RTTOV13 cloud bug-fix

RTTOV 13:

• Initialize RTTOV13 profile cloud arrays to zero for profiles. #542
• Updated docs with RTTOV13 namelist info.
• New obs_def_rttov13_mod.f90 namelist option wfetch_value.
• Updated mkmf.templates for RTTOV on Derecho: HDF5 library flags. #625

Thanks to Joseph Chan (Department of Geography, The Ohio State University) for the original cloud bug, fix and review.

GitHub actions changes:

• checkout action updated to v4. #630

CLM bug-fixes

CLM5-DART SourceMods path variable correction

dart_to_clm:

• Resolved compiler error by changing the arrays for number of snow layers (snlsno and clm_SNLSNO) to integer types
• Forcing h2oliq_po to be slightly larger than zero to be consistent with h2oice_po and dzsno_po
• Adding checks to ensure that the values for h2oliq_po, h2oice_po, dzsno_po, and snowdp_po are never negative

QCEFF

Nonlinear and Non-Gaussian Data Assimilation Capabilities in DART

• Adds a Quantile-Conserving Ensemble Filtering Framework (QCEFF) to DART.
  Publications: QCEFF part1, QCEFF part 2, QCEFF part3

• The default QCEFF options are EAKF, normal distribution (no bounds).

• User interface changes:

  • filter_kind is now a per-qty option through QCEFF table, not a namelist option

  • Two new required namelists (add to input.nml files):

    • probit_transform_nml
    • algorithm_info_nml

  • assim_tools_mod namelist:

    • filter_kind removed from namelist
    • sort_obs_inc namelist option applied to ENKF only, so default is now .true.
    • spread_restoration is not supported in this version

  • algorithm_info_mod QCEFF options read at runtime from .csv or .txt file

• New probability distribution modules:

  • beta_distribution_mod contributed by Chris Riedel

  • bnrh_distribution_mod (bounded normal rank histogram)

  • gamma_distribution_mod

  • normal_distribution_mod

  • probit_transform_mod

  • distribution_params_mod

• Update to lorenz_96_tracer_advection:

  • positive_tracer
  • more tracer namelist options available and changed defaults
  • updated perturbation routine
  • bug-fix: real(r8) rather than real(i8)

• Fix: obs_def_1d_state_mod (oned forward operators):

  • For non-integer powers, fix up values for negative bases

• Documentation:

  • main page section on Nonlinear and Non-Gaussian Data Assimilation Capabilities in DART
  • QCEFF instructions: Quantile-Conserving Ensemble Filter Framework
  • Example to work through: QCEFF: Examples with the Lorenz 96 Tracer Model

Derecho CLM-DART

• CLM-DART scripting updated for Derecho.
• CLM-DART SourceMods packaged with DART.
• Reinstituted both 'complete' and 'single_year' datm streamlist files in shell scripts
  due to delays when initializing the CAM reanalysis files through campaign/collections directory.

bug-fixes:

• Fixed format statement in assert_mod to conform to Fortran standards.
• Fixed debugging output for failed forward operators.

doc-fixes:

• Remove broken link for register for dart.

Developer tests and bug fixes

• new developer tests to run all builds for all compilers on NSF NCAR machine
  Derecho.
• removed redundant nc_check routine from utilities_mod in favor of
  netcdf_utilities_mod::nc_check
• Improved default thinning options for AIRS L2 converter.

bug-fixes:

• AIRS L2 converter message prints correct number of obs.
• MOM6 model_mod .eqv. used for logical comparison to conform to Fortran standard.

Note to developers: if you have your own code that makes use of DART's nc_check
replace use utilities_mod, only :: nc_check with use netcdf_utilities_mod, only :: nc_check

NSF documentation update

• Following official Policy on Brand Standards of the U.S. National Science Foundation for DART documentation.
• Changes instances of “NCAR” to “NSF NCAR” and adds NSF logo to the DART logo in the navigation menu.

Github Actions MPI f08 check

Adds a new check to the Github Actions workflow that uses the mpif08 module (compiles with ./quickbuild mpif08 and runs filter on 2 mpi tasks with the lorenz_96 model). #563

MPI f08 quickbuild option

new features:

• quickbuild.sh mpif08 option to build using the mpi_f08 module #261 #551 #497
• nvhpc mkmf.template for use on Derecho #554

bug-fixes:

• filter_mod.dopperlerfold in sync with filter_mod #565
• unnecessary loop removed from Mersenne twister developer test

doc-fixes:

• rename assim_model_mod.rst to match the module #282
• fix various Sphinx warnings and broken link #546

Quantile methods pre-release: QCEFF Table

Pre-release version of the quantile conserving and probit transform tools, including the new functionality of the QCEFF Table

The documentation for this branch is available online

Please contact [email protected] if you would like to develop scientific collaborations using these new capabilities.

Below is a list of the changes to quantile_methods that are included with this release:

• The QCEFF input table allows for the specification of QCEFF/probit input options, per QTY, at runtime.
• This replaces the functionality of using an algorithm_info_mod specific to the model, which meant editing algorithm_info_mod.f90 to specify which distribution should be used for which quantity.
• The algorithm_info_mod files for the lorenz_96_tracer_advection model examples have been replaced with set QCF tables (all_bnrhf_qcf_table.csv, all_eakf_qcf_table.csv, state_eakf_tracer_bnrhf_qcf_table.csv, neg_qcf_table.csv) and can be found in lorenz_96_tracer_advection/work.
• Removed the ‘global’ version of filter_kind from assim_tools_mod.f90 and the &assim_tools_nml

Hybrid EnKF-OI filter

A hybrid ensemble and optimal interpolation filter, combining flow-dependent ensemble covariances with time-invariant climatological backgrounds. The combination is done linearly and adaptively both in space and time.

For detail see El Gharamti, et al. (2024): Leveraging a Novel Hybrid Ensemble and Optimal Interpolation Approach for Enhanced Streamflow and Flood Prediction.

Note: This release is supported for WRF-Hydro only and is based on DART version v9.11.7