Conduit Blueprint Mesh Examples

Simulation mesh data is passed to Ascent using a shared set of conventions called the Mesh Blueprint.

Simply described, these conventions outline a structure to follow to create Conduit trees that can represent a wide range of simulation mesh types (uniform grids, unstructured meshes, etc). Conduit’s dynamic tree and zero-copy support make it easy to adapt existing data to conform to the Mesh Blueprint for use in tools like Ascent.

These examples outline how to create Conduit Nodes that describe simple single domain meshes and review some of Conduits built-in mesh examples. More Mesh Blueprint examples are also detailed in Conduit’s Mesh Blueprint Examples Docs .

Creating a uniform grid with a single field

C++ Source

#include <iostream>
#include "ascent.hpp"
#include "conduit_blueprint.hpp"

using namespace ascent;
using namespace conduit;

int main(int argc, char **argv)
{
    //
    // Create a 3D mesh defined on a uniform grid of points
    // with a single vertex associated field named `alternating`
    //
    Node mesh;

    int numPerDim = 9;
    // create the coordinate set
    mesh["coordsets/coords/type"] = "uniform";
    mesh["coordsets/coords/dims/i"] = numPerDim;
    mesh["coordsets/coords/dims/j"] = numPerDim;
    mesh["coordsets/coords/dims/k"] = numPerDim;

    // add origin and spacing to the coordset (optional)
    mesh["coordsets/coords/origin/x"] = -10.0;
    mesh["coordsets/coords/origin/y"] = -10.0;
    mesh["coordsets/coords/origin/z"] = -10.0;
    double distancePerStep = 20.0/(numPerDim-1);
    mesh["coordsets/coords/spacing/dx"] = distancePerStep;
    mesh["coordsets/coords/spacing/dy"] = distancePerStep;
    mesh["coordsets/coords/spacing/dz"] = distancePerStep;

    // add the topology
    // this case is simple b/c it's implicitly derived from the coordinate set
    mesh["topologies/topo/type"] = "uniform";
    // reference the coordinate set by name
    mesh["topologies/topo/coordset"] = "coords";

    int numVertices = numPerDim*numPerDim*numPerDim; // 3D
    float *vals = new float[numVertices];
    for (int i = 0 ; i < numVertices ; i++)
        vals[i] = ( (i%2)==0 ? 0.0 : 1.0);

    // create a vertex associated field named alternating
    mesh["fields/alternating/association"] = "vertex";
    mesh["fields/alternating/topology"] = "topo";
    mesh["fields/alternating/values"].set_external(vals, numVertices);

    // print the mesh we created
    std::cout << mesh.to_yaml() << std::endl;

    //  make sure the mesh we created conforms to the blueprint

    Node verify_info;
    if(!blueprint::mesh::verify(mesh, verify_info))
    {
        std::cout << "Mesh Verify failed!" << std::endl;
        std::cout << verify_info.to_yaml() << std::endl;
    }
    else
    {
        std::cout << "Mesh verify success!" << std::endl;
    }

    // now lets look at the mesh with Ascent
    Ascent a;

    // open ascent
    a.open();

    // publish mesh to ascent
    a.publish(mesh);

    // setup actions
    Node actions;
    Node &add_act = actions.append();
    add_act["action"] = "add_scenes";

    // declare a scene (s1) with one plot (p1) 
    // to render the dataset
    Node &scenes = add_act["scenes"];
    scenes["s1/plots/p1/type"] = "pseudocolor";
    scenes["s1/plots/p1/field"] = "alternating";
    // Set the output file name (ascent will add ".png")
    scenes["s1/image_prefix"] = "out_ascent_render_uniform";

    // print our full actions tree
    std::cout << actions.to_yaml() << std::endl;

    // execute the actions
    a.execute(actions);

    // close ascent
    a.close();
}

Python Source


import conduit
import conduit.blueprint
import ascent
import numpy as np

#
# Create a 3D mesh defined on a uniform grid of points
# with a single vertex associated field named `alternating`
#

mesh = conduit.Node()

# create the coordinate set
num_per_dim = 9
mesh["coordsets/coords/type"] = "uniform";
mesh["coordsets/coords/dims/i"] = num_per_dim
mesh["coordsets/coords/dims/j"] = num_per_dim
mesh["coordsets/coords/dims/k"] = num_per_dim

# add origin and spacing to the coordset (optional)
mesh["coordsets/coords/origin/x"] = -10.0
mesh["coordsets/coords/origin/y"] = -10.0
mesh["coordsets/coords/origin/z"] = -10.0

distance_per_step = 20.0/(num_per_dim-1)

mesh["coordsets/coords/spacing/dx"] = distance_per_step
mesh["coordsets/coords/spacing/dy"] = distance_per_step
mesh["coordsets/coords/spacing/dz"] = distance_per_step

# add the topology
# this case is simple b/c it's implicitly derived from the coordinate set
mesh["topologies/topo/type"] = "uniform";
# reference the coordinate set by name
mesh["topologies/topo/coordset"] = "coords";

# create a vertex associated field named alternating
num_vertices = num_per_dim * num_per_dim * num_per_dim
vals = np.zeros(num_vertices,dtype=np.float32)
for i in range(num_vertices):
    if i%2:
        vals[i] = 0.0
    else:
        vals[i] = 1.0
mesh["fields/alternating/association"] = "vertex";
mesh["fields/alternating/topology"] = "topo";
mesh["fields/alternating/values"].set_external(vals)

# print the mesh we created
print(mesh.to_yaml())

# make sure the mesh we created conforms to the blueprint
verify_info = conduit.Node()
if not conduit.blueprint.mesh.verify(mesh,verify_info):
    print("Mesh Verify failed!")
    print(verify_info.to_yaml())
else:
    print("Mesh verify success!")

# now lets look at the mesh with Ascent
a = ascent.Ascent()
a.open()

# publish mesh to ascent
a.publish(mesh)

# setup actions
actions = conduit.Node()
add_act = actions.append();
add_act["action"] = "add_scenes";

# declare a scene (s1) with one plot (p1) 
# to render the dataset
scenes = add_act["scenes"]
scenes["s1/plots/p1/type"] = "pseudocolor"
scenes["s1/plots/p1/field"] = "alternating"
# Set the output file name (ascent will add ".png")
scenes["s1/image_name"] = "out_ascent_render_uniform"

# print our full actions tree
print(actions.to_yaml())

# execute the actions
a.execute(actions)

# close ascent
a.close()
_images/out_ascent_render_uniform.png

Fig. 28 Example Uniform Mesh Rendered

Creating an unstructured tet mesh with fields

C++ Source

#include <iostream>
#include "ascent.hpp"
#include "conduit_blueprint.hpp"

using namespace ascent;
using namespace conduit;


int main(int argc, char **argv)
{
    //
    // Create a 3D mesh defined on an explicit set of points,
    // composed of two tets, with two element associated fields
    //  (`var1` and `var2`)
    //

    Node mesh;

    // create an explicit coordinate set
    double X[5] = { -1.0, 0.0, 0.0, 0.0, 1.0 };
    double Y[5] = { 0.0, -1.0, 0.0, 1.0, 0.0 };
    double Z[5] = { 0.0, 0.0, 1.0, 0.0, 0.0 };
    mesh["coordsets/coords/type"] = "explicit";
    mesh["coordsets/coords/values/x"].set_external(X, 5);
    mesh["coordsets/coords/values/y"].set_external(Y, 5);
    mesh["coordsets/coords/values/z"].set_external(Z, 5);


    // add an unstructured topology
    mesh["topologies/mesh/type"] = "unstructured";
    // reference the coordinate set by name
    mesh["topologies/mesh/coordset"] = "coords";
    // set topology shape type
    mesh["topologies/mesh/elements/shape"] = "tet";
    // add a connectivity array for the tets
    int64 connectivity[8] = { 0, 1, 3, 2, 4, 3, 1, 2 };
    mesh["topologies/mesh/elements/connectivity"].set_external(connectivity, 8);

    const int num_elements = 2;
    float var1_vals[num_elements] = { 0, 1 };
    float var2_vals[num_elements] = { 1, 0 };
    
    // create a field named var1
    mesh["fields/var1/association"] = "element";
    mesh["fields/var1/topology"] = "mesh";
    mesh["fields/var1/values"].set_external(var1_vals, 2);

    // create a field named var2
    mesh["fields/var2/association"] = "element";
    mesh["fields/var2/topology"] = "mesh";
    mesh["fields/var2/values"].set_external(var2_vals, 2);

    // print the mesh we created
    std::cout << mesh.to_yaml() << std::endl;

    //  make sure the mesh we created conforms to the blueprint

    Node verify_info;
    if(!blueprint::mesh::verify(mesh, verify_info))
    {
        std::cout << "Mesh Verify failed!" << std::endl;
        std::cout << verify_info.to_yaml() << std::endl;
    }
    else
    {
        std::cout << "Mesh verify success!" << std::endl;
    }

    // now lets look at the mesh with Ascent
    Ascent a;

    // open ascent
    a.open();

    // publish mesh to ascent
    a.publish(mesh);

    // setup actions
    Node actions;
    Node & add_act = actions.append();
    add_act["action"] = "add_scenes";

    // declare a scene (s1) with one plot (p1) 
    // to render the dataset
    Node &scenes = add_act["scenes"];
    scenes["s1/plots/p1/type"] = "pseudocolor";
    scenes["s1/plots/p1/field"] = "var1";
    // Set the output file name (ascent will add ".png")
    scenes["s1/image_name"] = "out_ascent_render_tets";

    // print our full actions tree
    std::cout <<  actions.to_yaml() << std::endl;

    // execute the actions
    a.execute(actions);

    // close ascent
    a.close();
}

Python Source


import conduit
import conduit.blueprint
import ascent
import numpy as np
#
# Create a 3D mesh defined on an explicit set of points,
# composed of two tets, with two element associated fields
#  (`var1` and `var2`)
#

mesh = conduit.Node()

# create an explicit coordinate set
x = np.array( [-1.0, 0.0, 0.0, 0.0, 1.0 ], dtype=np.float64 )
y = np.array( [0.0, -1.0, 0.0, 1.0, 0.0 ], dtype=np.float64 )
z = np.array( [ 0.0, 0.0, 1.0, 0.0, 0.0 ], dtype=np.float64 )

mesh["coordsets/coords/type"] = "explicit";
mesh["coordsets/coords/values/x"].set_external(x)
mesh["coordsets/coords/values/y"].set_external(y)
mesh["coordsets/coords/values/z"].set_external(z)

# add an unstructured topology
mesh["topologies/mesh/type"] = "unstructured"
# reference the coordinate set by name
mesh["topologies/mesh/coordset"] = "coords"
# set topology shape type
mesh["topologies/mesh/elements/shape"] = "tet"
# add a connectivity array for the tets
connectivity = np.array([0, 1, 3, 2, 4, 3, 1, 2 ],dtype=np.int64)
mesh["topologies/mesh/elements/connectivity"].set_external(connectivity)
    
var1 = np.array([0,1],dtype=np.float32)
var2 = np.array([1,0],dtype=np.float32)

# create a field named var1
mesh["fields/var1/association"] = "element"
mesh["fields/var1/topology"] = "mesh"
mesh["fields/var1/values"].set_external(var1)

# create a field named var2
mesh["fields/var2/association"] = "element"
mesh["fields/var2/topology"] = "mesh"
mesh["fields/var2/values"].set_external(var2)

# print the mesh we created
print(mesh.to_yaml())

# make sure the mesh we created conforms to the blueprint
verify_info = conduit.Node()
if not conduit.blueprint.mesh.verify(mesh,verify_info):
    print("Mesh Verify failed!")
    print(verify_info.to_yaml())
else:
    print("Mesh verify success!")

# now lets look at the mesh with Ascent
a = ascent.Ascent()
a.open()

# publish mesh to ascent
a.publish(mesh)

# setup actions
actions = conduit.Node()
add_act = actions.append();
add_act["action"] = "add_scenes"

# declare a scene (s1) with one plot (p1) 
# to render the dataset
scenes = add_act["scenes"]
scenes["s1/plots/p1/type"] = "pseudocolor"
scenes["s1/plots/p1/field"] = "var1"
# Set the output file name (ascent will add ".png")
scenes["s1/image_name"] = "out_ascent_render_tets"

# print our full actions tree
print(actions.to_yaml())

# execute the actions
a.execute(actions)

# close ascent
a.close()

_images/out_ascent_render_tets.png

Fig. 29 Example Tet Mesh Rendered

Experimenting with the built-in braid example

Related docs: Braid .

C++ Source

#include <iostream>
#include <math.h>
#include <sstream>

#include "ascent.hpp"
#include "conduit_blueprint.hpp"

using namespace ascent;
using namespace conduit;

const float64 PI_VALUE = 3.14159265359;

// The conduit blueprint library provides several
// simple builtin examples that cover the range of
// supported coordinate sets, topologies, field etc
//
// Here we create a mesh using the braid example
// (https://llnl-conduit.readthedocs.io/en/latest/blueprint_mesh.html#braid)
// and modify one of its fields to create a time-varying
// example

// Define a function that will calcualte a time varying field
void braid_time_varying(int npts_x,
                        int npts_y,
                        int npts_z,
                        float interp,
                        Node & res)
{
    if(npts_z < 1)
        npts_z = 1;

    int npts = npts_x * npts_y * npts_z;

    res["association"] = "vertex";
    res["topology"]    = "mesh";

    float64 *vals_ptr = res["values"].value();

    float64 dx_seed_start = 0.0;
    float64 dx_seed_end   = 5.0;
    float64 dx_seed = interp * (dx_seed_end - dx_seed_start) + dx_seed_start;

    float64 dy_seed_start = 0.0;
    float64 dy_seed_end   = 2.0;
    float64 dy_seed = interp * (dy_seed_end - dy_seed_start) + dy_seed_start;

    float64 dz_seed = 3.0;

    float64 dx = (float64) (dx_seed * PI_VALUE) / float64(npts_x - 1);
    float64 dy = (float64) (dy_seed * PI_VALUE) / float64(npts_y-1);
    float64 dz = (float64) (dz_seed * PI_VALUE) / float64(npts_z-1);

    int idx = 0;
    for (int k=0; k < npts_z; k++)
    {
        float64 cz =  (k * dz) - (1.5 * PI_VALUE);
        for (int j=0; j < npts_y; j++)
        {
            float64 cy =  (j * dy) - PI_VALUE;
            for (int i=0; i < npts_x; i++)
            {
                float64 cx = (i * dx) + (2.0 * PI_VALUE);
                float64 cv = sin( cx ) + 
                             sin( cy ) +  
                             2.0 * cos(sqrt( (cx*cx)/2.0 +cy*cy) / .75) + 
                             4.0 * cos( cx*cy / 4.0);
                                  
                if(npts_z > 1)
                {
                    cv += sin( cz ) + 
                          1.5 * cos(sqrt(cx*cx + cy*cy + cz*cz) / .75);
                }
                vals_ptr[idx] = cv;
                idx++;
            }
        }
    }
}

int main(int argc, char **argv)
{
    // create a conduit node with an example mesh using conduit blueprint's braid function
    // ref: https://llnl-conduit.readthedocs.io/en/latest/blueprint_mesh.html#braid

    Node mesh;
    conduit::blueprint::mesh::examples::braid("hexs",
                                              50,
                                              50,
                                              50,
                                              mesh);

    Ascent a;
    // open ascent
    a.open();

    // create our actions
    Node actions;
    Node &add_act = actions.append();
    add_act["action"] = "add_scenes";

    // declare a scene (s1) and plot (p1)
    // to render braid field
    Node & scenes = add_act["scenes"];
    scenes["s1/plots/p1/type"] = "pseudocolor";
    scenes["s1/plots/p1/field"] = "braid";

    // print our actions tree
    std::cout << actions.to_yaml() << std::endl;

    // loop over a set of steps and
    // render a time varying version of the braid field

    int nsteps = 20;

    float64 interp_val = 0.0;
    float64 interp_dt = 1.0 / float64(nsteps-1);

    for( int i=0; i < nsteps; i++)
    {
        std::cout << i << ": interp = " << interp_val << std::endl;

        // update the braid field
        braid_time_varying(50,50,50,interp_val,mesh["fields/braid"]);
        // update the mesh cycle
        mesh["state/cycle"] = i;
        // Set the output file name (ascent will add ".png")
        std::ostringstream oss;
        oss << "out_ascent_render_braid_tv_" << i;
        scenes["s1/renders/r1/image_name"] = oss.str();
        scenes["s1/renders/r1/camera/azimuth"] = 25.0;

        // publish mesh to ascent
        a.publish(mesh);

        // execute the actions
        a.execute(actions);

        interp_val += interp_dt;
    }

    // close ascent
    a.close();
}

Python Source


import conduit
import conduit.blueprint
import ascent

import math
import numpy as np

# The conduit blueprint library provides several 
# simple builtin examples that cover the range of
# supported coordinate sets, topologies, field etc
# 
# Here we create a mesh using the braid example
# (https://llnl-conduit.readthedocs.io/en/latest/blueprint_mesh.html#braid)
# and modify one of its fields to create a time-varying
# example

# Define a function that will calcualte a time varying field
def braid_time_varying(npts_x, npts_y, npts_z, interp, res):
    if npts_z < 1:
        npts_z = 1

    npts = npts_x * npts_y * npts_z
    
    res["association"] = "vertex"
    res["topology"] = "mesh"
    vals = res["values"]
    
    dx_seed_start = 0.0
    dx_seed_end   = 5.0
    dx_seed = interp * (dx_seed_end - dx_seed_start) + dx_seed_start
    
    dy_seed_start = 0.0
    dy_seed_end   = 2.0
    dy_seed = interp * (dy_seed_end - dy_seed_start) + dy_seed_start
    
    dz_seed = 3.0

    dx = (float) (dx_seed * math.pi) / float(npts_x - 1)
    dy = (float) (dy_seed * math.pi) / float(npts_y-1)
    dz = (float) (dz_seed * math.pi) / float(npts_z-1)
    
    idx = 0
    for k in range(npts_z):
        cz =  (k * dz) - (1.5 * math.pi)
        for j in range(npts_y):
            cy =  (j * dy) - (math.pi)
            for i in range(npts_x):
                cx =  (i * dx) + (2.0 * math.pi)
                cv =  math.sin( cx ) + \
                      math.sin( cy ) +  \
                      2.0 * math.cos(math.sqrt( (cx*cx)/2.0 +cy*cy) / .75) + \
                      4.0 * math.cos( cx*cy / 4.0)
                                  
                if npts_z > 1:
                    cv += math.sin( cz ) + \
                          1.5 * math.cos(math.sqrt(cx*cx + cy*cy + cz*cz) / .75)
                vals[idx] = cv
                idx+=1

# create a conduit node with an example mesh using conduit blueprint's braid function
# ref: https://llnl-conduit.readthedocs.io/en/latest/blueprint_mesh.html#braid
mesh = conduit.Node()
conduit.blueprint.mesh.examples.braid("hexs",
                                      50,
                                      50,
                                      50,
                                      mesh)

a = ascent.Ascent()
# open ascent
a.open()

# create our actions
actions = conduit.Node()
add_act =actions.append()
add_act["action"] = "add_scenes"

# declare a scene (s1) and plot (p1)
# to render braid field 
scenes = add_act["scenes"] 
scenes["s1/plots/p1/type"] = "pseudocolor"
scenes["s1/plots/p1/field"] = "braid"

print(actions.to_yaml())

# loop over a set of steps and 
# render a time varying version of the braid field

nsteps = 20
interps = np.linspace(0.0, 1.0, num=nsteps)
i = 0

for interp in interps:
    print("{}: interp = {}".format(i,interp))
    # update the braid field
    braid_time_varying(50,50,50,interp,mesh["fields/braid"])
    # update the mesh cycle
    mesh["state/cycle"] = i
    # Set the output file name (ascent will add ".png")
    scenes["s1/renders/r1/image_name"] = "out_ascent_render_braid_tv_%04d" % i
    scenes["s1/renders/r1/camera/azimuth"] = 25.0
    
    # publish mesh to ascent
    a.publish(mesh)

    # execute the actions
    a.execute(actions)
    
    i+=1

# close ascent
a.close()

_images/out_ascent_render_braid_tv_0019.png

Fig. 30 Final Braid Time-varying Result Rendered