Mesh

There are two output files containing mesh parameters (the 5D mesh consists of a 3D unstructured triangular mesh in configuration space and a 2D structured rectangular grid in velocity space): xgc.f0.mesh.bp and xgc.mesh.bp.

Remarks

These files contain quantities that can be useful to calculate various averages.

# flux surfaces here includes the scrape-off layer, i.e. the open field-line region.

xgc.f0.mesh.bp
Printed when: sml_f0_grid=.true..   Output frequency: once at start/restart.

Output	Dimension	Units	Description
f0_T_ev	\(N_{\mathrm{species}}~\times\) # 3D mesh nodes	\(\mathrm{eV}\)	Temperature at start in all configuration space vertices for electrons (0) and ions (1).
f0_den	# 3D mesh nodes	\({\mathrm{m}}^{-3}\)	Density at start in all configuration space vertices. Is n_e = n_i assumed?
f0_dsmu	Scalar	\(v_{Ts} = \sqrt{\frac{T_s}{m_s}}\)	\(\Delta v_{\perp}\) in the 2D velocity grid of species \(s\).
f0_dvp	Scalar	\(v_{Ts} = \sqrt{\frac{T_s}{m_s}}\)	\(\Delta v_{\|}\) in the 2D velocity grid of species \(s\).
f0_grid_vol_vonly	\(N_{\mathrm{species}}~\times\) # 3D mesh nodes	Units	Prefactor for calculating velocity space moments. \(= \left( T_s/\sqrt{2 \pi} \right) \times \) \(\times\) dvp_n. Note that mu_vol and vp_vol are different and not included. In calculating density moment, for example: \(n_s(k)=\) f0_grid_vol_vonly(k) \(\sum_{i,j}\) mu_vol(i) vp_vol(j) f(i,j,k)
f0_nmu	Scalar	Positive integer	Number of grid points in \(v_{\perp}\) in the 2D velocity grid is f0_nmu + 1. Same as input parameter f0_nmu.
f0_nvp	Scalar	Positive integer	Number of grid points in \(v_{\|}\) in the 2D velocity grid is 2 \(\times\) f0_nvp + 1. Same as input parameter f0_nvp.
f0_smu_max	Scalar	\(v_{Ts} = \sqrt{\frac{T_s}{m_s}}\)	Maximum \(v_{\perp}\) in the 2D velocity grid (minimum is \(0\)). Same as input parameter f0_smu_max.
f0_vp_max	Scalar	\(v_{Ts} = \sqrt{\frac{T_s}{m_s}}\)	Maximum/minimum \(v_{\|}\) (minimum with minus sign) in the 2D velocity grid. Same as input parameter f0_vp_max.
gradpsi	# 3D mesh nodes \(\times\) 2	Units	Description
inode1m1	Scalar	Units	Description
n_n	Scalar	Positive integer	Number of 3D mesh nodes.
nb_curl_nb	# 3D mesh nodes	Units	Description
ndata	Scalar	Positive integer	Description
nsp	Scalar	Positive integer	Number of kinetic species.
v_curv	# 3D mesh nodes \(\times\) 3	Units	Description
v_gradb	# 3D mesh nodes \(\times\) 3	Units	Description

xgc.mesh.bp
Printed when: always.   Output frequency: once at start/restart.

Output	Dimension	Units	Description
/cell_set[0]/node_connect_list	# 3D mesh triangles \(\times\) 3	Integer	Defines triangular mesh on each poloidal plane (similar to, but indexed differently from .ele file). Same as nd_connect_list. First index is triangle index and the second index is over the three nodes that make up the triangle’s vertices. These are labelled by the index of the mesh node (from .node file). Index of nodes counts starting from zero.
nd_connect_list	# 3D mesh triangles \(\times\) 3	Integer	Defines triangular mesh on each poloidal plane (similar to, but indexed differently from .ele file). Same as /cell_set[0]/node_connect_list. First index is triangle index and the second index is over the three nodes that make up the triangle’s vertices. These are labelled by the index of the mesh node (from .node file). Index of nodes counts starting from zero.
/coordinates/values	# 3D mesh nodes \(\times\) 2	Meters	Defines the spatial location in the poloidal plane for each mesh node. First index defines the node. Second index is the \((R,Z)\) coordinate of the node. Same as rz.
rz	# 3D mesh nodes \(\times\) 2	Meters	Defines the spatial location in the poloidal plane for each mesh node. First index defines the node. Second index is the \((R,Z)\) coordinate of the node. Same as /coordinates/values.
epsilon	# flux surfaces	Normalized	Inverse aspect ratio rmin/rmaj for the flux surface.
n_geo	Scalar	Positive integer	Number of flux surfaces. Same as nsurf.
n_n	Scalar	Positive integer	Number of 2D mesh nodes.
n_t	Scalar	Positive integer	Number of 2D mesh triangles.
grid_nwall	Scalar	Positive integer	Number of nodes that make up the boundary of the domain (and represent the wall).
node_vol	# 3D mesh nodes	\(\mathrm{m}^{3}\)	Spatial volume of the 3D mesh node. Volume of whole torus is wedge_n \(\times\) n_phi_tot \(\times \sum_k\) node_vol(k).
node_vol_nearest	# 3D mesh nodes	\(\mathrm{m}^{3}\)	Description
nsurf	Scalar	Positive integer	Number of flux surfaces.
psi	# 3D mesh nodes	Weber/rad	Toroidal magnetic flux for the flux surface that the node is on.
psi_surf	# flux surfaces	Weber/rad	Toroidal magnetic flux for the flux surface.
qsafety	# flux surfaces	Normalized	Safety factor \(q\) for the flux surface.
rmaj	# flux surfaces	m	Major radius of flux surface.
rmin	# flux surfaces	m	Minor radius of flux surface
surf_arc_len	# flux surfaces	m	Poloidal arc-length of the complete flux surface.
surf_idx	# flux surfaces \(\times\) surf_maxlen	Positive integer	Node index for each node on a flux surface. First index is flux surface label and second index is the node on the flux surface. Nodes counted from 1. Filled with zeros beyond surf_len.
surf_len	# flux surfaces	Positive integer	Number of nodes in each flux surface.
surf_maxlen	Scalar	Positive integer	The maximum number of nodes on any flux surface. Used for indexing surf_idx.
theta	# 3D mesh nodes	Normalized	Poloidal coordinate.
trapped	# flux surfaces	Normalized	Trapped particle fraction for flux surface.
nextnode	# 3D mesh nodes	Units	Description
mapping	# 3D mesh triangles \(\times 3 \times 2\)	m	Defines coordinates of triangle vertices.
grid_wall_nodes	nwall	Positive integer	Node index for each wall node. Currently not “ordered”, but in the order specified in .node file.
m_max_surf	# flux surfaces	Positive integer	Maximum resolvable poloidal mode number on each flux surface. Defined by field-following alignment when generating the mesh.
ff_1dp_p	2 \(\times\) # 3D mesh nodes \(\times\) 3	Units	Description
ff_hdp_p	2 \(\times\) # 3D mesh nodes \(\times\) 3	Units	Description
one_per_dx	2 \(\times\) # 3D mesh nodes	Units	Description
node_vol_ff0	# 3D mesh nodes	Units	Description
node_vol_ff1	# 3D mesh nodes	Units	Description