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@cyrush cyrush released this 05 Feb 22:10
· 68 commits to develop since this release
v0.9.0
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0.9.0 Release Highlights

(adapted from Conduit's Changelog)

Added

General

  • Added conduit_json_external protocol. Creates a json schema representation of a node that includes all addresses that the node is pointing to. Parsing this schema will create a node equivalent to set_external().
  • Added a conduit_generate_data executable that can generate datasets using the tiled() and braid() functions and save the datasets to files.
  • Added helpers that support enhanced debugging of Conduit Node objects in several debuggers.
  • Added the ability to set values via a DataAccessor and DataAccessor to string methods.
  • Added explicit set methods to DataArray, and the ability to set DataArray values from a DataAccessor.

Relay

  • Added extensive Mesh Blueprint Silo I/O support including, including options for Overlink Silo conventions. This capability allows Silo files to be used as a close peer to the Blueprint HDF5 I/O options.
  • Added ability to read N-dimensional hyperslabs from HDF5 leaf arrays into linear memory arrays.
  • Added conduit.relay.io.silo to the Python interface.

Blueprint

  • Added a conduit::blueprint::mesh::examples::tiled() function that can generate meshes by repeating a tiled pattern.
  • Added a conduit::blueprint::mpi::mesh::utils::adjset::compare_pointwise() function that can compare adjsets for multi-domain meshes in parallel. The function is used to diagnose adjsets with points that are out of order on either side of the boundary. The comparison is done point by point within each group and it checks to ensure that the points reference the same spatial location.
  • Added a conduit::blueprint::mesh::utils::reorder() function that can accept a vector of element ids and create a reordered topology. The points and coordinates are re-ordered according to their first use in the new element ordering.
  • Added a conduit::blueprint::mesh::utils::topology::spatial_ordering() function that takes a topology and computes centroids for each element, passes them through a kdtree, and returns the new element ordering. The new ordering can be used with the reorder() function.
  • Added a conduit::blueprint::mesh::utils::topology::hilbert_ordering() function that computes a new order for a topology's elements based on their centroids and a Hilbert curve. The new ordering can be used with the reorder() function.
  • Added a conduit::blueprint::mesh::utils::slice_array() function that can slice Conduit nodes that contain arrays. A new node with the same type is created but it contains only the selected indices.
  • Added a conduit::blueprint::mesh::utils::slice_field() function. It is like slice_array() but it can handle the mcarray protocol. This functionality was generalized from the partitioner.
  • Added a conduit::blueprint::mesh::utils::topology::unstructured::rewrite_connectivity() function that will rewrite a topology's connectivity in terms of a different coordset. The PointQuery is used internally to search for equivalent coordinates in the new coordset.
  • Added a conduit::blueprint::mesh::utils::copy_fields() function that helps copy fields from one fields node to another.
  • Added a conduit::blueprint::mesh::utils::convert() function that converts a list of nodes to a desired data type.
  • Added a conduit::blueprint::mesh::generate_boundary_partition_field() function that can take a topology and a partition field and generate a field for a related boundary topology. This is helpful when partitioning a boundary topology in the same manner as its parent topology.
  • Added blueprint.mesh.examples.strided_structured to the blueprint python module.
  • Added conduit::blueprint::mesh::utils::adjset::to_topo() function to make new point mesh topologies for each group of an adjacency set. This permits each group to be visualized as a set of points in VisIt. The groups for each side of the domain interface can be compared since they are separate point meshes.
  • Added conduit::blueprint::mesh::utils::adjset::is_canonical() function to check whether the group names in an adjacency set are canonical.
  • Added more Mesh Blueprint docs.

Changed

General

  • Conduit now requires C++14 and CMake 3.21 or newer.
  • Improved the efficiency of json parsing logic.
  • The conduit_relay_io_convert program was enhanced so it can read/write Blueprint root files by passing "blueprint" for the read or write protocols.
  • The conduit_adjset_validate program now writes a point mesh for each adjset groups if the -output argument is supplied.
  • Updated to BLT 0.6.1
  • Updated Python logic hybrid module build logic to use pip and setuptools. Removed use of distutils.

Blueprint

  • The conduit::blueprint::mpi::mesh::partition_map_back() function was enhanced so it accepts a "field_prefix" value in its options. The prefix is used when looking for the global_vertex_ids field, which could have been created with a prefix by the same option in the conduit::blueprint::mpi::mesh::generate_partition_field() function.
  • The conduit::blueprint::mesh::utils::ShapeType class was enhanced so it can take topologies other than unstructured.
  • The conduit::blueprint::mesh::utils::topology::unstructured::points() function was changed so it takes an optional argument that can turn off point uniqueness and sorting so the method can return points for an element as they appear in the connectivity, for non-polyhedral shapes.
  • Removed deprecated use of npts_z !=0 for 2D shape types in conduit::blueprint::mesh::examples::{braid,basic,grid}. These cases now issue a CONDUIT_ERROR.
  • Removed volume_dependent entry in specsets. Species ratios and mass fractions are innately volume independent.

Relay

  • Relay Mesh Blueprint I/O methods (conduit::relay::io::blueprint::{save,write}_mesh()) now default to hdf5 protocol if Conduit is built with hdf5 support.

Fixed

General

  • The Fortran node procedures for fetching integer pointers are now associated with the correct routines.

Blueprint

  • The conduit::blueprint::mesh::partition() function no longer issues an error when it receives a "maxshare" adjset.
  • The partitioner is better about outputting a "material_map" node for matsets. The "material_map" node is optional for some varieties of matset but they can also help the conduit::blueprint::mesh::matset::to_silo() function generate the right material numbers when a domain does not contain all materials.
  • The conduit::Node::swap() and conduit::Node::move() functions no longer cause node names to disappear.
  • The conduit::blueprint::mesh::utils::kdtree could erroneously return that points were not found when one of the coordset dimensions had a very narrow range of values. This could happen with planar 2D geometries embedded in 3D, such as inside a MatchQuery during adjacency set creation.
  • The conduit::blueprint::mpi::mesh::generate_partition_field() function was not treating polyhedral topologies correctly, leading to unusable partitioning fields.
  • The point merging algorithm in the Blueprint partitioner was corrected so it should no longer produce occasional duplicate points when merging coordsets.
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