optimad / mimmo Goto Github PK

Move input & geodata folders from nested path to a global one in repository

Implement new wrapper for basic deformations (for FFD, RBF and mini-chains).

Include data fields in MimmoObject class. Attach standard types currently managed to meshes stored in Mimmo Objects:

• scalar and vector of double fields
• scalar of int (long int)

New expected features:

• automatic control of data (remapping and reordering in case of manipulation of the mesh)
• automatic merge control (embedding merge method in MimmoObject class [?] )
• direct import/export of meshes with attached fields
• quick and almost easy-to-use interface to fill/empty Data Structure (reimplemented from bitpit meshes).

Adding meaningful tests to prove iocgns and ioofoam modules properly working.

• ioofoam
• iocgns
• iovtk (wontfix)

Basic refinement methods of surface meshes only.

• ternary refinement (new barycentric vertex insertion) or similar algorithms
• surface mesh regularization methods [needed for this release?]

no mpi

• check SetVertices and Set Cells methods
• add bounding box interface-to-patch method

review and fixing xml interface for BendGeometry block

Development of collision detection and deformation modulation by impenetrability constraints.
Required features and activities:

• BvTree review -> now SkdTree

• Targeting also the specific problem of auto-collisions of a single body.

Update xml file version (current -1).

Split MimmoGeometry block in three different blocks (or derivations) to read, write and convert.

Bitpit new version will make CGElem::distanceXXX method with flag argument deprecated. They will pass also barycentric coordinates of support point as optional argument. It will be cleaner to call new methods form, specially in BvTree class and utils.

Review of xml documentation of all blocks. Missing for:

• SelectionByCylinder
• SelectionBySphere
• SelectionByMapping
•  SelectionByPID

Add a README and an INSTALL file to the project.
Add a Wiki page.

Align the xml examples to repeat all the .cpp examples.

• manipulators examples
• geohandlers examples
• generic input examples

Update everywhere get/setVertex, get/setConn and related functions to align with new bitpit features for polyhedra.

Remove CGNSPidExtractor if its functions are already covered by extractPID method of MimmoObject class and SelectionByPID class.
Then Integrate SurfaceTriangulator from mimic in mimmo

Rearrange member & methods in classes :

• make private or protected the needed methods
• follow the same order for methods for readability

modules :

• common
• core
• geohandlers
• iocgns
• iogeneric
• ioofoam
• iovtk
• manipulators
• utils

Features identification on surface meshes (mimmo/bitpit feature).

• sharp edges -> done in mimic::ExtractSurfaceFeatures.
• patches decomposition
• surface holes

Remove all *s from ports tables and add \n before and after ports descriptions
Change layout of ports table (see RotationAxes)

• common
• core
• geohandlers
• iogeneric
• ioofoam
• iovtk
• manipulators
• utils

Update Cmake tree to modular format.
Align it to the latest version of bitpit.

Check quality mesh methods development.

• negative volume identification
• orthogonality field computation
• skewness evaluation
• mesh smoothness/aspect ratio assessment

Install binaries directly in bin folder and change name to executable file.

Adding a scalar map to help distribute points on zone of surface more sensible to deformation.

New minor features to manage plot in execution functions:

• output dir for each block
• an optional global output dir for chain object (the chain will set the output dir for blocks)
• highlight in documentation that plot in execution functions are for debugging purpose

check SHARED version of the mimmo library and verify everything works.

Move from mimic and implement blocks for input/output of surface and volume meshes in mimmo

Development of new Laplacian based constraint propagation method for mesh morphing.

• Laplacian solver for surface and volume meshes (wait for bitpit volume unstructured mesh) -> EDIT use a new refactored POINT based scheme, VOLUME schemes are abandoned for inconsistencies while approximating boundary deformation.
• surface rotation (quaternion) propagation in volume mesh (prototype feature) with
  - EDIT added in MIMIC in PropagateFVQuaternions
• enhance dumping function using all the quality indices of checkMesh (related to issue #14 )
• introduce local smoother to fix extremely bad situation during volume morphing
• fix on negative volume cells (cut off and hole repair)

Featured issue related to this task:

• improving slip BC #106
• creating periodic BC #110

[EDIT] Before this implementations: review of mesh morphing methods #108

Review of doxygen documentation of whole project
Module by module

• common
• core
• geohandlers
• iocgns
• iogeneric
• ioofoam
• iovtk
• manipulators
• utils
• check accessory files of the Repo (README, INSTALL, CMAKELISTS etc..., and everything is not included in sources/tests/examples and binaries top folders)
• update license disclaimer to 2017 and correct bitpit with mimmo everywhere (not all disclaimer are updated, check it out manually reviewing docs)

Please thick once a module review is done.

Remove user option for bvTree refresh and manage it in an automatic manner.

Implement new I/O features for csv .

• add a logger manager and functions to set the related verbosity (see bitpit/PABLO examples)
• review of warnings of whole library to write on logger with different verbosity
• add error exceptions managing

Implementation of fundamental global manipulators of geometry :

• rotation
• translation
• scaling
• torsion

Create a changelog file for new versions

Fixing generic input/output block.

• create dir variable for input/output

Add a mandatory property for Input (Output) ports that have to be necessarily linked to other objects. Add warnings (or exception errors) if not linked mandatory ports during execution.

Development of new deformation method with volume preserving feature.

Chekc if mimmo library can be compiled with MPI. ENABLE_MPI flag.

Update tests and implement tutorials and examples .
For the modular structure:

1. tests need to be rewritten: they need to focus on their reference module and need to be small.
2. examples/tutorials can be rearranged from old tests. It will be clever to provide both their cpp implementation and xml dictionary declaration (to be used in the TUI interface MIMMOXml_exec)
3. update CMake file for tests and examples with new modular structure

New feature that optionally allows to apply directly a manipulation during a block execution (no applier block needed). Check compatibility with new features #39 & #38 .

Remove blank spaces from xml dictionaries in examples.

Review of install manual and .md for all dependencies of optional modules (CGNS, VTK, HDF5)

fix example cmake files

Add warnings if ports are not linked in addPin function (directly in addPin function and/or in mimmo executable)

Test compilation with warnings active and correct them.

Improve coding style, aligning it to bitpit (no return to void functions, and something similar).
Do it whenever/wherever is possible.

Implement interface of generic input/output files for:

• DAKOTA format files
• Internal standard interface for DOF. (related to issue #57)

Implement method of BaseManipulation class to absorb/flush base members. Add a call to base absorb/flush in derived blocks.

Need to suppress better enum PortType and substitute with an exstendible structure, for those applications mimmo-dependent. ->maybe there is a way using a plugin-singleton class to register ports, datatype, and datatag

• add set/get method for origin of scaling
• change name in ScaleGeometry

Add xml flush/absorb to :

• IOCGNS
• IOOFOAM
• IOVTK