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Revision Author Date Message Commit Date
f195b76 Change gas budget concentration output to instantaneous 12 July 2021, 04:30:42 UTC
df840dd Remove unnecessary budget diagnostics 12 July 2021, 03:18:44 UTC
8f6163c move physpkg.F90 gas budget output to chemistry.F90 12 July 2021, 00:21:47 UTC
c88bd4f clean up physpkg.F90 11 July 2021, 22:38:16 UTC
7ea4960 Move gas_ac_name, gas_ac_name_2D to avoid circular dependency 11 July 2021, 06:14:14 UTC
88aac21 Add 2D gas tracer budget diagnostics and flag history_gaschmbudget_2D 10 July 2021, 17:24:10 UTC
1316290 Further clean up 10 July 2021, 04:06:59 UTC
79f1e83 clean up gas budget diagnostics 10 July 2021, 03:15:09 UTC
f425729 Add remaining tendency terms for gas tracer budget Use pbuf to calculate the gas tracer concentration change in tphysac. Correct the unit for previously implemented terms. [BFB] - Bit-For-Bit 06 July 2021, 03:50:36 UTC
eae5a8f Apply NEU wet deposition in neu_wetdep_tend with chemUCI When chemUCI is used, apply the NEU wet deposition flux in neu_wetdep_tend where the wet deposition tendency is calculated. [Non-BFB] - Non Bit-For-Bit 29 June 2021, 00:35:50 UTC
ad28d8b Change to usr dry air mass to call neu_wetdep_tend 28 June 2021, 22:41:23 UTC
e63bdd3 Apply surface emissions to gas chemistry tracers in chemistry Limit the tracer concentration to be less than doubled after adding the surface emission. The excess emissions are added to the aloft layers. [Non-BFB] - Non Bit-For-Bit 28 June 2021, 05:29:32 UTC
7ea5569 Apply dry deposition flux for gas chemistry tracers in chemistry Apply the dry deposition fluxes for gas chemistry tracers in mo_gas_phase_chemdr.F90 when chemUCI chemistry mechanism is used. [Non-BFB] - Non Bit-For-Bit 23 June 2021, 03:05:53 UTC
90458c3 Add budget diags in mo_gas_phase_chemdr.F90 04 June 2021, 03:24:29 UTC
5790582 Avoid repeating calculations (cherry picked from commit b6c7992d6fe32322ae012edfb3bf8946759308a6) 02 June 2021, 17:14:43 UTC
209a667 Add TCO and SCO as default monthly output (cherry picked from commit dc2ef5bf96ffb74e276d13ea8110045086da4bc8) 02 June 2021, 17:14:15 UTC
3fecb35 Add strat and trop column ozone diagnostic outputs (cherry picked from commit 739a70f5475bf089702f01322003c8cefb70f1b6) 02 June 2021, 17:13:56 UTC
0c2b6e1 Use dry air mass to calculate total column ozone The chemistry tracers volumn mixing ratios (VMRs) are defined w.r.t. dry air. * Use dry air mass instead of wet air mass to convert ozone VMR to DU * Add dry air mass output [BFB] - Bit-For-Bit (cherry picked from commit 05108679cd885f66bd95e8ecdf2ed7e4fdb7e5df) 02 June 2021, 17:13:42 UTC
d84bec4 Change to use the shared constant of dry air molecular weight (cherry picked from commit 63f9e37e746f652f17a5325e6573f79f3e45518c) 02 June 2021, 17:13:14 UTC
ce4158a Add dry air mass output to history files 17 May 2021, 00:16:02 UTC
ea29c6c Add dry air mass calculation in chemdr_init 17 May 2021, 00:10:20 UTC
e600189 Remove default DRYMASS output when history_gaschmbudget is turned on 16 May 2021, 23:48:07 UTC
1bfe7a0 initial implement of a few history_gaschmbudget diagnostics 16 May 2021, 23:28:33 UTC
dca38e5 Pass dry pressure delta to gas_phase_chemdr for diagnostics 16 May 2021, 04:37:49 UTC
e9de2ae Add namelist flag history_gaschmbudget Detailed budget output is needed for debugging gas chemistry. This commit add an eam user namelist flag "history_gaschmbudget" to control the output of gas chemistry tracers concentration and tendencies. * Define "history_gaschmbudget" as a namelist variable * Make it visible in mo_chm_diags.F90 [BFB] - Bit-For-Bit [NML] - Namelist Changing 15 May 2021, 19:47:32 UTC
b79b4e3 Add tagged chemUCI+Linozv2 mechanism input file 08 April 2021, 05:18:08 UTC
a0be68a buildnamelist for branch run: use elm instead of clm2 missed clm2->elm string conversion [BFB] (cherry picked from commit b3dfd5dcd3fa04741da5b45dff65462c7beb3f67) 08 April 2021, 01:13:14 UTC
4a4643f comment out chemUCI heterogeneous reactions 26 March 2021, 19:27:39 UTC
ff00889 No need to prescribe ubc for NO,NO2,HNO3 if Linoz_v3 is active modified: mo_gas_phase_chemdr.F90 26 February 2021, 11:41:23 UTC
6d53e5b Remove duplicate pp_chemUCI_linozv3_mam4_resus_mom_soag.in file 22 February 2021, 19:45:32 UTC
e99f612 Rename the chemUCI+Linozv3 mechanism file 20 February 2021, 04:40:05 UTC
ab2cf5a Add mechanism file for chemUCI+Linozv3 20 February 2021, 04:35:47 UTC
ae8be64 Bug fix for heterogeneous reactions 20 February 2021, 04:24:51 UTC
6ec2e1c Move pp_chemUCI_mam4_resus_mom_soag.in from directory cam to eam 19 February 2021, 20:23:49 UTC
5968458 Linoz V3 (O3-N2O-NOY-CH4/H2O coupled stratospheric chemistry) * linoz_data.F90 (read in a presaved netcdf file) * lin_strat_chem.F90 (linv2_strat_chem_solve, linv3_strat_chem_solve, lin_strat_sfcsink) * mo_gas_phase_chemdr.F90 (linoz_v2 or linoz_v3) [BFB] - Bit-For-Bit [FCC] - Flag Climate Changing [Non-BFB] - Non Bit-For-Bit [CC] - Climate Changing [NML] - Namelist Changing 19 February 2021, 20:17:06 UTC
a7bf21d Update NEU wet deposition Updates and bug fixes include: * Resolve conflicts in NEU and MOZ wet deposition diagnostics * Fix flag bugs in flag for mass-limited (HNO3,etc.) vs Henry's Law washout * Add vertically integrated NEU wet dep flux diagnostics (WD_*) * Add output of Effective Henrys Law coeff. * Improve debug output * Code clean up [Non-BFB] - Non Bit-For-Bit 23 January 2021, 20:26:02 UTC
652fba0 Enable heterogeneous reactions with aerosols For the 3 heterogeneous reactions (ucih[123]) in chemUCI, comment out the place holders in llnl_O1D_to_2OH_adj.F90 and enable them in mo_usrrxt.F90. [Non-BFB] - Non Bit-For-Bit 23 January 2021, 20:26:00 UTC
b635a2a Enable dry deposition for NO3 and N2O5 23 January 2021, 20:25:58 UTC
c760d18 remove lines for potential indexing errors 23 January 2021, 20:25:56 UTC
8ca91f9 revert mo_exp_sol.F90 to only handle E90 decay 23 January 2021, 20:25:55 UTC
e0a1ccb Rename HNO4 to HO2NO2 in chemUCI 23 January 2021, 20:25:53 UTC
80d6912 Change CH4 to a fixed tracer in the chemUCI mechanism 23 January 2021, 20:25:52 UTC
bb76cde recode chemUCI stratospheric decays for better performance 23 January 2021, 20:25:51 UTC
39c5811 fix stratospheric decay loss rates unit 23 January 2021, 20:25:50 UTC
abbb0a3 Add stratospheric decay (30-day e-folding) for 18 species 23 January 2021, 20:25:48 UTC
df6c536 Turn off tropopause pressure check for Linoz when using E90 tropopause This tropopause pressure check is for diagnostic purposes and it is fine with the WMO tropopause. However, it slows down the model by a few times when using the E90 tropopause. [BFB] - Bit-For-Bit 23 January 2021, 20:25:46 UTC
c6465d9 change to use E90 tropopause in chemistry 23 January 2021, 20:25:45 UTC
19152cb Add E90 tropopause The E90 tropopause subroutine and emission file are implemented. * Find the E90 tropopause based on a vmr threshold * The threshold is determined by having the same tropospheric air mass as the WMO T-laspe rate tropopause * The E90 emission is scaled to have a tropopause concentration of 100 ppb * Add some new name list variables to control it [BFB] - Bit-For-Bit [NML] - Namelist Changing 23 January 2021, 20:25:43 UTC
0882672 apply E90 loss above the tropopause 23 January 2021, 20:25:41 UTC
80a1939 Remove pp_chemUCI directories Remove these intermedia directories to avoid confusions. Before the chemUCI finalizes, one should use the "-usr_mech_infile" option of CAM_CONFIG_OPTS and point it to components/cam/chem_proc/inputs/pp_chemUCI_mam4_resus_mom_soag.in for the chemUCI mechanism. 23 January 2021, 20:25:40 UTC
6d535c7 add invariant calculation for H2 23 January 2021, 20:25:39 UTC
f9411a1 fix some chemUCI reaction rates 23 January 2021, 20:25:37 UTC
568b515 apply linoz tendency on O3 in the stratosphere 23 January 2021, 20:25:37 UTC
bae7f68 Turn on O3 dry deposition in compsets use_case xml files In chemUCI, O3 and O3LNZ are different tracers. We need to turn on the O3 dry deposition, which was turned off for O3v2. 23 January 2021, 20:25:35 UTC
0a74fc0 add back o3_ndx 23 January 2021, 20:15:17 UTC
5d6c5a5 Apply Linoz on O3LNZ instead of real O3 With an additional tracer (O3LNZ) for Linoz ozone, we can separate the Linoz operations from the real ozone (O3). * Rename O3S to O3LNZ as O3S has been used for other tracer * Rename e90 to E90 * Call Linoz functions with O3LNZ instead of O3 23 January 2021, 20:15:15 UTC
cbf615e update chemUCI Jrates tages 23 January 2021, 20:15:13 UTC
95af686 rename and update chemUCI input files 23 January 2021, 20:15:13 UTC
3a3541f update pp_chemUCI* input files 23 January 2021, 20:15:13 UTC
4b37960 Apply naming convensions to chemUCI chemistry input files 23 January 2021, 20:15:12 UTC
e337a23 debug UCI changes, build successfully 23 January 2021, 20:15:12 UTC
b45ecee revert to original mo_usrrxt.F90 23 January 2021, 20:15:09 UTC
ccec9e1 cleaned up LLNL_O1d, added jo1dU 23 January 2021, 20:12:51 UTC
637e924 updated chemUCI jo1d to be unique jo1dU 23 January 2021, 20:12:49 UTC
3955434 first UCI chemistry code built successfully 23 January 2021, 20:12:49 UTC
bb68943 modify llnl_O1D_to_2OH_adj.F90 23 January 2021, 20:12:46 UTC
6def28d recreate PP fortran code from pp_chemUCI.inp 23 January 2021, 20:12:42 UTC
27237d2 major rewrite of LLNL superfast routine to include chemUCI usr rxts 23 January 2021, 20:12:42 UTC
e9160d5 fix rxt tags eg [PANf] and delete old file 23 January 2021, 20:12:35 UTC
fe05d22 relabeled forward rates, [PAN]->[PANf]... 23 January 2021, 20:12:34 UTC
9bfb332 remove the pp_ucichem_mam4 directory 23 January 2021, 20:12:34 UTC
5654890 rename pp_ucichem_mam4/ to pp_chemUCI_mam4/ 23 January 2021, 20:12:34 UTC
6225668 Create pp_chemUCI/ for chemUCI w/o aerosols 23 January 2021, 20:12:33 UTC
2cb6ea0 update pp_UCIchem.inp and pp_chemUCI_mam4.inp Changes include: * Clean up comments * Change pp_UCIchem.inp from windows to unix line ending * Added NO and NO2 in the "Ext Forcing" session in pp_UCIchem.inp 23 January 2021, 20:12:33 UTC
d5446e2 clean up the SPECIES session in *.inp *********1*********2*********3*********4*********5*********6*********7** Clean up the SPECIES session in both pp_chemUCI.inp (w/o aerosol) and pp_chemUCI_mam4.inp (w/ MAM4 aerosols) and make them consistent. 23 January 2021, 20:12:32 UTC
3919e79 Remove pp_ucichem directory 23 January 2021, 20:12:32 UTC
15b78b8 update species formula 23 January 2021, 20:12:31 UTC
786835f Update the PP fortran code 23 January 2021, 20:12:31 UTC
e9a14e7 UCI chem input file updates * Added molecular formula for species * Corrected minor syntax errors 23 January 2021, 20:12:31 UTC
bec6ae8 chemUCI changes mapped onto usrrxt, Jo1d may not work - MJP 23 January 2021, 20:12:30 UTC
908ae4c Prather Mar 31 cleanup of chemUCI+mam4 pp input 23 January 2021, 19:55:27 UTC
06e20dd delete temp file 23 January 2021, 19:55:27 UTC
ab47a9f Remove unnecessary "," 23 January 2021, 19:55:27 UTC
37509c8 Update the PP fortran code 23 January 2021, 19:55:26 UTC
6d39ef0 change to stardard rates for e90 23 January 2021, 19:55:26 UTC
09f1015 update HNO3+OH reaction 23 January 2021, 19:55:26 UTC
56abd80 add e90 reaction in pp_chemUCI_mam4.inp 23 January 2021, 19:55:25 UTC
76bec44 add ENDSIM to pp_chemUCI_mam4.inp 23 January 2021, 19:55:25 UTC
90bef5e Rerun a new ChemUCI with mam4 script 3/27/2020 See confluence for a more detailed description about these tags. 23 January 2021, 19:55:25 UTC
6ca8407 UCIchem Fortran source code are added 23 January 2021, 19:55:24 UTC
6719b09 Merge branch 'azamat/chrysalis/update-homme-cmake' (PR #4044) Update HOMME cmake files on Chrysalis [BFB] 23 January 2021, 01:42:06 UTC
98b3858 Update HOMME cmake files on Chrysalis 23 January 2021, 01:18:32 UTC
9c271d9 Merge branch 'azamat/chrysalis/add-gnu-impi' (PR #4043) Add gnu modules for intel-mpi on Chrysalis [BFB] 22 January 2021, 23:29:39 UTC
f13091d Enable test runs on compute nodes on Chrysalis 22 January 2021, 23:22:21 UTC
1106cd0 Merge wlin/atm/defcompsets4v2 (PR #4007) Add new compsets and atm use_case files for v2 Add new compsets along with default atmos namelist parameters for most used configurations for v2 finalization. The default atmos parameter values are based on v2alpha5_59 simulation. The new compsets with simplified names are F2010, F20TR and WCYCL1850 The parameter settings from alpha5_59 are set via use_case files in this PR This PR also . cleans up obsolete av1c and av1f series of compsets, the . associated settings in config_components and use_case files. . changes to use namelist_defaults_eam.xml . ieflx_opt to get value automatically based on config option [BFB] except for allactive-v1cmip6 tests using A_WCYCL1850S_CMIP6 or A_WCYCL1850 22 January 2021, 16:49:52 UTC
fdee34d Merge singhbalwinder/atm/nbfb-tpert-fix (PR #4042) Fixes a NBFB issue when clubb_use_sgv and zmconv_tp_fac are used The model produces NBFB answers when run with phys_loadbalance =0 and phys_loadbalance=2 with the following settings in atm_in: clubb_use_sgv = .true. zmconv_tp_fac = 2.0D0 The reason is that the "tpert" variable is used in zm_convr subroutine directly without collecting the "gathered" columns of "tpert". To fix this, a new variable "tpertg" is declared which has the "gathered" columns of "tpert". "tpertg" is being used instead of "tpert" for cloud properties calculations. Fixes #4038 [Non-BFB] for only ERS_Ld5.ne4_ne4.FC5AV1C-L.<machine-compiler>.eam-gust_param test 22 January 2021, 16:40:47 UTC
50e9c8d Add gnu modules for intel-mpi on Chrysalis 21 January 2021, 21:33:58 UTC
f5e618e Merge branch 'mattdturner/ocean/gpuvel1' (PR #4041) Update mpas-source: Port ocean velocity to GPU This PR brings in a new mpas-source submodule with changes only to the ocean core. This is the first phase of a GPU implementation of all the baroclinic velocity tendencies. See MPAS-Dev/MPAS-Model#772 [non-BFB] 21 January 2021, 15:38:57 UTC
08bd38c Merge branch 'ambrad/eam/inert-sl-def-mods' (PR #4032) This PR has no runtime ramifications other than output in the case of a time step misspecification. Expand the definitions of dt_remap_factor, dt_tracer_factor in the XML. Add full details to an error message in a time step consistency check routine. Separately, add a typedef that permits the SL transport code to build and run properly on CPU when Kokkos provides the Cuda execution space. If Cuda is not enabled, the type is equivalent to the existing type, so there is no runtime change from the code change. [BFB] 20 January 2021, 23:26:48 UTC
8122282 Merge branch 'wlin/atm/defparams4v2' (PR #4008) Set default atmos parameter values for the following three compsets that are used for v2 finalization simulations based on alpha5_59 A_WCYCL1850S_CMIP6, F20TRC5-CMIP6 and F2010SC5-CMIP6 [NBFB] non-BFB for simulations using these compsets 20 January 2021, 23:04:26 UTC
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