| 3 |
Notes on tags used in MITgcmUV |
Notes on tags used in MITgcmUV |
| 4 |
============================== |
============================== |
| 5 |
|
|
| 6 |
|
o collect all ptracers output in an new routine (PTRACERS_OUTPUT) that |
| 7 |
|
is called from DO_THE_MODEL_IO |
| 8 |
|
- rename PTRACERS_STATV_WRITE to PTRACERS_WRITE_TIMEAVE |
| 9 |
|
- introduce new parameter PTRACERS_dumpFreq (defaults to dumpFreq) |
| 10 |
|
- clean up PTRACERS_WRITE_TIMEAVE a little |
| 11 |
|
o add another verification experiment that tests both the cfc-pkg and |
| 12 |
|
the gchem-pkg with GCHEM_SEPARATE_FORCING undefined, that is with |
| 13 |
|
reactive tendencies treated inline with regular timestepping |
| 14 |
|
o testreport previously did a lousy job of comparing small numbers, so |
| 15 |
|
we (Ed and Martin) changed the way the cut-off of 1.e-12 is |
| 16 |
|
implemented in the little c-progam tmp_cmpnum.c which is embedded in |
| 17 |
|
testreport. |
| 18 |
|
o ptracers_monitor: bug fix for MPI |
| 19 |
|
|
| 20 |
|
checkpoint56a_post |
| 21 |
|
o GCHEM: finish reorganizating the package |
| 22 |
|
- forward_step calls GCHEM_CALC_TENDENDY, which computes gchemTendency |
| 23 |
|
(introduces another 3D-array for each passive tracer, but only if |
| 24 |
|
GCHEM_SEPARATE_FORCING is undefined. For GCHEM_SEPARATE_FORCING |
| 25 |
|
gchemTendency is not needed because the timestep is done separately) |
| 26 |
|
- gchemTendency is added to gPtr in GCHEM_ADD_TENDENCY |
| 27 |
|
- GCHEM is now---more or less cleanly---separate from PTRACERS |
| 28 |
|
- to bo done: handling of surfaceForcingPtr that is needed for KPP not |
| 29 |
|
so clear to me how that should be done in a general way. |
| 30 |
|
o CFC: improve formatting of output in CFC_ATMOS |
| 31 |
|
o PTRACERS: |
| 32 |
|
- rename GCHEM_MONITOR to PTRACERS_MONITOR and call it from MONITOR, so |
| 33 |
|
that ALL experiments with ptracers enable can be checked. This makes |
| 34 |
|
GCHEM_MONITOR obsolete. |
| 35 |
|
- include a runtime parameter PTRACERS_monitorFreq that defaults to |
| 36 |
|
monitorFreq |
| 37 |
|
- set default PTRACERS_write_mdsio to false if PTRACERS_write_mnc is true |
| 38 |
|
o add PTRACERS (PTR0[1-5]) to testreport output |
| 39 |
|
o exf_check_range: |
| 40 |
|
* default changed to .TRUE. |
| 41 |
|
* will check values for niter0 if debLevA, every timestep if debLevB |
| 42 |
|
* STOP in exf_check_range if 'out of range' |
| 43 |
|
* range chosen generous to allow for potential extema |
| 44 |
|
TBD: a version with stricter range |
| 45 |
|
permitted range would be runtime parameters |
| 46 |
|
o GMredi: |
| 47 |
|
- fix ldd97 slope limit ; extend valid domain of Psi-Bolus ; |
| 48 |
|
- change S/R GRAD_SIGMA to be valid in the overlap on CS-grid. |
| 49 |
|
- change the default GMREDI_OPTIONS.h: compile everything except Visbeck |
| 50 |
|
o GCHEM: |
| 51 |
|
- move call to GCHEM_FORCING_SEP, so that it is now called before |
| 52 |
|
the blocking exchanges to avoid computing halos in GCHEM_FORCING_SEP |
| 53 |
|
- introduced a useGCHEM runtime flag and applied it everywhere. |
| 54 |
|
- renamed PTRACERS_SEPARATE_FORCING to GCHEM_SEPARATE_FORCING; |
| 55 |
|
this flag is now only visible within GCHEM-pkg routines. |
| 56 |
|
- moved gchem_forcing_int temporarily into ptracers_forcing, this will |
| 57 |
|
be replaced by a 3D array that is computed before thermodynamics; for |
| 58 |
|
this, the tracer ID iTracer had to be included into the parameter list |
| 59 |
|
of ptracers_forcing |
| 60 |
|
- set up forward_step to call gchem_forcing, that will replace |
| 61 |
|
gchem_forcing_int in ptracers_forcing |
| 62 |
|
- cleaning up |
| 63 |
|
o small cleaning of exch2: remove files that are also in eesupp/src |
| 64 |
|
|
| 65 |
|
checkpoint56 |
| 66 |
|
o AIM: read land-Fraction earlier (from ini-fixed) and monitor land at nIter0 |
| 67 |
|
o mnc: cleanup "full" files--fixes out-of-memory problem |
| 68 |
|
o ECCO-GODAE |
| 69 |
|
* model/, pkg/, code/, input/ now complete w.r.t. ECCO-GODAE production setup |
| 70 |
|
* fully merged and updated from SIO code |
| 71 |
|
windstress sign change affects |
| 72 |
|
- exf_inscal_[u/v]stress |
| 73 |
|
- sign of xx_tau[u/v] adjustments |
| 74 |
|
- signs in cost_scat |
| 75 |
|
* ctrl_get_gen: avoid update of tau[u/v] for first few days |
| 76 |
|
* natl_box_adjoint updated and compressed |
| 77 |
|
* 2-level checkpoint switch added |
| 78 |
|
(tested in EXP. 1 of natl_box_adjoint) |
| 79 |
|
* new switch doInitXX to avoid init. of xx_... in optimcycle=0 |
| 80 |
|
o SVD |
| 81 |
|
* first complete, non-hacked version for SVD calculations |
| 82 |
|
* all interfaces clean w.r.t to handling of xx_..., adxx_..., g_xx_... |
| 83 |
|
performed via direct access files admtlm_vector.it???? |
| 84 |
|
(via ctrl_[un]pack) |
| 85 |
|
* optimcycle is used for ARPACK iteration counter |
| 86 |
|
(note: adxx_... is iterated, rather than xx_...; latter is constant!) |
| 87 |
|
* EV problem ok w.r.t. L2-norm in tangent space; need to check other norms |
| 88 |
|
and add linear transforms where necessary |
| 89 |
|
* controls are initial/final SST, SSS (can be extended; need to check |
| 90 |
|
ctrl_set_[un]pack_xyz.F according to ctrl_set_[un]pack_xy.F |
| 91 |
|
o mdsio: filename info to both stderr, stdout |
| 92 |
|
o exf: exf_inscal_runoff: separated default conversion [m/year] -> [m/sec] |
| 93 |
|
from sign change |
| 94 |
|
|
| 95 |
|
checkpoint55j_post |
| 96 |
|
o isolate dissipation tendency (allow to keep it out off AB) in V.I form. |
| 97 |
|
affects (truncation level) output.txt of global_ocean.cs32x15(&.thsice) |
| 98 |
|
o add consistent build directories and .cvsignore files to verification |
| 99 |
|
o added viscA4GridMin and viscA4GridMax for more control on biharmonic viscosity |
| 100 |
|
o make all subroutines 30 or less characters in length for certain older |
| 101 |
|
compilers to work (a thorough search only turns up two routines in |
| 102 |
|
pkg/ptracers) |
| 103 |
|
o allow (vecinv only) a different horiz. viscosity for Divergence and Vorticity; |
| 104 |
|
affects (truncation level) output.txt of global_ocean.cs32x15(&.thsice) |
| 105 |
|
|
| 106 |
|
checkpoint55i_post |
| 107 |
|
o change arrays for total vertical diffusivity (2.D if explicit, |
| 108 |
|
3.D if implicit) ; each ptracer uses its own background value. |
| 109 |
|
o added mnc/NetCDF output capability to ocn_compon_interf |
| 110 |
|
- added bits to verification/cpl_aim+ocn so that it can run on |
| 111 |
|
ITRDA and other clusters without the mpirun "-wd" option |
| 112 |
|
o fixed wayward endif in mom_fluxform.F that messed up cyclindrical |
| 113 |
|
configuration |
| 114 |
|
o give MNC the ability to create additional files rather than |
| 115 |
|
exceeding a specified file size limit "MNC_MAX_FILESIZE" |
| 116 |
|
- the default is just less than 2GB which is a practical limit |
| 117 |
|
on many systems |
| 118 |
|
o Compute the non-local term using either KPP vertical diffusivity (=default) |
| 119 |
|
or the total vertical diffusivity (when KPP_ghatUseTotalDiffus=T) |
| 120 |
|
|
| 121 |
|
checkpoint55h_post |
| 122 |
|
o add verification test "vermix" |
| 123 |
|
o remove all the *_ioinc flags and replace with the single global |
| 124 |
|
outputTypesInclusive flag |
| 125 |
|
o allow to set a vertical profile of vertical diffusivity for T & S |
| 126 |
|
o call PACKAGE_BOOT & PACKAGES_READPARMS just after INI_PARMS |
| 127 |
|
o useMNC moved from data.mnc to data.pkg |
| 128 |
|
|
| 129 |
|
checkpoint55g_post |
| 130 |
|
o Renaming carbon AD experiments to comply with testreport conventions |
| 131 |
|
o Updating adjoint of Held-Suarez hs94.1x64x5 |
| 132 |
|
o Fixing directives for non-ECCO forward_step, after ECCO directives |
| 133 |
|
have been fixed to avoid recomp. of do_oceanic_phys |
| 134 |
|
Works well for global_ocean.90x40x15, |
| 135 |
|
but recomp. issue remains for carbon |
| 136 |
|
o Updating adjoint output for natl_box_adjoint after |
| 137 |
|
pkg/ecco has been modified (see taga c55d_post) |
| 138 |
|
|
| 139 |
|
checkpoint55f_post |
| 140 |
|
o rename to timeave_init_fixed |
| 141 |
|
|
| 142 |
|
checkpoint55e_post |
| 143 |
|
o some delicate re-shuffle of store directives to avoid one |
| 144 |
|
extra call of do_oceanic_physics |
| 145 |
|
affects ecco_the_main_loop.F, do_oceanic_physics.F |
| 146 |
|
checkpoint_lev1_directives.h |
| 147 |
|
o NB: this may break global_ocean adjoint temporarily, |
| 148 |
|
but it is clear how to fix it. Will do later, need this now. |
| 149 |
|
|
| 150 |
|
checkpoint55d_post |
| 151 |
|
o ECCO specific cost function terms (up-to-date with 1x1 runs) |
| 152 |
|
o ecco_cost_weights is modified to 1x1 runs |
| 153 |
|
o modifs to allow observations to be read in as |
| 154 |
|
single file or yearly files |
| 155 |
|
o enable to read exf forcing fields as either |
| 156 |
|
single file or yearly files (flag useExfYearlyFields) |
| 157 |
|
checkpoint55d_pre |
| 158 |
|
|
| 159 |
|
o switch between 2-level and 3-level checkpointing |
| 160 |
|
o add ability of MNC to write local and "partial" (eg. 2D slices where |
| 161 |
|
the full 3D field is never actually stored) arrays to NetCDF files |
| 162 |
|
with the correct (that is, the complete multi-dimensional) set of |
| 163 |
|
array indicies |
| 164 |
|
- used in mom_vecinv() to write the diagFreq output |
| 165 |
|
- tested (demonstrated) in verification/aim.5l_cs |
| 166 |
o further mnc-ification |
o further mnc-ification |
| 167 |
- add verification/lab_sea to the list with mnc setups |
- add verification/lab_sea to the list with mnc setups |
| 168 |
- fix undefined mnc v-names in cd_code |
- fix undefined mnc v-names in cd_code |
Parent Directory
| 
Revision Log
| 
Revision Graph
| 
Patch