GitLab

Fix mesh metadata python

Closes #54

See merge request !237

* adds bindings for vector of arrays and vector of vector of arrays
* adds a test to set every member of mesh metadata structure

sync w/ master

See merge request !236

Add some logic for Cori GPU nodes

See merge request !235

bug fixes for 3.2.1

See merge request !234

don't use vtk XML writers without ENABLE_VTK_IO

See merge request !233

Release 3.2.0

See merge request !232

Release notes:

This release contains ADIOS2 work. It is also a sync point with AMReX codes.
Now AMReX and WarpX development branches are tested and working.
In addition this release contains bug fixes for VTK I/O, Ascent, HDF5, and
sensei_config.

  1 c1ba0968 sensei_config remove spaces in link dependencies
  2 9757d421 (origin/fix_sensei_config_warning, fix_sensei_config_warning) fix sensei_config warning
  3 9c987ffc added std:: to i/ostreams
  4 9c18ee18 added filename for supported xml attribute name
  5 958d3e5a removed ADIOS1 traces
  6 f8aff402 fix a typo in ascent adaptor
  7 def834ca (origin/sensei_3_amrex, sensei_3_amrex) amr metadata validations
  8 a511934a adios2 fix miultiple defines
  9 9989a428 check adios2 calls for errors
 10 0a2edb11 XML attributes to set ADIOS 2 buffering
 11 a89934b5 IsoSurfacePartitioner write domain decomp in vtu format
 12 e32e7655 Add an XML option to ADIOS2 to specify the reader connection timeout
 13 567131a2 sensei_config get compiler from environment
 14 72298fcf only find MPI C library
 15 5930c5ea work around a bug in ADISO2 cmake code
 16 86289037 Added BlockLevel in slice extract VTK output
 17 ac229e6f always request ghost cells for AMR meshes
 18 88682d49 VTKPosthocIO dont write datasets that have no cells
 19 df340bec fix indexing bug for AMR data in SliceExtract
 20 28e902ac improve metadata validations
 21 e3238528 fixes to ADISO2 schema for AMR
 22 5a29cf7c disable experimentatal miniapps by default and mark them as experimental
 23 bbc5178d update the version number with every configure pass
 24 46d71432 use ADIOS2_DIR in CMake export config
 25 1b11270d expose version in sensei_config
 26 cb477c18 fix bad error check in VTKUtils
 27 a98dd16a (origin/macos_fixes_for_ci) Python fixes and improvements
 28 e6e7151a use Python 3 by default
 29 51724e12 don't enable VTK_RENDERING by default
 30 e8c3114f make oscillator VTK writer test depend on VTK_IO
 31 d66503ff make mandelbrot VTK writer test depend on VTK_MPI
 32 1412cb31 fix a warning in ADIOS2 schema
 33 752d720b move cdash site form hpcvis to nersc
 34 ffe93461 (origin/fix_ghost_cell_name, fix_ghost_cell_name) fix a crash when compiled against Debug build of VTK
 35 425203bb Add regression tests for ADISO2 M x N
 36 68922049 configurable analysis plumbing for adios2
 37 1fe2d8ec make send/receive ADIOS2 XML symetric
 38 a62d6da1 cleanup left over cmake code from old external diy
 39 63526f47 adios2 integer type for selections
 40 bb002891 clean up profiler macros
 41 2df4af27 remove adios2 end-point
 42 48732c1c apply profiler updates to adios2 work and minor cleanup
 43 56538ee9 Removing prints and adding ability to set adios2 parameters.
 44 b4c8bb63 Adding another testing file.
 45 a674d4c3 Updates to get SST working initially.
 46 4b9d878f Updates to get BP working and starting debug of sst.
 47 2970669a More updates to get adios2 integrated and fully building.
 48 9e063150 Working on adios2 rea updates.
 49 60364460 Updating a bunch of adios2 write stuff from adios1 version.
 50 7ff0dcb6 More adios2 updates using C bindings API from ADIOS2...
 51 8f73f202 Adding some initial ADIOS2 files and cmake logic.

more cleanup

See merge request !231

last minute cleanup

See merge request !230

AMReX and ADIOS2 related updates

See merge request !228

makes BlocksPerLev, RefRatio, and BlockLevel associated with BlockDecom
flag. If the BlockDecomp flags is set, then those fields are checked
during validation.

fixes instances of multiple defines (the adios1 pattern).
define once, build up book keeping info to setup selections
for each block's data.

* buffer_size sets the number of steps to buffer (QueueLimit)
* buffer_mode sets the mode to either Block or Discard (QueueFullPolicy)

this is because ghost cell arrays are used for both masking ghost cells
and masking covered levels. A simulation with 0 ghost cells and more
than 1 level needs the ghopst cells array. An example of this is the
miniapp that ships with AMR that we use for the tutorial.

* check the fields that are required (bug fix)
* check per block fields for the correct length
* check array fields for the correct length
* check the per block per array fields for the
  correct length

these checks verify that you won't run off the end of an
array but do not check the validity of the values provided

Macos fixes for ci

See merge request !227