sid, trans, info,
                                    uncertain = True))
    write_pose_graph(join(path_dataset,

This script uses the technique demonstrated in Multiway registration. Function make_posegraph_for_fragment builds a pose graph for multiway registration of all RGBD images in this sequence. Each graph node represents an RGBD image and its pose which transforms the geometry to the global fragment space. For efficiency, only key frames are used.

Once a pose graph is created, multiway registration is performed by calling function optimize_posegraph_for_fragment.

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# examples/Python/ReconstructionSystem/optimize_posegraph.py

def run_posegraph_optimization(pose_graph_name, pose_graph_optimized_name,
        max_correspondence_distance, preference_loop_closure):
    # to display messages from global_optimization
    set_verbosity_level(VerbosityLevel.Debug)
    method = GlobalOptimizationLevenbergMarquardt()
    criteria = GlobalOptimizationConvergenceCriteria()
    option = GlobalOptimizationOption(
            max_correspondence_distance = max_correspondence_distance,
            edge_prune_threshold = 0.25,
            preference_loop_closure = preference_loop_closure,
            reference_node = 0)
    pose_graph = read_pose_graph(pose_graph_name)
    global_optimization(pose_graph, method, criteria, option)
    write_pose_graph(pose_graph_optimized_name, pose_graph)
    set_verbosity_level(VerbosityLevel.Error)


def optimize_posegraph_for_fragment(path_dataset, fragment_id, config):
    pose_graph_name = join(path_dataset,
            config["template_fragment_posegraph"] % fragment_id)
    pose_graph_optimized_name = join(path_dataset,
            config["template_fragment_posegraph_optimized"] % fragment_id)
    run_posegraph_optimization(pose_graph_name, pose_graph_optimized_name,
            max_correspondence_distance = config["max_depth_diff"],
            preference_loop_closure = \
            config["preference_loop_closure_odometry"])

This function calls global_optimization to estimate poses of the RGBD images.

Make a fragment

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# examples/Python/ReconstructionSystem/make_fragments.py


def integrate_rgb_frames_for_fragment(color_files, depth_files,
        fragment_id, n_fragments, pose_graph_name, intrinsic, config):
    pose_graph = read_pose_graph(pose_graph_name)
    volume = ScalableTSDFVolume(voxel_length = config["tsdf_cubic_size"]/512.0,
        sdf_trunc = 0.04, color_type = TSDFVolumeColorType.RGB8)
    for i in range(len(pose_graph.nodes)):
        i_abs = fragment_id * config['n_frames_per_fragment'] + i
        print("Fragment %03d / %03d :: integrate rgbd frame %d (%d of %d)."
                % (fragment_id, n_fragments-1,
                i_abs, i+1, len(pose_graph.nodes)))
        rgbd = read_rgbd_image(
                    color_files[i_abs], depth_files[i_abs], False, config)
        pose = pose_graph.nodes[i].pose
        volume.integrate(rgbd, intrinsic, np.linalg.inv(pose))
    mesh = volume.extract_triangle_mesh()
    mesh.compute_vertex_normals()
    return mesh


def make_pointcloud_for_fragment(path_dataset, color_files, depth_files,
        fragment_id, n_fragments, intrinsic, config):
    mesh = integrate_rgb_frames_for_fragment(
            color_files, depth_files, fragment_id, n_fragments,
            join(path_dataset,
            config["template_fragment_posegraph_optimized"] % fragment_id),
            intrinsic, config)
    pcd = PointCloud()
    pcd.points = mesh.vertices
    pcd.colors = mesh.vertex_colors
    pcd_name = join(path_dataset, config["template_fragment_pointcloud"] % fragment_id)
    write_point_cloud(pcd_name, pcd, False, True)

Once the poses are estimates, RGBD integration is used to reconstruct a colored fragment from each RGBD sequence.

Batch processing

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# examples/Python/ReconstructionSystem/make_fragments.py
        n_files, n_fragments, config):
    if config["path_intrinsic"]:
        intrinsic = read_pinhole_camera_intrinsic(config["path_intrinsic"])
    else:
        intrinsic = PinholeCameraIntrinsic(
                PinholeCameraIntrinsicParameters.PrimeSenseDefault)
    sid = fragment_id * config['n_frames_per_fragment']
    eid = min(sid + config['n_frames_per_fragment'], n_files)

    make_posegraph_for_fragment(config["path_dataset"], sid, eid,
            color_files, depth_files, fragment_id,
            n_fragments, intrinsic, with_opencv, config)
    optimize_posegraph_for_fragment(
            config["path_dataset"], fragment_id, config)
    make_pointcloud_for_fragment(
            config["path_dataset"], color_files, depth_files,
            fragment_id, n_fragments, intrinsic, config)

The main function calls each individual function explained above.

Results

Fragment 000 / 013 :: RGBD matching between frame : 0 and 1
Fragment 000 / 013 :: RGBD matching between frame : 0 and 5
Fragment 000 / 013 :: RGBD matching between frame : 0 and 10
Fragment 000 / 013 :: RGBD matching between frame : 0 and 15
Fragment 000 / 013 :: RGBD matching between frame : 0 and 20
:
Fragment 000 / 013 :: RGBD matching between frame : 95 and 96
Fragment 000 / 013 :: RGBD matching between frame : 96 and 97
Fragment 000 / 013 :: RGBD matching between frame : 97 and 98
Fragment 000 / 013 :: RGBD matching between frame : 98 and 99

The following is a log from optimize_posegraph_for_fragment.

[GlobalOptimizationLM] Optimizing PoseGraph having 100 nodes and 195 edges.
Line process weight : 389.309502
[Initial     ] residual : 3.223357e+05, lambda : 1.771814e+02
[Iteration 00] residual : 1.721845e+04, valid edges : 157, time : 0.022 sec.
[Iteration 01] residual : 1.350251e+04, valid edges : 168, time : 0.017 sec.
:
[Iteration 32] residual : 9.779118e+03, valid edges : 179, time : 0.013 sec.
Current_residual - new_residual < 1.000000e-06 * current_residual
[GlobalOptimizationLM] total time : 0.519 sec.
[GlobalOptimizationLM] Optimizing PoseGraph having 100 nodes and 179 edges.
Line process weight : 398.292104
[Initial     ] residual : 5.120047e+03, lambda : 2.565362e+02
[Iteration 00] residual : 5.064539e+03, valid edges : 179, time : 0.014 sec.
[Iteration 01] residual : 5.037665e+03, valid edges : 178, time : 0.015 sec.
:
[Iteration 11] residual : 5.017307e+03, valid edges : 177, time : 0.013 sec.
Current_residual - new_residual < 1.000000e-06 * current_residual
[GlobalOptimizationLM] total time : 0.197 sec.
CompensateReferencePoseGraphNode : reference : 0

The following is a log from integrate_rgb_frames_for_fragment.

Fragment 000 / 013 :: integrate rgbd frame 0 (1 of 100).
Fragment 000 / 013 :: integrate rgbd frame 1 (2 of 100).
Fragment 000 / 013 :: integrate rgbd frame 2 (3 of 100).
:
Fragment 000 / 013 :: integrate rgbd frame 97 (98 of 100).
Fragment 000 / 013 :: integrate rgbd frame 98 (99 of 100).
Fragment 000 / 013 :: integrate rgbd frame 99 (100 of 100).

The following images show some of the fragments made by this script.

../../_images/fragment_0.png ../../_images/fragment_1.png ../../_images/fragment_2.png ../../_images/fragment_3.png