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  • nemo/nemo
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arch/arch-osx_gfortran.fcm
View file @ b0ec0a22
......@@ -35,8 +35,8 @@
%CPP cpp -Dkey_nosignedzero
%FC mpif90
%PROD_FCFLAGS -fdefault-real-8 -O3 -funroll-all-loops -fcray-pointer -ffree-line-length-none -fallow-argument-mismatch
%DEBUG_FCFLAGS -fdefault-real-8 -O0 -g -fbacktrace -funroll-all-loops -fcray-pointer -ffree-line-length-none -fcheck=all -finit-real=nan
%PROD_FCFLAGS -fdefault-real-8 -O3 -funroll-all-loops -fcray-pointer -ffree-line-length-none -fallow-argument-mismatch
%DEBUG_FCFLAGS -fdefault-real-8 -O0 -g -fbacktrace -funroll-all-loops -fcray-pointer -ffree-line-length-none -fcheck=all -finit-real=nan -fallow-argument-mismatch
%FFLAGS %FCFLAGS
%LD %FC
%LDFLAGS
......
cfgs/AGRIF_DEMO/EXPREF/file_def_nemo-oce.xml
View file @ b0ec0a22
......@@ -34,6 +34,8 @@
<field field_ref="qt_oce" name="qt_oce" />
<field field_ref="saltflx" name="sfx" />
<field field_ref="taum" name="taum" />
<field field_ref="utau" name="tauuo" />
<field field_ref="vtau" name="tauvo" />
<field field_ref="wspd" name="windsp" />
<field field_ref="precip" name="precip" />
<!-- ice and snow -->
......@@ -44,7 +46,6 @@
<field field_ref="e3u" />
<field field_ref="ssu" name="uos" />
<field field_ref="uoce" name="uo" operation="instant" freq_op="5d" > @uoce_e3u / @e3u </field>
<field field_ref="utau" name="tauuo" />
<field field_ref="uocetr_eff" name="uocetr_eff" />
<!-- available with diaar5 -->
<field field_ref="u_masstr" name="vozomatr" />
......@@ -56,7 +57,6 @@
<field field_ref="e3v" />
<field field_ref="ssv" name="vos" />
<field field_ref="voce" name="vo" operation="instant" freq_op="5d" > @voce_e3v / @e3v </field>
<field field_ref="vtau" name="tauvo" />
<field field_ref="vocetr_eff" name="vocetr_eff" />
<!-- available with diaar5 -->
<field field_ref="v_masstr" name="vomematr" />
......
cfgs/AMM12/EXPREF/file_def_nemo-oce.xml
View file @ b0ec0a22
......@@ -100,6 +100,8 @@
<field field_ref="qsr" name="rsntds" />
<field field_ref="qt" name="tohfls" />
<field field_ref="taum" />
<field field_ref="utau" name="tauuo" />
<field field_ref="vtau" name="tauvo" />
<field field_ref="mldkz5" />
<field field_ref="mldr10_1" />
</file>
......@@ -107,13 +109,11 @@
<file id="file5" name_suffix="_grid_U" description="ocean U grid variables" >
<field field_ref="uoce" name="uo" />
<field field_ref="ssu" name="uos" />
<field field_ref="utau" name="tauuo" />
</file>
<file id="file6" name_suffix="_grid_V" description="ocean V grid variables" >
<field field_ref="voce" name="vo" />
<field field_ref="ssv" name="vos" />
<field field_ref="vtau" name="tauvo" />
</file>
<file id="file7" name_suffix="_grid_W" description="ocean W grid variables" >
......
cfgs/GYRE_PISCES/EXPREF/file_def_nemo.xml
View file @ b0ec0a22
......@@ -32,16 +32,16 @@
<field field_ref="qt" name="sohefldo" />
<field field_ref="mldr10_1" name="somxl010" />
<field field_ref="mldkz5" name="somixhgt" />
<field field_ref="utau" name="sozotaux" />
<field field_ref="vtau" name="sometauy" />
</file>
<file id="file2" name_suffix="_grid_U" description="ocean U grid variables" >
<field field_ref="uoce" name="vozocrtx" />
<field field_ref="utau" name="sozotaux" />
</file>
<file id="file3" name_suffix="_grid_V" description="ocean V grid variables" >
<field field_ref="voce" name="vomecrty" />
<field field_ref="vtau" name="sometauy" />
</file>
<file id="file4" name_suffix="_grid_W" description="ocean W grid variables" >
......
cfgs/ORCA2_ICE_ABL/EXPREF/file_def_nemo-oce.xml
View file @ b0ec0a22
......@@ -30,6 +30,8 @@
<field field_ref="qt_oce" name="qt_oce" />
<field field_ref="saltflx" name="sfx" />
<field field_ref="taum" name="taum" />
<field field_ref="utau" name="tauuo" />
<field field_ref="vtau" name="tauvo" />
<field field_ref="wspd" name="windsp" />
<field field_ref="precip" name="precip" />
<!-- ice and snow -->
......@@ -40,14 +42,12 @@
<field field_ref="e3u" />
<field field_ref="ssu" name="uos" />
<field field_ref="uoce" name="uo" />
<field field_ref="utau" name="tauuo" />
</file>
<file id="file13" name_suffix="_grid_V" description="ocean V grid variables" >
<field field_ref="e3v" />
<field field_ref="ssv" name="vos" />
<field field_ref="voce" name="vo" />
<field field_ref="vtau" name="tauvo" />
</file>
<file id="file14" name_suffix="_grid_ABL" description="ABL grid variables" >
......
cfgs/ORCA2_ICE_PISCES/EXPREF/file_def_nemo-oce.xml
View file @ b0ec0a22
......@@ -34,6 +34,8 @@
<field field_ref="qt_oce" name="qt_oce" />
<field field_ref="saltflx" name="sfx" />
<field field_ref="taum" name="taum" />
<field field_ref="utau" name="tauuo" />
<field field_ref="vtau" name="tauvo" />
<field field_ref="wspd" name="windsp" />
<field field_ref="precip" name="precip" />
<!-- ice and snow -->
......@@ -44,7 +46,6 @@
<field field_ref="e3u" />
<field field_ref="ssu" name="uos" />
<field field_ref="uoce" name="uo" operation="instant" freq_op="5d" > @uoce_e3u / @e3u </field>
<field field_ref="utau" name="tauuo" />
<field field_ref="uocetr_eff" name="uocetr_eff" />
<!-- available with diaar5 -->
<field field_ref="u_masstr" name="vozomatr" />
......@@ -56,7 +57,6 @@
<field field_ref="e3v" />
<field field_ref="ssv" name="vos" />
<field field_ref="voce" name="vo" operation="instant" freq_op="5d" > @voce_e3v / @e3v </field>
<field field_ref="vtau" name="tauvo" />
<field field_ref="vocetr_eff" name="vocetr_eff" />
<!-- available with diaar5 -->
<field field_ref="v_masstr" name="vomematr" />
......
cfgs/ORCA2_ICE_PISCES/EXPREF/namelist_cfg
View file @ b0ec0a22
......@@ -118,6 +118,17 @@
&namsbc_abl ! Atmospheric Boundary Layer formulation (ln_abl = T)
!-----------------------------------------------------------------------
cn_dom = 'dom_cfg_abl_L25Z10'
nn_dyn_restore = 2 ! restoring option for dynamical ABL variables: = 0 no restoring
! = 1 equatorial restoring
! = 2 global restoring
! = 1 equatorial restoring
! = 2 global restoring
rn_ldyn_min = 24. ! dynamics nudging magnitude inside the ABL [hour] (~3 rn_Dt)
rn_ldyn_max = 6. ! dynamics nudging magnitude above the ABL [hour] (~1 rn_Dt)
rn_ltra_min = 24. ! tracers nudging magnitude inside the ABL [hour] (~3 rn_Dt)
rn_ltra_max = 6. ! tracers nudging magnitude above the ABL [hour] (~1 rn_Dt)
rn_vfac = 1.
/
!-----------------------------------------------------------------------
&namtra_qsr ! penetrative solar radiation (ln_traqsr =T)
......
cfgs/ORCA2_OFF_TRC/EXPREF/file_def_nemo-innerttrc.xml
View file @ b0ec0a22
......@@ -36,12 +36,23 @@
<field field_ref="ssh" name="zos" />
</file>
<file id="file1" name_suffix="_trc" description="passive tracers variables" >
<file id="file2" name_suffix="_trc" description="passive tracers variables" >
<field field_ref="Age" name="Age" operation="average" freq_op="1y" > @Age_e3t / @e3t </field>
<field field_ref="CFC11" name="CFC11" operation="average" freq_op="1y" > @CFC11_e3t / @e3t </field>
<field field_ref="CFC12" name="CFC12" operation="average" freq_op="1y" > @CFC12_e3t / @e3t </field>
<field field_ref="SF6" name="SF6" operation="average" freq_op="1y" > @SF6_e3t / @e3t </field>
<field field_ref="RC14" name="RC14" operation="average" freq_op="1y" > @RC14_e3t / @e3t </field>
<field field_ref="RC14" name="RC14" operation="average" freq_op="1y" > @RC14_e3t / @e3t </field>
<field field_ref="qtr_CFC11" />
<field field_ref="qint_CFC11" />
<field field_ref="qtr_CFC12" />
<field field_ref="qint_CFC12" />
<field field_ref="qtr_SF6" />
<field field_ref="qint_SF6" />
<field field_ref="qtr_c14" />
<field field_ref="qint_c14" />
<field field_ref="DeltaC14" />
<field field_ref="C14Age" />
<field field_ref="RAge" />
</file>
</file_group>
......
cfgs/ORCA2_SAS_ICE/EXPREF/file_def_nemo-oce.xml
View file @ b0ec0a22
......@@ -34,6 +34,8 @@
<field field_ref="qt_oce" name="qt_oce" />
<field field_ref="saltflx" name="sfx" />
<field field_ref="taum" name="taum" />
<field field_ref="utau" name="tauuo" />
<field field_ref="vtau" name="tauvo" />
<field field_ref="wspd" name="windsp" />
<field field_ref="precip" name="precip" />
<!-- ice and snow -->
......@@ -44,7 +46,6 @@
<field field_ref="e3u" />
<field field_ref="ssu" name="uos" />
<field field_ref="uoce" name="uo" operation="instant" freq_op="5d" > @uoce_e3u / @e3u </field>
<field field_ref="utau" name="tauuo" />
<field field_ref="uocetr_eff" name="uocetr_eff" />
<!-- available with diaar5 -->
<field field_ref="u_masstr" name="vozomatr" />
......@@ -56,7 +57,6 @@
<field field_ref="e3v" />
<field field_ref="ssv" name="vos" />
<field field_ref="voce" name="vo" operation="instant" freq_op="5d" > @voce_e3v / @e3v </field>
<field field_ref="vtau" name="tauvo" />
<field field_ref="vocetr_eff" name="vocetr_eff" />
<!-- available with diaar5 -->
<field field_ref="v_masstr" name="vomematr" />
......
cfgs/SHARED/field_def_nemo-ice.xml
View file @ b0ec0a22
......@@ -18,7 +18,7 @@
<field_group id="SBC" > <!-- time step automaticaly defined based on nn_fsbc -->
<!-- 2D variables -->
<field_group id="SBC_2D" grid_ref="grid_T_2D" >
<field_group id="SBC_2D" grid_ref="grid_T_2D_inner" >
<!-- =================== -->
<!-- standard ice fields -->
......@@ -311,7 +311,7 @@
</field_group> <!-- SBC_2D -->
<!-- categories -->
<field_group id="SBC_3D" grid_ref="grid_T_ncatice" >
<field_group id="SBC_3D" grid_ref="grid_T_ncatice_inner" >
<!-- standard ice fields -->
<field id="iceconc_cat" long_name="Sea-ice concentration per category" unit="" />
......@@ -386,7 +386,7 @@
-->
<!-- output variables for my configuration (example) -->
<field_group id="myvarICE" grid_ref="grid_T_2D" >
<field_group id="myvarICE" >
<!-- ice mask -->
<field field_ref="icemask" name="simsk" />
<field field_ref="icemask05" name="simsk05" />
......@@ -495,7 +495,7 @@
</field_group>
<field_group id="myvarICE_cat" grid_ref="grid_T_ncatice" >
<field_group id="myvarICE_cat" >
<!-- categories -->
<field field_ref="icemask_cat" name="simskcat"/>
......@@ -524,7 +524,7 @@
<field field_ref="ilbgvol_tot" name="ilbgvol_tot" />
</field_group>
<field_group id="ICE_budget" grid_ref="grid_T_2D" >
<field_group id="ICE_budget" >
<!-- general -->
<field field_ref="icemask" name="simsk" />
<field field_ref="iceconc" name="siconc" />
......@@ -579,7 +579,7 @@
</field_group>
<!-- SIMIP daily fields -->
<field_group id="SIday_fields" grid_ref="grid_T_2D" >
<field_group id="SIday_fields" >
<field field_ref="icepres" name="sitimefrac" />
<field field_ref="iceconc_pct" name="siconc" />
<field field_ref="icethic_cmip" name="sithick" />
......@@ -591,7 +591,7 @@
</field_group>
<!-- SIMIP monthly fields -->
<field_group id="SImon_fields" grid_ref="grid_T_2D" >
<field_group id="SImon_fields" >
<!-- Sea-ice state variables -->
<field field_ref="icepres" name="sitimefrac" />
<field field_ref="iceconc_pct" name="siconc" />
......
cfgs/SHARED/field_def_nemo-innerttrc.xml
View file @ b0ec0a22
......@@ -16,7 +16,7 @@
-->
<field_group id="inerttrc" grid_ref="grid_T_2D">
<field_group id="inerttrc" grid_ref="grid_T_2D_inner">
<!-- CFC11 : variables available with ln_cfc11 -->
<field id="CFC11" long_name="Chlorofluoro carbon11 Concentration" unit="umol/m3" grid_ref="grid_T_3D" />
......@@ -39,8 +39,8 @@
<!-- C14 : variables available with ln_c14 -->
<field id="RC14" long_name="Radiocarbon ratio" unit="-" grid_ref="grid_T_3D" />
<field id="RC14_e3t" long_name="RC14 * e3t" unit="m" grid_ref="grid_T_3D" > RC14 * e3t </field >
<field id="DeltaC14" long_name="Delta C14" unit="permil" grid_ref="grid_T_3D" />
<field id="C14Age" long_name="Radiocarbon age" unit="yr" grid_ref="grid_T_3D" />
<field id="DeltaC14" long_name="Delta C14" unit="permil" grid_ref="grid_T_3D_inner" />
<field id="C14Age" long_name="Radiocarbon age" unit="yr" grid_ref="grid_T_3D_inner" />
<field id="RAge" long_name="Reservoir Age" unit="yr" />
<field id="qtr_c14" long_name="Air-sea flux of C14" unit="1/m2/s" />
<field id="qint_c14" long_name="Cumulative air-sea flux of C14" unit="1/m2" />
......@@ -52,7 +52,7 @@
<!-- AGE : variables available with ln_age -->
<field id="Age" long_name="Sea water age since surface contact" unit="yr" grid_ref="grid_T_3D" />
<field id="Age_e3t" long_name="Age * e3t" unit="yr * m" grid_ref="grid_T_3D" > Age * e3t </field >
<field id="Age_e3t" long_name="Age * e3t" unit="yr * m" grid_ref="grid_T_3D" > Age * e3t </field >
</field_group>
......
cfgs/SHARED/field_def_nemo-oce.xml
View file @ b0ec0a22
This diff is collapsed.
cfgs/SHARED/field_def_nemo-pisces.xml
View file @ b0ec0a22
This diff is collapsed.
cfgs/SHARED/grid_def_nemo.xml
View file @ b0ec0a22
......@@ -318,14 +318,14 @@
<!-- ABL grid definition -->
<grid id="grid_TA_2D">
<domain domain_ref="grid_T" />
<domain domain_ref="grid_T_inner" />
</grid>
<grid id="grid_TA_3D">
<domain domain_ref="grid_T" />
<domain domain_ref="grid_T_inner" />
<axis id="ght_abl" />
</grid>
<grid id="grid_WA_3D">
<domain domain_ref="grid_T" />
<domain domain_ref="grid_T_inner" />
<axis id="ghw_abl" />
</grid>
<!-- -->
......@@ -336,41 +336,44 @@
<scalar />
</grid>
<grid id="diamlr_grid_T_2D" >
<domain domain_ref="grid_T" />
<domain domain_ref="grid_T_inner" />
<scalar />
</grid>
<grid id="diamlr_grid_T_2D_inner" >
<domain domain_ref="grid_T_inner" />
</grid>
<grid id="diamlr_grid_U_2D" >
<domain domain_ref="grid_U" />
<domain domain_ref="grid_U_inner" />
<scalar />
</grid>
<grid id="diamlr_grid_V_2D" >
<domain domain_ref="grid_V" />
<domain domain_ref="grid_V_inner" />
<scalar />
</grid>
<grid id="diamlr_grid_W_2D" >
<domain domain_ref="grid_W" />
<domain domain_ref="grid_W_inner" />
<scalar />
</grid>
<grid id="diamlr_grid_2D_to_grid_T_3D" >
<domain domain_ref="grid_T" />
<domain domain_ref="grid_T_inner" />
<axis axis_ref="deptht">
<duplicate_scalar />
</axis>
</grid>
<grid id="diamlr_grid_2D_to_grid_U_3D" >
<domain domain_ref="grid_U" />
<domain domain_ref="grid_U_inner" />
<axis axis_ref="depthu">
<duplicate_scalar />
</axis>
</grid>
<grid id="diamlr_grid_2D_to_grid_V_3D" >
<domain domain_ref="grid_V" />
<domain domain_ref="grid_V_inner" />
<axis axis_ref="depthv">
<duplicate_scalar />
</axis>
</grid>
<grid id="diamlr_grid_2D_to_grid_W_3D" >
<domain domain_ref="grid_W" />
<domain domain_ref="grid_W_inner" />
<axis axis_ref="depthw">
<duplicate_scalar />
</axis>
......@@ -383,37 +386,37 @@
</grid>
<!-- grid definitions for the computation of daily detided model diagnostics (diadetide) -->
<grid id="diadetide_grid_T_2D" >
<domain domain_ref="grid_T" />
<domain domain_ref="grid_T_inner" />
<scalar />
</grid>
<grid id="diadetide_grid_U_2D" >
<domain domain_ref="grid_U" />
<domain domain_ref="grid_U_inner" />
<scalar />
</grid>
<grid id="diadetide_grid_V_2D" >
<domain domain_ref="grid_V" />
<domain domain_ref="grid_V_inner" />
<scalar />
</grid>
<grid id="diadetide_grid_2D_to_grid_T_3D" >
<domain domain_ref="grid_T" />
<domain domain_ref="grid_T_inner" />
<axis axis_ref="deptht">
<duplicate_scalar />
</axis>
</grid>
<grid id="diadetide_grid_2D_to_grid_U_3D" >
<domain domain_ref="grid_U" />
<domain domain_ref="grid_U_inner" />
<axis axis_ref="depthu">
<duplicate_scalar />
</axis>
</grid>
<grid id="diadetide_grid_2D_to_grid_V_3D" >
<domain domain_ref="grid_V" />
<domain domain_ref="grid_V_inner" />
<axis axis_ref="depthv">
<duplicate_scalar />
</axis>
</grid>
<grid id="diadetide_grid_2D_to_grid_W_3D" >
<domain domain_ref="grid_W" />
<domain domain_ref="grid_W_inner" />
<axis axis_ref="depthw">
<duplicate_scalar />
</axis>
......
cfgs/SHARED/namelist_ref
View file @ b0ec0a22
......@@ -312,7 +312,7 @@
&namsbc_abl ! Atmospheric Boundary Layer formulation (ln_abl = T)
!-----------------------------------------------------------------------
cn_dir = './' ! root directory for the location of the ABL grid file
cn_dom = 'dom_cfg_abl.nc'
cn_dom = 'dom_cfg_abl'
cn_ablrst_in = "restart_abl" ! suffix of abl restart name (input)
cn_ablrst_out = "restart_abl" ! suffix of abl restart name (output)
......@@ -326,11 +326,11 @@
nn_dyn_restore = 0 ! restoring option for dynamical ABL variables: = 0 no restoring
! = 1 equatorial restoring
! = 2 global restoring
rn_vfac = 0.
rn_ldyn_min = 4.5 ! dynamics nudging magnitude inside the ABL [hour] (~3 rn_Dt)
rn_ldyn_max = 1.5 ! dynamics nudging magnitude above the ABL [hour] (~1 rn_Dt)
rn_ltra_min = 4.5 ! tracers nudging magnitude inside the ABL [hour] (~3 rn_Dt)
rn_ltra_max = 1.5 ! tracers nudging magnitude above the ABL [hour] (~1 rn_Dt)
rn_ldyn_min = 0. ! dynamics nudging magnitude inside the ABL [hour] (~3 rn_Dt)
rn_ldyn_max = 0. ! dynamics nudging magnitude above the ABL [hour] (~1 rn_Dt)
rn_ltra_min = 0. ! tracers nudging magnitude inside the ABL [hour] (~3 rn_Dt)
rn_ltra_max = 0. ! tracers nudging magnitude above the ABL [hour] (~1 rn_Dt)
rn_vfac = 0.
nn_amxl = 0 ! mixing length: = 0 Deardorff 80 length-scale
! = 1 length-scale based on the distance to the PBL height
! = 2 Bougeault & Lacarrere 89 length-scale
......@@ -370,7 +370,7 @@
!*** receive ***
sn_rcv_w10m = 'none' , 'no' , '' , '' , ''
sn_rcv_taumod = 'coupled' , 'no' , '' , '' , ''
sn_rcv_tau = 'oce only' , 'no' , 'cartesian' , 'eastward-northward' , 'U,V'
sn_rcv_tau = 'oce only' , 'no' , 'cartesian' , 'eastward-northward' , ''
sn_rcv_dqnsdt = 'coupled' , 'no' , '' , '' , ''
sn_rcv_qsr = 'oce and ice' , 'no' , '' , '' , ''
sn_rcv_qns = 'oce and ice' , 'no' , '' , '' , ''
......@@ -381,21 +381,22 @@
sn_rcv_iceflx = 'none' , 'no' , '' , '' , ''
sn_rcv_mslp = 'none' , 'no' , '' , '' , ''
sn_rcv_ts_ice = 'none' , 'no' , '' , '' , ''
sn_rcv_qtrice = 'none' , 'no' , '' , '' , ''
sn_rcv_isf = 'none' , 'no' , '' , '' , ''
sn_rcv_icb = 'none' , 'no' , '' , '' , ''
sn_rcv_hsig = 'none' , 'no' , '' , '' , 'T'
sn_rcv_phioc = 'none' , 'no' , '' , '' , 'T'
sn_rcv_sdrfx = 'none' , 'no' , '' , '' , 'T'
sn_rcv_sdrfy = 'none' , 'no' , '' , '' , 'T'
sn_rcv_wper = 'none' , 'no' , '' , '' , 'T'
sn_rcv_wnum = 'none' , 'no' , '' , '' , 'T'
sn_rcv_wstrf = 'none' , 'no' , '' , '' , 'T'
sn_rcv_wdrag = 'none' , 'no' , '' , '' , 'T'
sn_rcv_charn = 'none' , 'no' , '' , '' , 'T'
sn_rcv_taw = 'none' , 'no' , '' , '' , 'U,V'
sn_rcv_bhd = 'none' , 'no' , '' , '' , 'T'
sn_rcv_tusd = 'none' , 'no' , '' , '' , 'T'
sn_rcv_tvsd = 'none' , 'no' , '' , '' , 'T'
sn_rcv_hsig = 'none' , 'no' , '' , '' , ''
sn_rcv_phioc = 'none' , 'no' , '' , '' , ''
sn_rcv_sdrfx = 'none' , 'no' , '' , '' , ''
sn_rcv_sdrfy = 'none' , 'no' , '' , '' , ''
sn_rcv_wper = 'none' , 'no' , '' , '' , ''
sn_rcv_wnum = 'none' , 'no' , '' , '' , ''
sn_rcv_wstrf = 'none' , 'no' , '' , '' , ''
sn_rcv_wdrag = 'none' , 'no' , '' , '' , ''
sn_rcv_charn = 'none' , 'no' , '' , '' , ''
sn_rcv_taw = 'none' , 'no' , '' , '' , ''
sn_rcv_bhd = 'none' , 'no' , '' , '' , ''
sn_rcv_tusd = 'none' , 'no' , '' , '' , ''
sn_rcv_tvsd = 'none' , 'no' , '' , '' , ''
/
!-----------------------------------------------------------------------
&namsbc_sas ! Stand-Alone Surface module: ocean data (SAS_SRC only)
......@@ -883,6 +884,9 @@
!
! ! S-EOS coefficients (ln_seos=T):
! ! rd(T,S,Z)*rho0 = -a0*(1+.5*lambda*dT+mu*Z+nu*dS)*dT+b0*dS
! ! dT = T-rn_T0 ; dS = S-rn_S0
rn_T0 = 10. ! reference temperature
rn_S0 = 35. ! reference salinity
rn_a0 = 1.6550e-1 ! thermal expension coefficient
rn_b0 = 7.6554e-1 ! saline expension coefficient
rn_lambda1 = 5.9520e-2 ! cabbeling coeff in T^2 (=0 for linear eos)
......
cfgs/SPITZ12/EXPREF/file_def_nemo-oce.xml
View file @ b0ec0a22
......@@ -34,6 +34,8 @@
<field field_ref="qt_oce" name="qt_oce" />
<field field_ref="saltflx" name="sfx" />
<field field_ref="taum" name="taum" />
<field field_ref="utau" name="tauuo" />
<field field_ref="vtau" name="tauvo" />
<field field_ref="wspd" name="windsp" />
<field field_ref="precip" name="precip" />
<!-- ice and snow -->
......@@ -44,7 +46,6 @@
<field field_ref="e3u" />
<field field_ref="ssu" name="uos" />
<field field_ref="uoce" name="uo" operation="instant" freq_op="5d" > @uoce_e3u / @e3u </field>
<field field_ref="utau" name="tauuo" />
<field field_ref="uocetr_eff" name="uocetr_eff" />
<!-- available with diaar5 -->
<field field_ref="u_masstr" name="vozomatr" />
......@@ -56,7 +57,6 @@
<field field_ref="e3v" />
<field field_ref="ssv" name="vos" />
<field field_ref="voce" name="vo" operation="instant" freq_op="5d" > @voce_e3v / @e3v </field>
<field field_ref="vtau" name="tauvo" />
<field field_ref="vocetr_eff" name="vocetr_eff" />
<!-- available with diaar5 -->
<field field_ref="v_masstr" name="vomematr" />
......
cfgs/WED025/EXPREF/file_def_nemo-oce.xml
View file @ b0ec0a22
......@@ -31,6 +31,8 @@
<field field_ref="qt_oce" name="qt_oce" />
<field field_ref="saltflx" name="sfx" />
<field field_ref="taum" name="taum" />
<field field_ref="utau" name="tauuo" />
<field field_ref="vtau" name="tauvo" />
<field field_ref="wspd" name="windsp" />
<field field_ref="precip" name="precip" />
<field field_ref="snowpre" />
......@@ -67,14 +69,12 @@
<field field_ref="e3u" />
<field field_ref="ssu" name="uos" />
<field field_ref="uoce" name="uo" operation="instant" freq_op="5d" > @uoce_e3u / @e3u </field>
<field field_ref="utau" name="tauuo" />
</file>
<file id="file13" name_suffix="_grid_V" description="ocean V grid variables" >
<field field_ref="e3v" />
<field field_ref="ssv" name="vos" />
<field field_ref="voce" name="vo" operation="instant" freq_op="5d" > @voce_e3v / @e3v </field>
<field field_ref="vtau" name="tauvo" />
</file>
<file id="file14" name_suffix="_grid_W" description="ocean W grid variables" >
......
makenemo
View file @ b0ec0a22
......@@ -86,6 +86,7 @@ set -o posix
x_d=''; x_h=''; x_n=''; x_r=''; x_c='';
x_u=''; x_a=''; x_m=''; x_t=''; x_b='';
x_j='1'; x_e='none'; x_s='src'; x_v='1'
x_c_cfg=0
x_nocdf=0
x_name=''
......@@ -101,7 +102,7 @@ MAIN_DIR=${MAIN_DIR%/ext*}
MAIN_DIR=${MAIN_DIR%/arch*}
export MAIN_DIR
#
export CONFIG_DIR=${MAIN_DIR}/cfgs
export CFGS_DIR=${MAIN_DIR}/cfgs
export TESTS_DIR=${MAIN_DIR}/tests
export TOOLS_DIR=${MAIN_DIR}/tools
export COMPIL_DIR=${MAIN_DIR}/mk
......@@ -109,41 +110,48 @@ export NEMO_DIR=${MAIN_DIR}/${x_s}
export AGRIFUSE='10'
list_key='0'; chk_key='1'
list_add_key=''; list_def_key=''; list_del_key=''
conf_file=ref_cfgs.txt
#-
#- FCM and functions location ---
export PATH=${MAIN_DIR}/ext/FCM/bin:$PATH
#-
#- Choice of the options ---
## Get clean, clean_config options
while [ ${#1} -gt 0 ]; do
case "$1" in
-h|--help) cat <<EOF
Usage:
------
./makenemo -[arn] CONFIG -m ARCH [-[...] ...] [{list_key,clean,clean_config}]
./makenemo -[arn] CONFIG -m ARCH [-[...] ...]
Mandatory
-m, --mach, --machine, --arch <machine_name>
Computing architecture, will use the file arch_<machine_name>.fcm located in ./arch (sub)directory(ies)
Computing architecture, will use the file arch_<machine_name>.fcm located
in ./arch (sub)directory(ies)
-n, --name <config_name>
Name of the configuration to compile
and, if -n defines a new configuration, one of the following option (use 'all' arg to list available items):
and, if -n defines a new configuration, one of the following option (use 'all' arg to
list available items):
-r, --ref <ref_config_name>
To specify which reference configuration (./cfgs) must be used to buit the new configuration
To specify which reference configuration (./cfgs) must be used to buit the
new configuration
-a, --test <test_config_name>
To specify which academic test case (./tests) must be used to buit the new configuration
To specify which academic test case (./tests) must be used to buit the new
configuration
Optional
--add_key, key_add, add_key "<list of keys>"
list of cpp keys to be added in cpp_<config_name>.fcm file
-b, --dbg, --debug
add it to compile in debug mode
--clean, --clean_compil, clean
Clean all files and directories used for compilation + the REPRO_* and
the SHORT directories
--clean_config, clean_config
Completly delete a configuration
-d, --dirs, --comp <sub-components>
New set of sub-components (subfolders from ./src directory) to be used
--def_key, key_def, def_key "<list of keys>"
......@@ -157,8 +165,10 @@ Optional
-j, --jobs <nb_job>
Number of processes to compile (0: dry run with no build)
-k, --chkkey <O/1>
Set to 0 to bypass the check of the cpp keys (takes time at the beginning of makenemo).
Default is 1
Set to 0 to bypass the check of the cpp keys (takes time at the beginning
of makenemo). Default is 1
--list_key, --key_list, list_key
List all existing cpp keys in the configuration and exit without compiling
--nonc, --nocdf, --nonetcdf, --no_nc, --no_cdf, --no_netcdf
Compile without the NetCDF Library
-s, --srcpath, --src_path <path>
......@@ -174,9 +184,9 @@ Examples
Copy : ./makenemo -n ... -[ar] ... [...]
¤ Configuration management
List CPP keys : ./makenemo -n ... list_key
Add-Remove keys: ./makenemo -n ... add_key '...' del_key '...'
Fresh start : ./makenemo -n ... clean
Removal : ./makenemo -n ... clean_config
Add-Remove keys: ./makenemo -n ... --add_key '...' --del_key '...'
Fresh start : ./makenemo -n ... --clean
Removal : ./makenemo -n ... --clean_config
EOF
exit 0 ;;
......@@ -205,18 +215,15 @@ EOF
chk_key=${2} ; shift ;;
--nonc|--nocdf|--nonetcdf|--no_nc|--no_cdf|--no_netcdf)
x_nocdf=1 ;;
--clean|clean)
x_c="--$1" ;;
--clean|--clean_compil|clean)
x_c="--clean" ;;
--clean_config|clean_config)
. ${COMPIL_DIR}/Fclean_config.sh; exit ;;
## Checking if argument has anything other than whitespace
x_c_cfg=1 ;;
--add_key|--key_add|add_key ) [[ ! "$2" =~ ^\ +$ ]] && list_add_key=$2; shift;;
--def_key|--key_def|def_key ) [[ ! "$2" =~ ^\ +$ ]] && list_def_key=$2; shift;;
--del_key|--key_del|del_key ) [[ ! "$2" =~ ^\ +$ ]] && list_del_key=$2; shift;;
--list_key|list_key ) list_key='1' ;;
'*' ) echo " \"$1\" BAD OPTION"; exit 2 ;;
':') echo ${b_n}" : -"${1}" option : missing value" 1>&2; exit 2 ;;
'?') echo ${b_n}" : -"${1}" option : not supported" 1>&2; exit 2 ;;
--list_key|--key_list|list_key) list_key='1' ;;
*) echo -e "\033[0;31m\n \"$1\" BAD OPTION\033[0m\n"; exit 2 ;;
esac
shift
......@@ -224,11 +231,30 @@ done
if [ -n "$x_name" ] # is the configuration existing in cfgs or tests? or is it a new conf?
then
incfg=$( find $CONFIG_DIR -type d -name $x_name | wc -l ) # this configuration exists in CONFIG_DIR
intst=$( find $TESTS_DIR -type d -name $x_name | wc -l ) # this configuration exists in TESTS_DIR
[[ $incfg -eq 0 && $intst -eq 0 ]] && x_n=$x_name # this is a new configuration -> dedine/overwrite x_n
[[ $incfg -eq 1 && -z "$x_r" ]] && x_r=$x_name # this is a reference configuration -> dedine/overwrite x_r
[[ $intst -eq 1 && -z "$x_a" ]] && x_a=$x_name # this is a test configuration -> dedine/overwrite x_a
incfg=$( find $CFGS_DIR -type d -name $x_name | wc -l ) # this configuration exists in CFGS_DIR
intst=$( find $TESTS_DIR -type d -name $x_name | wc -l ) # this configuration exists in TESTS_DIR
if [ $(( $incfg + $intst )) -eq 2 ] ; then
echo -e "\033[0;31m\nERROR: the $x_name directory is found twice: in $CFGS_DIR and in $TESTS_DIR\033[0m\n"
exit 4
fi
if [ $(( $incfg + $intst )) -gt 0 ] ; then
if [ $x_c_cfg -eq 1 ] ; then # if we just want to clean the config (do it here as it must exist)
x_n=$x_name # must define x_n as it is used in Fclean_config.sh
. ${COMPIL_DIR}/Fclean_config.sh
exit 0
fi
[ -n "$x_r" ] && echo -e "\nWARNING: $x_name configuration is already existing, we ignore \"-r $x_r\"\n"
[ -n "$x_a" ] && echo -e "\nWARNING: $x_name configuration is already existing, we ignore \"-a $x_a\"\n"
fi
if [ $incfg -eq 1 ] ; then
x_r=$x_name ; x_a='' # reference configuration existing -> define/overwrite x_r
elif [ $intst -eq 1 ] ; then
x_a=$x_name ; x_r='' # test configuration existing -> define/overwrite x_a
else
[ ${#x_c} -ne 0 ] && echo -e "\nWARNING: Compilation cleaning of a non-existing configuration, we ignore\n" && exit 0
[ $x_c_cfg -eq 1 ] && echo -e "\nWARNING: Configuration cleaning of a non-existing configuration, we ignore\n" && exit 0
x_n=$x_name # this is a new configuration -> define
fi
fi
export NEW_CONF=${x_n}
......@@ -237,74 +263,63 @@ CMP_NAM=${x_m}
NEM_SUBDIR=${x_d}
REF_CONF=${x_r}
DEMO_CONF=${x_a}
TML_CONF=${REF_CONF}
export NEMO_DIR=${MAIN_DIR}/${x_s}
NEMO_DBG=${x_b}
[ "${CMP_NAM}" == 'all' ] && . ${COMPIL_DIR}/Flist_archfile.sh all && exit
## No ref. cfg, demo case, nor remote cfg selected
## No ref. cfg or demo selected
if [[ -z "${REF_CONF}" && -z "${DEMO_CONF}" ]]; then
## Reuse last configuration compiled if any (existing 'work_cfgs.txt')
# if [[ $( find ./cfgs ./tests -name work_cfgs.txt ) ]]; then
# CONFIG_DIR=${MAIN_DIR}/$( ls -rt */work_cfgs.txt | awk -F/ 'END{ print $1}' )
# TML_CONF=$( tail -1 ${CONFIG_DIR}/work_cfgs.txt | awk '{ print $1 }' )
# else
## No ${REF_CONF}, ${DEMO_CONF} nor ${NEM_SUBDIR} and 1st compilation => exit
# echo -e "\033[0;33m\nNo previous build found!"
echo -e "\033[0;31m\nAt least a reference configuration ('-r'), a test case ('-a'), "
echo -e "a remote configuration ('-u') has to be choosen!!!\033[0m"
${COMPIL_DIR}/Flist_cfgs.sh
exit 2
# fi
echo -e "\033[0;31m\nAt least a reference configuration ('-r'), a test case ('-a'), "
echo -e "a remote configuration ('-u') has to be choosen to build a new configuration!!!\033[0m"
${COMPIL_DIR}/Flist_cfgs.sh
exit 2
fi
## At least one config has been requested
else
## 'all' arg: list all available configurations
if [[ "${REF_CONF}" == 'all' || "${DEMO_CONF}" == 'all' ]]; then
${COMPIL_DIR}/Flist_cfgs.sh
exit 2
## Probably useless but who knows?
elif [[ -n "${REF_CONF}" && -n "${DEMO_CONF}" ]]; then
echo -e "\033[0;31m\nYou have to choose whether you work with:"
echo -e " - LTS configurations in ./cfgs ('-r') or"
echo -e " - Unsupported cases in ./tests ('-a')\033[0m\n"
exit 2
fi
## Demo case
if [ -n "${DEMO_CONF}" ]; then
conf_file=demo_cfgs.txt; CONFIG_DIR=${MAIN_DIR}/tests; TML_CONF=${DEMO_CONF}
fi
## 'all' arg: list all available configurations
if [[ "${REF_CONF}" == 'all' || "${DEMO_CONF}" == 'all' ]]; then
${COMPIL_DIR}/Flist_cfgs.sh
exit 2
## Probably useless but who knows?
elif [[ -n "${REF_CONF}" && -n "${DEMO_CONF}" ]]; then
echo -e "\033[0;31m\nYou have to choose whether you work with:"
echo -e " - LTS configurations in ./cfgs ('-r') or"
echo -e " - Unsupported cases in ./tests ('-a')\033[0m\n"
exit 2
elif [ -n "${REF_CONF}" ]; then
conf_file=ref_cfgs.txt ; export CONFIG_DIR=${CFGS_DIR} ; TML_CONF=${REF_CONF}
elif [ -n "${DEMO_CONF}" ]; then
conf_file=demo_cfgs.txt; export CONFIG_DIR=${TESTS_DIR}; TML_CONF=${DEMO_CONF}
fi
## Reuse a working cfg
grep -q "${TML_CONF} " ${CONFIG_DIR}/work_cfgs.txt 2>/dev/null && conf_file=work_cfgs.txt
## Test if ref. cfg or demo case does exist
if [[ ! $( grep "${TML_CONF} " ${CONFIG_DIR}/*_cfgs.txt ) ]]; then
echo -e "\033[0;31m\nThe reference configuration ('-r'), demonstration case ('-a') or "
echo -e "remote configuration ('-u') selected is not available!!!"
echo -e "Check the option used and the available items in .txt files\033[0m"
${COMPIL_DIR}/Flist_cfgs.sh
exit 2
if (! grep -q "${TML_CONF} " ${CONFIG_DIR}/$conf_file ); then
echo -e "\033[0;31m\nThe reference configuration ('-r') or "
echo -e "demonstration case ('-a') selected is not available!!!"
echo -e "Check the option used and the available items in .txt files\033[0m"
${COMPIL_DIR}/Flist_cfgs.sh
exit 2
fi
## If new cfg exists, work in it
if [ -n "${NEW_CONF}" ]
then
echo
printf "\nYou are installing a new configuration %s from %s " ${NEW_CONF} ${TML_CONF}
printf "with sub-components: %s\n" "${NEM_SUBDIR}"
echo
else
NEW_CONF=${TML_CONF}
fi
## Reuse a working cfg
if [[ -f ${CONFIG_DIR}/work_cfgs.txt && $( grep "${TML_CONF} " ${CONFIG_DIR}/work_cfgs.txt ) ]]; then
conf_file=work_cfgs.txt
fi
## If new cfg exists, work in it
[ -z "${NEW_CONF}" ] && NEW_CONF=${TML_CONF}
## Update sub-comps if needed
if [ -z "${NEM_SUBDIR}" ]; then
NEM_SUBDIR=$( grep "${TML_CONF} " ${CONFIG_DIR}/${conf_file} | awk '{$1 = ""; print $0}' )
fi
## Update sub-comps if needed
if [ -z "${NEM_SUBDIR}" ]; then
NEM_SUBDIR=$( grep "${TML_CONF} " ${CONFIG_DIR}/${conf_file} | awk '{$1 = ""; print $0}' )
fi
export NEMO_TDIR=${x_t:-$CONFIG_DIR}
......@@ -316,14 +331,6 @@ echo ${NEW_CONF} "${NEM_SUBDIR}" >> ${CONFIG_DIR}/work_cfgs.txt
cd ${CONFIG_DIR}
if [ -n "${NEW_CONF}" ]
then
echo
printf "\nYou are installing a new configuration %s from %s " ${NEW_CONF} ${TML_CONF}
printf "with sub-components: %s\n" "${NEM_SUBDIR}"
echo
fi
## Create new config even in existing one (mkdir with -p option, cp with -n)
${COMPIL_DIR}/Fmake_config.sh ${NEW_CONF} ${TML_CONF}
......@@ -338,15 +345,13 @@ ${COMPIL_DIR}/Fmake_config.sh ${NEW_CONF} ${TML_CONF}
. ${COMPIL_DIR}/Fmake_bld.sh ${CONFIG_DIR} ${NEW_CONF} ${NEMO_TDIR} || exit 3
# build the complete list of the cpp keys of this configuration
if [ ${chk_key} -eq 1 ] ; then
for i in $( grep "^ *#.* key_" ${NEW_CONF}/WORK/* ); do
echo $i | grep key_ | sed -e "s/=.*//"
done \
if [[ ${chk_key} -eq 1 || ${list_key} -eq 1 ]] ; then
for i in $( grep "^ *#.* key_" ${NEW_CONF}/WORK/* ); do
echo $i | grep key_ | sed -e "s/=.*//"
done \
| sort -d | uniq > ${COMPIL_DIR}/full_key_list.txt
[ ${list_key} -eq 1 ] && cat ${COMPIL_DIR}/full_key_list.txt && exit 0
[ ${list_key} -eq 1 ] && echo && cat ${COMPIL_DIR}/full_key_list.txt && exit 0
fi
#- At this stage new configuration has been added, we add or remove keys
......@@ -356,24 +361,18 @@ fi
#- check that all keys are really existing...
if [ $chk_key -eq 1 ] ; then
for kk in $( cat ${NEW_CONF}/cpp_${NEW_CONF}.fcm ); do
if [ "$( echo $kk | cut -c 1-4 )" == "key_" ]; then
kk=${kk/=*/}
if [ ! $( grep -w $kk ${COMPIL_DIR}/full_key_list.txt ) ]; then
echo
echo "E R R O R : key "$kk" is not found in ${NEW_CONF}/WORK routines..."
echo "we stop..."
echo
exit 1
fi
fi
done
for kk in $( cat ${NEW_CONF}/cpp_${NEW_CONF}.fcm ); do
if [ "$( echo $kk | cut -c 1-4 )" == "key_" ]; then
kk=${kk/=*/}
if [ ! $( grep -w $kk ${COMPIL_DIR}/full_key_list.txt ) ]; then
echo
echo "E R R O R : key "$kk" is not found in ${NEW_CONF}/WORK routines..."
echo "we stop..."
echo
exit 1
fi
fi
done
fi
#- At this stage cpp keys have been updated. we can check the arch file
......@@ -396,39 +395,35 @@ grep key_agrif ${COMPIL_DIR}/cpp.fcm && export AGRIFUSE=1 && export USEBLD=${USE
#- Compile ---
if [ "${NBR_PRC}" -gt 0 ]; then
cd ${NEMO_TDIR}/${NEW_CONF} || cd -
## if AGRIF we do a first preprocessing
if [[ ${#x_c} -eq 0 && "$AGRIFUSE" -eq 1 ]]; then
fcm build --ignore-lock -j 1 ${COMPIL_DIR}/bld_preproagr.cfg ||{ cd - ; exit 1 ;}
echo ''
echo "---------------------------------"
echo "CONV preprocessing successfull !!"
echo "---------------------------------"
echo ''
fi
fcm build ${x_c} --ignore-lock -v ${x_v} -j ${NBR_PRC} ${COMPIL_DIR}/$USEBLD ||{ cd - ; exit 1 ;}
if [ -f ${NEMO_TDIR}/${NEW_CONF}/BLD/bin/nemo.exe ]; then
ln -sf ${NEMO_TDIR}/${NEW_CONF}/BLD/bin/nemo.exe ${CONFIG_DIR}/${NEW_CONF}/EXP00/nemo
fi
## add remove for clean option
if [ ${#x_c} -ne 0 ]; then
echo 'Cleaning in '${NEW_CONF}' the building folders'
for dir in AGRIFLIB BLD LONG NEMOFILES REPRO_* SHORT WORK; do
rm -rf ${NEMO_TDIR}/${NEW_CONF}/$dir
done
for file in cpp.history cpp.fcm full_key_list.txt; do
rm -f ${COMPIL_DIR}/$file
done
cd ${NEMO_TDIR}/${NEW_CONF} || cd -
## if AGRIF we do a first preprocessing
if [[ ${#x_c} -eq 0 && "$AGRIFUSE" -eq 1 ]]; then
fcm build --ignore-lock -j 1 ${COMPIL_DIR}/bld_preproagr.cfg ||{ cd - ; exit 1 ;}
echo ''
echo "---------------------------------"
echo "CONV preprocessing successfull !!"
echo "---------------------------------"
echo ''
fi
fcm build ${x_c} --ignore-lock -v ${x_v} -j ${NBR_PRC} ${COMPIL_DIR}/$USEBLD ||{ cd - ; exit 1 ;}
fi
if [ -f ${NEMO_TDIR}/${NEW_CONF}/BLD/bin/nemo.exe ]; then
ln -sf ${NEMO_TDIR}/${NEW_CONF}/BLD/bin/nemo.exe ${CONFIG_DIR}/${NEW_CONF}/EXP00/nemo
fi
## add remove for clean option
if [ ${#x_c} -ne 0 ]; then
echo -e '\nCleaning '${NEW_CONF}' building directories and variables\n'
for dir in AGRIFLIB BLD LONG NEMOFILES REPRO_* SHORT WORK; do
rm -rf ${NEMO_TDIR}/${NEW_CONF}/$dir
done
for file in cpp.history cpp.fcm full_key_list.txt; do
rm -f ${COMPIL_DIR}/$file
done
fi
fi
#- Come back to original directory ---
......
mk/Fclean_config.sh
View file @ b0ec0a22
......@@ -69,6 +69,7 @@ if [ ${#NEW_CONF} -eq 0 ] ; then
echo " "
echo "No configuration specified, please use makenemo -n CONFIG clean_config "
else
echo " "
echo "Are you sure that you want to remove this directory $NEW_CONF? [y/n] "
read answer
answer=`echo $answer | sed 's/^[y].*$/y/'`
......
mk/Fdef_keys.sh 0 → 100755
View file @ b0ec0a22
#!/bin/bash
######################################################
# Author :
# Contact :
#
# Some functions called from makenemo
# Fdef_keys : define keys in cpp.fcm file
######################################################
#set -x
set -o posix
#set -u
#set -e
#+
#
# ================
# Fdef_keys.sh
# ================
#
# --------------------------
# Add compilation keys
# --------------------------
#
# SYNOPSIS
# ========
#
# ::
#
# $ Fdef_keys.sh CONFIG_NAME def_key "LIST_KEYS"
#
#
# DESCRIPTION
# ===========
#
#
# define cpp keys when compiling a configuration, key list has to be enclosed with " ".
#
# EXAMPLES
# ========
#
# ::
#
# $ ./Fdef_keys.sh CONFIG_NAME def_key "key_agrif"
#
#
# TODO
# ====
#
# option debug
#
#
# EVOLUTIONS
# ==========
#
#
# * creation
#
#-
echo "Defining keys in : ${NEW_CONF}"
echo " bld::tool::fppkeys ${list_def_key}" > ${CONFIG_DIR}/${NEW_CONF}/cpp_${NEW_CONF}.fcm
unset -v list_def_key