Changes between Version 28 and Version 29 of ticket/1593_CNRS9_NOC3_LDF


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Timestamp:
2015-10-06T12:00:50+02:00 (5 years ago)
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gm
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  • ticket/1593_CNRS9_NOC3_LDF

    v28 v29  
    2323Three steps: [[BR]] 
    2424 
    25   '''                                                         I. Phasing of horizontal scale factors                         '''                               ===>>> OK see '''                                            revision  [https://forge.ipsl.jussieu.fr/nemo/log/branches/2015/dev_r5721_CNRS9_NOC3_LDF?rev=5737 5737]                               '''                              + minor correction'''                               revision  [https://forge.ipsl.jussieu.fr/nemo/log/branches/2015/dev_r5721_CNRS9_NOC3_LDF?rev=5737 5737]                          (SETTE OK)''' 
     25  '''                                                           I. Phasing of horizontal scale factors                         '''                                 ===>>> OK see '''                                              revision  [https://forge.ipsl.jussieu.fr/nemo/log/branches/2015/dev_r5721_CNRS9_NOC3_LDF?rev=5737 5737]                                 '''                                + minor correction'''                                 revision  [https://forge.ipsl.jussieu.fr/nemo/log/branches/2015/dev_r5721_CNRS9_NOC3_LDF?rev=5737 5737]                            (SETTE OK)''' 
    2626 
    2727'''   (I.1)''' standardisation of the name of quantities derived from horizontal scale factors (many modules of NEMO)[[BR]]The chosen names of quantities derived from horizontal scale factors are:[[BR]]- inverse of scale factors : r1_e1t, r1_e2t, r1_e1u, r1_e2u, r1_e1v, r1_e2v, r1_e1f, r1_e2f ;[[BR]]- surfaces and their inverse:    e1e2t, e1e2u , e1e2v, e1e2f  and, r1_e1e2t , r1_e1e2u , r1_e1e2v, r1_e1e2f ;[[BR]]- ratio (used in traldf...) : e2_e1u , e1_e2v(I.1) generalize of the use of surface scale factors ;[[BR]]These quantities are defined in memory in dom_oce.F90, and set to their proper value in domhgr.F90 
     
    2929'''   (I.2)''' add a optional read of surface scale factors at velocity points in coordinate file (domhgr.F90)[[BR]]   The input coordinate file have to include e1e2u and e1e2v in case of reduction of the scale factors in some straits.[[BR]]        When e1u or e2v are reduced in some straits, the surface at u- and v-points remains unchanged.[[BR]]   This allows to suppress the dom_vvl_orca_fix routine from dlmvvl.F90 module.[[BR]]''Note that this change modifies the model results'', as it contains a better handling of reduced strait width (i.e. reduced surface between 2 adjacent U or V points, but unchanged U and V points volume).[[BR]]   The implementation performed here is a first step to the full simplification of domhgr.F90. We kept here the hard coded reduction of scale factor in some straits for some given ORCA configuration. [[BR]]   A last step (see IV) will be to suppress the hard coded reduction of some scale factor as it will be always given in the coordinates.nc file together with the e1e2u & e1e2v surfaces.  ===>>> OK see '''revision  [https://forge.ipsl.jussieu.fr/nemo/log/branches/2015/dev_r5721_CNRS9_NOC3_LDF?rev=5737 5755]''' 
    3030 
    31   '''     [[BR]]     [[BR]]     II. Phasing of the advective/diffusive trends on tracers''' 
     31  '''       [[BR]]       [[BR]]       II. Phasing of the advective/diffusive trends on tracers''' 
    3232 
    3333'''II.1 —''' '''LDF on tracers''' (both TRA & TRC) - Diffusive trends :    ''' '''===>>> OK see '''revision  [https://forge.ipsl.jussieu.fr/nemo/log/branches/2015/dev_r5721_CNRS9_NOC3_LDF?rev=5737 5758] &  [https://forge.ipsl.jussieu.fr/nemo/log/branches/2015/dev_r5721_CNRS9_NOC3_LDF?rev=5737 5759] and  [https://forge.ipsl.jussieu.fr/nemo/log/branches/2015/dev_r5721_CNRS9_NOC3_LDF?rev=5737 5760] with SETTE OK''' 
     
    121121'''[[BR]]II.3''' '''Miscellaneous :''' 
    122122 
    123 - Atmospheric pressure forcing: change to a systematic call of sbc_apr in step.F90 (with or without BDY) and remove its call from sbcmod[[BR]]- remove key_vectopt_loop from all the code except in domzgr_substitute.h90 (it is an obsolescent feature only adapted to vector computers)[[BR]]- remove all "!CDIR " lines = NEC vector compiler instructions 
    124  
    125   '''      [[BR]]      [[BR]]      III. Phasing of viscous trends''' 
     123 * Atmospheric pressure forcing: change to a systematic call of sbc_apr in step.F90 (with or without BDY) and remove its call from sbcmod[[BR]]- remove key_vectopt_loop from all the code except in domzgr_substitute.h90 (it is an obsolescent feature only adapted to vector computers)[[BR]]- remove all "!CDIR " lines = NEC vector compiler instructions 
     124 
     125  '''        [[BR]]        [[BR]]        III. Phasing of viscous trends''' 
    126126 
    127127'''III.1 —''' '''LDF on dynamics'''  - viscous trends :  ===>>> OK see '''revision  ....     and  .....   with SETTE OK''' 
     
    159159/ 
    160160}}} 
    161 [[BR]]- default value of the namelist: ''no operator chosen'': ln_dynldf_lap=dyndf_blp=0   ==>>>   No lateral diffusion applied on momentum[[BR]]- create the 2D and 3D ahmt and ahmf file for ORCA_R2      '''===>>>  TO BE DONE for ORCA_R1''' . nn_ahm_ijk_t must be set to -20 or -30 for ORCA2 and ORCA1 (read in a file) [[BR]]- both laplacian and bi-laplacian coef. are always 3D arrays defined at T- and F- points. Bi-laplacian eddy coefficient defined as SQRT(bhm)    [[BR]]'''                  ====>>> TO BE DONE: explore the possibility of u- and v-points'''[[BR]]- redesign of space variation of the eddy viscosity: suppression of: ldfdyn_substitute.h90 ; ldfdyn_c1d.h90 , ldfdyn_c2d.h90 and ldfdyn_c3d.h90 (replaced by ldfc1d_c2d.F90, a module share with ldftra.F90) ; ldfdyn_oce.F90 (now included in ldfdyn.F90)[[BR]]- remove ldfdyn_smag.F90 (suppression of smagorinsky option)  '''==>>> TO BE re-add in the new framework by  someone...'''[[BR]]- suppression of key_esopa in dynldf.F90[[BR]]- suppression of key_dynldf_c1d, key_dynldf_c2d, key_dynldf_c3d[[BR]]- change in all standard namelist_cfg and 1_namelist_cfg  ''' ===>>> TO BE DONE'''[[BR]]- Namelist default values : NO operator ; NO direction  ===>>> No lateral mixing applied on momentum   ===>>> must be specified in all CONFIG  '''===>>> TO BE DONE''' 
     161[[BR]]- default value of the namelist: ''no operator chosen'': ln_dynldf_lap=dyndf_blp=0   ==>>>   No lateral diffusion applied on momentum[[BR]]- create the 2D and 3D ahmt and ahmf file for ORCA_R2      '''===>>>  TO BE DONE for ORCA_R1''' . nn_ahm_ijk_t must be set to -20 or -30 for ORCA2 and ORCA1 (read in a file) [[BR]]- both laplacian and bi-laplacian coef. are always 3D arrays defined at T- and F- points. Bi-laplacian eddy coefficient defined as SQRT(bhm)    [[BR]]'''                  ====>>> TO BE DONE: explore the possibility of u- and v-points'''[[BR]]- redesign of space variation of the eddy viscosity: suppression of: ldfdyn_substitute.h90 ; ldfdyn_c1d.h90 , ldfdyn_c2d.h90 and ldfdyn_c3d.h90 (replaced by ldfc1d_c2d.F90, a module share with ldftra.F90) ; ldfdyn_oce.F90 (now included in ldfdyn.F90)[[BR]]- remove ldfdyn_smag.F90 (suppression of smagorinsky option)  '''==>>> TO BE re-add in the new framework by  someone...'''[[BR]]- suppression of key_esopa in dynldf.F90[[BR]]- suppression of key_dynldf_c1d, key_dynldf_c2d, key_dynldf_c3d[[BR]]- change in all standard namelist_cfg and 1_namelist_cfg  ''' ===>>> TO BE DONE'''[[BR]]- Namelist default values : NO operator ; NO direction  ===>>> No lateral mixing applied on momentum   ===>>> must be specified in all CONFIG '''===>>> TO BE DONE''' 
    162162 
    163163'''[[BR]]III.2 —''' '''ADV on dynamics''' - advective trends : ===>>> OK see '''revision .... and ..... with SETTE OK''' 
    164164 
    165 ''dynvor.F90''[[BR]]                   - remove key_esopa[[BR]]                   - remove dyn_vor_mix : now successive call of den_vor_ene (Coriolis) and din_vor_ens (relative voricity)[[BR]]                   - replace rotn by its calculation everywhere in dynvor.F90[[BR]]                   - remove the use of fmask everywhere in dynvor.F90         '''=====>>>> TO BE DONE: verify this with Florian '''[[BR]]                    - 
    166  
    167 ''dynadv.F90[[BR]]''- remove key_esopa[[BR]] 
     165''dynvor.F90 (impact also dynspg_ts.F90)''[[BR]]                   - remove key_esopa[[BR]]                   - remove dyn_vor_mix : now successive call of den_vor_ene (Coriolis) and din_vor_ens (relative voricity)[[BR]]                   - replace rotn by its calculation everywhere in dynvor.F90[[BR]]                   - remove the use of fmask everywhere in dynvor.F90         '''=====>>>> TO BE DONE: verify this with Florian '''[[BR]]                    - add an namelist option to mask or not the vorticity (including Coriolis) [[BR]]- change ln_dynvor_een_old into nn_een_e3f = 0/1 
     166 
     167namdyn_vor becomes: 
     168 
     169{{{ 
     170!----------------------------------------------------------------------- 
     171&namdyn_vor    !   option of physics/algorithm (not control by CPP keys) 
     172!----------------------------------------------------------------------- 
     173   ln_dynvor_ene = .false. !  enstrophy conserving scheme 
     174   ln_dynvor_ens = .false. !  energy conserving scheme 
     175   ln_dynvor_mix = .false. !  mixed scheme 
     176   ln_dynvor_een = .true.  !  energy & enstrophy scheme 
     177      nn_een_e3f = 1             !  e3f = masked averaging of e3t divided by 4 (=0) or by the sum of mask (=1) 
     178   ln_dynvor_msk = .false. !  vorticity multiplied by fmask (=T) or not (=F) (all vorticity schemes) 
     179/ 
     180}}} 
     181''dynadv.F90[[BR]]''- remove key_esopa[[BR]]- introduce parameter in the SELECT CASE 
     182 
     183Many modules (both in OPA_SRC and TOP) : remove key_esopa from all the NEMO system 
     184 
     185namlist_ref and all CONFIG namelists updated 
    168186 
    169187'''[[BR]]II.3''' '''Miscellaneous :''' 
    170188 
    171 - ... 
     189 * ... 
    172190 
    173191[[BR]]'''IV. Solve the pending issues''' 
    174192 
    175   '''                                                        (IV.1) '''                                       specification of eddy viscosity/diffusivity coefficients in case of grid-size dependency.[[BR]]                                       Issue:  define the grid-size dependency in such a way that does not require the Equator being inside the domain.[[BR]]                                       Solution: add a scalar in the coordinate file which is equal to the grid-size at the equator even if Equator is not in the domain[[BR]]                                       and use this scalar to compute the grid-size dependency of the coefficients.  [[BR]]       '''       (IV.2) '''                                       specification of lateral friction at the coast.[[BR]]                                       Issue:  the different values of fmask at the coast have been removed so that this lateral boundary condition doesn't affect the advective term ('''                                       double check that'''                                        !). fmask is still used for laplacian and bilaplacian viscosities. Nevertheless, the magnitude of lateral friction depends on the magnitude of ahm (bhm, reap.). It seems better to define this magnitude [[BR]]                                       Solution: add a scalar in the coordinate file which is equal to the grid-size at the equator even if Equator is not in the domain[[BR]]                                       and use this scalar to compute the grid-size dependency of the coefficients. [[BR]]       '''       (IV.3)'''           Add a proper coding of Smagorinsky eddy viscosity and diffusivity[[BR]](IV.4) It should be possible to remove hdivn ...  think about that 
     193  '''                                                          (IV.1) '''                                         specification of eddy viscosity/diffusivity coefficients in case of grid-size dependency.[[BR]]                                         Issue:  define the grid-size dependency in such a way that does not require the Equator being inside the domain.[[BR]]                                         Solution: add a scalar in the coordinate file which is equal to the grid-size at the equator even if Equator is not in the domain[[BR]]                                         and use this scalar to compute the grid-size dependency of the coefficients.  [[BR]]         '''         (IV.2) '''                                         specification of lateral friction at the coast.[[BR]]                                         Issue:  the different values of fmask at the coast have been removed so that this lateral boundary condition doesn't affect the advective term ('''                                         double check that'''                                          !). fmask is still used for laplacian and bilaplacian viscosities. Nevertheless, the magnitude of lateral friction depends on the magnitude of ahm (bhm, reap.). It seems better to define this magnitude [[BR]]                                         Solution: add a scalar in the coordinate file which is equal to the grid-size at the equator even if Equator is not in the domain[[BR]]                                         and use this scalar to compute the grid-size dependency of the coefficients. [[BR]]         '''         (IV.3)'''             Add a proper coding of Smagorinsky eddy viscosity and diffusivity[[BR]]  (IV.4) It should be possible to remove hdivn ...  think about that 
    176194 
    177195... 
     
    181199 * '''IV.1 '''In case of variation of the 2D coeff. as a function of the grid size, use a reference to a 1 degree grid size for ah on both tracers and momentum 
    182200 * '''IV.2''' management of no-slip boundary condition as fmask no more used in dynvor.F90 .... 
    183  * '''IV.3'''  re-introduce Smagorinsky coefficient  in a consistent way with the re-design LDF if decided...  
     201 * '''IV.3'''  re-introduce Smagorinsky coefficient  in a consistent way with the re-design LDF if decided... 
    184202 *  
    185203 * test with SETTE (especially restartability and reproducibility ) 
    186204 
    187   [[BR]]        '''         V. Finalize the simplification''' 
    188  
    189   '''                                       (V.1) add'''           in NEMOGCM/TOOLS directory a program that read a coordinates.nc file apply a reduction of scale factors in some straits, and create the associated extended coordinates file (coordinates_e1e2u_v.nc).[[BR]]       '''       (V.2) create'''        the extended coordinates files form ORCA 2°, 1°, and 0.5°. ===>>> Done for ORCA 2° and 1°,  '''                       1/2° and 1/4° missing'''                       ...[[BR]]       '''       (V.3) create'''        in NEMOGCM/TOOLS directory a program that create the ORCA2 and ORCA1 eddy viscosity'''        ????''' 
     205  [[BR]]          '''           V. Finalize the simplification''' 
     206 
     207  '''                                         (V.1) add'''             in NEMOGCM/TOOLS directory a program that read a coordinates.nc file apply a reduction of scale factors in some straits, and create the associated extended coordinates file (coordinates_e1e2u_v.nc).[[BR]]         '''         (V.2) create'''          the extended coordinates files form ORCA 2°, 1°, and 0.5°. ===>>> Done for ORCA 2° and 1°,  '''                         1/2° and 1/4° missing'''                         ...[[BR]]         '''         (V.3) create'''          in NEMOGCM/TOOLS directory a program that create the ORCA2 and ORCA1 eddy viscosity'''          ????''' 
    190208 
    191209... 
     
    203221 * Idea for finalization of domhgr.F90 :[[BR]]'''add''' 2 modules (from domhgr.F90), domhgr_read.F90 and domhgr_ana.F90, which contains:[[BR]]- domhgr_read.F90: the CASE jphgr_msh=0 of domhgr.F90 (i.e. read the coordinates file)[[BR]]- domhgr_ana.F90: the CASE jphgr_msh=5 of domhgr.F90 (i.e. the GYRE analytical definition of the coordinates)[[BR]]'''add''' in NEMOGCM/TOOLS a directory containing 3 domhgr_ana.F90 modules associated with (1) a geographical mesh on the sphere with regular (in degree) grid-spacing (jphgr_msh=1) ; (2) f- or beta-plane with regular grid-spacing (jphgr_msh=2 or 3)) ; (3) geographical mesh on the sphere, isotropic MERCATOR type (jphgr_msh=4)[[BR]]'''remove''' from the namelist_ref/namdom all variable related to the horizontal mesh, and add a flag, ln_mesh_read, =T read the coordinates.nc file ; =F analytical mesh (by default GYRE mesh). 
    204222 * sbcisf.F90 : use of hard coded staff associated with EOS (in situ temperature and co ...) 
    205  * sbcwave.F90   :  lot of modifications has been done, but I'm still uncomfortable with the calculation of stokes drift velocities....[[BR]][[BR]] 
     223 * sbcwave.F90   :  lot of modifications has been done, but I'm still uncomfortable with the calculation of stokes drift velocities....[[BR]][[BR]] 
    206224 
    207225...