time = np.squeeze(collect("t_array",path=path,xind=[0,0]))
yO = -.5*(dy*ny)
xO = -.17949 *(dx*nx)
#computer the center of mass
#savemovie(n[1:,:,:],data2=phi[1:,:,:],moviename='movie_n_phi'+key+'.avi',cache=cache+"/",overcontour=True,xO=xO,yO=yO,dx=dx,dy=dy,norm=False)
#savemovie(n[1:,:,:],data2=phi[1:,:,:],moviename='movie_n_phi'+key+'.avi',cache=cache+"/",overcontour=True,xO=xO,yO=yO,dx=dx,dy=dy,norm=False)
#savemovie(np.log(n[1:,:,:]+1.0),data2=phi[1:,:,:],moviename='movie_n_phi'+key+'.avi',
# cache=cache+"/",overcontour=True,xO=xO,yO=yO,dx=dx,dy=dy,t_array=time)
# savemovie(np.log(n[1:,:,:]+1.0),data2=phi[1:,:,:],moviename='movie_n_phi'+key+'.avi',
# cache=cache+"/",overcontour=True,xO=xO,yO=yO,dx=dx,dy=dy,t_array=time)
savemovie(np.log(n[1:,:,:]+1.0),data2=alpha,moviename='movie_log(n)_alpha'+key+'.avi',
cache=cache+"/",overcontour=True,xO=xO,yO=yO,dx=dx,dy=dy,t_array=time,bk=np.log(1.0))
savemovie(n[1:,:,:]+.10,data2=alpha,moviename='movie_n_alpha'+key+'.avi',
cache=cache+"/",overcontour=True,xO=xO,yO=yO,dx=dx,dy=dy,t_array=time,bk=1.0)
#savemovie(u[1:,:,:],data2=phi[1:,:,:],moviename='movie_u_phi'+key+'.avi',cache=cache+"/",overcontour=True,xO=xO,yO=yO,dx=dx,dy=dy,norm=False)
savemovie(n[1:,:,ny/2],moviename='movie_n_1D'+key+'.avi',cache=cache+"/",
overcontour=True,xO=xO, yO=yO,dx=dx,dy=dy,norm=False,t_array=time)
#os.rmdir
path=sys.argv[1]
key=sys.argv[2]
cache='/scratch/01523/meyerson/'+key
if os.path.exists(cache):
os.rmdir(cache)
os.makedirs(cache)
print path
meta = metadata(path=path)
from boutdata import collect
from boututils import savemovie
gamma = collect("Gammax",yind=[5,5],path=path)
ni = collect("Ni",yind=[5,5],path=path)
rho = collect("rho",yind=[5,5],path=path)
#one movie per cpu
print ni.shape, gamma.shape
savemovie(gamma[:,:,0,:],ni[:,:,0,:],moviename='movie_'+key+'.avi',
meta=meta,cache=cache+"/",overcontour=True)
savemovie(rho[:,:,0,:],ni[:,:,0,:],moviename='movie_phi_ni'+key+'.avi',
meta=meta,cache=cache+"/",overcontour=True)
#os.rmdir(cache)
n = np.squeeze(collect("n",xind=[2,3*nx/4+2],zind=[nz/4,3*nz/4],tind=[0,299],path=path,info=False))
u = np.squeeze(collect("u",xind=[2,3*nx/4+2],zind=[nz/4,3*nz/4],tind=[0,299],path=path,info=False))
phi = np.squeeze(collect("phi",xind=[2,3*nx/4+2],zind=[nz/4,3*nz/4],tind=[0,299],path=path,info=False))
#one movie per cpu
# savemovie(u[1:,:,:],data2=phi[1:,:,:],moviename='movie_u_phi'+key+'.avi',cache=cache+"/",overcontour=Trueo,xO=xO,yO=yO,dx=dx,dy=dy)
print n.shape
nt,nx,ny = n.shape
dx = np.squeeze(collect("dx",path=path,xind=[0,0]))
dy = np.squeeze(collect("dz",path=path,xind=[0,0]))
yO = -.5*(dy*ny)
xO = -.17949 *(dx*nx)
savemovie(n[1:,:,:]+.1,data2=phi[1:,:,:],moviename='movie_n_phi'+key+'.avi',cache=cache+"/",
overcontour=True,xO=xO,yO=yO,dx=dx,dy=dy)
savemovie(u[1:,:,:],data2=phi[1:,:,:],moviename='movie_u_phi'+key+'.avi',cache=cache+"/",
overcontour=True,xO=xO,yO=yO,dx=dx,dy=dy)
savemovie(n[1:,:,ny/2],moviename='movie_n_1D'+key+'.avi',cache=cache+"/",
overcontour=True,xO=xO, yO=yO,dx=dx,dy=dy)
#savemovie(n,data2=(n*(n>0)+10000000.*n*(n<0)),moviename='movie_n_neg'+key+'.avi',
# cache=cache+"/",overcontour=True,xO=xO, yO=yO,dx=dx,dy=dy,norm=False,
# nlevels = 3, removeZero = False)
#savemovie((n*(n>0)+10000000.*n*(n<0))[:,:,ny/2],moviename='movie_n_1D_neg'+key+'.avi',
# cache=cache+"/",overcontour=True,xO=xO, yO=yO,dx=dx,dy=dy,norm=False)