! Copyright 2014 College of William and Mary
!
! Licensed under the Apache License, Version 2.0 (the "License");
! you may not use this file except in compliance with the License.
! You may obtain a copy of the License at
!
! http://www.apache.org/licenses/LICENSE-2.0
!
! Unless required by applicable law or agreed to in writing, software
! distributed under the License is distributed on an "AS IS" BASIS,
! WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
! See the License for the specific language governing permissions and
! limitations under the License.
!
!****************************************************************************************
! *
! (x,y) read in from station.bp (build pts), and output
! results along a transect (defined below) for 3D variables.
! Need to manually modify ntran etc.
! Works for mixed tri/quad outputs and node/elem based vars.
! Works for combined or uncombined nc outputs.
! Will extrapolate above surface but not below bottom.
! Inputs: screen; vgrid (in this dir or ../); station.bp (build pts; depths not used); nc
! Outputs: transect.out & transect_grd.[zr]0 (ascii on struc'ed grid;
! use plot_transect.m, but also consider using SCHISM_TRANSECT.m)
! average_transect.out (averaged; in .bp with header for scalar and in
! .xyuv for vector)
! ifort -mcmodel=medium -assume byterecl -CB -O2 -o read_output9_transect.exe ../UtilLib/extract_mod.f90 ../UtilLib/compute_zcor.f90 ../UtilLib/pt_in_poly_test.f90 read_output9_transect.f90 -I$NETCDF/include -I$NETCDF_FORTRAN/include -L$NETCDF_FORTRAN/lib -L$NETCDF/lib -L$NETCDF/lib -lnetcdf -lnetcdff
! *
!****************************************************************************************
!
program read_out
use netcdf
use extract_mod
use compute_zcor
use pt_in_poly_test
! parameter(nbyte=4)
character(len=30) :: file63,varname
character(len=12) :: it_char
allocatable :: sigma(:),cs(:),ztot(:)
allocatable:: outvar(:,:,:,:),out(:,:,:,:),out2(:,:,:),icum(:,:,:),eta2(:,:),node3(:,:),arco(:,:)
allocatable :: ztmp(:),x00(:),y00(:),iep(:),out3(:,:,:),out4(:,:),av_out3(:,:,:)
allocatable :: nmxz(:,:),z0(:),r0(:),r00(:),z00(:)
allocatable :: sigma_lcl(:,:),kbp(:),ztmp2(:,:),irank_read(:)
integer :: nodel(3)
real :: swild(3)
real*8,allocatable :: timeout(:)
print*, 'Do you work on uncombined (0) or combined (1) nc?'
read(*,*)icomb
if(icomb/=0.and.icomb/=1) stop 'Unknown icomb'
!... Set max array size for system memory
print*, 'Recommendation: for uncombined nc, specify max array size (e.g., <=2.e9);'
print*, 'for combined nc, specify # of records to read each time.'
print*, 'Do you want to specify max array size (1) or # of records (2)'
read(*,*)ispec_max
if(ispec_max==1) then
print*, 'Input max array size (e.g., <=2.e9):'
read(*,*)max_array_size
print*, 'max_array_size read in=',max_array_size
else
print*, 'Input # of records:'
read(*,*)nrec3
endif
print*, 'Input variable name to read from nc (e.g. salt):'
read(*,'(a30)')varname
varname=adjustl(varname); len_var=len_trim(varname)
print*, 'Is the var node (1) or elem (2) based?'
read(*,*) inode_elem
print*, 'Input start and end file # to read:'
read(*,*) iday1,iday2
! print*, 'Input output interval in sec:'
! read(*,*) dt_output
! Input transect depths
ntran=31
allocate(z0(ntran))
z0(1:ntran)=(/(-30+i, i=0,ntran-1) /)
open(10,file='station.bp',status='old')
read(10,*)
read(10,*) nxy
nxz=nxy*ntran
nxz_e=(nxy-1)*(ntran-1)*2
allocate(x00(nxy),y00(nxy),r0(nxy),r00(nxz),z00(nxz),nmxz(nxz_e,4),stat=istat)
if(istat/=0) stop 'Falied to allocate (1)'
do i=1,nxy
read(10,*)j,x00(i),y00(i)
enddo !i
!Along transect distance
r0(1)=0
do i=2,nxy
r0(i)=r0(i-1)+sqrt((x00(i)-x00(i-1))**2+(y00(i)-y00(i-1))**2)
enddo !i
close(10)
! Output transect grid
open(22,file='transect_grd.z0',status='replace')
open(23,file='transect_grd.r0',status='replace')
write(22,'(f12.3)')z0
write(23,'(e15.6)')r0
close(22)
close(23)
! Compute connectivity
do i=1,nxy
do j=1,ntran
nd=ntran*(i-1)+j
r00(nd)=r0(i)
z00(nd)=z0(j)
enddo !j
enddo !i
do i=1,nxy-1
do j=1,ntran-1
ie=(ntran-1)*(i-1)+j
n1=ntran*(i-1)+j
n2=ntran*i+j
nmxz(2*ie-1,1)=n1
nmxz(2*ie-1,2)=n2
nmxz(2*ie-1,3)=n2+1
nmxz(2*ie,1)=n1
nmxz(2*ie,2)=n2+1
nmxz(2*ie,3)=n1+1
enddo !j
enddo !i
open(21,file='transect.out',status='replace')
!... Header
!Returned vars: ne,np,ns,nrec,[x y dp](np),
!elnode,i34,nvrt,h0,dtout
!If icomb=0, additonal vars:
!nproc,iegl_rank,iplg,ielg,islg,np_lcl(:),ne_lcl(:),ns_lcl(:)
if(icomb==0) then !uncombined
call get_global_geo
else
call readheader(iday1)
endif
print*, 'After header:',ne,np,ns,nrec,i34(ne), &
&elnode(1:i34(ne),ne),nvrt,h0,x(np),y(np),dp(np),dtout
! iskip=dt_output/dtout
! if(iskip<1) then
! print*, 'Output interval too small; resetting to dtout=',dtout
! iskip=1
! endif
!nstep=(iday2-iday1+1)*nrec/iskip
! if(nxz*ivs>6000) stop 'Increase output statement below!'
allocate(out(nxy,3,nvrt,2), &
&out2(nxy,nvrt,2),node3(nxy,3),arco(nxy,3),iep(nxy), &
&out3(2,ntran,nxy),av_out3(2,ntran,nxy),out4(ntran,2),stat=istat)
if(istat/=0) stop 'Falied to allocate (5)'
if(inode_elem==1) then !node based
last_dim=np
else !elem
last_dim=ne
endif
!nrec specified if ispec_max=2
if(ispec_max==1) nrec3=max_array_size/(2*nvrt*last_dim)-1
nrec3=min(nrec,max(nrec3,1))
allocate(ztot(nvrt),sigma(nvrt),sigma_lcl(nvrt,np),kbp(np), &
&timeout(nrec),outvar(2,nvrt,last_dim,nrec3),eta2(np,nrec3))
outvar=-huge(1.0) !init
! Read in vgrid.in
call get_vgrid_single('vgrid.in',np,nvrt,ivcor,kz,h_s,h_c,theta_b,theta_f,ztot,sigma,sigma_lcl,kbp)
allocate(ztmp(nvrt),ztmp2(nvrt,3))
! Calculate kbp00
if(ivcor==1) then
kbp00=kbp
else
do i=1,np
call zcor_SZ_single(dp(i),1.e8,h0,h_s,h_c,theta_b,theta_f,kz,nvrt,ztot,sigma, &
&ztmp(:),idry2,kbp00(i))
enddo !i
endif !ivcor
!... Find parent element for (x00,y00)
iep=0
do i=1,ne
do l=1,nxy
if(iep(l)/=0) cycle
call pt_in_poly_single(i34(i),real(x(elnode(1:i34(i),i))), &
&real(y(elnode(1:i34(i),i))),x00(l),y00(l),inside,arco(l,1:3),nodel)
if(inside==1) then
iep(l)=i
!print*, 'Found:',l,arco(l,1:3),nodel
node3(l,1:3)=elnode(nodel(1:3),i)
endif !inside
enddo !l; build pts
ifl=0 !flag
do l=1,nxy
if(iep(l)==0) then
ifl=1
exit
endif
enddo !l
if(ifl==0) exit
enddo !i=1,ne
iabort=0
do j=1,nxy
if(iep(j)<=0) then
print*, 'Cannot find a parent for pt:',j,x00(j),y00(j)
iabort=1
endif
enddo !j
if(iabort==1) stop 'check station points'
!Mark ranks that need to be read in
if(icomb==0) then
allocate(irank_read(0:nproc-1))
irank_read=0
do j=1,nxy
irank_read(iegl_rank(iep(j)))=1
write(99,*)'reading from rank #:',iegl_rank(iep(j))
enddo !j
write(99,*)'Need to read from ',sum(irank_read),' ranks'
endif !icomb
if(varname(1:len_var).eq.'hvel') then
rjunk=0 !invalid values
else
rjunk=-9999
endif
!... Time iteration
!...
av_out3=0
nstep=0
do iday=iday1,iday2
!+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
! write(it_char,'(i12)')iday
! it_char=adjustl(it_char)
! leng=len_trim(it_char)
! file63='schout_'//it_char(1:leng)//'.nc'
! iret=nf90_open(trim(adjustl(file63)),OR(NF90_NETCDF4,NF90_NOWRITE),ncid)
! !time is double
! iret=nf90_inq_varid(ncid,'time',itime_id)
! iret=nf90_get_var(ncid,itime_id,timeout,(/1/),(/nrec/))
if(icomb==0) then !uncombined
call get_timeout(iday,nrec,timeout,icomb)
else
call get_timeout(iday,nrec,timeout)
endif
!print*, 'time(days)=',timeout/86400
!Get elev
! start_2d(1)=1; start_2d(2)=irec
! count_2d(1)=np; count_2d(2)=1
! iret=nf90_get_var(ncid,ielev_id,eta2,start_2d,count_2d)
!
! iret=nf90_inq_varid(ncid,varname(1:len_var),ivarid1)
! if(iret/=nf90_NoErr) stop 'Var not found'
! iret=nf90_Inquire_Variable(ncid,ivarid1,ndims=ndims,dimids=dimids)
! if(ndims>100) stop 'increase dimension of dimids & idims'
! do i=1,ndims
! iret=nf90_Inquire_Dimension(ncid,dimids(i),len=idims(i))
! enddo !i
! npes=idims(ndims-1)
! if(npes/=np.and.npes/=ne) stop 'can only handle node- or elem-based'
!!'
! if(idims(ndims)/=nrec) stop 'last dim is not time'
!
! iret=nf90_get_att(ncid,ivarid1,'i23d',i23d)
! if(i23d<=0.or.i23d>6) stop 'wrong i23d'
! iret=nf90_get_att(ncid,ivarid1,'ivs',ivs)
! print*, 'i23d:',i23d,ivs,idims(1:ndims)
! if(ivs==1) then !scalar
! if(mod(i23d-1,3)==0) then !2D
! start_2d(1)=1; start_2d(2)=irec
! count_2d(1)=npes; count_2d(2)=1
! iret=nf90_get_var(ncid,ivarid1,outvar(1,1,1:npes),start_2d,count_2d)
! else !3D
! start_3d(1:2)=1; start_3d(3)=irec
! count_3d(2)=npes; count_3d(1)=nvrt; count_3d(3)=1
! iret=nf90_get_var(ncid,ivarid1,outvar(1,:,1:npes),start_3d,count_3d)
! endif
! else !vector
! if(mod(i23d-1,3)==0) then !2D
! start_3d(1:2)=1; start_3d(3)=irec
! count_3d(2)=npes; count_3d(1)=2; count_3d(3)=1
! iret=nf90_get_var(ncid,ivarid1,outvar(1:2,1,1:npes),start_3d,count_3d)
! else if(ndims-1==3) then !3D vector
! start_4d(1:3)=1; start_4d(4)=irec
! count_4d(3)=npes; count_4d(2)=nvrt; count_4d(1)=2; count_4d(4)=1
! iret=nf90_get_var(ncid,ivarid1,outvar(:,:,1:npes),start_4d,count_4d)
! else
! stop 'Unknown type(2)'
! endif
! endif !ivs
irec1=1 !start record
loop1: do
irec2=min(nrec,irec1+nrec3-1)
if(icomb==0) then !uncombined
do irank=0,nproc-1
if(irank_read(irank)>0) then
call get_outvar_multirecord(iday,varname,irec1,irec2,np,last_dim,nvrt,nrec3,outvar,i23d,ivs,eta2,irank)
endif
enddo !irank
else
call get_outvar_multirecord(iday,varname,irec1,irec2,np,last_dim,nvrt,nrec3,outvar,i23d,ivs,eta2)
endif
if(inode_elem==1) then !node based
if(i23d>3) stop 'U said it is node based'
else !elem
if(i23d<=3) stop 'U said it is elem based'
endif
!Available now:
!outvar(2,nvrt,np|ne,irec2-irec1+1),i23d,ivs,eta2(np,irec2-irec1+1)
!However, for uncombined nc, values in untouched ranks are junk
do irec=1,irec2-irec1+1 !offeset record #
!----------------------------------------------------------------------------
irec_real=irec1+irec-1 !actual record #
out2=0
if(mod(i23d-1,3)==0) then !2D
stop 'No 2D vars plz'
else !i23d=3
if(i23d<=3) then !node
do i=1,nxy
do j=1,3 !nodes
nd=node3(i,j)
do k=max0(1,kbp00(nd)),nvrt
do m=1,ivs
out(i,j,k,m)=outvar(m,k,nd,irec)
enddo !m
enddo !k
enddo !j
enddo !i
endif !node
! Do interpolation
do i=1,nxy
etal=0; dep=0; idry=0
do j=1,3
nd=node3(i,j)
if(eta2(nd,irec)+dp(nd)<h0) idry=1
etal=etal+arco(i,j)*eta2(nd,irec)
dep=dep+arco(i,j)*dp(nd)
! Debug
! write(11,*)i,j,nd,dp(nd),arco(i,j)
enddo !j
if(idry==1) then
out4(:,:)=rjunk
else !element wet
!Compute z-coordinates
if(ivcor==1) then !localized
do j=1,3
nd=node3(i,j)
do k=kbp(nd)+1,nvrt-1
ztmp2(k,j)=(eta2(nd,irec)+dp(nd))*sigma_lcl(k,nd)+eta2(nd,irec)
enddo !k
ztmp2(kbp(nd),j)=-dp(nd) !to avoid underflow
ztmp2(nvrt,j)=eta2(nd,irec) !to avoid underflow
enddo !j
ztmp=0
kbpl=minval(kbp(node3(i,1:3)))
do k=kbpl,nvrt
do j=1,3
nd=node3(i,j)
ztmp(k)=ztmp(k)+arco(i,j)*ztmp2(max(k,kbp(nd)),j)
enddo !j
enddo !k
else if(ivcor==2) then !SZ
call zcor_SZ_single(dep,etal,h0,h_s,h_c,theta_b,theta_f,kz,nvrt,ztot, &
&sigma,ztmp(:),idry2,kbpl)
endif
if(i23d<=3) then !node based
do k=kbpl,nvrt
do m=1,ivs
do j=1,3
nd=node3(i,j)
kin=max(k,kbp00(nd))
out2(i,k,m)=out2(i,k,m)+arco(i,j)*out(i,j,kin,m)
enddo !j
enddo !m
! write(65,*)i,k,ztmp(k),(out2(i,k,m),m=1,ivs)
enddo !k
endif
! Interplate in vertical
do kk=1,ntran
if(z0(kk)>=ztmp(nvrt)) then !extrap above F.S.
k0=nvrt-1; rat=1
else !no extrap below bottom
k0=0
do k=kbpl,nvrt-1
if(z0(kk)>=ztmp(k).and.z0(kk)<=ztmp(k+1)) then
k0=k
rat=(z0(kk)-ztmp(k))/(ztmp(k+1)-ztmp(k))
exit
endif
enddo !k
endif
if(k0==0) then !no extrap below bottom
! write(12,*)'Warning: failed to find a vertical level:',it,i
out4(kk,1:ivs)=rjunk
else
do m=1,ivs
if(i23d<=3) then !node based
out4(kk,m)=out2(i,k0,m)*(1-rat)+out2(i,k0+1,m)*rat
else if(i23d<=6) then !elem
out4(kk,m)=outvar(m,k0+1,iep(i),irec) !FV
endif
!Debug
!if(mod(its,iskip)==0) write(99,*)time,i,kk,out4(kk,m)
enddo !m
endif
enddo !kk
endif !dry/wet
do kk=1,ntran
!itmp=(i-1)*ntran+kk
out3(1:ivs,kk,i)=out4(kk,1:ivs)
enddo !kk
enddo !i=1,nxy
!Along all vertical levels of each build pt
do i=1,nxy
do kk=1,ntran
write(21,'(e22.12,2(1x,f10.3))')timeout(irec_real),out3(1:ivs,kk,i)
enddo !kk
enddo !i
av_out3=av_out3+out3
nstep=nstep+1
endif !i23d
! enddo !irec=1,nrec
!----------------------------------------------------------------------------
enddo !irec
if(irec2==nrec) exit loop1
irec1=irec1+nrec3
end do loop1
!+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
enddo !iday
! Output average
open(24,file='average_transect.out',status='replace')
av_out3=av_out3/nstep
do i=1,nxy
do kk=1,ntran
if(ivs==2) then
write(24,'(4(1x,e22.10))')r0(i),z0(kk),av_out3(1:ivs,kk,i)
else
j=(i-1)*ntran+kk
write(24,'(i13,4(1x,e22.10))')j,r0(i),z0(kk),av_out3(1,kk,i)
endif
enddo !kk
enddo !i
close(24)
print*, 'Finished!'
stop
end