Index

axis

xb1: 8.1
xb2: 8.1
xb3: 8.1
xc1: 8.1
xc2: 8.1
xc3: 8.1

batch queue

9.2

big_endian

4.6.2 | 4.6.7 | 4.6.8 | 4.6.9 | 4.6.10 | 4.6.11 | 4.6.12 | 6.2.1 | 6.2.3.1

boundary conditions

7.1.4 | 7.1.5

cache usage

4.5.3

centrifugal force

7.1.3.9 | 7.1.3.10

chem.dat

7.5

chemical composition

7.1.6.1

chemical reaction network

1. | 4.4.1.6 | 7.1.12 | 7.5 | 10.3

CINES

4.6.13

CO5BOLD

1. | 3. to 3.4 | 12.

Compaq

compilation

4. | 4.1 | 4.2 to 4.6.15

compiler

alpha

4.4.2.7 | 4.6.2

Cray

4.6.1

g95

4.6.10

gfortran

4.6.11

Hewlett-Packard

4.6.3 | 4.6.4

Hitachi SR8000

4.6.5

IBM

4.6.6

Intel

4.6.8

NEC

SX-5: 4.6.12
SX-6: 4.6.12
SX-8: 4.6.12

PathScale

4.6.9

PGI

4.6.7

SGI

4.6.13

UKAFF: 4.6.14

Sun

4.6.15

compiler macro

4.4 to 4.4.8.3

category: 4.4
gasinter_l01: 4.4.3.1
gasinter_l02: 4.4.3.2
IDF: 4.4.8.1
MSrad_raytas: 4.4.7.20
opta_switch_l01: 4.4.4.1
rhd_shortrad_lambda_l01: 4.4.7.17
rhd_bound_t01: 4.4.5.5
rhd_box_arrays01: 4.4.1.4
rhd_box_bmag01: 4.4.1.7
rhd_box_grav01: 4.4.1.5
rhd_box_quc01: 4.4.1.6
rhd_hyd_entropyfix_p01: 4.4.5.2
rhd_hyd_gravcorr_p01: 4.4.5.1
rhd_hyd_roe1d_l01: 4.4.8.2
rhd_hyd_upwind_p01: 4.4.5.3
rhd_r01: 4.4.7.1
rhd_r02: 4.4.7.2
rhd_r03: 4.4.7.3
rhd_rad3d_dir_t01: 4.4.7.8
rhd_rad3d_fromray_l01: 4.4.7.5
rhd_rad3d_r02: 4.4.7.6
rhd_rad3d_solve_t01: 4.4.7.7
rhd_rad3d_step_t01: 4.4.7.9
rhd_rad3d_toray_l01: 4.4.7.4
rhd_roe1d_flux_l01: 4.4.5.4
rhd_roe1d_flux_t01: 4.4.5.6
rhd_roe1d_slope_l01: 4.4.8.3
rhd_roe1d_step_t01: 4.4.5.7
rhd_shortrad_dir1_l01: 4.4.7.15
rhd_shortrad_dir_l02: 4.4.7.16
rhd_shortrad_dtauop_l01: 4.4.7.12
rhd_shortrad_dtauop_l02: 4.4.7.13
rhd_shortrad_formal_l01: 4.4.7.14
rhd_shortrad_formal_t01: 4.4.7.18
rhd_shortrad_operator_l01: 4.4.7.10
rhd_shortrad_operator_l02: 4.4.7.11
rhd_shortrad_step_t01: 4.4.7.19
rhd_vis_density_p01: 4.4.6.1
rhd_vis_t01: 4.4.6.2
timing_c_factor: 4.4.1.1
timing_c_range: 4.4.1.2
timing_r_type: 4.4.1.3
uio_switch_crayxmp_l01: 4.4.2.6
uio_switch_ieeebe_l01: 4.4.2.3
uio_switch_ieee_l01: 4.4.2.5
uio_switch_ieeele_l01: 4.4.2.4
uio_switch_native_l01: 4.4.2.2
uio_switch_open_l01: 4.4.2.7
uio_switch_system_l01: 4.4.2.1

configure script

4.3 to 4.3.1.17 | 4.4 | 8.6

control variables: 4.3.1
F90_BASEPATH: 4.2 | 4.3.1.17
F90_CHEM: 4.3.1.11
F90_COLOR: 4.3.1.1
F90_COMPILER: 4.3.1.2
F90_DEBUG: 4.3.1.6
F90_DUST: 4.3.1.13
F90_HION: 4.3.1.12
F90_LHDRAD: 4.3.1.8
F90_MACHINE: 4.3.1.16
F90_MHD: 4.3.1.14
F90_MSRAD: 4.3.1.9
F90_OPTIMIZE: 4.3.1.7
F90_PARALLEL: 4.3.1.5
F90_POSTFLAGS: 4.3.1.4
F90_PREFLAGS: 4.3.1.3
F90_SHORTRAD: 4.3.1.10
F90_TWEAK: 4.3.1.15
F90_UNIT: 5.6.1

.configurerc file

4.2 | 4.3.1

Coriolis force

7.1.3.10

craSHi

4.6.1

Cray

4.6.1 | 7.1.19 | 7.1.19.3 | 13.

CTU

7.1.8.3

data format

UIO: 6.2

directional splitting

1. | 7.1.8.3

double precision

4.5.5 | 4.6.8 | 4.6.11

dust

1. | 4.4.1.6 | 7.1.12

entropy fix

4.4.5.2

environment variable

4.4 | 4.5.1

EOS

2.3.3 | 7.1.6 | 7.1.6.1

equation of state

2.3.3 | 7.1.6 | 7.1.6.1

files

6. | 7. | 8.

configure script

4.3 to 4.3.1.17

resource file: 4.2 | 4.3.1

.configurerc

4.2 | 4.3.1

data files, table of

6.1

documentation

3.4

documentation files, table of

3.4

Fortran

3.2

Fortran files, table of

3.2 | 3.2 | 3.2 | 3.2

HION

6.1

IDL

UIO: 6.2.7

input

chem.dat: 7.5
EOS: 7.1.6
opacities: 7.1.7
rhd.cont: 7.7
rhd.dump: 7.7
rhd.par: 7.1 to 7.1.23.12
rhd.sta: 7.2
rhd.stop: 7.7

LaTeX

CO5BOLD manual: 3.4 | 3.4

Makefile

4.2 | 4.2 | 4.3

output

rhd.chu1: 8.2
rhd.chu2: 8.2
rhd.chu3: 8.2
rhd.done: 8.7
rhd.end: 8.1
rhd.full: 8.1
rhd.mcyl: 8.4
rhd.mean: 8.3
rhd.out: 8.6
rhd.snap: 8.7

rhd.exe

4.2 | 4.2

script

3.3

configure: 4.3 to 4.3.1.17
job file: 9.2
uiocat: 6.2.6.3
uioinfo: 6.2.6.4
uiolook: 6.2.6.2

script files, table of

3.3

fluxes

8.3

formatted

6.2.3.1

Fortran

1. | 6.2.1

Fortran subroutine

rhd_hyd_SwitchInfo: 5.5.3

g95

4.6.10

gfortran

4.6.11

HD

2.1 | 7.1.8 | 7.1.9

Hewlett-Packard

4.6.3 | 4.6.4 | 13.

HION

input: 7.6
output: 8.5

Hitachi

4.6.5

HP

hydrodynamics

1. | 2.1 | 2.1 | 7.1.8 | 7.1.9

hydrogen ionization

1. | 4.4.1.6 | 7.1.12 | 10.3

IBM

4.6.6 | 13.

IDL

6.2.1 | 10. | 13.

CAT: 2.2 | 10.4
combox.pro: 10.2.5
eosbox.pro: 10.2.5
UIO routines: 6.2.7
uio_data.pro: 6.2.7.2
uio_datasetlist_rd.pro: 6.2.7.3
uio_dataset_rd.pro: 6.2.7.3 | 6.2.7.3
uio_init.pro: 6.2.7.1
uio_struct_rd.pro: 6.2.7.3

inlining

4.5 | 4.5.4

alpha: 4.6.2
Cray VX1: 4.6.1
IBM: 4.6.6
Intel compiler on Linux: 4.6.8
PGI compiler on Linux: 4.6.7
SGI: 4.6.13
Sun: 4.6.15

input

chemical reaction network: 7.5
HION: 7.6

Intel

4.6.8 | 13.

Itanium

4.6.4

KMP_AFFINITY

4.5.1

LHDrad

1. | 7.1.16 | 7.1.16.1

Linux

4.6.7 | 4.6.8 | 4.6.9 | 4.6.10 | 4.6.11 | 13.

little_endian

4.6.2 | 4.6.7 | 4.6.8 | 4.6.9 | 4.6.10 | 4.6.11 | 6.2.3.1

Loadleveler

4.6.6

Macintosh

4.6.8 | 7.1.11.17

magnetic fields

1. | 4.4.1.7 | 10.3

magnetohydrodynamics

2.2

make

4.2

clean: 4.2
removeall: 4.2

Makefile

4.2 | 4.2

configure script: 4.3
UIO: 6.2.5.3

MHD

2.2 | 7.1.8 | 7.1.10

molecules

1. | 4.4.1.6 | 7.1.12 | 10.3

MSrad

1. | 4.4.7.2 | 4.6.2 | 4.6.5 | 4.6.7 | 4.6.8 | 4.6.15 | 7.1.4.19 | 7.1.16 | 7.1.16.1

cell centering: 8.1

NEC

SX-5: 4.6.12
SX-6: 4.6.12
SX-8: 4.6.12

OMP_NUM_THREADS

OMP_SCHEDULE

OMP_STACKSIZE

opacities

OpenMP

1. | 4.5 | 4.5.1

activation in configure script: 4.3.1.5 | 4.5.1
chunk size: 7.1.8.9 | 7.1.11.17
KMP_AFFINITY: 4.5.1 | 4.6.8
KMP_STACKSIZE: 4.6.8
LD_ASSUME_KERNEL: 4.6.8
OMP_NUM_THREADS: 4.5.1 | 4.6.8
OMP_SCHEDULE: 4.5.1 | 4.6.8
OMP_STACKSIZE: 4.5.1 | 4.6.8
on Cray VX1: 4.6.1
on Hitachi: 4.6.5
on HP: 4.6.3
on Linux gfortran: 4.6.11
on Linux Intel: 4.6.8
on Linux Pathscale: 4.6.9
on NEC: 4.6.12
on SGI: 4.6.13
on Sun: 4.6.15
thread affinity: 4.6.8

operator splitting

1. | 7.1.8.3

output

chunk data sets: 8.2
full data sets: 8.1
HION: 8.5
mcyl data: 8.4
mean data: 8.3

PathScale

4.6.9

PGI

precision

double: 4.5.5 | 4.6.8 | 4.6.11
single: 4.5.5

quc

4.3.1.13 | 4.4.1.6 | 7.5

radiation transport

1. | 7.1.16 | 7.1.17 | 7.1.18

README

4.2

rhd.cont

7.7

rhd.dump

7.7

rhd.exe

4.2 | 4.2

rhd.out

8.6

rhd.par

6.1 | 7.1 to 7.1.23.12

boundary conditions

7.1.4 | 7.1.5

character bottom_bound

7.1.4.3

character bottom_bound_mag

7.1.5.3

character centrifugal_force

7.1.3.9

character chem_reacfile

7.1.12.4

character chem_reacpath

7.1.12.5

character description

7.1.2.3

character dustreconstruction

7.1.12.2

character dustscheme

7.1.12.1

dust_bins_01: 7.1.15
dust_k3mon_03: 7.1.14
dust_moment04_c2: 7.1.13

character eosfile

7.1.6.1

character eospath

7.1.6.2

character file_id

7.1.2.2

character grav_mode

7.1.3.2

character hdcheckflux

7.1.10.1

character hdcoredragprofil

7.1.4.23

character hdcoreheatprofil

7.1.4.5

character hdenthalpyavgmode

7.1.9.15

character hdentropywavemode

7.1.9.14

character hdscheme

7.1.8.1

character hdsplit

7.1.8.3

character hdtimeintegrationscheme

7.1.8.2

character hdtmpstructkeepmode

7.1.8.8

character hdtransvelomode

7.1.9.13

character heat_mode

7.1.4.4

character hion_abufile

7.1.12.9

character hion_atomfile

7.1.12.8

character hion_datapath

7.1.12.7 | 7.6

character hion_edensfile

7.1.12.10

character hion_pffile

7.1.12.11

character history

7.1.2.4

character infile_start

7.1.21.8

character opafile

7.1.7.1

character opapath

7.1.7.2

character outconv_end

7.1.21.18

character outconv_fine

7.1.23.12

character outconv_full

7.1.21.20

character outconv_mean

7.1.21.22

character outfile_chu1

7.1.21.14

character outfile_chu2

7.1.21.15

character outfile_chu3

7.1.21.16

character outfile_end

7.1.21.10

character outfile_fine

7.1.23.10

character outfile_full

7.1.21.11

character outfile_mcyl

7.1.21.13

character outfile_mean

7.1.21.12

character outform_end

7.1.21.17

character outform_fine

7.1.23.11

character outform_full

7.1.21.19

character outform_mean

7.1.21.21

character radpressure

7.1.23.7

character radraybase

7.1.16.6

character radraystar

7.1.16.7

character radscheme

7.1.16.1

character reconstruction

7.1.8.4

character side_bound

7.1.4.1

character side_bound_mag_x1

7.1.5.1

character side_bound_mag_x2

7.1.5.1

character top_bound

7.1.4.2

character top_bound_mag

7.1.5.2

chemical reaction network

dust

effective temperature

7.1.3.1 | 7.1.4.7

equation of state

fileform uio

gravity

header

hydrodynamics

7.1.8 | 7.1.9

hydrogen ionization

input/output

7.1.21

integer dtimestep_out_fine

7.1.23.9

integer endtimestep

7.1.19.7

integer hion_chunks

7.1.12.13

integer istep_in_start

7.1.21.9

integer n_outslicedim_mean

7.1.21.4

integer n_dustgrainradius

7.1.14.1 | 7.1.15.1

integer n_hydcellsperchunk

4.6.5 | 7.1.8.9

integer n_hydcellsperchunk2

7.1.9.1

integer n_hydcellsperchunk3

7.1.9.2

integer n_hyditer

7.1.8.6

integer n_hydmaxiter

7.1.8.7

integer n_hydrkiter

7.1.9.3

integer n_magdiffbottom

7.1.10.13

integer n_magdiffside

7.1.10.11

integer n_magdifftop

7.1.10.12

integer n_orderconstrainedtransport

7.1.10.2

integer n_radband

7.1.16.2

integer n_raditer

7.1.16.4

integer n_radmaxiter

7.1.16.5

integer n_radminiter

7.1.16.3

integer n_radoutput

7.1.17.7

integer n_radphi

7.1.17.2

integer n_radrsyslevel

7.1.17.6

integer n_radsubray

7.1.17.3

integer n_radtaurefine

7.1.17.5

integer n_radtheta

7.1.17.1

integer n_radthickpoint

7.1.17.4

integer n_rescellsperchunk

7.1.10.3

integer n_viscellsperchunk

7.1.11.17

integer n_visiter

7.1.11.1

integer outdim_chu1

7.1.21.5

integer outdim_chu2

7.1.21.6

integer outdim_chu3

7.1.21.7

integer plustimestep

7.1.19.8

integer starttimestep

7.1.19.2

luminosity

7.1.4.7

MHD

7.1.8 | 7.1.10

molecules

opacities

7.1.7

process management

7.1.19

radiation transport

7.1.16 | 7.1.17 | 7.1.18

reading in IDL

6.2.7.3

real abux

7.1.23.1

real abuy

7.1.23.2

real ar_dustgrainradius

7.1.14.2 | 7.1.15.2

real ar_RotationAxis

7.1.3.11

real b1_inflow

7.1.5.4

real beta_inv

7.1.10.9

real c_magthetab

7.1.5.5

real c_radkappasmooth

7.1.23.5

real c_visp2pdivrhov

7.1.11.14

real c_visp2phypartificial

7.1.11.12

real c_visp2phypexpansion

7.1.11.13

real c_visp2phypsmagorinsky

7.1.11.11

real c_coredrag

7.1.4.22

real c_courant

7.1.20.6

real c_courantmax

7.1.20.7

real c_dust01

7.1.13.1 | 7.1.14.3 | 7.1.15.3

real c_dust02

7.1.13.2 | 7.1.14.4 | 7.1.15.4

real c_dust03

7.1.13.3 | 7.1.14.5 | 7.1.15.5

real c_dust04

7.1.13.4 | 7.1.14.6 | 7.1.15.6

real c_dust05

7.1.14.7

real c_dust06

7.1.14.8 | 7.1.15.7

real c_dust07

real c_dust08

real c_dust09

real c_dust0X

real c_gravmu

real chem_abumetal

7.1.12.6

real c_hptopfactor

7.1.4.18

real c_hydexpcourant

7.1.20.11

real c_hydexpcourantmax

7.1.20.12

real c_hydlowmachcsbase

7.1.9.5

real c_hydlowmachcsfactor

7.1.9.4

real c_hydpredfactor

7.1.9.16

real c_hydsdiffvelo

7.1.9.17

real c_hydsmallfluctfactor

7.1.9.6

real c_hydsoundcourant

7.1.20.9

real c_hydsoundcourantmax

7.1.20.10

real c_hydtdifflin

7.1.9.19

real c_hydtdiffmach

7.1.9.20

real c_hydvdiffvelo

7.1.9.18

real c_magphib

7.1.5.6

real c_maxeichange

7.1.20.8

real c_pchange

7.1.4.11

real cputime

7.1.19.3

real cputime_remainlimit

7.1.19.4

real c_radcourant

7.1.20.13

real c_radcourantmax

7.1.20.14

real c_raddcool

7.1.17.9

real c_raddinci

7.1.17.12

real c_radhtautop

7.1.4.19

real c_radimplicitmu

7.1.16.9

real c_raditereps

7.1.16.10

real c_raditerstep

7.1.16.11

real c_radmaxeichange

7.1.20.15

real c_radscool

7.1.17.10

real c_radtcool

7.1.17.8

real c_radthintimefac

7.1.18.3

real c_radtinci

7.1.17.11

real c_radtintminfac

7.1.23.8

real c_radtsmooth

7.1.23.6

real c_radtvis

7.1.18.2

real c_radtvisdtau

7.1.18.1

real c_reccontshift

7.1.9.8

real c_reccontsteep

7.1.9.9

real c_recwenopsifactor

7.1.9.12

real c_recwenoweightcenter

7.1.9.10

real c_recwenoweightright

7.1.9.11

real c_resB

7.1.10.6

real c_resBconst

7.1.10.7

real c_rescourant

7.1.10.4

real c_rescourantmax

7.1.10.5

real c_resepsilon

7.1.10.8

real c_rhochangetop

7.1.4.15

real c_schange

7.1.4.10

real c_slopered

7.1.9.7

real c_tchange

7.1.4.16

real c_test1

7.1.22.4

real c_tminlimit

7.1.16.8

real c_tsurf

7.1.4.17

real c_v3changelinbottom

7.1.4.12

real c_v3changesqrbottom

7.1.4.13

real c_visartificial

7.1.11.3

real c_visbound

7.1.4.14

real c_viscourant

7.1.20.16

real c_viscourantmax

7.1.20.17

real c_visexpansion

7.1.11.4

real c_vislinear

7.1.11.5

real c_visp2pcoeff

7.1.11.10

real c_visp2pincl1

7.1.11.15

real c_visp2pincl2

7.1.11.16

real c_visprturb

7.1.11.6

real c_vissmagorinsky

7.1.11.2

real c_vistensordiag

7.1.11.7

real c_vistensordiv

7.1.11.9

real c_vistensoroff

7.1.11.8

real dtime_out_hion

7.1.12.12 | 8.5

real dtime_incmax

7.1.20.5

real dtime_max

7.1.20.3

real dtime_min

7.1.20.2

real dtime_min_stop

7.1.20.4

real dtime_out_end

7.1.21.2

real dtime_out_full

7.1.21.1

real dtime_out_mean

7.1.21.3

real dtime_start

real endtime

real gamma

real grav

real luminositypervolume

7.1.4.6

real mass_star

7.1.3.4

real n_test1

7.1.22.3

real nu_rotation

real plustime

real qmol

real r0_core

real r0_grav

real r1_grav

real r1_rad

real r2_grav

real rho_min

real s_infllatgrad

7.1.4.9

real s_inflow

7.1.4.7

real s_inflradgrad

real starttime

real strtest1

real teff

real time_scaleend

7.1.22.2

real time_scalestart

real va_max

tensor viscosity

time step

rhd.snap

8.7

rhd.stop

7.7

Roe solver

4.6.1 | 4.6.2 | 4.6.5 | 4.6.7

rotation

7.1.3.9 | 7.1.3.10 | 7.1.3.11 | 7.1.21.13

axis: 7.1.3.11
centrifugal force: 7.1.3.9
Coriolis force: 7.1.3.10

SGI

4.6.13 | 13.

SHORTrad

1. | 4.6.7 | 7.1.4.19 | 7.1.16 | 7.1.16.1

single precision

4.5.5

Sparc

Sun

4.6.15 | 13.

tensor viscosity

7.1.11

tests

unit: 5.3.3 | 5.6

thermodynamic relations

2.3

adiabatic gradient: 2.3.2 | 2.3.4
enthalpy: 2.3.1
entropy: 2.3.4
internal energy: 2.3.1 | 2.3.4
polytropic gas: 2.3.5
sound speed: 2.3.4 | 2.3.4
specific heats: 2.3.2 | 2.3.4 | 2.3.4

time step

7.1.16.3

timing statistics

4.4.1.1 | 4.4.1.2 | 8.6

total energy flux

8.3

UIO

6.2 to 6.2.7.3

conversion type: 6.2.3.1 | 6.2.3.1
example: 6.2.2 | 6.2.3.2 | 6.2.3.3
format: 6.2.3.1
Fortran: 6.2.5
IDL: 6.2.7
Makefile: 6.2.5.3
record length unit: 4.6.2 | 4.6.8
uiocat: 4.5.5 | 6.2.6.3
uio_datasetlist_rd.pro: 6.2.7.3
uio_dataset_rd.pro: 6.2.7.3 | 6.2.7.3
uioinfo: 6.2.6.4
uio_init.pro: 6.2.7.1
uiolook: 6.2.6.2
uio_mac_module: 6.2.5.1
uio_struct_rd.pro: 6.2.7.3
UNIX scripts: 6.2.6

UKAFF

4.6.14

unformatted

6.2.3.1

unit tests

5.3.3 | 5.6

UNIX

vectorization

4.5.2

viscosity

point-to-point: 7.1.11 | 7.1.11.9
tensor: 4.4.6 | 7.1.11

xb1

xb2

xb3

xc1

xc2