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diff --git a/docs/neo/outputs.html b/docs/neo/outputs.html index 8bb2c41..8bf218e 100644 --- a/docs/neo/outputs.html +++ b/docs/neo/outputs.html @@ -52,8 +52,8 @@Codes
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"comparison-of-gyro-simulations-with-fast-sweeping-and-doppler-reflectometer-data-in-tore-supra"]], "Comparison of GYRO synthetic diagnostic results with C-Mod PCI data": [[16, "comparison-of-gyro-synthetic-diagnostic-results-with-c-mod-pci-data"]], "Comparison of GYRO synthetic diagnostic results with DIII-D BES and CER data": [[16, "comparison-of-gyro-synthetic-diagnostic-results-with-diii-d-bes-and-cer-data"]], "Compressional Electromagnetic Perturbations (2010)": [[16, "compressional-electromagnetic-perturbations-2010"]], "Computation of the Jacobian": [[38, "computation-of-the-jacobian"]], "Concept of platform files": [[0, "concept-of-platform-files"]], "Connection of Fluxes to Powers": [[34, "connection-of-fluxes-to-powers"]], "Connection to experimental data": [[26, "connection-to-experimental-data"]], "Consistency with force balance": [[26, "consistency-with-force-balance"]], "Control": [[32, "id1"]], "Control parameters": [[6, "id3"], [15, "id1"]], "Coordinates": [[10, "coordinates"]], "Cross-code benchmarking results": [[28, "cross-code-benchmarking-results"]], "Cyclone Base Case with Adiabatic Electrons (2001)": [[16, "cyclone-base-case-with-adiabatic-electrons-2001"]], "DEBYE": [[30, "debye"]], "DEBYE_FACTOR": [[30, "debye-factor"]], "DELTA": [[5, "delta"], [22, "delta"]], "DELTA_LOC": [[30, "delta-loc"]], "DELTA_T": [[5, "delta-t"]], "DELTA_T_METHOD": [[5, "delta-t-method"]], "DENS_*": [[5, "dens"], [22, "dens"]], "DIII-D L-mode shortfall": [[28, "diii-d-l-mode-shortfall"]], "DLNNDRE_ADE": [[22, "dlnndre-ade"]], "DLNNDR_*": [[5, "dlnndr"], [22, "dlnndr"]], "DLNTDRE_ADE": [[22, "dlntdre-ade"]], "DLNTDR_*": [[5, "dlntdr"], [22, "dlntdr"]], "DLNTDR_PARA_*": [[22, "dlntdr-para"]], "DLNTDR_PERP_*": [[22, "dlntdr-perp"]], "DPHI0DR": [[22, "dphi0dr"]], "DRMAJDX_LOC": [[30, "drmajdx-loc"]], "DRMINDX_LOC": [[30, "drmindx-loc"]], "DZMAG": [[5, "dzmag"]], "DZMAJDX_LOC": [[30, "dzmajdx-loc"]], "Data input": [[3, "data-input"], [21, "data-input"], [33, "data-input"]], "Data output": [[21, "data-output"]], "Data output and plotting": [[3, "data-output-and-plotting"]], "Data output, python interface, and plotting": [[33, "data-output-python-interface-and-plotting"]], "Density Transport": [[34, "density-transport"]], "Density fluxes and sources": [[34, "id2"]], "Design History": [[13, "design-history"]], "Detailed description of NEO output files": [[24, "detailed-description-of-neo-output-files"]], "Download and user agreement": [[9, "download-and-user-agreement"]], "EPAR0": [[22, "epar0"]], "EPAR0_SPITZER": [[22, "epar0-spitzer"]], "EQUILIBRIUM_MODEL": [[5, "equilibrium-model"], [22, "equilibrium-model"]], "ERROR_TOL": [[5, "error-tol"]], "ETG_FACTOR": [[30, "etg-factor"]], "EXPERIMENTAL profiles": [[28, "experimental-profiles"]], "E_MAX": [[5, "e-max"]], "Effective field": [[10, "effective-field"]], "Electron Temperature Gradient Turbulence (2006)": [[16, "electron-temperature-gradient-turbulence-2006"]], "Energetic particle transport coefficients (2009)": [[16, "energetic-particle-transport-coefficients-2009"]], "Energy Transport": [[34, "energy-transport"]], "Energy fluxes and sources": [[34, "id3"]], "Environment variables": [[0, "environment-variables"]], "Equations solved in TGYRO": [[34, "equations-solved-in-tgyro"]], "Equilibria": [[10, "equilibria"]], "Equilibrium and Profiles": [[17, "equilibrium-and-profiles"]], "Experimental profiles output files": [[24, "experimental-profiles-output-files"]], "Extra subroutine interface parameters": [[23, "extra-subroutine-interface-parameters"]], "FAQ": [[4, "faq"]], "FIELD_PRINT_FLAG": [[5, "field-print-flag"]], "FILTER": [[30, "filter"]], "FIND_WIDTH": [[30, "find-width"]], "FLUX-SURFACE GEOMETRY": [[10, "flux-surface-geometry"]], "FREQ_TOL": [[5, "freq-tol"]], "FT_MODEL_SA": [[30, "ft-model-sa"]], "Fields": [[6, "id4"]], "File structure": [[18, "id3"]], "First step": [[0, "first-step"]], "Formulation": [[38, "formulation"]], "Formulation on a discrete grid": [[38, "formulation-on-a-discrete-grid"]], "Frequently Asked Questions": [[3, "frequently-asked-questions"]], "GA OMEGA": [[27, "ga-omega"]], "GACODE License": [[19, "gacode-license"]], "GAMMA_E": [[5, "gamma-e"]], "GAMMA_E_SCALE": [[5, "gamma-e-scale"]], "GAMMA_P": [[5, "gamma-p"]], "GAMMA_P_SCALE": [[5, "gamma-p-scale"]], "GCHAT": [[30, "gchat"]], "GEOMETRY_FLAG": [[30, "geometry-flag"]], "GEO_NY": [[22, "geo-ny"]], "GEO_YIN": [[22, "geo-yin"]], "GFLUX_PRINT_FLAG": [[5, "gflux-print-flag"]], "GHAT": [[30, "ghat"]], "GKW results (added 25-jan-2013)": [[28, "gkw-results-added-25-jan-2013"]], "GPU_BIGMEM_FLAG": [[5, "gpu-bigmem-flag"]], "GRADB_FACTOR": [[30, "gradb-factor"]], "GYRO": [[11, "gyro"]], "GYRO Validation Abstracts": [[16, "gyro-validation-abstracts"]], "GYRO results": [[28, "gyro-results"]], "GYRO verification and validation (pre 2010)": [[16, "gyro-verification-and-validation-pre-2010"]], "Gallery of classic GYRO images (circa 2003)": [[12, "gallery-of-classic-gyro-images-circa-2003"]], "Gaussian width parameters": [[32, "id3"]], "General models": [[23, "id3"]], "Geometry": [[17, "geometry"]], "Global-spectral parameters": [[6, "id11"]], "Gyrokinetic Simulation in the 2000s": [[13, "gyrokinetic-simulation-in-the-2000s"]], "Gyrokinetic Simulation of Impurities (2004)": [[16, "gyrokinetic-simulation-of-impurities-2004"]], "H_PRINT_FLAG": [[5, "h-print-flag"]], "High-level control": [[40, "id1"]], "History and Overview": [[25, "history-and-overview"]], "IBRANCH": [[30, "ibranch"]], "IFLUX": [[30, "iflux"]], "IPCCW": [[5, "ipccw"], [22, "ipccw"]], "Input parameters": [[26, "input-parameters"]], "Iteration control": [[40, "id2"]], "KAPPA": [[5, "kappa"], [22, "kappa"]], "KAPPA_LOC": [[30, "kappa-loc"]], "KX0_LOC": [[30, "kx0-loc"]], "KY": [[5, "ky"], [30, "ky"]], "KYGRID_MODEL": [[30, "kygrid-model"]], "Key publications and presentations": [[28, "key-publications-and-presentations"]], "LAMBDA_DEBYE": [[5, "lambda-debye"]], "LAMBDA_DEBYE_SCALE": [[5, "lambda-debye-scale"]], "LINSKER_FACTOR": [[30, "linsker-factor"]], "LOC_BETAE_SCALE": [[39, "loc-betae-scale"]], "LOC_DX": [[39, "loc-dx"]], "LOC_DX_MAX": [[39, "loc-dx-max"]], "LOC_ER_FEEDBACK_FLAG": [[39, "loc-er-feedback-flag"]], "LOC_EVOLVE_GRAD_ONLY_FLAG": [[39, "loc-evolve-grad-only-flag"]], "LOC_HE_FEEDBACK_FLAG": [[39, "loc-he-feedback-flag"]], "LOC_LOCK_PROFILE_FLAG": [[39, "loc-lock-profile-flag"]], "LOC_RELAX": [[39, "loc-relax"]], "LOC_RESIDUAL_METHOD": [[39, "loc-residual-method"]], "LOC_RESTART_FLAG": [[39, "loc-restart-flag"]], "LOC_SCENARIO": [[39, "loc-scenario"]], "LOC_TE_FEEDBACK_FLAG": [[39, "loc-te-feedback-flag"]], "LOC_TI_FEEDBACK_FLAG": [[39, "loc-ti-feedback-flag"]], "Local limit of Global Simulations (2004)": [[16, "local-limit-of-global-simulations-2004"]], "MACH": [[5, "mach"]], "MACH_SCALE": [[5, "mach-scale"]], "MASS_*": [[5, "mass"], [22, "mass"]], "MASS_1": [[30, "mass-1"]], "MAX_TIME": [[5, "max-time"]], "MOMENT_PRINT_FLAG": [[5, "moment-print-flag"]], "MPI_RANK_ORDER": [[5, "mpi-rank-order"]], "Magnetic field orientation": [[10, "magnetic-field-orientation"]], "Miller geometry parameters": [[32, "id4"]], "Miscellaneous": [[20, "miscellaneous"]], "Momentum Transport": [[34, "momentum-transport"]], "Momentum fluxes and sources": [[34, "id4"]], "NBASIS_MAX": [[30, "nbasis-max"]], "NBASIS_MIN": [[30, "nbasis-min"]], "NEO": [[21, "neo"]], "NEO Output Files": [[24, "neo-output-files"]], "NERSC PERLMUTTER (CPU)": [[27, "nersc-perlmutter-cpu"]], "NERSC PERLMUTTER (GPU)": [[27, "nersc-perlmutter-gpu"]], "NEW_EIKONAL": [[30, "new-eikonal"]], "NE_ADE": [[22, "ne-ade"]], "NKY": [[30, "nky"]], "NMODES": [[30, "nmodes"]], "NONLINEAR_FLAG": [[5, "nonlinear-flag"]], "NS": [[30, "ns"]], "NUP_ALPHA": [[5, "nup-alpha"]], "NUP_RADIAL": [[5, "nup-radial"]], "NUP_THETA": [[5, "nup-theta"]], "NU_1": [[22, "nu-1"]], "NU_EE": [[5, "nu-ee"]], "NU_GLOBAL": [[5, "nu-global"]], "NWIDTH": [[30, "nwidth"]], "NXGRID": [[30, "nxgrid"]], "N_ENERGY": [[5, "n-energy"], [22, "n-energy"]], "N_FIELD": [[5, "n-field"]], "N_GLOBAL": [[5, "n-global"]], "N_RADIAL": [[5, "n-radial"], [22, "n-radial"]], "N_SPECIES": [[5, "n-species"], [22, "n-species"]], "N_THETA": [[5, "n-theta"], [22, "n-theta"]], "N_TOROIDAL": [[5, "n-toroidal"]], "N_XI": [[5, "n-xi"], [22, "n-xi"]], "Nonaxisymmetric effects": [[23, "id6"]], "Normalization": [[3, "normalization"], [21, "normalization"]], "Numerical Dissipation": [[6, "id6"]], "Numerical Resolution": [[6, "id5"]], "Numerical resolution": [[23, "id1"]], "OMEGA_ROT": [[22, "omega-rot"]], "OMEGA_ROT_DERIV": [[22, "omega-rot-deriv"]], "OSX Sonoma": [[2, "osx-sonoma"]], "OUTPUT": [[35, "output"]], "OpenBLAS": [[0, "openblas"]], "Output Normalization": [[7, "output-normalization"]], "Output file control": [[6, "id12"]], "Overview": [[3, "overview"], [11, "overview"], [18, "overview"], [28, "overview"], [29, "overview"], [33, "overview"]], "PARK": [[30, "park"]], "PLASMA ROTATION THEORY": [[26, "plasma-rotation-theory"]], "PLOT": [[36, "plot"]], "PRINT_STEP": [[5, "print-step"]], "PROFILE_DLNNDR_*_SCALE": [[22, "profile-dlnndr-scale"]], "PROFILE_DLNTDR_*_SCALE": [[22, "profile-dlntdr-scale"]], "PROFILE_EQUILIBRIUM_MODEL": [[22, "profile-equilibrium-model"]], "PROFILE_ERAD0_MODEL": [[22, "profile-erad0-model"]], "PROFILE_MODEL": [[5, "profile-model"], [22, "profile-model"]], "PX0": [[5, "px0"]], "P_PRIME_LOC": [[30, "p-prime-loc"]], "Parameters for input.neo": [[23, "parameters-for-input-neo"]], "Physical considerations": [[26, "physical-considerations"]], "Physics": [[17, null]], "Physics Control": [[40, "id4"]], "Plasma Rotation": [[17, "plasma-rotation"]], "Plasma equilibrium/geometry": [[23, "id2"]], "Plasma shape/geometry": [[6, "id1"]], "Prebuilt Environments": [[27, "prebuilt-environments"]], "Prehistory": [[13, "prehistory"]], "Profile Feedback Control": [[40, "id3"]], "Profile models": [[23, "id4"]], "Q": [[5, "q"], [22, "q"]], "QL_flux_spectrum": [[31, "ql-flux-spectrum"]], "QUASINEUTRAL_FLAG": [[5, "quasineutral-flag"]], "Q_LOC": [[30, "q-loc"]], "Q_PRIME_LOC": [[30, "q-prime-loc"]], "Q_SA": [[30, "q-sa"]], "Quick links": [[11, "quick-links"], [21, "quick-links"], [29, "quick-links"], [33, "quick-links"]], "Quick-start example": [[8, "quick-start-example"]], "RESTART_STEP": [[5, "restart-step"]], "RHO_STAR": [[22, "rho-star"]], "RLNS_1": [[30, "rlns-1"]], "RLTS_1": [[30, "rlts-1"]], "RMAJ": [[5, "rmaj"]], "RMAJ_LOC": [[30, "rmaj-loc"]], "RMAJ_OVER_A": [[22, "rmaj-over-a"]], "RMAJ_SA": [[30, "rmaj-sa"]], "RMIN": [[5, "rmin"]], "RMIN_LOC": [[30, "rmin-loc"]], "RMIN_OVER_A": [[22, "rmin-over-a"]], "RMIN_OVER_A_2": [[22, "rmin-over-a-2"]], "RMIN_SA": [[30, "rmin-sa"]], "ROTATION_MODEL": [[5, "rotation-model"], [22, "rotation-model"]], "References": [[42, "references"]], "References: TGLF saturation models": [[29, "id9"]], "References: TGLF validation against experimental data": [[29, "id10"]], "Repository access": [[9, "repository-access"]], "Restart data": [[7, "id3"]], "Rotation output files": [[24, "rotation-output-files"]], "Rotation physics": [[6, "id10"], [23, "id5"]], "Running Cases": [[3, "running-cases"], [8, "running-cases"]], "Running GACODE": [[17, "running-gacode"]], "S": [[5, "s"]], "SAT_RULE": [[30, "sat-rule"]], "SHAPE_COS0": [[5, "shape-cos0"], [22, "shape-cos0"]], "SHAPE_COS1": [[5, "shape-cos1"], [22, "shape-cos1"]], "SHAPE_COS2": [[5, "shape-cos2"], [22, "shape-cos2"]], "SHAPE_COS3": [[5, "shape-cos3"], [22, "shape-cos3"]], "SHAPE_SIN3": [[5, "shape-sin3"], [22, "shape-sin3"]], "SHAPE_S_COS0": [[5, "shape-s-cos0"], [22, "shape-s-cos0"]], "SHAPE_S_COS1": [[5, "shape-s-cos1"], [22, "shape-s-cos1"]], "SHAPE_S_COS2": [[5, "shape-s-cos2"], [22, "shape-s-cos2"]], "SHAPE_S_COS3": [[5, "shape-s-cos3"], [22, "shape-s-cos3"]], "SHAPE_S_SIN3": [[5, "shape-s-sin3"], [22, "shape-s-sin3"]], "SHAT_SA": [[30, "shat-sa"]], "SHEAR": [[22, "shear"]], "SHIFT": [[5, "shift"], [22, "shift"]], "SIGN_BT": [[30, "sign-bt"]], "SIGN_IT": [[30, "sign-it"]], "SILENT_FLAG": [[5, "silent-flag"], [22, "silent-flag"]], "SIM_MODEL": [[22, "sim-model"]], "SPITZER_MODEL": [[22, "spitzer-model"]], "S_DELTA": [[5, "s-delta"], [22, "s-delta"]], "S_DELTA_LOC": [[30, "s-delta-loc"]], "S_KAPPA": [[5, "s-kappa"], [22, "s-kappa"]], "S_KAPPA_LOC": [[30, "s-kappa-loc"]], "S_ZETA": [[5, "s-zeta"], [22, "s-zeta"]], "S_ZETA_LOC": [[30, "s-zeta-loc"]], "S_ZMAG": [[22, "s-zmag"]], "Scenarios and connection to energy sources": [[37, "scenarios-and-connection-to-energy-sources"]], "Software": [[17, null]], "Solution strategy": [[38, "solution-strategy"]], "Some comments regarding units": [[38, "some-comments-regarding-units"]], "Sonic rotation formalism": [[26, "sonic-rotation-formalism"]], "Source Code": [[3, "source-code"]], "Source code": [[0, "source-code"], [9, "source-code"]], "Species Parameters": [[40, "id5"]], "Species Vectors": [[32, "id2"]], "Species-dependent parameters": [[23, "id7"]], "Species-related parameters": [[6, "id8"]], "Standard output files": [[24, "standard-output-files"]], "Subroutine output": [[24, "subroutine-output"]], "TAUS_1": [[30, "taus-1"]], "TEMP_*": [[5, "temp"], [22, "temp"]], "TEMP_PARA_*": [[22, "temp-para"]], "TEMP_PERP_*": [[22, "temp-perp"]], "TE_ADE": [[22, "te-ade"]], "TGLF": [[29, "tglf"]], "TGLF output files": [[32, "id8"]], "TGLF output parameters": [[32, "id7"]], "TGYRO": [[33, "tgyro"]], "TGYRO solver algorithm": [[38, "tgyro-solver-algorithm"]], "TGYRO_DEN_METHOD*": [[39, "tgyro-den-method"]], "TGYRO_ITERATION_METHOD": [[39, "tgyro-iteration-method"]], "TGYRO_MODE": [[39, "tgyro-mode"]], "TGYRO_NEO_METHOD": [[39, "tgyro-neo-method"]], "TGYRO_RELAX_ITERATIONS": [[39, "tgyro-relax-iterations"]], "TGYRO_THERM_FLAG*": [[39, "tgyro-therm-flag"]], "TGYRO_WRITE_PROFILES_FLAG": [[39, "tgyro-write-profiles-flag"]], "THETA0_SA": [[30, "theta0-sa"]], "THETA_PLOT": [[5, "theta-plot"]], "THETA_TRAPPED": [[30, "theta-trapped"]], "THREED_EXB_DPHI0DR": [[22, "threed-exb-dphi0dr"]], "THREED_EXB_MODEL": [[22, "threed-exb-model"]], "THREED_MODEL": [[22, "threed-model"]], "Table of geometry parameters": [[10, "table-of-geometry-parameters"]], "Table of inputs and outputs": [[32, "table-of-inputs-and-outputs"]], "Tabular list for input.cgyro": [[6, "tabular-list-for-input-cgyro"]], "Tabular list for input.gyro": [[15, "tabular-list-for-input-gyro"]], "The General Atomics GACODE Suite": [[17, "the-general-atomics-gacode-suite"]], "The rotation profile": [[26, "the-rotation-profile"]], "Theoretical basis for sonic rotation": [[26, "theoretical-basis-for-sonic-rotation"]], "Time Stepping": [[6, "id7"]], "Time-independent output": [[7, "id1"]], "Transport equations and solution": [[33, "transport-equations-and-solution"]], "UDSYMMETRY_FLAG": [[5, "udsymmetry-flag"]], "UL1: The local gyroBohm limit of global codes differs from local codes": [[13, "ul1-the-local-gyrobohm-limit-of-global-codes-differs-from-local-codes"]], "UL2: Full torus simulations are necessary to correctly compute the local transport": [[13, "ul2-full-torus-simulations-are-necessary-to-correctly-compute-the-local-transport"]], "UL3: Eulerian codes have inadequate velocity-space resolution": [[13, "ul3-eulerian-codes-have-inadequate-velocity-space-resolution"]], "UL4: The parallel nonlinearity can have a dramatic effect on the transport": [[13, "ul4-the-parallel-nonlinearity-can-have-a-dramatic-effect-on-the-transport"]], "UNITS": [[30, "units"]], "UPWIND_SINGLE_FLAG": [[5, "upwind-single-flag"]], "UP_ALPHA": [[5, "up-alpha"]], "UP_RADIAL": [[5, "up-radial"]], "UP_THETA": [[5, "up-theta"]], "USE_BISECTION": [[30, "use-bisection"]], "USE_BPAR": [[30, "use-bpar"]], "USE_BPER": [[30, "use-bper"]], "USE_INBOARD_DETRAPPED": [[30, "use-inboard-detrapped"]], "USE_MHD_RULE": [[30, "use-mhd-rule"]], "USE_TRANSPORT_MODEL": [[30, "use-transport-model"]], "Ubuntu/Mint": [[1, "ubuntu-mint"]], "Urban Legends": [[13, "urban-legends"]], 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