3-NIRVANA-user-guide/3.2-User-interfaces.md

@@ -1332,7 +1332,7 @@ whence a loop like
 
 must be added in `viscosityCoeffUser.c`. The coefficient should be
 evaluated at cell-centroid coordinates
-(`g->xc[ix],g->yc[iy],g->zc[iz]`). An example definition for a viscosity
+(`g->xc[ix]`,`g->yc[iy]`,`g->zc[iz]`). An example definition for a viscosity
 coefficient can be found in testproblem
 `/nirvana/testproblems/VISC/problem1`.
 
@@ -1347,7 +1347,7 @@ Thermal conduction enters the energy equation through a heat flux
 introduces anisotropic effects with different transport properties along
 and across the magnetic field. **F**<sub>*C*</sub> is described by
 
-**F**<sub>*C*</sub> =  − *κ*<sub>∥</sub>(∇*T* ⋅ **B̂**)**B̂** − *κ*<sub>⊥</sub>(∇*T*−(∇*T*⋅**B̂**)**B̂**)
+**F**<sub>*C*</sub> = −*κ*<sub>∥</sub>(∇*T*⋅**B̂**)**B̂**−*κ*<sub>⊥</sub>(∇*T*−(∇*T*⋅**B̂**)**B̂**)
 
 where *κ*<sub>∥</sub> and *κ*<sub>⊥</sub> is the thermal conduction
 coefficient parallel and perpendicular to the magnetic field,
@@ -1378,7 +1378,7 @@ range of `g`, whence a loop like
 
 must be added to `conductionCoeffUser.c`. The coefficients should be
 evaluated at cell-centroid coordinates
-(`g->xc[ix],g->yc[iy],g->zc[iz]`). In HD simulations or MHD simulations
+(`g->xc[ix]`,`g->yc[iy]`,`g->zc[iz]`). In HD simulations or MHD simulations
 with forced isotropy (when `COND_FORCE_ISO`=`YES` in `nirvanaUser.h`)
 only the `cond`-array has to be assigned with `cond` representing the
 conduction coefficient *κ* in the isotropic heat flux
@@ -1393,7 +1393,7 @@ PHYSICS SPECIFICATIONS (code parameter: `_C.conduction`).
 Ohmic diffusion enters the induction equation and energy equation as a
 field contribution given by
 
-**E**<sub>*D*</sub> =  − *η*<sub>*D*</sub>∇ × **B**
+**E**<sub>*D*</sub> = −*η*<sub>*D*</sub>∇×**B**
 
 where *η*<sub>*D*</sub> \[m<sup>2</sup>⋅s<sup>−1</sup>\] is the
 diffusion coefficient.
@@ -1417,7 +1417,7 @@ whence a loop like
 
 must be added in `diffusionCoeffUser.c`. The coefficient should be
 evaluated at cell-centroid coordinates
-(`g->xc[ix],g->yc[iy],g->zc[iz]`).
+(`g->xc[ix]`,`g->yc[iy]`,`g->zc[iz]`).
 
 User-defined Ohmic diffusion is enabled by appropriate choice in the
 parameter interface `nirvana.par` under the category
@@ -1430,7 +1430,7 @@ user-defined ambipolar diffusion coefficient. Ambipolar diffusion enters
 the induction equation and energy equation as a field contribution given
 by
 
-**E**<sub>*AD*</sub> = *η*<sub>*AD*</sub>/*μ*\[(∇×**B**)×**B**\] × **B**
+**E**<sub>*AD*</sub> = *η*<sub>*AD*</sub>/*μ*\[(∇×**B**)×**B**\]×**B**
 
 where *η*<sub>*AD*</sub>
 \[V⋅m⋅A<sup>−1</sup>⋅T<sup>−2</sup>\] denotes the
@@ -1459,7 +1459,7 @@ whence a loop like
 
 must be added in `APdiffusionCoeffUser.c`. The coefficient should be
 evaluated at cell-centroid coordinates
-(`g->xc[ix],g->yc[iy],g->zc[iz]`). An example definition for an
+(`g->xc[ix]`,`g->yc[iy]`,`g->zc[iz]`). An example definition for an
 ambipolar diffusion coefficient can be found in testproblem
 `/nirvana/testproblems/APDIFF/problem1`.
 
@@ -1497,7 +1497,7 @@ The user must assign the `fx`,`fy`,`fz`-arrays for active grid cells of
 
 must be added in `forceUser.c`. Strictly speaking, the body force is to
 be understood as a cell-averaged quantity. Therefore, **f** should be
-evaluated at cell-centroid coordinates (`g->xc[ix],g->yc[iy],g->zc[iz]`)
+evaluated at cell-centroid coordinates (`g->xc[ix]`,`g->yc[iy]`,`g->zc[iz]`)
 and the point values assigned to `fx`,`fy`,`fz`. An example definition
 for a body force can be found in testproblem
 `/nirvana/testproblems/MHD/problem21`.
@@ -1510,11 +1510,11 @@ parameter: `_C.force`).
 
 The modules `sourceCoolingUser.c` and `sourceHeatingUser.c` serve as
 templates for coding a user-defined cooling function,
-*L*<sub>*cool*</sub> ≤ 0, and heating function,
-*L*<sub>*heat*</sub> ≥ 0, respectively. Both functions are allowed
+*L*<sub>*cool*</sub>≤0, and heating function,
+*L*<sub>*heat*</sub>≥0, respectively. Both functions are allowed
 to depend on temperature *T* and density 𝜚. The net heatloss, i.e. the
 sum
-*L*<sub>*cool*</sub>(*T*, 𝜚) + *L*<sub>*heat*</sub>(*T*, 𝜚)
+*L*<sub>*cool*</sub>(*T*,𝜚)+*L*<sub>*heat*</sub>(*T*,𝜚)
 of both functions, enters as a source term in the energy equation.
 *L*<sub>*cool*</sub> and *L*<sub>*heat*</sub> are measured
 in units J⋅s<sup>−1</sup>⋅m<sup>−3</sup>.
@@ -1533,8 +1533,8 @@ The user must define the return value
 (*L*<sub>*heat*</sub>(`T`,`rho`)) in `sourceCoolingUser.c`
 (`sourceHeatingUser.c`). The `deriv`-flag is thought to indicate the
 calling function whether a user provides the derivatives of
-*L*<sub>*cool*</sub>(*T*, 𝜚) and
-*L*<sub>*heat*</sub>(*T*, 𝜚) with respect to *T* and 𝜚 himself.
+*L*<sub>*cool*</sub>(*T*,𝜚) and
+*L*<sub>*heat*</sub>(*T*,𝜚) with respect to *T* and 𝜚 himself.
 The `deriv`-flag is preset to `NO` when entering the code function. If
 the user sets