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Merge develop into master#485

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edwardhartnett merged 203 commits intoufs-community:masterufs-community/UFS_UTILS:masterfrom kgerheiser:masterCopy head branch name to clipboardApr 30, 2021

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Commits on Oct 15, 2019

• develop: This commit references #23.

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Commits on Oct 24, 2019

• release/v1.1.0: This commit references #26. (#28)

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Commits on Oct 28, 2019

• chgres_cube snow fix (#30)

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Commits on Dec 4, 2019

• Feature/chgres ice check (#35)

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Commits on Dec 11, 2019

• Update for new NCEPLIB library location on Jet (#34 #37)

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Commits on Dec 13, 2019

• working version

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• Merge branch 'working' into develop

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Commits on Dec 16, 2019

• Revert "Merge branch 'working' into develop"

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Commits on Dec 30, 2019

• chgres_cube vertical velocity fix

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Commits on Jan 23, 2020

• develop:

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Commits on Jan 24, 2020

• chgres_cube grib2 GFS data support (#48)

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Commits on Feb 5, 2020

• Account code update for Cray/Dell (#52)

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Commits on Feb 6, 2020

• Update fre-nctools build module on Jet

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Commits on Feb 18, 2020

• Update serial chgres and global cycle to use parallel netcdf 4.7.4

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Commits on Feb 24, 2020

• Add GRIB2 regression test for CHGRES_CUBE

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Commits on Feb 25, 2020

• Add LGPL license to repository. (#70)

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Commits on Feb 28, 2020

• GDAS initialization scripts

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Commits on Mar 24, 2020

• Update documentation

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Commits on Mar 27, 2020

• CHGRES_CUBE: range check SST when using GFS GRIB2 input data

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Commits on Apr 27, 2020

• chgres_cube - GFS v16 netcdf history file option

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Commits on May 1, 2020

• Regression tests for global_cycle, emcsfc and grid programs.

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Commits on May 18, 2020

• Update repository to use CMake

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Commits on Jun 2, 2020

• Update for path changes on Jet

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Commits on Jun 8, 2020

• Add geo-referencing to 'orography', 'sfc_climo' and 'chgres_cube' files

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Commits on Jun 16, 2020

• Define NDATE in GDAS initialization scripts

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Commits on Jul 20, 2020

• Add processing of climatological Thompson MP tracers to chgres_cube

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Commits on Jul 27, 2020

• feature/cmakemod This commit references #122 (#124)

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Commits on Aug 13, 2020

• Add extended Schmidt gnomonic grid capability

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Commits on Aug 17, 2020

• Port repository to Orion

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Commits on Sep 3, 2020

• Add lake-maker to grid generation process

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Commits on Sep 14, 2020

• Update to use project configs from NCEPLIBS

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Commits on Sep 15, 2020

• Updates for the Gnu compiler

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Commits on Sep 18, 2020

• Update NetCDF and HDF5 modules on Hera

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• Convert all scripts to bash

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• Add Mark Iredell's vertical coordinate generator

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Commits on Sep 25, 2020

• Update make_solo_mosaic to handle longer file names

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Commits on Sep 29, 2020

• Use FVCOM lake surface conditions

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Commits on Oct 1, 2020

• CHGRES_CUBE GRIB2 Bug Fix

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• Update GDAS initialization utility for ATMOS subdirectory

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Commits on Oct 7, 2020

• Bug Fix for FVCOM Processing to Allow Adding NetCDF Variables on Hera

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Commits on Oct 14, 2020

• GFS v16 NCO standards updates

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Commits on Oct 15, 2020

• Update chgres_cube to ingest HRRR, RAP, and NAM grib2 files

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Commits on Oct 20, 2020

• Remove landsfcutil library dependency from snow2mdl program

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Commits on Oct 21, 2020

• added README

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Commits on Oct 22, 2020

• Add test for GNU compiler on Hera

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• Fix bug in chgres_cube that prevents Thompson aerosols from being created

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• Update the 'chgres_cube.rst' documentation file

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Commits on Oct 26, 2020

• adding docs

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• added FindESMF.cmake

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Commits on Oct 27, 2020

• updates

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• removed submodule

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• updated README

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• Add lake fraction/depth option for GFDL regional grids

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Commits on Oct 28, 2020

• removed empty .gitmodules file

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• merged develop

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• ejh_doc_2 Remove empty CMakeModules directory. Package

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• Merge pull request #192 from NOAA-EMC/ejh_doc_2

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• more doxygen work

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• Merge pull request #195 from NOAA-EMC/ejh_docs_4

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• changed some code files to doxygen comments

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• doxygen work

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Commits on Oct 29, 2020

• Merge pull request #198 from NOAA-EMC/ejh_docs_5

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Commits on Oct 30, 2020

• Add build of ufs_utils on Gaea

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• Correct some chgres_cube comment documentation

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• Point to new NCEPLIBS location on Jet

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Commits on Nov 2, 2020

• More doxygen changes

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Commits on Nov 4, 2020

• Create workflow for UFS_UTILS

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Commits on Nov 6, 2020

• More doxygen changes

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Commits on Nov 10, 2020

• More doxygen changes

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Commits on Nov 17, 2020

• More doxygen updates

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• Use hpc-stack on Hera

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Commits on Nov 18, 2020

• chgres_cube fix to correctly read vertical coordinate type from GRIB2 data

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Commits on Nov 23, 2020

• Use hpc-stack on Orion, Jet and WCOSS-Dell

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Commits on Nov 30, 2020

• Next round of doxygen changes, and fix some comment warnings

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Commits on Dec 1, 2020

• Various chgres_cube bug fixes and code improvements

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Commits on Dec 15, 2020

• Doxygen updates to emcsfc_snow2mdl

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• Remove unused module files

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Commits on Dec 21, 2020

• Remove nemsio utilities

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Commits on Dec 29, 2020

• Add doxygen comments to chgres_cube

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Commits on Jan 12, 2021

• Add basic doxygen to remaining repository routines

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Commits on Feb 9, 2021

• updated workflow

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• now testing esmf cache

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• trying to fix esmf caching

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• working on finding esmf

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• working on finding esmf

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• working on finding esmf

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• testing esmf cache

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• attempted removal of setting ESMF_DIR

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• attempted removal of setting ESMF_DIR

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• Merge pull request #272 from edwardhartnett/ejh_cache_5

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Commits on Feb 10, 2021

• starting to use cacheing on jasper build

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• starting to use cacheing on jasper build

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• starting to use cacheing on jasper build

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• new line weirdness

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• cacheing jasper build

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• cacheing jasper build

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• cacheing jasper build still

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• cacheing jasper build still

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• switched to nceplibs 1.3.0

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• adding new workflow

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• more work on workflows

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• turning on cache for nceplibs-1.3.0 build

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• clean up and test caching

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• Merge pull request #274 from edwardhartnett/ejh_more_ci

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Commits on Feb 11, 2021

• Fix problem with orog program when using MacOS

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• Start to list and describe all utilities in user_guide.md

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• Create macOS Action

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Commits on Feb 12, 2021

• Feature/unit tests for chgres_cube.fd/utils.f90 (#276)

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Commits on Feb 18, 2021

• added documentation build to workflows, turned on doxygen warnings for missing documentation (#297)

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• updated doxygen docs for chgres_cube.fd/input_data.F90 (#285)

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• doxygen for model_grid.F90 (#289)

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Commits on Feb 19, 2021

• Start of testing for program_setup.F90 (#304)

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• updated readme (#323)

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• consolidated gitignore files (#322)

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• doxygen for program_setup.f90 (#290)

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• trying to build test for fre-nctools.fd/shared_lib/create_xgrid.c (#301)

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• improved docs in write_data (#306)

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• doxygen improvements for chgres_cube.fd/atmosphere.F90 and grib2_util.F90, turn on doxygen cross-references (#287)

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• doxygen updates for chgres_cube.fd/search_util.f90 and sfc_climo_gen.fd/interp.F90 (#302)

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Commits on Feb 20, 2021

• fixing more doxygen for sorc/chgres_cube.fd/static_data.F90 (#315)

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Commits on Feb 22, 2021

• doxygen fixes for sorc/chgres_cube.fd/chgres.F90 (#319)

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• updating README (#333)

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Commits on Feb 23, 2021

• More chgres_cube doxygen (#329)

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• fix doxygen for sorc/emcsfc_snow2mdl.fd/grib_utils.f (#346)

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• delete global_chgres (#299)

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Commits on Feb 24, 2021

• now pass filename to read_setup_namelist() (#347)

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• bugfix/docfix - update conf.py for latest version of (#250)

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• Rename all chgres_cube routines with F90 extension. (#354)

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Commits on Feb 25, 2021

• doxygen for fvcom_tools.fd (#339)

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• for chgres_cube - soil parameter references in program_setup.f90, turned on doxygen documentation for private functions (#352)

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• Doxygen updates to chgres_cube.fd/surface.F90 (#359)

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• Fix segmentation fault in topo filtering code when processing ESG grids (#238)

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• doxygen updates for emcsfc_ice_blend.fd/emcsfc_ice_blend.f90 (#364)

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• improving module documentation in chgres_cube (#363)

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Commits on Feb 26, 2021

• More testing of chgres_cube.fd/program_setup.F90, with different config files (#360)

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• Remove duplicate 'to_upper'. One version was a function (#367)

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Commits on Mar 1, 2021

• PR to add and correct doxygen docblocks to emcsfc_snow2mdl.fd/*.f (#348)

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• Doxygen improvements for sorc/grid_tools.fd/shave.fd/shave_nc.F90 (#369)

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• Doxygen improvements for sorc/grid_tools.fd/regional_esg_grid.fd/psym2.f90 (#370)

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• Rest of doxygen conversion for sorc/fvcom_tools.fd files (#362)

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• Report test coverage using gcovr (#380)

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Commits on Mar 4, 2021

• removed nst_tf_chg utility from UFS_UTILS (#385)

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• doxygen improvements for sorc/grid_tools.fd/regional_esg_grid.fd/pesg.f90 (#371)

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• Create Doxygen documentation for orog_mask_tools.fd/lake.fd/enclosure_cnvx (#376)

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• updated readme with authors of each utility (#384)

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Commits on Mar 5, 2021

• Doxygen improvements for sorc/grid_tools.fd/regional_esg_grid.fd/pmat5.f90 (#372)

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• Doxygen improvements for sorc/grid_tools.fd/regional_esg_grid.fd/pmat4.f90 (#379)

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• Doxygen improvements for sorc/grid_tools.fd/regional_esg_grid.fd/pmat.f90 (#382)

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• Doxygen improvements for sorc/orog_mask_tools/inland (#386)

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• fixed doxygen warnings (#390)

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• more doxygen fixes (#391)

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Commits on Mar 9, 2021

• fix rest of doxygen warnings for emcsfc_snow2mdl.fd (#393)

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• highlighted doxygen questions for R. J. Purser in sorc/grid_tools.fd/regional_esg_grid.fd code (#387)

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• more doxygen for sorc/grid_tools.fd/regional_esg_grid.fd files pietc.f90 and pietc_s.f90 (#392)

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• separate chgres_cube doxygen build from rest of UFS_UTILS, fix remaining chgres_cube doxygen warnings, turn on WARN_AS_ERROR for chgres_cube (#395)

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• doxygen updates for sorc/global_cycle.fd (#365)

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• splitting doxygen builds so each utility gets its own documentation build (#397)

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Commits on Mar 10, 2021

• Rename emcsfc_snow2mdl.fd programs with .F90 extention. (#399)

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• cleared doxygen warnings from vcoord_gen utility (#404)

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• clearing doxygen warnings for sfc_climo_gen (#402)

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• doxygen fixes for sorc/grid_tools.fd (#400)

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Commits on Mar 11, 2021

• Fix doxygen warnings in ./inland.fd/inland.F90 (#407)

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• doxygen updates in sorc/grid_tools.fd - applied comments from R. Purser (#409)

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• Doxygen updates to global_cycle (#411)

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• improved chgres_cube doxygen docs with info from chgres_cube.rst, added some formatting in other utility user guides (#410)

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Commits on Mar 15, 2021

• Eliminate doxygen warnings from sfcsub.F of global_cycle (#414)

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Commits on Mar 17, 2021

• turn on WARN_AS_ERROR for global_cycle (#416)

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Commits on Mar 23, 2021

• Bugfix/mpi ci (#427)

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• Use --html-details option in gcovr and upload all html files as artifacts (#428)

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Commits on Mar 24, 2021

• Update doxygen for orog_mask_tools.fd. (#421)

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Commits on Mar 25, 2021

• Updating Doxyfile.in files due to doxygen warnings (#418)

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Commits on Mar 26, 2021

• more comments from Jim Purser (#423)

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Commits on Mar 29, 2021

• Cleanup the landing page of each utility's documentation (#429)

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Commits on Apr 5, 2021

• added slideshow and reference in README (#432)

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Commits on Apr 9, 2021

• GSL orographic drag parameter computation (#273)

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Commits on Apr 13, 2021

• More doxygen updates by Jim Purser for grid_tools.fd (#435)

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• Automatic regression tests (#426)

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Commits on Apr 16, 2021

• Removed unused submission scripts. (#437)

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• converted ftst_program_setup to MPI test (#405)

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• More doxygen updates for grid_tools.fd/regional_esg_grid.fd from Jim Purser (#439)

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Commits on Apr 20, 2021

• Change "regression test" in our cron script to the more honest "consistency check." (#440)

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• Minor documentation update in sorc/grid_tools.fd/regional_esg_grid.fd (#444)

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Commits on Apr 21, 2021

• Use correct error messaging in global_cycle.fd (#438)

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• Unit test and bug fix for chgres_cube.fd/search_util.F90 (#436)

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Commits on Apr 22, 2021

• Make intermediate libraries for executables to facilitate easier testing (#445)

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Commits on Apr 23, 2021

• Eliminate compiler warning in chgres_cube (#456)

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Commits on Apr 26, 2021

• Define constants in chgres_cube.fd/search_util.f90 (#448)

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Commits on Apr 27, 2021

• fix namelist in ftst_program_setup.F90 and beef up testing of namelist config_fv3_tiled_warm_restart (#457)

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• More documentation for soil paramters (#464)

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• Now show errors in build script (#465)

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Commits on Apr 28, 2021

• Turn on fortran flag -fallow-argument-mismatch in chgres_cube for gfortran10 (#469)

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• Add version checking for each library (#466)

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• Feature/gefs soilt fix (#468)

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• Re-add NETCDF env variable so CMake can find NetCDF on WCOSS Cray

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• Merge pull request #474 from kgerheiser/bugfix/wcoss_cray_netcdf

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Commits on Apr 29, 2021

• Update to v1.1.0 of the hpc-stack (#476)

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• Fix install of lakefrac and inland

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• Merge pull request #480 from kgerheiser/bugfix/util-install

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• Updated version file to 1.3.0 (#473)

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• Include utility name in the name of the test in the cmake output (#478)

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Commits on Apr 30, 2021

• Merge branch 'develop' of https://github.com/NOAA-EMC/UFS_UTILS

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