Small Wing case in NEK5000

.gitattributes

@@ -227,3 +227,14 @@ TCFmini_3D_Re180/restart_files/init_6/rs6phill0.f00002 filter=lfs diff=lfs merge
 TCFmini_3D_Re180/restart_files/init_6/rs6phill0.f00003 filter=lfs diff=lfs merge=lfs -text
 DRA2303Jet_3D_Re400000_Ma02/grid.hdf5 filter=lfs diff=lfs merge=lfs -text
 DRA2303Jet_3D_Re400000_Ma02/restart_.hdf5 filter=lfs diff=lfs merge=lfs -text
+NACA4412_3D_Re75000_AOA5/mask_small_wing0.f00002 filter=lfs diff=lfs merge=lfs -text
+NACA4412_3D_Re75000_AOA5/restart_files/init_1/rs8small_wing0.f00001 filter=lfs diff=lfs merge=lfs -text
+NACA4412_3D_Re75000_AOA5/restart_files/init_1/rs8small_wing0.f00002 filter=lfs diff=lfs merge=lfs -text
+NACA4412_3D_Re75000_AOA5/restart_files/init_1/rs8small_wing0.f00003 filter=lfs diff=lfs merge=lfs -text
+NACA4412_3D_Re75000_AOA5/restart_files/init_1/rs8small_wing0.f00004 filter=lfs diff=lfs merge=lfs -text
+NACA4412_3D_Re75000_AOA5/restart_files/init_1/rs8small_wing0.f00005 filter=lfs diff=lfs merge=lfs -text
+NACA4412_3D_Re75000_AOA5/restart_files/init_1/rs8small_wing0.f00006 filter=lfs diff=lfs merge=lfs -text
+NACA4412_3D_Re75000_AOA5/restart_files/init_1/rs8small_wing0.f00007 filter=lfs diff=lfs merge=lfs -text
+NACA4412_3D_Re75000_AOA5/restart_files/init_1/rs8small_wing0.f00008 filter=lfs diff=lfs merge=lfs -text
+NACA4412_3D_Re75000_AOA5/small_wing.ma2 filter=lfs diff=lfs merge=lfs -text
+NACA4412_3D_Re75000_AOA5/small_wing.re2 filter=lfs diff=lfs merge=lfs -text

NACA4412_3D_Re75000_AOA5/forparam.i

@@ -0,0 +1,10 @@
+0.1
+0.0665
+0.1
+-0.0288
+0.008
+0.002
+0.008
+10.0
+20.0
+ 

NACA4412_3D_Re75000_AOA5/makefile_usr.inc

@@ -0,0 +1,26 @@
+INC_SRC  := ./inc_src
+STAT_SRC := ./stats
+DRL_SRC  := ./drl
+$(OBJDIR)/statistics_2D.o        :$(STAT_SRC)/statistics_2D.f;         $(F77) -c $(FL2) -I$(INC_SRC) $< -o $@
+$(OBJDIR)/statistics_2DIO.o      :$(STAT_SRC)/statistics_2DIO.f;       $(F77) -c $(FL2) -I$(INC_SRC) $< -o $@
+$(OBJDIR)/statistics_2D_usr.o    :$(STAT_SRC)/statistics_2D_usr.f;     $(F77) -c $(FL2) -I$(INC_SRC) $< -o $@
+$(OBJDIR)/statistics_2D_debug.o  :$(STAT_SRC)/statistics_2D_debug.f; $(F77) -c $(FL2) -I$(INC_SRC) $< -o $@
+$(OBJDIR)/time_series.o          :$(STAT_SRC)/time_series.f;           $(F77) -c $(FL2) -I$(INC_SRC) $< -o $@
+$(OBJDIR)/time_seriesIO.o        :$(STAT_SRC)/time_seriesIO.f;         $(F77) -c $(FL2) -I$(INC_SRC) $< -o $@
+$(OBJDIR)/pts_redistribute.o     :$(STAT_SRC)/pts_redistribute.f;      $(F77) -c $(FL2) -I$(INC_SRC) $< -o $@
+
+
+$(OBJDIR)/err_est.o    :./err_est.f;      $(F77) -c $(FL2) -I$(INC_SRC)  $< -o $@
+$(OBJDIR)/rt_filter.o  :./rt_filter.f;  $(F77) -c $(FL2) -I$(INC_SRC)/ $< -o $@
+$(OBJDIR)/uparam.o     :./uparam.f;        $(F77) -c $(FL2) -I$(INC_SRC)/ $< -o $@
+$(OBJDIR)/chkpoint.o   :./chkpoint.f;    $(F77) -c $(FL2) -I$(INC_SRC)  $< -o $@
+$(OBJDIR)/IO_tools.o   :./IO_tools.f;    $(F77) -c $(FL2) -I$(INC_SRC)  $< -o $@
+$(OBJDIR)/tripf.o      :./tripf.f;          $(F77) -c $(FL2) -I$(INC_SRC)  $< -o $@
+$(OBJDIR)/misc.o       :./misc.f;            $(F77) -c $(FL2)  -I$(INC_SRC) $< -o $@
+
+$(OBJDIR)/drl_main.o          :$(DRL_SRC)/drl_main.f;      $(F77) -c $(FL2) -I$(INC_SRC) $< -o $@
+$(OBJDIR)/drl_init.o          :$(DRL_SRC)/drl_init.f;      $(F77) -c $(FL2) -I$(INC_SRC) $< -o $@
+$(OBJDIR)/drl_reward.o        :$(DRL_SRC)/drl_reward.f;    $(F77) -c $(FL2) -I$(INC_SRC) $< -o $@
+$(OBJDIR)/drl_state.o         :$(DRL_SRC)/drl_state.f;     $(F77) -c $(FL2) -I$(INC_SRC) $< -o $@
+$(OBJDIR)/drl_action.o        :$(DRL_SRC)/drl_action.f;    $(F77) -c $(FL2) -I$(INC_SRC) $< -o $@
+$(OBJDIR)/drl_IO.o            :$(DRL_SRC)/drl_IO.f;        $(F77) -c $(FL2) -I$(INC_SRC) $< -o $@

NACA4412_3D_Re75000_AOA5/mask_small_wing0.f00002

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:ba367ed4fcce2dbbc1ff69f24e8cde9980d48eed17addf310b31608d39f67326
+size 43722136

NACA4412_3D_Re75000_AOA5/readme.md

@@ -0,0 +1,77 @@
+# Simulation complie on a small wing coarse mesh 
+
+
+## File Notation
+### From SmallWing 
++ *small_wing.ma2*
++ *small_wing.re2*
++ *small_wing.rea*
++ *small_wing.restart*
++ *SIZE*
++ *rs8small_wing0.f00001*
++ *rs8small_wing0.f00002*
++ *rs8small_wing0.f00003*
++ *rs8small_wing0.f00004*
+
+### From NACA
++ *naca_wing.map*
++ *naca_wing.usr*
++ *naca_wing.wall*
++ *naca_wing.f*
++ Everything else
+
+## Process of running a simulation 
+
+1. Check the parameter definiation 
+    
+    + *SIZE*: The basic dimension and run-time paramters 
+    + *.rea*: The NEK parameters in Physics and for simulation setup 
+    + *.usr*: Set the boundary and initial condition in function
+    + *.re2*: Geometry file of geometry 
+    + *.map*: Geometry file: The No.nodes  
+    + *.ma2*: Geometry file of mesh  
+    + *.wall*: Wall definiation and global elements 
+    + *.restart*: A flag file to have the restart file
+
+2. Comilpe: 
+
+        ./makenek clean
+
+    Then: 
+
+        ./makenek small_wing 
+
+3. Run simulation: 
+
+        bash lcRun.sh
+
+
+4. To visualize the results, modify the *.nek5000* file, then run: 
+
+        cd la2_data
+
+   then open in ParaView
+
+        paraview --data=small_wing.nek5000
+
+
+
+## Logs
+
+### Oct 5 
+Solved:
+1. In *makenek* file, for genertic compiler flags, use the commands:
+    
+        G="-I./inc_src -mcmodel=large -std=legacy"
+
+2. 
+
+
+### Oct 6 
+
+Solved:
+1. Correct the restart issue, please use *small_wing* for the name when compiling. 
+
+To DO: 
+1. Debugging the error of statistics showing the layer 
+

NACA4412_3D_Re75000_AOA5/restart_files/init_1/rs8small_wing0.f00001

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NACA4412_3D_Re75000_AOA5/restart_files/init_1/rs8small_wing0.f00002

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NACA4412_3D_Re75000_AOA5/restart_files/init_1/rs8small_wing0.f00003

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NACA4412_3D_Re75000_AOA5/restart_files/init_1/rs8small_wing0.f00004

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NACA4412_3D_Re75000_AOA5/restart_files/init_1/rs8small_wing0.f00005

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NACA4412_3D_Re75000_AOA5/restart_files/init_1/rs8small_wing0.f00006

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NACA4412_3D_Re75000_AOA5/restart_files/init_1/rs8small_wing0.f00007

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NACA4412_3D_Re75000_AOA5/restart_files/init_1/rs8small_wing0.f00008

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NACA4412_3D_Re75000_AOA5/small_wing.ma2

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+size 378136

NACA4412_3D_Re75000_AOA5/small_wing.re2

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+size 2637572

NACA4412_3D_Re75000_AOA5/small_wing.rea

@@ -0,0 +1,177 @@
+****** PARAMETERS *****
+    2.610000     NEKTON VERSION
+   3 DIMENSIONAL RUN
+          118 PARAMETERS FOLLOW
+1.000000E+00	p001	DENSITY
+-0.750000E+05	p002	==>	Re=75k
+  0.000000E+00     p003
+  0.000000E+00     p004
+  0.000000E+00     p005
+  0.000000E+00     p006                         FREE
+  1.00000         p007 RHOCP
+  1.00000         p008 CONDUCT
+  0.000000E+00     p009
+  00.000          p010 FINTIME
+5.000000E+06	p011	NSTEPS
+-1.500000E-05	p012	DT
+  20.0000         p013 IOCOMM
+  0.000000         p014 IOTIME
+5.000000E+00	p015	IOSTEP
+  0.000000E+00     p016
+  0.000000E+00     p017
+  0.500000E-01     p018 GRID < 0 --> # cells on screen
+  -1.00000         p019 INTYPE
+  3.00000         p020 (default N, for postnek only)
+1.000000E-06	p021	DIVERGENCE
+1.000000E-08	p022	HELMHOLTZ
+  0.000000E+00     p023 NPSCAL
+  1.000000E-02     p024 TOLREL
+  1.000000E-01     p025 TOLABS
+2.000000E+00	p026	COURANT/NTAU
+  3.00000         p027 TORDER
+  0.000000E+00     p028 TORDER: mesh velocity (0: p28=p27)
+  0.000000E+00     p029 = magnetic visc if > 0, = -1/Rm if < 0
+  0.000000E+00     p030 > 0 ==> properties set in uservp()
+  0.000000E+00     p031 NPERT: #perturbation modes
+  0.000000E+00     p032 #BCs in re2 file, if > 0
+  0.000000E+00     p033                         FREE
+  0.000000E+00     p034                         FREE
+  0.000000E+00     p035                         FREE
+  0.000000E+00     p036  XMAGNET
+  0.000000E+00     p037  NGRIDS
+  0.000000E+00     p038  NORDER2
+  0.000000E+00     p039  NORDER3
+  0.000000E+00     p040                         FREE
+  0.000000E+00     p041 1-->multiplicative SEMG
+  0.000000E+00     p042 0=gmres/1=pcg
+  0.000000E+00     p043 0=semg/1=schwarz
+  0.000000E+00     p044 0=E-based/1=A-based prec.
+  0.000000E+00     p045 Relaxation factor for DTFS
+  0.000000E+00     p046 reserved
+  0.000000E+00     p047 vnu: mesh matieral prop.
+  0.000000E+00     p048                         FREE
+  0.000000E+00     p049                         ?
+  0.000000E+00     p050                         FREE
+5.000000E+01	p051	YW:	occupied	by	istount
+  0.000000E+00     p052 IOHIS
+  0.000000E+00     p053                         FREE
+  0.000000E+00     p054 fixed flow rate dir: |p54|=1,2,3=x,y,z
+  0.000000E+00     p055 vol.flow rate (p54>0) or Ubar (p54<0)
+  0.000000E+00     p056                         FREE
+  0.000000E+00     p057                         FREE
+  0.000000E+00     p058                         FREE
+  0.000000E+00     p059 !=0 --> full Jac. eval. for each el.
+  0.000000E+00     p060 !=0 --> init. velocity to small nonzero
+  0.000000E+00     p061                         FREE
+  0.000000E+00     p062 >0 --> force byte_swap for output
+  8.000000E+00     p063 =8 --> force 8-byte output
+  0.000000E+00     p064 =1 --> perturbation restart
+  0.000000E+00     p065 #iofiles (eg, 0 or 64); <0 --> sep. dirs
+  6.000000E+00     p066 output : <0=ascii, else binary
+6.000000E+00	p067	restart:	<0=ascii,	else	binary
+  0.000000E+00     p068
+  100.0000E+00     p069                         UPRM_PRB
+5.000000E+00	p070	L2FREQ	Write	the	La2file
+  0.000000E+00     p071                         FIXGEOM
+  0.000000E-05     p072                         NEW_DT
+  0.000000E+00     p073                         FREE
+  0.000000E+00     p074 verbose Helmholtz
+2.500000E+03	p075	CHKPTSTEP	pts	file
+1.000000E+00	p076	IFCHKPTRST
+  0.00000E+00      p077                          FREE
+  2.000000E+00     p078                         RT_KUT
+  -2000.000E+00     p079                         RT_CHI
+  1.000000E+00     p080                         RT_WGHT
+  0.000000E+00     p081                         RT_IFBOYD
+  0.000000E+00     p082                         ?
+  0.000000E+00     p083                         FREE
+  0.000000E+00     p084 !=0 --> sets initial timestep if p12>0
+  0.000000E+00     p085 dt ratio if p84 !=0, for timesteps>0
+  0.000000E+00     p086 reserved
+1.000000E+01	p087	STAT_COMP	Time-series	frequency
+5.000000E+00	p088	STAT_OUTP	Save	statistics	frequency
+3.000000E+00	p089	YW:	DRL_STEPS
+0.000000E+00	p090	YW:	If	ZNMF	(<=0	<==>	OFF)
+  0.000000E+00     p091 Free 
+  0.000000E+00     p092 Free
+  40.00000E+00     p093 Number of previous pressure solns saved
+  20.00000E+00     p094 start projecting velocity after p94 step
+  20.00000E+00     p095 start projecting pressure after p95 step
+  0.000000E+00     p096                         FREE
+  0.000000E+00     p097                         FREE
+  0.000000E+00     p098                         FREE
+  4.000000E+00     p099 dealiasing: <0--> off/3--> old/4--> new
+  0.000000E+00     p100                         RESERVED?
+  0.000000E+00     p101 Number of additional modes to filter
+  0.000000E+00     p102 Dump out divergence at each time step
+  0.000000E-00     p103 weight of stabilizing filter (.01)
+  0.000000E+00     p104                         NOT MENTIONED
+  0.000000E+00     p105                         NOT MENTIONED
+  0.000000E+00     p106                         NOT MENTIONED
+  0.000000E+00     p107   if !=0, add to h2 in sethlm
+  0.000000E+00     p108                         NOT MENTIONED
+  0.000000E+00     p109                         NOT MENTIONED
+  0.000000E+00     p110                         NOT MENTIONED
+  0.000000E+00     p111                         NOT MENTIONED
+  0.000000E+00     p112                         NOT MENTIONED
+  0.000000E+00     p113                         NOT MENTIONED
+  0.000000E+00     p114                         NOT MENTIONED
+  0.000000E+00     p115                         NOT MENTIONED
+  0.000000E+00     p116  =nelx for gtp solver
+  0.000000E+00     p117  =nely for gtp solver
+  0.000000E+00     p118  =nelz for gtp solver
+      4  Lines of passive scalar data follows2 CONDUCT; 2RHOCP
+   1.00000       1.00000       1.00000       1.00000       1.00000
+   1.00000       1.00000       1.00000       1.00000
+   1.00000       1.00000       1.00000       1.00000       1.00000
+   1.00000       1.00000       1.00000       1.00000
+           13  LOGICAL SWITCHES FOLLOW
+  T     IFFLOW
+  F     IFHEAT
+  T     IFTRAN
+  T F F F F F F F F F F IFNAV & IFADVC (convection in P.S. fields)
+  F F T T T T T T T T T T IFTMSH (IF mesh for this field is T mesh)
+  F     IFAXIS
+  F     IFSTRS
+  F     IFSPLIT
+  F     IFMGRID
+  F     IFMODEL
+  F     IFKEPS
+  F     IFMVBD
+  F     IFCHAR
+   5.00000       5.00000      -2.75000      -2.75000     XFAC,YFAC,XZERO,YZERO
+ **MESH DATA** 6 lines are X,Y,Z;X,Y,Z. Columns corners 1-4;5-8
+      -10500  3       10500           NEL,NDIM,NELV
+            0 PRESOLVE/RESTART OPTIONS  *****
+            7         INITIAL CONDITIONS *****
+C Default
+C Default
+C Default
+C Default
+C Default
+C Default
+C Default
+  ***** DRIVE FORCE DATA ***** BODY FORCE, FLOW, Q
+            4                 Lines of Drive force data follow
+C
+C
+C
+C
+  ***** Variable Property Data ***** Overrrides Parameter data.
+            1 Lines follow.
+            0 PACKETS OF DATA FOLLOW
+  ***** HISTORY AND INTEGRAL DATA *****
+            0   POINTS.  Hcode, I,J,H,IEL
+  ***** OUTPUT FIELD SPECIFICATION *****
+            6 SPECIFICATIONS FOLLOW
+  T      COORDINATES
+  T      VELOCITY
+  T      PRESSURE
+  F      TEMPERATURE
+  F      TEMPERATURE GRADIENT
+            0      PASSIVE SCALARS
+  ***** OBJECT SPECIFICATION *****
+       0 Surface Objects
+       0 Volume  Objects
+       0 Edge    Objects
+       0 Point   Objects

NACA4412_3D_Re75000_AOA5/small_wing.restart

@@ -0,0 +1 @@
+           1

NACA4412_3D_Re75000_AOA5/small_wing.usr

@@ -0,0 +1,544 @@
+C-----------------------------------------------------------------------
+C  nek5000 user-file template
+C
+C  user specified routines:
+C     - userbc : boundary conditions
+C     - useric : initial conditions
+C     - uservp : variable properties
+C     - userf  : local acceleration term for fluid
+C     - userq  : local source term for scalars
+C     - userchk: general purpose routine for checking errors etc. 
+C
+C-----------------------------------------------------------------------
+
+      subroutine uservp(ix,iy,iz,eg) ! set variable properties
+      include 'SIZE'
+      include 'TOTAL'
+      include 'NEKUSE'
+
+      integer e,f,eg
+c     e = gllel(eg)
+
+      udiff  = 0.0
+      utrans = 0.0
+
+      return
+      end
+
+c-----------------------------------------------------------------------
+
+      subroutine userf(ix,iy,iz,ieg) ! set acceleration term
+c
+c     Note: this is an acceleration term, NOT a force!
+c     Thus, ffx will subsequently be multiplied by rho(x,t).
+c
+      implicit none     
+
+cc MA:      include 'SIZE_DEF'
+      include 'SIZE'
+cc MA:      include 'NEKUSE_DEF'
+      include 'NEKUSE'
+cc MA:      include 'PARALLEL_DEF'
+      include 'PARALLEL'
+      include 'TRIPF'
+      include 'RTFILTER'
+cc MA:      include 'INPUT_DEF'
+      include 'INPUT'              ! if3d
+
+      integer ix,iy,iz,ieg
+
+      integer iel,iii
+
+      real*8 lmbda,s1start,s1end,s1rise,s1max,xi1,xi2
+      real*8 s1fall,pi,elipse_up,alpha_rot
+
+      real*8 usponge(lx1,ly1,lz1,lelv),
+     &     vsponge(lx1,ly1,lz1,lelv), wsponge(lx1,ly1,lz1,lelv)
+
+      real*8 uss(lx1,ly1,lz1,lelv),
+     &     vss(lx1,ly1,lz1,lelv), wss(lx1,ly1,lz1,lelv)
+
+
+      COMMON / SPONGE /  usponge, vsponge, wsponge, uss,vss,wss
+      real*8 fzt_u,fzt_d
+
+      real step          ! function
+
+c---------------------------------------- 
+ 
+      iel = gllel(ieg)   
+      iii = (ieg-1)/(nnelx1x2(1))
+      fzt_u = fzt1(iz+iii*lz1,1)
+      fzt_d = fzt1(iz+iii*lz1,2)
+
+!    RT filter
+
+      ffx = 0.0
+      ffy = 0.0
+      ffz = 0.0
+
+!    Tripping and sponge
+      pi    = 4.*atan(1.)
+      alpha_rot = alpha_elipse*pi/180.0
+
+      if (x.ge.6.) then                 ! Sponge
+         
+         s1start = 4.;
+         s1end   = 10.0;
+         s1rise  = 0.6;
+         s1fall  = 0.5;
+         s1max   = 1.;
+         
+         xi1 = (x-s1start)/s1rise;
+         xi2 = (x-s1end)/s1fall + 1;
+         
+         lmbda =  s1max*(step(xi1)-step(xi2))
+
+!         ffx = lmbda*(usponge(ix,iy,iz,iel)-vx(ix,iy,iz,iel))
+!         ffy = lmbda*(vsponge(ix,iy,iz,iel)-vy(ix,iy,iz,iel))
+         ffx = lmbda*(usponge(ix,iy,iz,iel)-ux)
+         ffy = lmbda*(vsponge(ix,iy,iz,iel)-uy)
+         if (if3d) ffz = lmbda*(0. - uz) 
+
+      else                              ! Tripping
+
+c         elipse_up = -(((x-xup)*cos(alpha_rot) + (y-yup)*sin(alpha_rot))
+c     $        /radiusx)**2 - (((x-xup)*sin(alpha_rot) -  (y-yup)
+c     $        *cos(alpha_rot)) /radiusy)**2 
+
+c         ffx = 0.0
+c         ffy = exp(elipse_up)*fzt_u+ exp(-((x-xlo)/(2.0*radiusx))**2.0
+c     $        -((y-ylo)/(2.0*radiusy))**2.0)*fzt_d
+c         ffz = 0.0
+
+         ffx = 0.0
+
+         ffy=exp(-((x-xup)/(radiusx))**2.0
+     $        -((y-yup)/(radiusy))**2.0)*fzt_u
+     $        +exp(-((x-xlo)/(radiusx))**2.0
+     $        -((y-ylo)/(radiusy))**2.0)*fzt_d
+
+         ffz=0.0
+
+c         uss(ix,iy,iz,iel) = ffy
+
+!         wsponge(ix,iy,iz,iel) = ffy    
+      end if
+
+c      ffx = ffx + rtfx(ix,iy,iz,iel)
+c      ffy = ffx + rtfy(ix,iy,iz,iel)
+c      ffz = ffz + rtfz(ix,iy,iz,iel)
+
+
+c      vss(ix,iy,iz,iel)=rtfy(ix,iy,iz,iel)
+
+      if((ffy .LE. -1.0e-10) .OR. (ffy .GE. 1.0e-10)) then
+         ffy=ffy
+      else
+         ffy=rtfy(ix,iy,iz,iel)
+      endif
+
+      ffx=rtfx(ix,iy,iz,iel)
+      ffz=rtfz(ix,iy,iz,iel)
+
+c      wss(ix,iy,iz,iel)=ffy
+
+      return
+      end
+
+c-----------------------------------------------------------------------
+
+      subroutine userq(ix,iy,iz,eg) ! set source term
+      include 'SIZE'
+      include 'TOTAL'
+      include 'NEKUSE'
+
+      integer e,f,eg
+c     e = gllel(eg)
+
+      qvol   = 0.0
+      source = 0.0
+
+      return
+      end
+
+c-----------------------------------------------------------------------
+
+
+c-----------------------------------------------------------------------
+
+      subroutine userbc(ix,iy,iz,iside,ieg) 
+c     set up user-defined boundary conditions
+      
+      implicit none
+
+      include 'SIZE'
+      include 'NEKUSE' ! ux, uy, uz, pa, x, y, z 
+      include 'PARALLEL'
+      include 'INPUT'
+      include 'GEOM' !unx, uny, unz
+      include 'TOPOL'
+      include 'TSTEP'
+
+#ifdef DRL 
+      include 'DRL'
+      real Vb 
+      parameter(Vb=-0.002) ! 0.2% of uniform suction 
+#endif 
+
+      integer ix,iy,iz,iside,ieg
+      real*8 usponge(lx1,ly1,lz1,lelv),
+     &     vsponge(lx1,ly1,lz1,lelv),wsponge(lx1,ly1,lz1,lelv)
+      COMMON / SPONGE /  usponge, vsponge,wsponge
+
+      integer iel 
+      real U0delta,S0 ! Dong parameters
+      real snx,sny,snz
+      real vnorm, costh,sinth,delta2
+      real vf        ! Wall-normal fluctuation velocity  
+      real amp       ! A constant amplitude
+      integer f
+      logical isfind ! IF apply the oppsition control
+      character*3 cbi ! BC Type 
+cc YW: For test 
+      ! character*2 str
+      integer il ! For iteration   
+
+c======================================================
+c     Dong boundary condition
+      pa =0
+      U0delta = 1.
+      
+      iel = gllel(ieg)   ! Convert the global points order into local
+      f   = eface1(iside)
+      ux  = usponge(ix,iy,iz,iel) !bocoarray(index,1) 
+      uy  = vsponge(ix,iy,iz,iel) !bocoarray(index,2)
+      uz  = wsponge(ix,iy,iz,iel)
+      
+      if (cbu.eq.'o  ') then
+c     The current definition assumes that the normal velocity
+c     is ux, i.e. the boundary is orthogonal to x, and the outflow
+c     direction is in postive x.
+      S0  = 0.5*(1-tanh(ux/U0delta))
+      if (IF3D) then
+            pa = -0.5*(ux*ux+uy*uy+uz*uz)*S0
+      else
+            pa = -0.5*(ux*ux+uy*uy)*S0
+      endif
+      endif
+c====================================================
+! #---------- DRL Policy --------------
+c====================================================
+#ifdef DRL
+! Used for 2-sides oppo control 
+      if (x.ge.(ctrlxs-0.1).and.x.le.(ctrlxe+0.1).and.
+     $    y.ge.ctrlys.and.y.le.ctrlye) then 
+c------------------------------------------------------------
+! Note that this region is a bit wider than the defined control region,
+! just ensuring we are not missing any grids.
+      vf = 0.0
+      isfind=.FALSE.
+      ! print *, "Amp=",amp
+c------------------------------------------------
+cc STEP 1: Get Wall-normal velocity fluctuations @y+=15, with a flag isfind 
+c------------------------------------------------
+      call ACTUATE_JET(vf,isfind,ix,iy,iz,iside,ieg)
+c-------------------------------------------------
+c-------------------------------------------------
+cc STEP 2: Actuation based on the flag
+c-------------------------------------------------
+      if (isfind) then ! IF actuate 
+      
+      ! find the normal projection angle 
+      snx = body_cos(ix,iy,iz,iel)
+      sny = body_sin(ix,iy,iz,iel)
+      ! Project onto Cartesia
+      ! Positive <=> Blow; Negative <=> Suction n Coordinates
+      ux = vf*snx + Vb*snx ! Add uniform suction 
+      uy = vf*sny + Vb*sny ! Add uniform suction
+      uz = 0.0
+      ! print *, "[NEK] FIND CTRL, ux=",ux,"uy=",uy,x,y,z
+      ! call record_actuate(ix,iy,iz,iel,iside,x,y,z,vf)
+      endif ! if isfind.eq.TRUE
+c------------------------------------------------------------
+      endif ! (if x, y in region)
+#endif
+!##########################################################     
+! End here 
+
+
+      return
+      end subroutine userbc
+c--------------------------------------------------
+
+
+
+
+c-----------------------------------------------------------------------
+
+      subroutine useric(ix,iy,iz,ieg) ! set up initial conditions
+
+      implicit none
+
+cc MA:      include 'SIZE_DEF'
+      include 'SIZE'
+cc MA:      include 'NEKUSE_DEF'
+      include 'NEKUSE'
+cc MA:      include 'PARALLEL_DEF'
+      include 'PARALLEL'
+
+      integer ix,iy,iz,ieg
+
+      real*8 usponge(lx1,ly1,lz1,lelv),
+     &     vsponge(lx1,ly1,lz1,lelv),wsponge(lx1,ly1,lz1,lelv)
+      COMMON / SPONGE /  usponge, vsponge,wsponge
+    
+      integer iel
+      
+      iel = gllel(ieg)   
+
+      ux   = usponge(ix,iy,iz,iel) !bocoarray(index,1) 
+      uy   = vsponge(ix,iy,iz,iel) !bocoarray(index,2)
+      uz   = wsponge(ix,iy,iz,iel)
+
+!      ux   = 1.0
+!      uy   = 0.0
+!      uz   = 0.0
+!      temp = 1.0
+
+      return
+      end
+
+c-----------------------------------------------------------------------
+
+      subroutine userchk()
+
+      implicit none
+
+cc MA:      include 'SIZE_DEF'      
+      include 'SIZE'
+cc MA:      include 'GEOM_DEF'
+      include 'GEOM'                    ! xm1, ym1, zm1
+cc MA:      include 'SOLN_DEF'
+      include 'SOLN'                    ! T
+cc MA:      include 'MASS_DEF'
+      include 'MASS'                    !BM1 for lambda2
+cc MA:      include 'TSTEP_DEF'
+      include 'TSTEP'                   ! ISTEP
+cc MA:      include 'INPUT_DEF'
+      include 'INPUT'                   ! PARAM(12) (DT)
+      include 'USERPAR'                 ! l2freq, FIXGEOM, NEW_DT
+!      include 'RTFILTER'                ! Diagnostic spectra only. Can be removed later.
+
+      integer lt
+      parameter (lt=lx1*ly1*lz1*lelv)
+   
+      real*8  usponge(lx1,ly1,lz1,lelv),
+     $     vsponge(lx1,ly1,lz1,lelv),wsponge(lx1,ly1,lz1,lelv)
+
+      real*8  uss(lx1,ly1,lz1,lelv),
+     $     vss(lx1,ly1,lz1,lelv),wss(lx1,ly1,lz1,lelv)
+
+      real*8 work1(1),work2(1)
+      
+      COMMON / SPONGE / usponge, vsponge,wsponge,uss,vss,wss
+
+      logical exist_rst
+
+!      real vort, w1, w2                      ! Diagnostic spectra
+!      COMMON /scrns/ vort(lt,3), w1(lt), w2(lt)
+!-------------------------------------------------- 
+
+!    Initialize spectral coeffs.
+!    Only for diagnosis. Should be removed later.
+!-------------------------------------------------- 
+!      if (ISTEP.eq.0) call err_est_init
+
+cc MA:
+      call uprm_read_MA               ! New user parameter read function
+
+!    Read initial/BC COMMENT IF NOT THE FIRST RUN
+!-------------------------------------------------- 
+cc       if (istep .eq. 0) then   
+cc       !   call opcopy(u1tmp,v1tmp,w1tmp,xm1,ym1,zm1)         ! Backup xyz coordinates
+cc !     check for IC to set up the fringe
+cc          inquire(file='naca_wing.IC',exist=exist_rst)
+cc          if (exist_rst) then
+cc             if(nid.eq.0)then
+cc                write(*,*) '------------------------------------'
+cc                write(*,*) 'READ  IC  as the Fringe input'
+cc                write(*,*) '------------------------------------'
+cc             end if
+cc             initc(1) = 'naca_wing.IC'
+cc             call setics
+cc             call opcopy(usponge,vsponge,wsponge,vx,vy,vz)
+cc          end if
+cc       end if
+!-------------------------------------------------- 
+      
+      call checkpoint                   ! Restart check
+
+      if (istep .eq. 0) then
+         call opcopy(usponge,vsponge,wsponge,vx,vy,vz)
+      end if
+
+      call make_RTF                     ! filter forcing
+
+! Calculate and output Lambda2
+!-------------------------------------------------- 
+      IFTO = .TRUE.
+      if (mod(ISTEP,L2FREQ).eq.0) then
+         if (NID.eq.0) write(6,*) ISTEP,IOSTEP,TIME,' compute lambda2'
+         call lambda2(T(1,1,1,1,1))
+         call col2  (T(1,1,1,1,1),bm1,lt)
+         call dssum (T(1,1,1,1,1),nx1,ny1,nz1)
+         call col2  (T(1,1,1,1,1),binvm1,lt)
+
+!    Diagnostic Spectra for filtering. Can be removed later.
+!    Outpost with la2
+!         if (rt_wght.ne.0) then
+!            call get_spectra(vort(1,1),rtfx)
+!            call get_spectra(vort(1,2),rtfy)
+!            call get_spectra(vort(1,3),rtfz)
+!            call outpost(vort(1,1),vort(1,2),vort(1,3),pr,t,'la2')
+!         else
+            call outpost(vx,vy,vz,pr,t,'la2')
+c            call outpost(vx,vy,vz,pr,uss,'tr1')
+c            call outpost(vx,vy,vz,pr,vss,'tr2')
+c            call outpost(vx,vy,vz,pr,wss,'tr3')
+
+!         endif
+!--------------------------------------------------
+
+      endif
+ 
+
+!!    Fix wing surface GLL points. Moved to usrdat2
+!!-------------------------------------------------- 
+!      if ((FIXGEOM.eq.1).and.(ISTEP.eq.0)) then
+!         call opcopy(xm1,ym1,zm1,u1tmp,v1tmp,w1tmp)         ! copy old x,y,z back.
+!         call fix_mygll()                                   ! fix them
+!      endif
+
+!!   Change Time step
+!-------------------------------------------------- 
+      if ((ISTEP.eq.5).and.(NEW_DT.ne.0.0)) then
+        PARAM(12) = NEW_DT 
+      endif
+
+      call readtrip_par                 ! read forparam.i file. Very inelegant
+                                        ! Should be called from within tripf anyway
+
+      call tripf                        ! Tripping      
+
+      call stat_avg_all                 ! new one
+
+#ifdef DRL
+c#################################
+c     Deep Reinforcement learning
+      call DRL_main
+c##################################        
+#endif 
+
+
+      return
+      end
+      
+c-----------------------------------------------------------------------
+      
+      subroutine usrdat()
+c     Read user-defined boundary conditions into a common array bocoarray
+c     Read input data for fringe region
+
+      include 'SIZE'
+
+c     variables used for user-defined boundary conditions
+
+      real dum(3)
+
+!      call user_param
+cc MA:      call uprm_read               ! New user parameter read function
+
+      return
+      end
+
+c-----------------------------------------------------------------------
+
+      subroutine usrdat2()  
+c     Set the GLL points as defined in the CASENAME.grid file
+
+      implicit none
+
+cc MA:      include 'SIZE_DEF'      
+      include 'SIZE'
+      include 'USERPAR'
+cc MA:      include 'SOLN_DEF'
+      include 'SOLN'
+cc MA:
+      include 'INPUT'  !! cc MA: PARAM(71) FIXGEOM
+
+#ifdef DRL 
+      include "DRL"
+#endif 
+
+!    Fix wing surface GLL points.
+!-------------------------------------------------- 
+cc MA: load here:
+      FIXGEOM = INT(PARAM(71))
+      if (FIXGEOM.eq.1) then
+!         call opcopy(xm1,ym1,zm1,u1tmp,v1tmp,w1tmp)         ! copy old x,y,z back.
+         call fix_mygll()                                   ! fix them
+      endif
+      call fix_geom
+!      call outpost(vx,vy,vz,pr,t,'gri')
+      return
+      end
+
+c-----------------------------------------------------------------------
+
+      subroutine usrdat3()
+
+      implicit none
+
+cc MA:      include 'SIZE_DEF'
+      include 'SIZE'
+      include 'TRIPF'
+      real bb
+      real ran2          ! function
+
+      integer i    
+
+      if (nid.eq.0) write(*,*) 'INITIALIZATION OF TRIP FORCING'
+
+c     initialize ran2
+c     
+      seed = -32
+      bb=ran2(seed)
+
+      call readwallfile
+      do i=1,nwalls
+            call znekgen(i)
+      enddo
+
+#ifdef DRL 
+c----------------------------
+c INITIALISATION for OPPOSITION CONTROL 
+      call calculate_norm_angle
+c------------------------------
+#endif
+!     Call this to multiply num_modes depending on the aspect ratio
+!     (x-y)
+c      call ARnumnodes
+
+      return
+      end
+c---------------------------------------------------------------------- 
+c
+c automatically added by makenek
+      subroutine usrsetvert(glo_num,nel,nx,ny,nz) ! to modify glo_num
+      integer*8 glo_num(1)
+      return
+      end
+
+C=======================================================================
+

NACA4412_3D_Re75000_AOA5/small_wing.wall

@@ -0,0 +1,18 @@
+ *** Wall definitions ***
+2    Number of walls 'nwalls'; .le. maxwalls
+5    Number of global parameters 'nwallpar'; .le. maxwallpar
+1    Number of parameters row for each wall 'npwallpar'; .le. maxpwallpar
+ *** Global parameters 'wallpar(i)'***
+0.0                time independent amplitude (subroutine tripf)
+10.0               time dependent amplitude (subroutine tripf)
+0.008                tdt (subroutine tripf)
+60                  num_nodes (subroutine tripf -> rand_gen)
+0.002     dstar (subroutine userf)
+ *** Wall definitions: direction // x y z // p1x p1y p1z // p2x p2y p2z // ... ***
+ *** Parameters per wall : 'pwallpar(coord,i,wall)' ***
+z                direction
+0.1 0.0665 0.      coordinates of the line (the direction coordinate is unused)
+0.008 0.002 0.         user parameters for this wall (npwallpar lines of 3 numbers)
+z                next wall
+0.1 -0.0288 0.
+0.008 0.002 0.

NACA4412_3D_Re75000_AOA5/wall_glob.in

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