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* Macros fixes and diag_type fix * update ICE_RUNLENGTH documentation * update cheyenne job launch, add omplace * update cheyenne, cleanup Macros, update run checking for diag_type * retrigger checks * retrigger checks
* Update master_list.bib * reset icepack version * Removing wave_spec_type = file option * Updating documentation * If no wave data is provided, initialize wave spectrum to zero * Adding wave_spec_type=profile option * changing fsd12 testing option to use profile Co-authored-by: Elizabeth Hunke <eclare@lanl.gov>
* machines: add env and Macro files for conda on Linux and macOS * machines: add environment.yml conda specification * doc: add section on laptop computers Uses the conda environment. * doc: recommend not to touch the 'cice' conda environment * machines: add CFLAGS_HOST to conda_macos for recent macOS Recent versions of Xcode and macOS do not install the system C header files to /usr/include, but keep them in the MacOSX SDK. Thus we need to explicitely pass their location to the compiler. * Makefile: remove uneeded (and faulty) logic around CFLAGS_HOST The CFLAG_HOST variable was added in #307, and some Makefile logic was added to define the variable to be blank if the included Macros file does not define it. However, the Make syntax is wrong, as 'ifndef' takes a variable name and not a reference to a variable [1], so ifndef $(CFLAGS_HOST) should have been written ifndef CFLAGS_HOST The effect of this error is to invert the logic of the check (!) since if CFLAGS_HOST is defined, Make will check if a variable with name equal to whatever CFLAGS_HOST is defined to be exists, which will most probably be false, and the conditional will then evaluate to true and CFLAG_HOSTS will be redefined to be blank, defeating the whole purpose of the flag. Since there's no harm in Make referencing and empty variable, fix this by just removing the conditional check. [1] https://www.gnu.org/software/make/manual/html_node/Conditional-Syntax.html * doc: use curl instead of wget on macOS wget is not installed by default * machines: conda: invoke 'conda info --base' using $CONDA_EXE This variable is always defined to the path to the conda executable when the login shell is properly initialized. Calling `conda info --base` works if the shell initialization procedure puts the conda executable in the $PATH, which is the case for Bash and Zsh but not for tcsh. * doc: conda: add initialization instructions for alternative login shells The Miniconda installer only initializes Bash on macOS and Linux, so additional steps needs to be taken if your login shell is different. Add instructions for tcsh, zsh, fish and xonsh. * machines: conda: add error checking to env files Let's check if the conda executable is found and if the cice conda environment exists. * doc: separate Miniconda installation and conda initialization - Move the documentation for the conda configuration under "Porting" - Move the instructions for initializing the user's shell for use with conda to a speparate section - Add a new section for manually initializing the user's shell if they do not want to modify their startup files - Emphasize which steps are "first-time setup" steps - Add details about how the conda environment is activated during build/run * doc: conda: mention symlinks and creating a complete port
* Add .md extension to pull request template * Add Contribution guide (CONTRIBUTING.md) Closes #384 * README: link to CONTRIBUTING * README: add more information * README: de-emphasize LANL * README, CONTRIBUTING: use 'Forum' instead of 'Bulletin Board' > The latter sounds like it's just for announcements, while "forum" invites discussion. #392 (review) * CONTRIBUTING: reserve issues for Consortium use Direct users to user the CICE forum for bug reports, feature proposal and futur development discussion. Also, emphasize that porting questions should first be directed to their local IT help desk. * CONTRIBUTING, README: link to 'Contributing' on the About-Us wiki The consensus on #392 was to create a 'Contributing' page in the About-Us wiki and link to there in both README.md and CONTRIBUTING.md. That page is created, so let's do that.
remove extra headers and boldface formatting
The ICE_MACHINE_COMPILER variable is incorrectly set to "conda" instead of "linux" in env.conda_linux. Fix that to reflect the documentation.
On Ubuntu and its derivatives, the csh shell at /bin/csh, which is used in the shebangs of the CICE scripts, is not compatible with conda. Mention that in the documentation and explain how to install tcsh as an alternative, and configure the system such that /bin/csh points to /bin/tcsh.
#395) * update suite.submit script and add new controls and cice.setup options, update documentation * update cice.setup new --setup options * update documentation * update documentation
…oner (#406) * add cice.setup --case and cice.setup --test script tests to the travis yml file * fix cice.setup script
…for minor release, update icepack (#409)
* Made the following basalstress parameters namelist items in dynamics_nml: k2, alphab, threshold_bw. * Updated documentation for updated basalstress parameters * Correct typo in user_guide/ug_case)settings.rst * Modified ice_read_write.F90:ice_open. Added nbytes variable to allow for large grids that can cause integer overflow * Modified ice_read_write.F90:ice_open. Added nbytes variable to allow for large grids that can cause integer overflow * Revert "Correct typo in user_guide/ug_case)settings.rst" Reverting to make new branch to commit code changes, instead of working off of master. This reverts commit 06c614a. * Correct typo in ug_case_settings.rst * Reverting to version prior to updating ice_open * retrigger checks
#408) * Added JRA55 forcing for gx3 grid; modified ice-forcing.F90 to now handle both the gx1 and gx3 grid. JRA55 forcing files named were changed to include gx1 and gx3 * Updated set_nml.jra55* files to reflect correct ICE_MACHINE_INPUTDATA path, reverted to previous cice.batch.csh script; will use --queue option in seting up test suites. * corrected typo in set_nml.jra55_2008 file * Modified ice_forcing.F90 to revert to using original naming convention for JRA55 forcing files for gx1 grid * Updated icepack to version 1.2.1 * update icepack to current version in consortium master * updated user_guide to account for JRA55 options for both the gx1 and gx3 grid * Revert changes to get_wave_spec in ice_forcing.F90 * revert icepack to 2fa887f
* Made the following basalstress parameters namelist items in dynamics_nml: k2, alphab, threshold_bw. * Updated documentation for updated basalstress parameters * Correct typo in user_guide/ug_case)settings.rst * Modified ice_read_write.F90:ice_open. Added nbytes variable to allow for large grids that can cause integer overflow * Modified ice_read_write.F90:ice_open. Added nbytes variable to allow for large grids that can cause integer overflow * Revert "Correct typo in user_guide/ug_case)settings.rst" Reverting to make new branch to commit code changes, instead of working off of master. This reverts commit 06c614a. * Correct typo in ug_case_settings.rst * Reverting to version prior to updating ice_open * retrigger checks * In ice_open and ice_open_ext, made grid variables 8 byte integers. This is to allow for large grids (Like GOFS) that have integer overflow with 4 byte integers * Implement nbytes to determine record lengts for ice_open. This helps with large grids thta might cause integer overflow when using nbits * Minor comment update in ice_read_write.F90 * Moved bits_per_byte to module level parameters
On Linux, compiling CICE in serial mode under the conda environment currently fails as the linker does not find the NetCDF libraries. Compiling in parallel mode does work as the MPI compilation wrappers seem to pass the necessary flag to the linker under the hood. Explicitely tell the linker the location of the libraries using the `SLIBS` variable in the Macros file. To be on the safe side, also do it on macOS.
… CFLAGS_HOST (#424) * update conda macos Macros file to address older versions of sdk in setting CFLAGS_HOST * update travis data download to zenodo
* initial changes to cice driver for isotopes * add isotope fluxes * forcing and restarts for isotopes * interim commit for isotopes * more isotopes code including ice_step * diagnostics and history for isotopes * update both RunMods * isotope testing option * fix diags and ice_in; add isotope tests * changing badger acct * fix isotope indexing * initialize trcrn(isotopes) * fix isotope restarts * Add isotope documentation * updating copyright to 2020 * update icepack version * update non standalone drivers for isotope changes Co-authored-by: apcraig <anthony.p.craig@gmail.com> Co-authored-by: David Bailey <dbailey@ucar.edu>
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* merge latest master (#4) * Isotopes for CICE (CICE-Consortium#423) Co-authored-by: apcraig <anthony.p.craig@gmail.com> Co-authored-by: David Bailey <dbailey@ucar.edu> Co-authored-by: Elizabeth Hunke <eclare@lanl.gov> * updated orbital calculations needed for cesm * fixed problems in updated orbital calculations needed for cesm * update CICE6 to support coupling with UFS * put in changes so that both ufsatm and cesm requirements for potential temperature and density are satisfied * Convergence on ustar for CICE. (CICE-Consortium#452) (#5) * Add atmiter_conv to CICE * Add documentation * trigger build the docs Co-authored-by: David A. Bailey <dbailey@ucar.edu> * update icepack submodule * Revert "update icepack submodule" This reverts commit e70d1ab. * update comp_ice.backend with temporary ice_timers fix * Fix threading problem in init_bgc * Fix additional OMP problems * changes for coldstart running * Move the forapps directory * remove cesmcoupled ifdefs * Fix logging issues for NUOPC * removal of many cpp-ifdefs * fix compile errors * fixes to get cesm working * fixed white space issue * Add restart_coszen namelist option * update icepack submodule * change Orion to orion in backend remove duplicate print lines from ice_transport_driver * add -link_mpi=dbg to debug flags (#8) * cice6 compile (#6) * enable debug build. fix to remove errors * fix an error in comp_ice.backend.libcice * change Orion to orion for machine identification * changes for consistency w/ current emc-cice5 (#13) Update to emc/develop fork to current CICE consortium Co-authored-by: David A. Bailey <dbailey@ucar.edu> Co-authored-by: Tony Craig <apcraig@users.noreply.github.com> Co-authored-by: Elizabeth Hunke <eclare@lanl.gov> Co-authored-by: Mariana Vertenstein <mvertens@ucar.edu> Co-authored-by: apcraig <anthony.p.craig@gmail.com> Co-authored-by: Philippe Blain <levraiphilippeblain@gmail.com> * Fixcommit (#14) Align commit history between emc/develop and cice-consortium/master * Update CICE6 for integration to S2S * add wcoss_dell_p3 compiler macro * update to icepack w/ debug fix * replace SITE with MACHINE_ID * update compile scripts * Support TACC stampede (#19) * update icepack * add ice_dyn_vp module to CICE_InitMod * update gitmodules, update icepack * Update CICE to consortium master (CICE-Consortium#23) updates include: * deprecate upwind advection (CICE-Consortium#508) * add implicit VP solver (CICE-Consortium#491) * update icepack * switch icepack branches * update to icepack master but set abort flag in ITD routine to false * update icepack * Update CICE to latest Consortium master (CICE-Consortium#26) update CICE and Icepack * changes the criteria for aborting ice for thermo-conservation errors * updates the time manager * fixes two bugs in ice_therm_mushy * updates Icepack to Consortium master w/ flip of abort flag for troublesome IC cases * add cice changes for zlvs (CICE-Consortium#29) * update icepack and pointer * update icepack and revert gitmodules * Fix history features - Fix bug in history time axis when sec_init is not zero. - Fix issue with time_beg and time_end uninitialized values. - Add support for averaging with histfreq='1' by allowing histfreq_n to be any value in that case. Extend and clean up construct_filename for history files. More could be done, but wanted to preserve backwards compatibility. - Add new calendar_sec2hms to converts daily seconds to hh:mm:ss. Update the calchk calendar unit tester to check this method - Remove abort test in bcstchk, this was just causing problems in regression testing - Remove known problems documentation about problems writing when istep=1. This issue does not exist anymore with the updated time manager. - Add new tests with hist_avg = false. Add set_nml.histinst. * revert set_nml.histall * fix implementation error * update model log output in ice_init * Fix QC issues - Add netcdf ststus checks and aborts in ice_read_write.F90 - Check for end of file when reading records in ice_read_write.F90 for ice_read_nc methods - Update set_nml.qc to better specify the test, turn off leap years since we're cycling 2005 data - Add check in c ice.t-test.py to make sure there is at least 1825 files, 5 years of data - Add QC run to base_suite.ts to verify qc runs to completion and possibility to use those results directly for QC validation - Clean up error messages and some indentation in ice_read_write.F90 * Update testing - Add prod suite including 10 year gx1prod and qc test - Update unit test compare scripts * update documentation * reset calchk to 100000 years * update evp1d test * update icepack * update icepack * add memory profiling (CICE-Consortium#36) * add profile_memory calls to CICE cap * update icepack * fix rhoa when lowest_temp is 0.0 * provide default value for rhoa when imported temp_height_lowest (Tair) is 0.0 * resolves seg fault when frac_grid=false and do_ca=true * update icepack submodule * Update CICE for latest Consortium master (CICE-Consortium#38) * Implement advanced snow physics in icepack and CICE * Fix time-stamping of CICE history files * Fix CICE history file precision * Use CICE-Consortium/Icepack master (CICE-Consortium#40) * switch to icepack master at consortium * recreate cap update branch (CICE-Consortium#42) * add debug_model feature * add required variables and calls for tr_snow * remove 2 extraneous lines * remove two log print lines that were removed prior to merge of driver updates to consortium * duplicate gitmodule style for icepack * Update CICE to latest Consortium/main (CICE-Consortium#45) * Update CICE to Consortium/main (CICE-Consortium#48) Update OpenMP directives as needed including validation via new omp_suite. Fixed OpenMP in dynamics. Refactored eap puny/pi lookups to improve scalar performance Update Tsfc implementation to make sure land blocks don't set Tsfc to freezing temp Update for sea bed stress calculations * fix comment, fix env for orion and hera * replace save_init with step_prep in CICE_RunMod * fixes for cgrid repro * remove added haloupdates * baselines pass with these extra halo updates removed * change F->S for ocean velocities and tilts * fix debug failure when grid_ice=C * compiling in debug mode using -init=snan,arrays requires initialization of variables * respond to review comments * remove inserted whitespace for uvelE,N and vvelE,N * Add wave-cice coupling; update to Consortium main (CICE-Consortium#51) * add wave-ice fields * initialize aicen_init, which turns up as NaN in calc of floediam export * add call to icepack_init_wave to initialize wavefreq and dwavefreq * update to latest consortium main (PR 752) * add initializationsin ice_state * initialize vsnon/vsnon_init and vicen/vicen_init Co-authored-by: apcraig <anthony.p.craig@gmail.com> Co-authored-by: David Bailey <dbailey@ucar.edu> Co-authored-by: Elizabeth Hunke <eclare@lanl.gov> Co-authored-by: Mariana Vertenstein <mvertens@ucar.edu> Co-authored-by: Minsuk Ji <57227195+MinsukJi-NOAA@users.noreply.github.com> Co-authored-by: Tony Craig <apcraig@users.noreply.github.com> Co-authored-by: Philippe Blain <levraiphilippeblain@gmail.com>
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…ICE-Consortium#856) * merge latest master (#4) * Isotopes for CICE (CICE-Consortium#423) Co-authored-by: apcraig <anthony.p.craig@gmail.com> Co-authored-by: David Bailey <dbailey@ucar.edu> Co-authored-by: Elizabeth Hunke <eclare@lanl.gov> * updated orbital calculations needed for cesm * fixed problems in updated orbital calculations needed for cesm * update CICE6 to support coupling with UFS * put in changes so that both ufsatm and cesm requirements for potential temperature and density are satisfied * Convergence on ustar for CICE. (CICE-Consortium#452) (#5) * Add atmiter_conv to CICE * Add documentation * trigger build the docs Co-authored-by: David A. Bailey <dbailey@ucar.edu> * update icepack submodule * Revert "update icepack submodule" This reverts commit e70d1ab. * update comp_ice.backend with temporary ice_timers fix * Fix threading problem in init_bgc * Fix additional OMP problems * changes for coldstart running * Move the forapps directory * remove cesmcoupled ifdefs * Fix logging issues for NUOPC * removal of many cpp-ifdefs * fix compile errors * fixes to get cesm working * fixed white space issue * Add restart_coszen namelist option * update icepack submodule * change Orion to orion in backend remove duplicate print lines from ice_transport_driver * add -link_mpi=dbg to debug flags (#8) * cice6 compile (#6) * enable debug build. fix to remove errors * fix an error in comp_ice.backend.libcice * change Orion to orion for machine identification * changes for consistency w/ current emc-cice5 (#13) Update to emc/develop fork to current CICE consortium Co-authored-by: David A. Bailey <dbailey@ucar.edu> Co-authored-by: Tony Craig <apcraig@users.noreply.github.com> Co-authored-by: Elizabeth Hunke <eclare@lanl.gov> Co-authored-by: Mariana Vertenstein <mvertens@ucar.edu> Co-authored-by: apcraig <anthony.p.craig@gmail.com> Co-authored-by: Philippe Blain <levraiphilippeblain@gmail.com> * Fixcommit (#14) Align commit history between emc/develop and cice-consortium/master * Update CICE6 for integration to S2S * add wcoss_dell_p3 compiler macro * update to icepack w/ debug fix * replace SITE with MACHINE_ID * update compile scripts * Support TACC stampede (#19) * update icepack * add ice_dyn_vp module to CICE_InitMod * update gitmodules, update icepack * Update CICE to consortium master (CICE-Consortium#23) updates include: * deprecate upwind advection (CICE-Consortium#508) * add implicit VP solver (CICE-Consortium#491) * update icepack * switch icepack branches * update to icepack master but set abort flag in ITD routine to false * update icepack * Update CICE to latest Consortium master (CICE-Consortium#26) update CICE and Icepack * changes the criteria for aborting ice for thermo-conservation errors * updates the time manager * fixes two bugs in ice_therm_mushy * updates Icepack to Consortium master w/ flip of abort flag for troublesome IC cases * add cice changes for zlvs (CICE-Consortium#29) * update icepack and pointer * update icepack and revert gitmodules * Fix history features - Fix bug in history time axis when sec_init is not zero. - Fix issue with time_beg and time_end uninitialized values. - Add support for averaging with histfreq='1' by allowing histfreq_n to be any value in that case. Extend and clean up construct_filename for history files. More could be done, but wanted to preserve backwards compatibility. - Add new calendar_sec2hms to converts daily seconds to hh:mm:ss. Update the calchk calendar unit tester to check this method - Remove abort test in bcstchk, this was just causing problems in regression testing - Remove known problems documentation about problems writing when istep=1. This issue does not exist anymore with the updated time manager. - Add new tests with hist_avg = false. Add set_nml.histinst. * revert set_nml.histall * fix implementation error * update model log output in ice_init * Fix QC issues - Add netcdf ststus checks and aborts in ice_read_write.F90 - Check for end of file when reading records in ice_read_write.F90 for ice_read_nc methods - Update set_nml.qc to better specify the test, turn off leap years since we're cycling 2005 data - Add check in c ice.t-test.py to make sure there is at least 1825 files, 5 years of data - Add QC run to base_suite.ts to verify qc runs to completion and possibility to use those results directly for QC validation - Clean up error messages and some indentation in ice_read_write.F90 * Update testing - Add prod suite including 10 year gx1prod and qc test - Update unit test compare scripts * update documentation * reset calchk to 100000 years * update evp1d test * update icepack * update icepack * add memory profiling (CICE-Consortium#36) * add profile_memory calls to CICE cap * update icepack * fix rhoa when lowest_temp is 0.0 * provide default value for rhoa when imported temp_height_lowest (Tair) is 0.0 * resolves seg fault when frac_grid=false and do_ca=true * update icepack submodule * Update CICE for latest Consortium master (CICE-Consortium#38) * Implement advanced snow physics in icepack and CICE * Fix time-stamping of CICE history files * Fix CICE history file precision * Use CICE-Consortium/Icepack master (CICE-Consortium#40) * switch to icepack master at consortium * recreate cap update branch (CICE-Consortium#42) * add debug_model feature * add required variables and calls for tr_snow * remove 2 extraneous lines * remove two log print lines that were removed prior to merge of driver updates to consortium * duplicate gitmodule style for icepack * Update CICE to latest Consortium/main (CICE-Consortium#45) * Update CICE to Consortium/main (CICE-Consortium#48) Update OpenMP directives as needed including validation via new omp_suite. Fixed OpenMP in dynamics. Refactored eap puny/pi lookups to improve scalar performance Update Tsfc implementation to make sure land blocks don't set Tsfc to freezing temp Update for sea bed stress calculations * fix comment, fix env for orion and hera * replace save_init with step_prep in CICE_RunMod * fixes for cgrid repro * remove added haloupdates * baselines pass with these extra halo updates removed * change F->S for ocean velocities and tilts * fix debug failure when grid_ice=C * compiling in debug mode using -init=snan,arrays requires initialization of variables * respond to review comments * remove inserted whitespace for uvelE,N and vvelE,N * Add wave-cice coupling; update to Consortium main (CICE-Consortium#51) * add wave-ice fields * initialize aicen_init, which turns up as NaN in calc of floediam export * add call to icepack_init_wave to initialize wavefreq and dwavefreq * update to latest consortium main (PR 752) * add initializationsin ice_state * initialize vsnon/vsnon_init and vicen/vicen_init * Update CICE (CICE-Consortium#54) * update to include recent PRs to Consortium/main * fix for nudiag_set allow nudiag_set to be available outside of cesm; may prefer to fix in coupling interface * Update CICE for latest Consortium/main (CICE-Consortium#56) * add run time info * change real(8) to real(dbl)kind) * fix syntax * fix write unit * use cice_wrapper for ufs timer functionality * add elapsed model time for logtime * tidy up the wrapper * fix case for 'time since' at the first advance * add timer and forecast log * write timer values to timer log, not nu_diag * write log.ice.fXXX * only one time is needed * modify message written for log.ice.fXXX * change info in fXXX log file * Update CICE from Consortium/main (CICE-Consortium#62) * Fix CESMCOUPLED compile issue in icepack. (CICE-Consortium#823) * Update global reduction implementation to improve performance, fix VP bug (CICE-Consortium#824) * Update VP global sum to exclude local implementation with tripole grids * Add functionality to change hist_avg for each stream (CICE-Consortium#827) * Update Icepack to #6703bc533c968 May 22, 2023 (CICE-Consortium#829) * Fix for mesh check in CESM driver (CICE-Consortium#830) * Namelist option for time axis position. (CICE-Consortium#839) * reset timer after Advance to retrieve "wait time" * add logical control for enabling runtime info * remove zsal items from cap * fix typo --------- Co-authored-by: apcraig <anthony.p.craig@gmail.com> Co-authored-by: David Bailey <dbailey@ucar.edu> Co-authored-by: Elizabeth Hunke <eclare@lanl.gov> Co-authored-by: Mariana Vertenstein <mvertens@ucar.edu> Co-authored-by: Minsuk Ji <57227195+MinsukJi-NOAA@users.noreply.github.com> Co-authored-by: Tony Craig <apcraig@users.noreply.github.com> Co-authored-by: Philippe Blain <levraiphilippeblain@gmail.com> Co-authored-by: Jun.Wang <Jun.Wang@noaa.gov>
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…ICE-Consortium#856) * merge latest master (#4) * Isotopes for CICE (CICE-Consortium#423) Co-authored-by: apcraig <anthony.p.craig@gmail.com> Co-authored-by: David Bailey <dbailey@ucar.edu> Co-authored-by: Elizabeth Hunke <eclare@lanl.gov> * updated orbital calculations needed for cesm * fixed problems in updated orbital calculations needed for cesm * update CICE6 to support coupling with UFS * put in changes so that both ufsatm and cesm requirements for potential temperature and density are satisfied * Convergence on ustar for CICE. (CICE-Consortium#452) (#5) * Add atmiter_conv to CICE * Add documentation * trigger build the docs Co-authored-by: David A. Bailey <dbailey@ucar.edu> * update icepack submodule * Revert "update icepack submodule" This reverts commit e70d1ab. * update comp_ice.backend with temporary ice_timers fix * Fix threading problem in init_bgc * Fix additional OMP problems * changes for coldstart running * Move the forapps directory * remove cesmcoupled ifdefs * Fix logging issues for NUOPC * removal of many cpp-ifdefs * fix compile errors * fixes to get cesm working * fixed white space issue * Add restart_coszen namelist option * update icepack submodule * change Orion to orion in backend remove duplicate print lines from ice_transport_driver * add -link_mpi=dbg to debug flags (#8) * cice6 compile (#6) * enable debug build. fix to remove errors * fix an error in comp_ice.backend.libcice * change Orion to orion for machine identification * changes for consistency w/ current emc-cice5 (#13) Update to emc/develop fork to current CICE consortium Co-authored-by: David A. Bailey <dbailey@ucar.edu> Co-authored-by: Tony Craig <apcraig@users.noreply.github.com> Co-authored-by: Elizabeth Hunke <eclare@lanl.gov> Co-authored-by: Mariana Vertenstein <mvertens@ucar.edu> Co-authored-by: apcraig <anthony.p.craig@gmail.com> Co-authored-by: Philippe Blain <levraiphilippeblain@gmail.com> * Fixcommit (#14) Align commit history between emc/develop and cice-consortium/master * Update CICE6 for integration to S2S * add wcoss_dell_p3 compiler macro * update to icepack w/ debug fix * replace SITE with MACHINE_ID * update compile scripts * Support TACC stampede (#19) * update icepack * add ice_dyn_vp module to CICE_InitMod * update gitmodules, update icepack * Update CICE to consortium master (CICE-Consortium#23) updates include: * deprecate upwind advection (CICE-Consortium#508) * add implicit VP solver (CICE-Consortium#491) * update icepack * switch icepack branches * update to icepack master but set abort flag in ITD routine to false * update icepack * Update CICE to latest Consortium master (CICE-Consortium#26) update CICE and Icepack * changes the criteria for aborting ice for thermo-conservation errors * updates the time manager * fixes two bugs in ice_therm_mushy * updates Icepack to Consortium master w/ flip of abort flag for troublesome IC cases * add cice changes for zlvs (CICE-Consortium#29) * update icepack and pointer * update icepack and revert gitmodules * Fix history features - Fix bug in history time axis when sec_init is not zero. - Fix issue with time_beg and time_end uninitialized values. - Add support for averaging with histfreq='1' by allowing histfreq_n to be any value in that case. Extend and clean up construct_filename for history files. More could be done, but wanted to preserve backwards compatibility. - Add new calendar_sec2hms to converts daily seconds to hh:mm:ss. Update the calchk calendar unit tester to check this method - Remove abort test in bcstchk, this was just causing problems in regression testing - Remove known problems documentation about problems writing when istep=1. This issue does not exist anymore with the updated time manager. - Add new tests with hist_avg = false. Add set_nml.histinst. * revert set_nml.histall * fix implementation error * update model log output in ice_init * Fix QC issues - Add netcdf ststus checks and aborts in ice_read_write.F90 - Check for end of file when reading records in ice_read_write.F90 for ice_read_nc methods - Update set_nml.qc to better specify the test, turn off leap years since we're cycling 2005 data - Add check in c ice.t-test.py to make sure there is at least 1825 files, 5 years of data - Add QC run to base_suite.ts to verify qc runs to completion and possibility to use those results directly for QC validation - Clean up error messages and some indentation in ice_read_write.F90 * Update testing - Add prod suite including 10 year gx1prod and qc test - Update unit test compare scripts * update documentation * reset calchk to 100000 years * update evp1d test * update icepack * update icepack * add memory profiling (CICE-Consortium#36) * add profile_memory calls to CICE cap * update icepack * fix rhoa when lowest_temp is 0.0 * provide default value for rhoa when imported temp_height_lowest (Tair) is 0.0 * resolves seg fault when frac_grid=false and do_ca=true * update icepack submodule * Update CICE for latest Consortium master (CICE-Consortium#38) * Implement advanced snow physics in icepack and CICE * Fix time-stamping of CICE history files * Fix CICE history file precision * Use CICE-Consortium/Icepack master (CICE-Consortium#40) * switch to icepack master at consortium * recreate cap update branch (CICE-Consortium#42) * add debug_model feature * add required variables and calls for tr_snow * remove 2 extraneous lines * remove two log print lines that were removed prior to merge of driver updates to consortium * duplicate gitmodule style for icepack * Update CICE to latest Consortium/main (CICE-Consortium#45) * Update CICE to Consortium/main (CICE-Consortium#48) Update OpenMP directives as needed including validation via new omp_suite. Fixed OpenMP in dynamics. Refactored eap puny/pi lookups to improve scalar performance Update Tsfc implementation to make sure land blocks don't set Tsfc to freezing temp Update for sea bed stress calculations * fix comment, fix env for orion and hera * replace save_init with step_prep in CICE_RunMod * fixes for cgrid repro * remove added haloupdates * baselines pass with these extra halo updates removed * change F->S for ocean velocities and tilts * fix debug failure when grid_ice=C * compiling in debug mode using -init=snan,arrays requires initialization of variables * respond to review comments * remove inserted whitespace for uvelE,N and vvelE,N * Add wave-cice coupling; update to Consortium main (CICE-Consortium#51) * add wave-ice fields * initialize aicen_init, which turns up as NaN in calc of floediam export * add call to icepack_init_wave to initialize wavefreq and dwavefreq * update to latest consortium main (PR 752) * add initializationsin ice_state * initialize vsnon/vsnon_init and vicen/vicen_init * Update CICE (CICE-Consortium#54) * update to include recent PRs to Consortium/main * fix for nudiag_set allow nudiag_set to be available outside of cesm; may prefer to fix in coupling interface * Update CICE for latest Consortium/main (CICE-Consortium#56) * add run time info * change real(8) to real(dbl)kind) * fix syntax * fix write unit * use cice_wrapper for ufs timer functionality * add elapsed model time for logtime * tidy up the wrapper * fix case for 'time since' at the first advance * add timer and forecast log * write timer values to timer log, not nu_diag * write log.ice.fXXX * only one time is needed * modify message written for log.ice.fXXX * change info in fXXX log file * Update CICE from Consortium/main (CICE-Consortium#62) * Fix CESMCOUPLED compile issue in icepack. (CICE-Consortium#823) * Update global reduction implementation to improve performance, fix VP bug (CICE-Consortium#824) * Update VP global sum to exclude local implementation with tripole grids * Add functionality to change hist_avg for each stream (CICE-Consortium#827) * Update Icepack to #6703bc533c968 May 22, 2023 (CICE-Consortium#829) * Fix for mesh check in CESM driver (CICE-Consortium#830) * Namelist option for time axis position. (CICE-Consortium#839) * reset timer after Advance to retrieve "wait time" * add logical control for enabling runtime info * remove zsal items from cap * fix typo --------- Co-authored-by: apcraig <anthony.p.craig@gmail.com> Co-authored-by: David Bailey <dbailey@ucar.edu> Co-authored-by: Elizabeth Hunke <eclare@lanl.gov> Co-authored-by: Mariana Vertenstein <mvertens@ucar.edu> Co-authored-by: Minsuk Ji <57227195+MinsukJi-NOAA@users.noreply.github.com> Co-authored-by: Tony Craig <apcraig@users.noreply.github.com> Co-authored-by: Philippe Blain <levraiphilippeblain@gmail.com> Co-authored-by: Jun.Wang <Jun.Wang@noaa.gov>
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