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"tab-funding"]], "Authorship": [[1, "authorship"]], "Citing PISM": [[2, "citing-pism"]], "Citing a specific PISM version": [[2, "citing-a-specific-pism-version"]], "DOIs for recent PISM versions": [[2, "tab-pism-doi"]], "Citing the PISM project": [[2, "citing-the-pism-project"]], "Atmosphere model components": [[3, "atmosphere-model-components"]], "Contents": [[3, "contents"], [6, "contents"], [7, "contents"], [9, "contents"], [11, "contents"], [12, "contents"], [15, "contents"], [16, null], [32, "contents"], [38, null], [44, "contents"], [52, "contents"], [64, "contents"], [65, "contents"], [66, "contents"], [109, "contents"], [110, "contents"], [113, null], [116, "contents"]], "Boundary conditions read from a file": [[3, "boundary-conditions-read-from-a-file"]], "Cosine yearly cycle": [[3, "cosine-yearly-cycle"]], "SeaRISE-Greenland": [[3, "sec-atmosphere-searise-greenland"], [4, "sec-example-searise-greenland"]], "PIK": [[3, "pik"], [6, "pik"], [7, "pik"]], "Near-surface air temperature parameterizations": [[3, "id24"]], "One weather station": [[3, "one-weather-station"]], "Scalar temperature offsets": [[3, "scalar-temperature-offsets"], [7, "scalar-temperature-offsets"]], "Scalar precipitation offsets": [[3, "scalar-precipitation-offsets"]], "Precipitation scaling": [[3, "precipitation-scaling"]], "Precipitation correction using scalar temperature offsets": [[3, "precipitation-correction-using-scalar-temperature-offsets"]], "Adjustments using modeled change in surface elevation": [[3, "adjustments-using-modeled-change-in-surface-elevation"], [7, "adjustments-using-modeled-change-in-surface-elevation"]], "Using climate data anomalies": [[3, "using-climate-data-anomalies"], [7, "using-climate-data-anomalies"]], "Orographic precipitation": [[3, "orographic-precipitation"]], "Examples and corresponding options": [[4, "examples-and-corresponding-options"]], "One way coupling to a climate model": [[4, "one-way-coupling-to-a-climate-model"]], "Reading ice surface temperature and mass balance": [[4, "reading-ice-surface-temperature-and-mass-balance"]], "Reading air temperature and precipitation": [[4, "reading-air-temperature-and-precipitation"]], "Using climate anomalies": [[4, "using-climate-anomalies"]], "SeaRISE-Greenland paleo-climate run": [[4, "searise-greenland-paleo-climate-run"]], "Antarctic paleo-climate runs": [[4, "antarctic-paleo-climate-runs"]], "Climate forcing": [[5, "climate-forcing"]], "Summary of the main idea in using this manual": [[5, null]], "Ocean model components": [[6, "ocean-model-components"]], "Constant in time and space": [[6, "constant-in-time-and-space"]], "Reading forcing data from a file": [[6, "reading-forcing-data-from-a-file"]], "Basal melt rate and temperature from thermodynamics in boundary layer": [[6, "basal-melt-rate-and-temperature-from-thermodynamics-in-boundary-layer"]], "PICO": [[6, "pico"]], "Scalar sea level offsets": [[6, "scalar-sea-level-offsets"]], "Two-dimensional sea level offsets": [[6, "two-dimensional-sea-level-offsets"]], "Scalar sub-shelf temperature offsets": [[6, "scalar-sub-shelf-temperature-offsets"]], "Scalar sub-shelf mass flux offsets": [[6, "scalar-sub-shelf-mass-flux-offsets"]], "Scalar sub-shelf mass flux fraction offsets": [[6, "scalar-sub-shelf-mass-flux-fraction-offsets"]], "Two-dimensional sub-shelf mass flux offsets": [[6, "two-dimensional-sub-shelf-mass-flux-offsets"]], "Scalar melange back pressure offsets": [[6, "scalar-melange-back-pressure-offsets"]], "Melange back pressure as a fraction of pressure difference": [[6, "melange-back-pressure-as-a-fraction-of-pressure-difference"]], "The caching modifier": [[6, "the-caching-modifier"], [7, "the-caching-modifier"]], "Surface mass and energy process model components": [[7, "surface-mass-and-energy-process-model-components"]], "The \u201cinvisible\u201d model": [[7, "the-invisible-model"]], "Reading top-surface boundary conditions from a file": [[7, "reading-top-surface-boundary-conditions-from-a-file"]], "Elevation-dependent temperature and mass balance": [[7, "elevation-dependent-temperature-and-mass-balance"]], "Temperature-index scheme": [[7, "temperature-index-scheme"]], "Diurnal Energy Balance Model \u201cdEBM-simple\u201d": [[7, "diurnal-energy-balance-model-debm-simple"]], "Notation used in (46) and (47)": [[7, "tab-debm-simple-notation"]], "Insolation-driven melt contribution": [[7, "insolation-driven-melt-contribution"]], "Mean top of the atmosphere insolation": [[7, "mean-top-of-the-atmosphere-insolation"]], "Surface albedo": [[7, "surface-albedo"]], "Atmosphere transmissivity": [[7, "atmosphere-transmissivity"]], "Temperature-driven melt contribution": [[7, "temperature-driven-melt-contribution"]], "Tuning parameters": [[7, "tuning-parameters"]], "Notable tuning parameters in the order of decreasing importance": [[7, "tab-debm-simple-tuning-parameters"]], "Mass flux adjustment": [[7, "mass-flux-adjustment"]], "Preventing grounding line retreat": [[7, "preventing-grounding-line-retreat"]], "Testing if forcing data is used correctly": [[8, "testing-if-forcing-data-is-used-correctly"]], "Visualizing climate inputs, without ice dynamics": [[8, "visualizing-climate-inputs-without-ice-dynamics"]], "Using low-resolution test runs": [[8, "using-low-resolution-test-runs"]], "Visualizing the climate inputs in the Greenland case": [[8, "visualizing-the-climate-inputs-in-the-greenland-case"]], "Using time-dependent forcing": [[9, "using-time-dependent-forcing"]], "Introduction": [[9, "introduction"], [110, "introduction"], [111, "introduction"]], "Scalar time-dependent inputs": [[9, "scalar-time-dependent-inputs"]], "Spatially-variable time-dependent inputs": [[9, "spatially-variable-time-dependent-inputs"]], "Periodic forcing": [[9, "periodic-forcing"]], "Adding time bounds": [[9, "adding-time-bounds"]], "Times as mid-points of intervals": [[9, "times-as-mid-points-of-intervals"]], "Times as left end points of intervals": [[9, "times-as-left-end-points-of-intervals"]], "Times as right end points of intervals": [[9, "times-as-right-end-points-of-intervals"]], "Submitting bug reports": [[10, "submitting-bug-reports"]], "PISM coding guidelines": [[11, "pism-coding-guidelines"]], "File names": [[11, "file-names"]], "Source and header files": [[11, "source-and-header-files"]], "Inline functions and methods": [[11, "inline-functions-and-methods"]], "Including header files": [[11, "including-header-files"]], "Naming": [[11, "naming"]], "Variable": [[11, "variable"]], "Types and classes": [[11, "types-and-classes"]], "Functions and class methods": [[11, "functions-and-class-methods"]], "Namespaces": [[11, "namespaces"]], "Using directives and declarations": [[11, "using-directives-and-declarations"]], "Formatting": [[11, "formatting"]], "Logical operators should be surrounded by spaces": [[11, "logical-operators-should-be-surrounded-by-spaces"]], "Commas and semicolons should be followed by a space": [[11, "commas-and-semicolons-should-be-followed-by-a-space"]], "Binary arithmetic operators should be surrounded by spaces": [[11, "binary-arithmetic-operators-should-be-surrounded-by-spaces"]], "Statements": [[11, "statements"]], "Code indentation": [[11, "code-indentation"]], "Return statements": [[11, "return-statements"]], "Conditionals": [[11, "conditionals"]], "Loops": [[11, "loops"]], "Error handling": [[11, "error-handling"]], "Performing an action every time a PISM exception is thrown": [[11, "performing-an-action-every-time-a-pism-exception-is-thrown"]], "Calling C code": [[11, "calling-c-code"]], "Use assert() for sanity-checks that should not be used in optimized code": [[11, "use-assert-for-sanity-checks-that-should-not-be-used-in-optimized-code"]], "Function design": [[11, "function-design"]], "Function arguments; constness": [[11, "function-arguments-constness"]], "Method versus a function": [[11, "method-versus-a-function"]], "Virtual methods": [[11, "virtual-methods"]], "private versus protected versus public": [[11, "private-versus-protected-versus-public"]], "Development workflow": [[12, "development-workflow"]], "Setting up the environment": [[12, "setting-up-the-environment"]], "PISM\u2019s configuration flags for development": [[12, "tab-cmake-development-flags"]], "Editing source code": [[12, "editing-source-code"]], "Compiling PISM": [[12, "compiling-pism"]], "Debugging": [[12, "debugging"]], "Floating point exceptions": [[12, "floating-point-exceptions"]], "Issues visible in parallel runs only": [[12, "issues-visible-in-parallel-runs-only"]], "Issues caught by automatic tests": [[12, "issues-caught-by-automatic-tests"]], "Using clang-tidy": [[12, "using-clang-tidy"]], "Writing tests": [[12, "writing-tests"]], "Running tests": [[12, "running-tests"]], "Editing PISM\u2019s manual": [[12, "editing-pism-s-manual"]], "Listing configuration parameters": [[12, "listing-configuration-parameters"]], "Listing diagnostic quantities": [[12, "listing-diagnostic-quantities"]], "Git branches": [[13, "git-branches"]], "Git introduction for PISM developers": [[14, "git-introduction-for-pism-developers"]], "Recommended Git configuration": [[14, "recommended-git-configuration"]], "Working on a new branch": [[14, "working-on-a-new-branch"]], "Writing better commit messages": [[14, "writing-better-commit-messages"]], "How do I\u2026?": [[15, "how-do-i"]], "Create and use configuration flags and parameters": [[15, "create-and-use-configuration-flags-and-parameters"]], "Create and use additional variables": [[15, "create-and-use-additional-variables"]], "Creating array::Array instances": [[15, "creating-array-array-instances"]], "Read data from a file": [[15, "read-data-from-a-file"]], "Write data to a file": [[15, "write-data-to-a-file"]], "Read scalar forcing data": [[15, "read-scalar-forcing-data"]], "Read 2D forcing fields": [[15, "read-2d-forcing-fields"]], "Contributing to PISM": [[16, "contributing-to-pism"]], "PISM 2.2.2 documentation": [[17, "pism-version-documentation"]], "Installing prerequisites and building PISM on Arch Linux": [[18, "installing-prerequisites-and-building-pism-on-arch-linux"]], "Common build problems and solutions": [[19, "common-build-problems-and-solutions"]], "Installation Cookbook": [[20, "installation-cookbook"]], "Installing prerequisites on Debian or Ubuntu": [[21, "installing-prerequisites-on-debian-or-ubuntu"]], "Debian packages": [[21, "tab-debian-packages"]], "Rebuilding PISM documentation": [[22, "rebuilding-pism-documentation"]], "Manual": [[22, "manual"]], "Source Code Browser": [[22, "source-code-browser"]], "Re-building documentation without PISM\u2019s prerequisites": [[22, "re-building-documentation-without-pism-s-prerequisites"]], "Installing PISM": [[23, "installing-pism"]], "Enabling flexible interpolation using YAC and PROJ": [[24, "enabling-flexible-interpolation-using-yac-and-proj"]], "Installing required libraries on macOS": [[25, "installing-required-libraries-on-macos"]], "Installing parallel I/O libraries": [[26, "installing-parallel-i-o-libraries"]], "Installing HDF5-based parallel NetCDF": [[26, "installing-hdf5-based-parallel-netcdf"]], "Installing  HDF5": [[26, "installing-hdf5"]], "Installing NetCDF": [[26, "installing-netcdf"]], "Installing PnetCDF": [[26, "installing-pnetcdf"]], "Building PETSc": [[27, "building-petsc"]], "Building PISM": [[28, "building-pism"]], "PISM\u2019s build-time configuration": [[28, "pism-s-build-time-configuration"]], "Building PISM with libraries in non-standard locations": [[28, "building-pism-with-libraries-in-non-standard-locations"]], "Required tools and libraries": [[29, "required-tools-and-libraries"]], "Python packages": [[29, "id7"]], "Quick tests of the installation": [[30, "quick-tests-of-the-installation"]], "Next steps": [[30, "next-steps"]], "Installing PISM using Spack": [[31, "installing-pism-using-spack"]], "Diagnostic quantities": [[32, "diagnostic-quantities"]], "Spatially-variable fields": [[32, "spatially-variable-fields"]], "Scalar time-series": [[32, "scalar-time-series"]], "Climate inputs, and their interface with ice dynamics": [[33, "climate-inputs-and-their-interface-with-ice-dynamics"]], "Boundary conditions required by PISM\u2019s ice dynamics core; see\n             Fig. 15. The optional red interface is absent\n             if PISM does not \u201cown\u201d the surface processes layer.": [[33, "tab-ice-dynamics-bc"]], "Evolutionary versus diagnostic modeling": [[34, "evolutionary-versus-diagnostic-modeling"]], "Ice dynamics, the PISM view": [[35, "ice-dynamics-the-pism-view"]], "A hierarchy of simplifying assumptions for grounded ice flow": [[36, "a-hierarchy-of-simplifying-assumptions-for-grounded-ice-flow"]], "Hierarchy of flow models in PISM for the grounded parts of ice sheets.\n             Listed from most to fewest simplifying assumptions and from least to\n             greatest need for boundary data. The italicized models are planned for\n             future versions of PISM but are not implemented so far.": [[36, "tab-modelhierarchy"]], "Stress balance models: SIA, SSA, and the First Order Approximation": [[37, "stress-balance-models-sia-ssa-and-the-first-order-approximation"]], "PISM User\u2019s Manual": [[38, "pism-user-s-manual"]], "Bootstrapping": [[39, "bootstrapping"]], "-bootstrap file format": [[39, "bootstrap-file-format"]], "Initialization and bootstrapping": [[40, "initialization-and-bootstrapping"]], "Initialization from a saved model state": [[41, "initialization-from-a-saved-model-state"]], "-i file format": [[41, "i-file-format"]], "Example: A regional model of the Jakobshavn outlet glacier in Greenland": [[42, "example-a-regional-model-of-the-jakobshavn-outlet-glacier-in-greenland"]], "Get the drainage basin delineation tool": [[42, "get-the-drainage-basin-delineation-tool"]], "Preprocess the data and get the whole ice sheet model file": [[42, "preprocess-the-data-and-get-the-whole-ice-sheet-model-file"]], "Identify the drainage basin for the modeled outlet glacier": [[42, "identify-the-drainage-basin-for-the-modeled-outlet-glacier"]], "Cut out the computational domain for the regional model": [[42, "cut-out-the-computational-domain-for-the-regional-model"]], "Quick start": [[42, "quick-start"]], "Spinning-up the regional model on a 5 km grid": [[42, "spinning-up-the-regional-model-on-a-5-km-grid"]], "Century run on a 2 km grid": [[42, "century-run-on-a-2-km-grid"]], "Plotting results": [[42, "plotting-results"]], "Computational box": [[43, "computational-box"]], "Spatial grid": [[44, "spatial-grid"]], "Setting grid resolution": [[44, "setting-grid-resolution"]], "Grid registration": [[44, "grid-registration"]], "Coordinate Reference Systems": [[44, "coordinate-reference-systems"]], "Limitations": [[44, null]], "NetCDF metadata describing a CRS": [[44, "netcdf-metadata-describing-a-crs"]], "Supported EPSG codes": [[44, "id5"]], "Grid mapping variable": [[44, "grid-mapping-variable"]], "Supported coordinate reference systems": [[44, "id6"]], "Attribute proj_params of a grid mapping variable": [[44, "attribute-proj-params-of-a-grid-mapping-variable"]], "Global attribute proj": [[44, "global-attribute-proj"]], "Using a grid definition file": [[44, "using-a-grid-definition-file"]], "A better way to define a modeling domain": [[44, "a-better-way-to-define-a-modeling-domain"]], "Parallel domain distribution": [[44, "parallel-domain-distribution"]], "Configuration parameters controlling grid choices": [[44, "configuration-parameters-controlling-grid-choices"]], "Model domain, grid, and time": [[45, "model-domain-grid-and-time"]], "Model time": [[46, "model-time"]], "Command-line options controlling PISM time": [[46, "tab-timeoptions"]], "Calendars": [[46, "calendars"]], "Calendars supported by PISM. Please see CalCalcs documentation for\n             details": [[46, "tab-calendars"]], "Re-starting an interrupted run using -time_file": [[46, "re-starting-an-interrupted-run-using-time-file"]], "Diagnostic computations": [[46, "diagnostic-computations"]], "Disabling sub-models": [[47, "disabling-sub-models"]], "Computing ice age": [[48, "computing-ice-age"]], "Isochronal layer tracing": [[48, "isochronal-layer-tracing"]], "Blatter\u2019s model": [[49, "blatter-s-model"]], "Some vertical grid hierarchies": [[49, "tab-blatter-mg-levels"]], "Surface gradient computation": [[49, "surface-gradient-computation"]], "Adaptive time stepping": [[49, "adaptive-time-stepping"]], "Practical preconditioners choices": [[49, "practical-preconditioners-choices"]], "Parameters": [[49, "parameters"], [53, "parameters"], [54, "parameters"], [56, "parameters"], [83, "parameters"], [84, "parameters"], [85, "parameters"], [88, "parameters"]], "Modeling conservation of energy": [[50, "modeling-conservation-of-energy"]], "Ice dynamics and thermodynamics": [[51, "ice-dynamics-and-thermodynamics"]], "Ice rheology": [[52, "ice-rheology"]], "Flow law choices": [[52, "flow-law-choices"]], "Enhancement factor and exponent": [[52, "enhancement-factor-and-exponent"]], "Shallow ice approximation (SIA)": [[53, "shallow-ice-approximation-sia"]], "Surface gradient method": [[53, "surface-gradient-method"]], "Parameterization of bed roughness": [[53, "parameterization-of-bed-roughness"]], "Coupling to the age of the ice": [[53, "coupling-to-the-age-of-the-ice"]], "Shallow shelf approximation (SSA)": [[54, "shallow-shelf-approximation-ssa"]], "Choice of, and controls on, the numerical SSA stress balance.": [[54, "tab-ssa-usage"]], "Controls on the numerical iteration of the -ssa_method fd solver": [[54, "tab-ssafd-controls"]], "Technical remarks": [[54, "technical-remarks"]], "Choosing the stress balance": [[55, "choosing-the-stress-balance"]], "Weertman-style sliding law": [[56, "weertman-style-sliding-law"]], "Notation used in (6)": [[56, "tab-weertman-notation"]], "Dealing with more difficult modeling choices": [[57, "dealing-with-more-difficult-modeling-choices"]], "Example": [[57, null], [57, null], [57, null]], "Modeling choices": [[58, "modeling-choices"]], "Calving and front retreat": [[59, "calving-and-front-retreat"]], "Overview": [[59, "overview"]], "Scaling calving rates": [[59, "scaling-calving-rates"]], "Eigen calving": [[59, "eigen-calving"]], "von Mises stress calving": [[59, "von-mises-stress-calving"]], "Hayhurst calving": [[59, "hayhurst-calving"]], "Calving of thin floating ice": [[59, "calving-of-thin-floating-ice"]], "Calving of all floating ice": [[59, "calving-of-all-floating-ice"]], "Prescribed front retreat": [[59, "prescribed-front-retreat"]], "Fracture density modeling": [[60, "fracture-density-modeling"]], "Marine ice sheet modeling": [[61, "marine-ice-sheet-modeling"]], "Flotation criterion, mask, and sea level": [[62, "flotation-criterion-mask-and-sea-level"]], "The PISM mask, in combination with user options, determines the dynamical\n             model.": [[62, "tab-maskvals"]], "Modeling melange back-pressure": [[63, "modeling-melange-back-pressure"]], "PIK options for marine ice sheets": [[64, "pik-options-for-marine-ice-sheets"]], "Options which turn on PIK ice shelf front and grounding line mechanisms. A\n             calving law choice is needed in addition to these options.": [[64, "tab-pism-pik"]], "Stress condition at calving fronts": [[64, "stress-condition-at-calving-fronts"]], "Partially-filled cells at the boundaries of ice shelves": [[64, "partially-filled-cells-at-the-boundaries-of-ice-shelves"]], "Iceberg removal": [[64, "iceberg-removal"]], "Sub-grid treatment of the grounding line position": [[64, "sub-grid-treatment-of-the-grounding-line-position"]], "Modeling individual outlet glaciers": [[65, "modeling-individual-outlet-glaciers"]], "Energy": [[65, "energy"]], "Stress balance": [[65, "stress-balance"]], "Mass continuity": [[65, "mass-continuity"]], "Mass balance adjustment": [[65, "mass-balance-adjustment"]], "Calving": [[65, "calving"]], "Controlling basal strength": [[66, "controlling-basal-strength"]], "Choosing the sliding law": [[66, "choosing-the-sliding-law"]], "Sliding law command-line options": [[66, "tab-sliding-power-law"]], "Lateral drag": [[66, "lateral-drag"]], "Determining the yield stress": [[66, "determining-the-yield-stress"]], "Command-line options controlling how yield stress is determined": [[66, "tab-yieldstress"]], "Till friction angle heuristic": [[66, "till-friction-angle-heuristic"]], "Till friction angle optimization": [[66, "till-friction-angle-optimization"]], "Determining the effective pressure": [[66, "determining-the-effective-pressure"]], "Controlling minimum effective pressure": [[66, "controlling-minimum-effective-pressure"]], "Earth deformation models": [[67, "earth-deformation-models"]], "Point-wise isostasy": [[67, "point-wise-isostasy"]], "Lingle-Clark": [[67, "lingle-clark"]], "Given bed deformation history": [[67, "given-bed-deformation-history"]], "Subglacial hydrology": [[68, "subglacial-hydrology"]], "Command-line options to choose the hydrology model": [[68, "tab-hydrologychoice"]], "Subglacial hydrology command-line options which apply to all hydrology models": [[68, "tab-hydrology"]], "The default model: -hydrology null": [[68, "the-default-model-hydrology-null"]], "\u201cSteady state flow\u201d model": [[68, "steady-state-flow-model"]], "The mass-conserving model: -hydrology routing": [[68, "the-mass-conserving-model-hydrology-routing"]], "Command-line options specific to hydrology model routing": [[68, "tab-hydrologyrouting"]], "The subglacier": [[69, "the-subglacier"]], "Configuration parameters": [[70, "configuration-parameters"]], "Run-time diagnostic viewers": [[71, "run-time-diagnostic-viewers"]], "Options controlling run-time diagnostic viewers": [[71, "tab-diag-viewers"]], "Special run-time-only diagnostic viewers": [[71, "tab-special-diag-viewers"]], "Using PISM for flow-line modeling": [[72, "using-pism-for-flow-line-modeling"]], "Practical usage": [[73, "practical-usage"]], "Input and output": [[74, "input-and-output"]], "Basic NetCDF input and output options": [[74, "tab-input-output-options"]], "Options controlling PISM\u2019s standard output": [[74, "tab-stdout"]], "PISM\u2019s I/O performance": [[74, "pism-s-i-o-performance"]], "Methods of writing to output files": [[74, "tab-output-format"]], "Interpolation of input data": [[75, "interpolation-of-input-data"]], "ISMIP6 Greenland": [[76, "sec-ismip6"]], "Top surface mass balance and temperature": [[76, "top-surface-mass-balance-and-temperature"]], "Frontal melt parameterization": [[76, "frontal-melt-parameterization"]], "Parameterized front retreat": [[76, "parameterized-front-retreat"]], "Output variables": [[76, "output-variables"]], "ISMIP6 variables": [[76, "tab-ismip6-variables"]], "Balancing the books": [[77, "balancing-the-books"]], "2D diagnostics": [[77, "d-diagnostics"]], "Scalar diagnostics": [[77, "scalar-diagnostics"]], "Mass accounting in subglacial hydrology models": [[77, "mass-accounting-in-subglacial-hydrology-models"]], "Mass accounting in the PDD model": [[77, "mass-accounting-in-the-pdd-model"]], "Mass conservation and \u201crough\u201d bed topography": [[77, "mass-conservation-and-rough-bed-topography"]], "Managing source code modifications": [[78, "managing-source-code-modifications"]], "Handling NetCDF files": [[79, "handling-netcdf-files"]], "A selection of tools for viewing and modifying NetCDF files.": [[79, "tab-netcdfview"]], "PISM\u2019s configuration parameters and how to change them": [[80, "pism-s-configuration-parameters-and-how-to-change-them"]], "Managing parameter studies": [[80, "managing-parameter-studies"]], "Saving PISM\u2019s configuration for post-processing": [[80, "saving-pism-s-configuration-for-post-processing"]], "PETSc options for PISM users": [[81, "petsc-options-for-pism-users"]], "Regridding": [[82, "regridding"]], "Regriddable variables.  Use -regrid_vars with these names.": [[82, "tab-regridvar"]], "Spatially-varying diagnostic quantities": [[83, "spatially-varying-diagnostic-quantities"]], "Snapshots of the model state": [[84, "snapshots-of-the-model-state"]], "Scalar diagnostic quantities": [[85, "scalar-diagnostic-quantities"]], "Comments": [[85, "comments"]], "Utility and test scripts": [[86, "utility-and-test-scripts"]], "Some scripts which help in using PISM": [[86, "tab-scripts-overview"]], "Signals, to control a running PISM model": [[87, "signals-to-control-a-running-pism-model"]], "Signalling running PISM processes.  \u201cPIDs\u201d stands for list of all identifiers of the PISM processes.": [[87, "tab-signals"]], "Understanding adaptive time-stepping": [[88, "understanding-adaptive-time-stepping"]], "Meaning of some adaptive time-stepping \u201creasons\u201d in the standard\n             output line": [[88, "tab-dt-reason"]], "EISMINT II": [[89, "eismint-ii"]], "Running the EISMINT II experiments in PISM. Use -skip -skip_max 5, on\n             the 61\\times 61 default grid, for significant speedup.": [[89, "tab-eisii"]], "Changing the default settings for EISMINT II": [[89, "tab-eisiioptions"]], "Simplified geometry experiments": [[90, "simplified-geometry-experiments"]], "Intercomparison projects": [[90, null]], "ISMIP-HOM": [[91, "ismip-hom"]], "Experiments A, B, C, D": [[91, "experiments-a-b-c-d"]], "Experiment E": [[91, "experiment-e"]], "MISMIP": [[92, "mismip"]], "MISMIP3d": [[93, "mismip3d"]], "Grid sequencing": [[94, "grid-sequencing"]], "Getting started: a Greenland ice sheet example": [[95, "getting-started-a-greenland-ice-sheet-example"]], "Input data": [[96, "input-data"]], "An ice dynamics parameter study": [[97, "an-ice-dynamics-parameter-study"]], "First run": [[98, "first-run"]], "Watching the first run": [[99, "watching-the-first-run"]], "Second run: a better ice-dynamics model": [[100, "second-run-a-better-ice-dynamics-model"]], "Third run: higher resolution": [[101, "third-run-higher-resolution"]], "Fourth run: paleo-climate model spin-up": [[102, "fourth-run-paleo-climate-model-spin-up"]], "Validation case studies": [[103, "validation-case-studies"]], "An SIA flow model for a table-top laboratory experiment": [[104, "an-sia-flow-model-for-a-table-top-laboratory-experiment"]], "An SSA flow model for the Ross Ice Shelf in Antarctica": [[105, "an-ssa-flow-model-for-the-ross-ice-shelf-in-antarctica"]], "Preprocessing input data": [[105, "preprocessing-input-data"]], "Diagnostic computation of ice shelf velocity": [[105, "diagnostic-computation-of-ice-shelf-velocity"]], "Extending this example to other ice shelves": [[105, "extending-this-example-to-other-ice-shelves"]], "Prognostic modelling using eigencalving": [[105, "prognostic-modelling-using-eigencalving"]], "Sample convergence plots": [[106, "sample-convergence-plots"]], "Verification": [[107, "verification"]], "Exact solutions for verification": [[107, "tab-tests"]], "Canonical PISM verification runs using the exact solutions listed in\n            Table 34.": [[107, "tab-tests-exec"]], "Command-line options controlling pism -test ...": [[107, "tab-pism-verification-options"]], "Publishing": [[108, "publishing"]], "Funding acknowledgment": [[108, "funding-acknowledgment"]], "Open research": [[108, "open-research"]], "Code availability": [[108, "code-availability"]], "Example statement": [[108, null], [108, null], [108, null]], "Studies using customized versions of PISM": [[108, "studies-using-customized-versions-of-pism"]], "Data availability": [[108, "data-availability"]], "Using Schoof\u2019s parameterized bed roughness technique in PISM": [[109, "using-schoof-s-parameterized-bed-roughness-technique-in-pism"]], "An explanation": [[109, "an-explanation"]], "Theory": [[109, "theory"]], "Practical application, and Taylor approximation": [[109, "practical-application-and-taylor-approximation"]], "Convexity of P_4": [[109, "convexity-of-p-4"]], "Blatter stress balance solver: technical details": [[110, "blatter-stress-balance-solver-technical-details"]], "Notation": [[110, "notation"], [116, "notation"]], "Weak form": [[110, "weak-form"]], "Boundary conditions": [[110, "boundary-conditions"]], "Basal boundary": [[110, "basal-boundary"]], "Marine margins": [[110, "marine-margins"]], "Solver implementation": [[110, "solver-implementation"]], "Discretization": [[110, "discretization"], [117, "discretization"]], "Residual evaluation": [[110, "residual-evaluation"]], "Main residual contribution": [[110, "main-residual-contribution"]], "Driving stress contribution": [[110, "driving-stress-contribution"]], "Basal contribution": [[110, "basal-contribution"]], "Marine boundary contribution": [[110, "marine-boundary-contribution"]], "Residual at Dirichlet BC locations": [[110, "residual-at-dirichlet-bc-locations"]], "Jacobian evaluation": [[110, "jacobian-evaluation"]], "Basal contribution to the Jacobian": [[110, "basal-contribution-to-the-jacobian"]], "Jacobian at Dirichlet locations": [[110, "jacobian-at-dirichlet-locations"]], "Iceberg elimination": [[110, "iceberg-elimination"]], "Preconditioning": [[110, "preconditioning"]], "Vertical grid sizes compatible with coarsening": [[110, "vertical-grid-sizes-compatible-with-coarsening"]], "Controlling using PETSc options": [[110, "controlling-using-petsc-options"]], "Additional code needed to support geometric multigrid": [[110, "additional-code-needed-to-support-geometric-multigrid"]], "Parameter continuation as a recovery mechanism": [[110, "parameter-continuation-as-a-recovery-mechanism"]], "Model domain and mesh structure": [[110, "model-domain-and-mesh-structure"]], "Supporting evolving ice extent": [[110, "supporting-evolving-ice-extent"]], "Solver inputs and outputs": [[110, "solver-inputs-and-outputs"]], "Steps performed by the solver": [[110, "steps-performed-by-the-solver"]], "Integration with the rest of PISM": [[110, "integration-with-the-rest-of-pism"]], "Conservation of energy": [[110, "conservation-of-energy"]], "Testing and verification": [[110, "testing-and-verification"]], "Verification test XY": [[110, "verification-test-xy"]], "Verification test XZ": [[110, "verification-test-xz"]], "Verification test XZ-CFBC": [[110, "verification-test-xz-cfbc"]], "Verification test XZ-VV (van der Veen profile)": [[110, "verification-test-xz-vv-van-der-veen-profile"]], "Known issues and future work": [[110, "known-issues-and-future-work"]], "BOMBPROOF, PISM\u2019s numerical scheme for conservation of energy": [[111, "bombproof-pism-s-numerical-scheme-for-conservation-of-energy"]], "Conservation of energy in a shallow ice sheet": [[111, "conservation-of-energy-in-a-shallow-ice-sheet"]], "The core BOMBPROOF scheme": [[111, "the-core-bombproof-scheme"]], "Stability properties of the BOMBPROOF scheme": [[111, "stability-properties-of-the-bombproof-scheme"]], "Theorem (stating the stability properties).": [[111, "theorem-stating-the-stability-properties"]], "Remarks": [[111, "remarks"]], "Proof of 1": [[111, "proof-of-1"]], "Proof of 2": [[111, "proof-of-2"]], "Remark about our von Neumann stability analysis": [[111, "remark-about-our-von-neumann-stability-analysis"]], "Convergence: a consequence of the maximum principle": [[111, "convergence-a-consequence-of-the-maximum-principle"]], "Remark on nonzero source term": [[111, "remark-on-nonzero-source-term"]], "Temperate basal boundary condition, and computing the basal melt rate": [[111, "temperate-basal-boundary-condition-and-computing-the-basal-melt-rate"]], "Regarding the floating case": [[111, "regarding-the-floating-case"]], "CF standard names used by PISM": [[112, "cf-standard-names-used-by-pism"], [112, "tab-standard-names"]], "Existing standard names": [[112, "existing-standard-names"]], "Proposed standard names": [[112, "proposed-standard-names"]], "Desired CF standard names": [[112, "id1"]], "Final technical notes": [[112, "final-technical-notes"]], "Technical notes": [[113, "technical-notes"]], "Three-equation ocean model (implementation details)": [[114, "three-equation-ocean-model-implementation-details"]], "Release checklist": [[115, "release-checklist"]], "Calving front stress boundary condition": [[116, "calving-front-stress-boundary-condition"], [116, "id1"]], "Shallow shelf approximation": [[116, "shallow-shelf-approximation"]], "Implementing the calving front boundary condition": [[116, "implementing-the-calving-front-boundary-condition"]], "Notes about the flow-line SSA": [[117, "notes-about-the-flow-line-ssa"]], "An observation": [[117, "an-observation"]], "Discrete analog of this property": [[117, "discrete-analog-of-this-property"]], "Interior": [[117, "interior"]], "Ice front": [[117, "ice-front"]], "Choosing FD approximations": [[117, "choosing-fd-approximations"]], "Computing steady-state subglacial water flux": [[118, "computing-steady-state-subglacial-water-flux"]], "The algorithm": [[118, "the-algorithm"]], "On the vertical coordinate in PISM, and a critical change of variable": [[119, "on-the-vertical-coordinate-in-pism-and-a-critical-change-of-variable"]], "References": [[120, "references"]]}, "indexentries": {}})