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Particles of a single Species. More...
#include <ChuteWithPeriodicInflow.h>
Inheritance diagram for ChuteWithPeriodicInflow:Public Member Functions | |
| ChuteWithPeriodicInflow (std::string restart_file) | |
| ChuteWithPeriodicInflow (std::string restart_file, int numRepetitions) | |
| ChuteWithPeriodicInflow (std::string restart_file, int numRepetitions, int numRepetitionsInWidth) | |
| double | getInfo (const BaseParticle &P) const override |
| A virtual function that returns some user-specified information about a particle. More... | |
| void | loadPeriodicBox (std::string const restart_file) |
| loads periodic chute data from restart file More... | |
| void | AddContinuingBottom (int numRepetitions) |
| void | ExtendInWidth (int numRepetitionsInWidth) |
| void | actionsBeforeTimeStep () override |
| Do not add, only remove particles. More... | |
| void | cleanChute () |
| Remove particles if they fall below a certain height (allows them to become supercritical) More... | |
| void | setupInitialConditions () override |
| Do not add bottom. More... | |
| void | integrateBeforeForceComputation () |
| Update particles' and walls' positions and velocities before force computation. More... | |
| void | printTime () const override |
| add some particular output More... | |
| void | computeInternalForces (BaseParticle *P1, BaseParticle *P2) |
| int | Check_and_Duplicate_Periodic_Particle (BaseParticle *i, int nWallPeriodic) |
| void | writeXBallsScript () const |
| This writes a script which can be used to load the xballs problem to display the data just generated. More... | |
| void | outputXBallsDataParticlee (const unsigned int i, const unsigned int format, std::ostream &os) const |
| double | get_PeriodicBoxLength () |
| void | set_PeriodicBoxLength (double new_) |
| int | get_PeriodicBoxNSpecies () |
| void | set_PeriodicBoxNSpecies (int new_) |
| bool | InPeriodicBox (BaseParticle *P) |
| Public Member Functions inherited from Chute | |
| Chute () | |
| This is the default constructor. All it does is set sensible defaults. More... | |
| Chute (const DPMBase &other) | |
| Copy constructor, converts an existing DPMBase problem into a Chute problem. More... | |
| Chute (const MercuryBase &other) | |
| Copy constructor, converts an existing MercuryBase problem into a Chute problem. More... | |
| Chute (const Mercury3D &other) | |
| Copy constructor, converts an existing Mercury3D problem into a Chute problem. More... | |
| Chute (const Chute &other) | |
| Default copy constructor. More... | |
| void | constructor () |
| This is the actual constructor METHOD; it is called by all constructors above (except the default copy constructor). More... | |
| bool | readNextArgument (int &i, int argc, char *argv[]) override |
| This method can be used for reading object properties from a string. More... | |
| void | setupSideWalls () |
| Creates chute side walls (either solid or periodic) More... | |
| void | makeChutePeriodic () |
| This makes the chute periodic in Y. More... | |
| bool | getIsPeriodic () const |
| Returns whether the chute is periodic in Y. More... | |
| void | setupInitialConditions () override |
| Creates bottom, side walls and a particle insertion boundary. More... | |
| void | read (std::istream &is, ReadOptions opt=ReadOptions::ReadAll) override |
| Reads all chute properties from an istream. More... | |
| void | write (std::ostream &os, bool writeAllParticles=true) const override |
| This function writes the Chute properties to an ostream, and adds the properties of ALL chute particles as well. More... | |
| void | setFixedParticleRadius (Mdouble fixedParticleRadius) |
| Sets the particle radius of the fixed particles which constitute the (rough) chute bottom. More... | |
| Mdouble | getFixedParticleRadius () const |
| Returns the particle radius of the fixed particles which constitute the (rough) chute bottom. More... | |
| void | setFixedParticleSpacing (Mdouble fixedParticleSpacing) |
| Sets the spacing of the fixed particles which constitute the (rough) chute bottom; used in triangular packing only. More... | |
| Mdouble | getFixedParticleSpacing () const |
| Returns the particle radius of the fixed particles which constitute the (rough) chute bottom; used in triangular packing only. More... | |
| void | setRoughBottomType (RoughBottomType roughBottomType) |
| Sets the type of rough bottom of the chute. More... | |
| void | setRoughBottomType (std::string roughBottomTypeString) |
| Sets the type of rough bottom of the chute, using a string with the EXACT enum type as input. More... | |
| RoughBottomType | getRoughBottomType () const |
| Returns the type of (rough) bottom of the chute. More... | |
| void | setChuteAngle (Mdouble chuteAngle) |
| Sets gravity vector according to chute angle (in degrees) More... | |
| void | setChuteAngleAndMagnitudeOfGravity (Mdouble chuteAngle, Mdouble gravity) |
| Sets gravity vector according to chute angle (in degrees) More... | |
| Mdouble | getChuteAngle () const |
| Returns the chute angle (in radians) More... | |
| Mdouble | getChuteAngleDegrees () const |
| Returns the chute angle (in degrees) More... | |
| void | setMaxFailed (unsigned int maxFailed) |
| Sets the number of times a particle will be tried to be added to the insertion boundary. More... | |
| unsigned int | getMaxFailed () const |
| Returns the number of times a particle will be tried to be added to the insertion boundary. More... | |
| void | setInflowParticleRadius (Mdouble inflowParticleRadius) |
| Sets the radius of the inflow particles to a single one (i.e. ensures a monodisperse inflow). More... | |
| void | setInflowParticleRadius (Mdouble minInflowParticleRadius, Mdouble maxInflowParticleRadius) |
| Sets the minimum and maximum radius of the inflow particles. More... | |
| void | setMinInflowParticleRadius (Mdouble minInflowParticleRadius) |
| sets the minimum radius of inflow particles More... | |
| void | setMaxInflowParticleRadius (Mdouble maxInflowParticleRadius) |
| Sets the maximum radius of inflow particles. More... | |
| Mdouble | getInflowParticleRadius () const |
| Returns the average radius of inflow particles. More... | |
| Mdouble | getMinInflowParticleRadius () const |
| returns the minimum radius of inflow particles More... | |
| Mdouble | getMaxInflowParticleRadius () const |
| Returns the maximum radius of inflow particles. More... | |
| void | setInflowHeight (Mdouble inflowHeight) |
| Sets maximum inflow height (Z-direction) More... | |
| Mdouble | getInflowHeight () const |
| Returns the maximum inflow height (Z-direction) More... | |
| void | setInflowVelocity (Mdouble inflowVelocity) |
| Sets the average inflow velocity. More... | |
| Mdouble | getInflowVelocity () const |
| Returns the average inflow velocity. More... | |
| void | setInflowVelocityVariance (Mdouble inflowVelocityVariance) |
| Sets the inflow velocity variance. More... | |
| Mdouble | getInflowVelocityVariance () const |
| Returns the inflow velocity variance. More... | |
| void | setChuteWidth (Mdouble chuteWidth) |
| Sets the chute width (Y-direction) More... | |
| Mdouble | getChuteWidth () const |
| Returns the chute width (Y-direction) More... | |
| virtual void | setChuteLength (Mdouble chuteLength) |
| Sets the chute length (X-direction) More... | |
| Mdouble | getChuteLength () const |
| Returns the chute length (X-direction) More... | |
| void | setInsertionBoundary (InsertionBoundary *insertionBoundary) |
| Sets the chute insertion boundary. More... | |
| Public Member Functions inherited from Mercury3D | |
| Mercury3D () | |
| This is the default constructor. All it does is set sensible defaults. More... | |
| Mercury3D (const DPMBase &other) | |
| Copy-constructor for creates an Mercury3D problem from an existing MD problem. More... | |
| Mercury3D (const Mercury3D &other) | |
| Copy-constructor. More... | |
| void | constructor () |
| Function that sets the SystemDimension and ParticleDimension to 3. More... | |
| std::vector< BaseParticle * > | hGridFindParticleContacts (const BaseParticle *obj) override |
| Returns all particles that have a contact with a given particle. More... | |
| Public Member Functions inherited from MercuryBase | |
| MercuryBase () | |
| This is the default constructor. It sets sensible defaults. More... | |
| ~MercuryBase () override | |
| This is the default destructor. More... | |
| MercuryBase (const MercuryBase &mercuryBase) | |
| Copy-constructor. More... | |
| void | constructor () |
| This is the actual constructor, it is called do both constructors above. More... | |
| void | hGridActionsBeforeTimeLoop () override |
| This sets up the broad phase information, has to be done at this stage because it requires the particle size. More... | |
| void | hGridActionsBeforeTimeStep () override |
| Performs all necessary actions before a time-step, like updating the particles and resetting all the bucket information, etc. More... | |
| void | read (std::istream &is, ReadOptions opt=ReadOptions::ReadAll) override |
| Reads the MercuryBase from an input stream, for example a restart file. More... | |
| void | write (std::ostream &os, bool writeAllParticles=true) const override |
| Writes all data into a restart file. More... | |
| Mdouble | getHGridCurrentMaxRelativeDisplacement () const |
| Returns hGridCurrentMaxRelativeDisplacement_. More... | |
| Mdouble | getHGridTotalCurrentMaxRelativeDisplacement () const |
| Returns hGridTotalCurrentMaxRelativeDisplacement_. More... | |
| void | setHGridUpdateEachTimeStep (bool updateEachTimeStep) |
| Sets whether or not the HGrid must be updated every time step. More... | |
| bool | getHGridUpdateEachTimeStep () const final |
| Gets whether or not the HGrid is updated every time step. More... | |
| void | setHGridMaxLevels (unsigned int HGridMaxLevels) |
| Sets the maximum number of levels of the HGrid in this MercuryBase. More... | |
| unsigned int | getHGridMaxLevels () const |
| Gets the maximum number of levels of the HGrid in this MercuryBase. More... | |
| HGridMethod | getHGridMethod () const |
| Gets whether the HGrid in this MercuryBase is BOTTOMUP or TOPDOWN. More... | |
| void | setHGridMethod (HGridMethod hGridMethod) |
| Sets the HGridMethod to either BOTTOMUP or TOPDOWN. More... | |
| HGridDistribution | getHGridDistribution () const |
| Gets how the sizes of the cells of different levels are distributed. More... | |
| void | setHGridDistribution (HGridDistribution hGridDistribution) |
| Sets how the sizes of the cells of different levels are distributed. More... | |
| Mdouble | getHGridCellOverSizeRatio () const |
| Gets the ratio of the smallest cell over the smallest particle. More... | |
| void | setHGridCellOverSizeRatio (Mdouble cellOverSizeRatio) |
| Sets the ratio of the smallest cell over the smallest particle. More... | |
| bool | hGridNeedsRebuilding () |
| Gets if the HGrid needs rebuilding before anything else happens. More... | |
| virtual unsigned int | getHGridTargetNumberOfBuckets () const |
| Gets the desired number of buckets, which is the maximum of the number of particles and 10. More... | |
| virtual Mdouble | getHGridTargetMinInteractionRadius () const |
| Gets the desired size of the smallest cells of the HGrid. More... | |
| virtual Mdouble | getHGridTargetMaxInteractionRadius () const |
| Gets the desired size of the largest cells of the HGrid. More... | |
| bool | checkParticleForInteraction (const BaseParticle &P) final |
| Checks if given BaseParticle has an interaction with a BaseWall or other BaseParticle. More... | |
| bool | checkParticleForInteractionLocal (const BaseParticle &P) final |
| Checks if the given BaseParticle has an interaction with a BaseWall or other BaseParticles in a local domain. More... | |
| virtual Mdouble | userHGridCellSize (unsigned int level) |
| Virtual function that enables inheriting classes to implement a function to let the user set the cell size of the HGrid. More... | |
| void | hGridInfo (std::ostream &os=std::cout) const |
| Writes the info of the HGrid to the screen in a nice format. More... | |
| Public Member Functions inherited from DPMBase | |
| void | constructor () |
| A function which initialises the member variables to default values, so that the problem can be solved off the shelf; sets up a basic two dimensional problem which can be solved off the shelf. It is called in the constructor DPMBase(). More... | |
| DPMBase () | |
| Constructor that calls the "void constructor()". More... | |
| DPMBase (const DPMBase &other) | |
| Copy constructor type-2. More... | |
| virtual | ~DPMBase () |
| virtual destructor More... | |
| void | autoNumber () |
| The autoNumber() function calls three functions: setRunNumber(), readRunNumberFromFile() and incrementRunNumberInFile(). More... | |
| std::vector< int > | get1DParametersFromRunNumber (int size_x) const |
| This turns a counter into 1 index, which is a useful feature for performing 1D parameter study. The index run from 1:size_x, while the study number starts at 0 (initially the counter=1 in COUNTER_DONOTDEL) More... | |
| std::vector< int > | get2DParametersFromRunNumber (int size_x, int size_y) const |
| This turns a counter into 2 indices which is a very useful feature for performing a 2D study. The indices run from 1:size_x and 1:size_y, while the study number starts at 0 ( initially the counter=1 in COUNTER_DONOTDEL) More... | |
| std::vector< int > | get3DParametersFromRunNumber (int size_x, int size_y, int size_z) const |
| This turns a counter into 3 indices, which is a useful feature for performing a 3D parameter study. The indices run from 1:size_x, 1:size_y and 1:size_z, while the study number starts at 0 ( initially the counter=1 in COUNTER_DONOTDEL) More... | |
| int | launchNewRun (const char *name, bool quick=false) |
| This launches a code from within this code. Please pass the name of the code to run. More... | |
| void | setRunNumber (int runNumber) |
| This sets the counter/Run number, overriding the defaults. More... | |
| int | getRunNumber () const |
| This returns the current value of the counter (runNumber_) More... | |
| virtual void | decompose () |
| Sends particles from processorId to the root processor. More... | |
| void | solve () |
| The work horse of the code. More... | |
| void | initialiseSolve () |
| Beginning of the solve routine, before time stepping. More... | |
| void | finaliseSolve () |
| End of the solve routine, after time stepping. More... | |
| virtual void | computeOneTimeStep () |
| Performs everything needed for one time step, used in the time-loop of solve(). More... | |
| void | checkSettings () |
| Checks if the essentials are set properly to go ahead with solving the problem. More... | |
| void | forceWriteOutputFiles () |
| Writes output files immediately, even if the current time step was not meant to be written. Also resets the last saved time step. More... | |
| virtual void | writeOutputFiles () |
| Writes simulation data to all the main Mercury files: .data, .ene, .fstat, .xballs and .restart (see the Mercury website for more details regarding these files). More... | |
| void | solve (int argc, char *argv[]) |
| The work horse of the code. Can handle flags from the command line. More... | |
| ParticleVtkWriter * | getVtkWriter () const |
| virtual void | writeRestartFile () |
| Stores all the particle data for current save time step to a "restart" file, which is a file simply intended to store all the information necessary to "restart" a simulation from a given time step (see also MercuryDPM.org for more information on restart files). More... | |
| void | writeDataFile () |
| void | writeEneFile () |
| void | writeFStatFile () |
| void | fillDomainWithParticles (unsigned N=50) |
| bool | readRestartFile (ReadOptions opt=ReadOptions::ReadAll) |
| Reads all the particle data corresponding to a given, existing . restart file (for more details regarding restart files, refer to the training materials on the MercuryDPM website).Returns true if it is successful, false otherwise. More... | |
| int | readRestartFile (std::string fileName, ReadOptions opt=ReadOptions::ReadAll) |
| The same as readRestartFile(bool), but also reads all the particle data corresponding to the current saved time step. More... | |
| virtual BaseWall * | readUserDefinedWall (const std::string &type) const |
| Allows you to read in a wall defined in a Driver directory; see USER/Luca/ScrewFiller. More... | |
| virtual void | readOld (std::istream &is) |
| Reads all data from a restart file, e.g. domain data and particle data; old version. More... | |
| bool | readDataFile (std::string fileName="", unsigned int format=0) |
| This allows particle data to be reloaded from data files. More... | |
| bool | readParAndIniFiles (std::string fileName) |
| Allows the user to read par.ini files (useful to read files produced by the MDCLR simulation code - external to MercuryDPM) More... | |
| bool | readNextDataFile (unsigned int format=0) |
| Reads the next data file with default format=0. However, one can modify the format based on whether the particle data corresponds to 3D or 2D data- see Visualising data in xballs. More... | |
| void | readNextFStatFile () |
| Reads the next fstat file. More... | |
| bool | findNextExistingDataFile (Mdouble tMin, bool verbose=true) |
| Finds and opens the next data file, if such a file exists. More... | |
| bool | readArguments (int argc, char *argv[]) |
| Can interpret main function input arguments that are passed by the driver codes. More... | |
| bool | checkParticleForInteractionLocalPeriodic (const BaseParticle &P) |
| void | readSpeciesFromDataFile (bool read=true) |
| void | importParticlesAs (ParticleHandler &particleHandler, InteractionHandler &interactionHandler, const ParticleSpecies *species) |
| Copies particles, interactions assigning species from a local simulation to a global one. Useful for the creation of a cluster. More... | |
| MERCURYDPM_DEPRECATED File & | getDataFile () |
| The non const version. Allows one to edit the File::dataFile. More... | |
| MERCURYDPM_DEPRECATED File & | getEneFile () |
| The non const version. Allows to edit the File::eneFile. More... | |
| MERCURYDPM_DEPRECATED File & | getFStatFile () |
| The non const version. Allows to edit the File::fStatFile. More... | |
| MERCURYDPM_DEPRECATED File & | getRestartFile () |
| The non const version. Allows to edit the File::restartFile. More... | |
| MERCURYDPM_DEPRECATED File & | getStatFile () |
| The non const version. Allows to edit the File::statFile. More... | |
| File & | getInteractionFile () |
| Return a reference to the file InteractionsFile. More... | |
| MERCURYDPM_DEPRECATED const File & | getDataFile () const |
| The const version. Does not allow for any editing of the File::dataFile. More... | |
| MERCURYDPM_DEPRECATED const File & | getEneFile () const |
| The const version. Does not allow for any editing of the File::eneFile. More... | |
| MERCURYDPM_DEPRECATED const File & | getFStatFile () const |
| The const version. Does not allow for any editing of the File::fStatFile. More... | |
| MERCURYDPM_DEPRECATED const File & | getRestartFile () const |
| The const version. Does not allow for any editing of the File::restartFile. More... | |
| MERCURYDPM_DEPRECATED const File & | getStatFile () const |
| The const version. Does not allow for any editing of the File::statFile. More... | |
| const File & | getInteractionFile () const |
| Returns a constant reference to an Interactions file. More... | |
| const std::string & | getName () const |
| Returns the name of the file. Does not allow to change it though. More... | |
| void | setName (const std::string &name) |
| Allows to set the name of all the files (ene, data, fstat, restart, stat) More... | |
| void | setName (const char *name) |
| Calls setName(std::string) More... | |
| void | setSaveCount (unsigned int saveCount) |
| Sets File::saveCount_ for all files (ene, data, fstat, restart, stat) More... | |
| void | setFileType (FileType fileType) |
| Sets File::fileType_ for all files (ene, data, fstat, restart, stat) More... | |
| void | setOpenMode (std::fstream::openmode openMode) |
| Sets File::openMode_ for all files (ene, data, fstat, restart, stat) More... | |
| void | resetFileCounter () |
| Resets the file counter for each file i.e. for ene, data, fstat, restart, stat) More... | |
| void | closeFiles () |
| Closes all files (ene, data, fstat, restart, stat) that were opened to read or write. More... | |
| void | setVTKOutputDirectory (const std::string &dir) |
| Sets the output directory of the VTK files. More... | |
| void | setLastSavedTimeStep (unsigned int nextSavedTimeStep) |
| Sets the next time step for all the files (ene, data, fstat, restart, stat) at which the data is to be written or saved. More... | |
| Mdouble | getTime () const |
| Returns the current simulation time. More... | |
| Mdouble | getNextTime () const |
| Returns the current simulation time. More... | |
| unsigned int | getNumberOfTimeSteps () const |
| Returns the current counter of time-steps, i.e. the number of time-steps that the simulation has undergone so far. More... | |
| void | setTime (Mdouble time) |
| Sets a new value for the current simulation time. More... | |
| void | setTimeMax (Mdouble newTMax) |
| Sets a new value for the maximum simulation duration. More... | |
| Mdouble | getTimeMax () const |
| Returns the maximum simulation duration. More... | |
| void | setLogarithmicSaveCount (Mdouble logarithmicSaveCountBase) |
| Sets File::logarithmicSaveCount_ for all files (ene, data, fstat, restart, stat) More... | |
| void | setNToWrite (int nToWrite) |
| set the number of elements to write to the screen More... | |
| int | getNToWrite () const |
| get the number of elements to write to the More... | |
| void | setRotation (bool rotation) |
| Sets whether particle rotation is enabled or disabled. More... | |
| bool | getRotation () const |
| Indicates whether particle rotation is enabled or disabled. More... | |
| MERCURYDPM_DEPRECATED void | setWallsWriteVTK (FileType writeWallsVTK) |
| Sets whether walls are written into a VTK file. More... | |
| MERCURYDPM_DEPRECATED void | setWallsWriteVTK (bool) |
| Sets whether walls are written into a VTK file. More... | |
| MERCURYDPM_DEPRECATED void | setInteractionsWriteVTK (bool) |
| Sets whether interactions are written into a VTK file. More... | |
| void | setParticlesWriteVTK (bool writeParticlesVTK) |
| Sets whether particles are written in a VTK file. More... | |
| void | setSuperquadricParticlesWriteVTK (bool writeSuperquadricParticlesVTK) |
| MERCURYDPM_DEPRECATED FileType | getWallsWriteVTK () const |
| Returns whether walls are written in a VTK file. More... | |
| bool | getParticlesWriteVTK () const |
| Returns whether particles are written in a VTK file. More... | |
| bool | getSuperquadricParticlesWriteVTK () const |
| Mdouble | getXMin () const |
| If the length of the problem domain in x-direction is XMax - XMin, then getXMin() returns XMin. More... | |
| Mdouble | getXMax () const |
| If the length of the problem domain in x-direction is XMax - XMin, then getXMax() returns XMax. More... | |
| Mdouble | getYMin () const |
| If the length of the problem domain in y-direction is YMax - YMin, then getYMin() returns YMin. More... | |
| Mdouble | getYMax () const |
| If the length of the problem domain in y-direction is YMax - YMin, then getYMax() returns XMax. More... | |
| Mdouble | getZMin () const |
| If the length of the problem domain in z-direction is ZMax - ZMin, then getZMin() returns ZMin. More... | |
| Mdouble | getZMax () const |
| If the length of the problem domain in z-direction is ZMax - ZMin, then getZMax() returns ZMax. More... | |
| Mdouble | getXCenter () const |
| Mdouble | getYCenter () const |
| Mdouble | getZCenter () const |
| Vec3D | getCenter () const |
| get center of domain More... | |
| Vec3D | getMin () const |
| Returns the minimum coordinates of the problem domain. More... | |
| Vec3D | getMax () const |
| Returns the maximum coordinates of the problem domain. More... | |
| void | setXMin (Mdouble newXMin) |
| Sets the value of XMin, the lower bound of the problem domain in the x-direction. More... | |
| void | setYMin (Mdouble newYMin) |
| Sets the value of YMin, the lower bound of the problem domain in the y-direction. More... | |
| void | setZMin (Mdouble newZMin) |
| Sets the value of ZMin, the lower bound of the problem domain in the z-direction. More... | |
| void | setXMax (Mdouble newXMax) |
| Sets the value of XMax, the upper bound of the problem domain in the x-direction. More... | |
| void | setYMax (Mdouble newYMax) |
| Sets the value of YMax, the upper bound of the problem domain in the y-direction. More... | |
| void | setZMax (Mdouble newZMax) |
| Sets the value of ZMax, the upper bound of the problem domain in the z-direction. More... | |
| void | setMax (const Vec3D &max) |
| Sets the maximum coordinates of the problem domain. More... | |
| void | setMax (Mdouble, Mdouble, Mdouble) |
| Sets the maximum coordinates of the problem domain. More... | |
| void | setDomain (const Vec3D &min, const Vec3D &max) |
| Sets the minimum coordinates of the problem domain. More... | |
| void | setMin (const Vec3D &min) |
| Sets the minimum coordinates of the problem domain. More... | |
| void | setMin (Mdouble, Mdouble, Mdouble) |
| Sets the minimum coordinates of the problem domain. More... | |
| void | setTimeStep (Mdouble newDt) |
| Sets a new value for the simulation time step. More... | |
| Mdouble | getTimeStep () const |
| Returns the simulation time step. More... | |
| void | setNumberOfOMPThreads (int numberOfOMPThreads) |
| Sets the number of omp threads. More... | |
| int | getNumberOfOMPThreads () const |
| Returns the number of omp threads. More... | |
| void | setXBallsColourMode (int newCMode) |
| Set the xballs output mode. More... | |
| int | getXBallsColourMode () const |
| Get the xballs colour mode (CMode). More... | |
| void | setXBallsVectorScale (double newVScale) |
| Set the scale of vectors in xballs. More... | |
| double | getXBallsVectorScale () const |
| Returns the scale of vectors used in xballs. More... | |
| void | setXBallsAdditionalArguments (std::string newXBArgs) |
| Set the additional arguments for xballs. More... | |
| std::string | getXBallsAdditionalArguments () const |
| Returns the additional arguments for xballs. More... | |
| void | setXBallsScale (Mdouble newScale) |
| Sets the scale of the view (either normal, zoom in or zoom out) to display in xballs. The default is fit to screen. More... | |
| double | getXBallsScale () const |
| Returns the scale of the view in xballs. More... | |
| void | setGravity (Vec3D newGravity) |
| Sets a new value for the gravitational acceleration. More... | |
| Vec3D | getGravity () const |
| Returns the gravitational acceleration. More... | |
| void | setBackgroundDrag (Mdouble backgroundDrag) |
| Simple access function to turn on a background drag. The force of particleVelocity*drag is applied (note, it allowed to be negative i.e. create energy) More... | |
| const Mdouble | getBackgroundDrag () const |
| Return the background drag. More... | |
| void | setDimension (unsigned int newDim) |
| Sets both the system dimensions and the particle dimensionality. More... | |
| void | setSystemDimensions (unsigned int newDim) |
| Sets the system dimensionality. More... | |
| unsigned int | getSystemDimensions () const |
| Returns the system dimensionality. More... | |
| void | setParticleDimensions (unsigned int particleDimensions) |
| Sets the particle dimensionality. More... | |
| unsigned int | getParticleDimensions () const |
| Returns the particle dimensionality. More... | |
| std::string | getRestartVersion () const |
| This is to take into account for different Mercury versions. Returns the version of the restart file. More... | |
| void | setRestartVersion (std::string newRV) |
| Sets restart_version. More... | |
| bool | getRestarted () const |
| Returns the flag denoting if the simulation was restarted or not. More... | |
| void | setRestarted (bool newRestartedFlag) |
| Allows to set the flag stating if the simulation is to be restarted or not. More... | |
| bool | getAppend () const |
| Returns whether the "append" option is on or off. More... | |
| void | setAppend (bool newAppendFlag) |
| Sets whether the "append" option is on or off. More... | |
| Mdouble | getElasticEnergy () const |
| Returns the global elastic energy within the system. More... | |
| Mdouble | getKineticEnergy () const |
| Returns the global kinetic energy stored in the system. More... | |
| Mdouble | getGravitationalEnergy (Vec3D origin={0, 0, 0}) const |
| Returns the global gravitational potential energy stored relative to a user-defined origin in the system. Note, if no origin is specified the real origin i.e. (0,0,0) is taken. More... | |
| Mdouble | getRotationalEnergy () const |
| Returns the global rotational energy stored in the system. More... | |
| Mdouble | getTotalEnergy () const |
| Mdouble | getTotalMass () const |
| JMFT: Return the total mass of the system, excluding fixed particles. More... | |
| Vec3D | getCentreOfMass () const |
| JMFT: Return the centre of mass of the system, excluding fixed particles. More... | |
| Vec3D | getTotalMomentum () const |
| JMFT: Return the total momentum of the system, excluding fixed particles. More... | |
| double | getCPUTime () |
| double | getWallTime () |
| virtual void | hGridInsertParticle (BaseParticle *obj UNUSED) |
| virtual void | hGridUpdateParticle (BaseParticle *obj UNUSED) |
| virtual void | hGridRemoveParticle (BaseParticle *obj UNUSED) |
| bool | mpiIsInCommunicationZone (BaseParticle *particle) |
| Checks if the position of the particle is in an mpi communication zone or not. More... | |
| bool | mpiInsertParticleCheck (BaseParticle *P) |
| Function that checks if the mpi particle should really be inserted by the current domain. More... | |
| void | insertGhostParticle (BaseParticle *P) |
| This function inserts a particle in the mpi communication boundaries. More... | |
| void | updateGhostGrid (BaseParticle *P) |
| Checks if the Domain/periodic interaction distance needs to be updated and updates it accordingly. More... | |
| virtual void | gatherContactStatistics (unsigned int index1, int index2, Vec3D Contact, Mdouble delta, Mdouble ctheta, Mdouble fdotn, Mdouble fdott, Vec3D P1_P2_normal_, Vec3D P1_P2_tangential) |
| //Not unsigned index because of possible wall collisions. More... | |
| void | setNumberOfDomains (std::vector< unsigned > direction) |
| Sets the number of domains in x-,y- and z-direction. Required for parallel computations. More... | |
| void | splitDomain (DomainSplit domainSplit) |
| std::vector< unsigned > | getNumberOfDomains () |
| returns the number of domains More... | |
| Domain * | getCurrentDomain () |
| Function that returns a pointer to the domain corresponding to the processor. More... | |
| void | removeOldFiles () const |
| void | setMeanVelocity (Vec3D V_mean_goal) |
| This function will help you set a fixed kinetic energy and mean velocity in your system. More... | |
| void | setMeanVelocityAndKineticEnergy (Vec3D V_mean_goal, Mdouble Ek_goal) |
| This function will help you set a fixed kinetic energy and mean velocity in your system. More... | |
| Mdouble | getTotalVolume () const |
| Get the total volume of the cuboid system. More... | |
| Matrix3D | getKineticStress () const |
| Calculate the kinetic stress tensor in the system averaged over the whole volume. More... | |
| Matrix3D | getStaticStress () const |
| Calculate the static stress tensor in the system averaged over the whole volume. More... | |
| Matrix3D | getTotalStress () const |
| Calculate the total stress tensor in the system averaged over the whole volume. More... | |
| virtual void | handleParticleRemoval (unsigned int id) |
| Handles the removal of particles from the particleHandler. More... | |
| virtual void | handleParticleAddition (unsigned int id, BaseParticle *p) |
| Handles the addition of particles to the particleHandler. More... | |
| void | writePythonFileForVTKVisualisation () const |
| writes .py file for ParaView More... | |
| void | setWritePythonFileForVTKVisualisation (bool forceWritePythonFileForVTKVisualisation) |
| bool | getWritePythonFileForVTKVisualisation () const |
| WallVTKWriter & | getWallVTKWriter () |
Public Attributes | |
| SphericalParticle | inflowParticle_ |
| Public Attributes inherited from DPMBase | |
| SpeciesHandler | speciesHandler |
| A handler to that stores the species type i.e. LinearViscoelasticSpecies, etc. More... | |
| RNG | random |
| This is a random generator, often used for setting up the initial conditions etc... More... | |
| ParticleHandler | particleHandler |
| An object of the class ParticleHandler, contains the pointers to all the particles created. More... | |
| ParticleHandler | paoloParticleHandler |
| Fake particleHandler created by Paolo needed temporary by just Paolo. More... | |
| WallHandler | wallHandler |
| An object of the class WallHandler. Contains pointers to all the walls created. More... | |
| BoundaryHandler | boundaryHandler |
| An object of the class BoundaryHandler which concerns insertion and deletion of particles into or from regions. More... | |
| PeriodicBoundaryHandler | periodicBoundaryHandler |
| Internal handler that deals with periodic boundaries, especially in a parallel build. More... | |
| DomainHandler | domainHandler |
| An object of the class DomainHandler which deals with parallel code. More... | |
| InteractionHandler | interactionHandler |
| An object of the class InteractionHandler. More... | |
| CGHandler | cgHandler |
| Object of the class cgHandler. More... | |
| File | dataFile |
| An instance of class File to handle in- and output into a .data file. More... | |
| File | fStatFile |
| An instance of class File to handle in- and output into a .fstat file. More... | |
| File | eneFile |
| An instance of class File to handle in- and output into a .ene file. More... | |
| File | restartFile |
| An instance of class File to handle in- and output into a .restart file. More... | |
| File | statFile |
| An instance of class File to handle in- and output into a .stat file. More... | |
| File | interactionFile |
| File class to handle in- and output into .interactions file. This file hold information about interactions. More... | |
| Time | clock_ |
| record when the simulation started More... | |
Private Attributes | |
| double | PeriodicBoxLength |
| stores the length of the periodic box More... | |
| int | PeriodicBoxNSpecies |
| stores the number of species in the periodic box More... | |
| bool | FillChute |
Additional Inherited Members | |
| Public Types inherited from DPMBase | |
| enum class | ReadOptions : int { ReadAll , ReadNoInteractions , ReadNoParticlesAndInteractions } |
| enum class | DomainSplit { X , Y , Z , XY , XZ , YZ , XYZ } |
| Static Public Member Functions inherited from DPMBase | |
| static void | incrementRunNumberInFile () |
| Increment the run Number (counter value) stored in the file_counter (COUNTER_DONOTDEL) by 1 and store the new value in the counter file. More... | |
| static int | readRunNumberFromFile () |
| Read the run number or the counter from the counter file (COUNTER_DONOTDEL) More... | |
| static bool | areInContact (const BaseParticle *pI, const BaseParticle *pJ) |
| Checks if two particle are in contact or is there any positive overlap. More... | |
| Protected Member Functions inherited from Chute | |
| void | actionsBeforeTimeStep () override |
| Calls Chute::cleanChute(). More... | |
| void | cleanChute () |
| Deletes all outflow particles once every 100 time steps. More... | |
| virtual void | createBottom () |
| Creates the chute bottom, which can be either flat or one of three flavours of rough. More... | |
| virtual void | addFlowParticlesCompactly () |
| Add initial flow particles in a dense packing. More... | |
| virtual SphericalParticle | createFlowParticle () |
| void | printTime () const override |
| prints time, max time and number of particles More... | |
| Protected Member Functions inherited from Mercury3D | |
| void | hGridFindContactsWithinTargetCell (int x, int y, int z, unsigned int l) |
| Finds contacts between particles in the target cell. More... | |
| void | hGridFindContactsWithTargetCell (int x, int y, int z, unsigned int l, BaseParticle *obj) |
| Finds contacts between the BaseParticle and the target cell. More... | |
| void | computeWallForces (BaseWall *w) override |
| Compute contacts with a wall. More... | |
| void | hGridFindParticlesWithTargetCell (int x, int y, int z, unsigned int l, BaseParticle *obj, std::vector< BaseParticle * > &list) |
| Finds particles within target cell and stores them in a list. More... | |
| void | hGridGetInteractingParticleList (BaseParticle *obj, std::vector< BaseParticle * > &list) override |
| Obtains all neighbour particles of a given object, obtained from the hgrid. More... | |
| void | computeInternalForces (BaseParticle *obj) override |
| Finds contacts with the BaseParticle; avoids multiple checks. More... | |
| bool | hGridHasContactsInTargetCell (int x, int y, int z, unsigned int l, const BaseParticle *obj) const |
| Tests if the BaseParticle has contacts with other Particles in the target cell. More... | |
| bool | hGridHasParticleContacts (const BaseParticle *obj) override |
| Tests if a BaseParticle has any contacts in the HGrid. More... | |
| void | hGridRemoveParticle (BaseParticle *obj) override |
| Removes a BaseParticle from the HGrid. More... | |
| void | hGridUpdateParticle (BaseParticle *obj) override |
| Updates the cell (not the level) of a BaseParticle. More... | |
| Protected Member Functions inherited from MercuryBase | |
| void | hGridRebuild () |
| This sets up the parameters required for the contact model. More... | |
| void | hGridInsertParticle (BaseParticle *obj) final |
| Inserts a single Particle to current grid. More... | |
| void | hGridUpdateMove (BaseParticle *iP, Mdouble move) final |
| Computes the relative displacement of the given BaseParticle and updates the currentMaxRelativeDisplacement_ accordingly. More... | |
| void | hGridActionsBeforeIntegration () override |
| Resets the currentMaxRelativeDisplacement_ to 0. More... | |
| void | hGridActionsAfterIntegration () override |
| This function has to be called before integrateBeforeForceComputation. More... | |
| HGrid * | getHGrid () |
| Gets the HGrid used by this problem. More... | |
| const HGrid * | getHGrid () const |
| Gets the HGrid used by this problem, const version. More... | |
| bool | readNextArgument (int &i, int argc, char *argv[]) override |
| Reads the next command line argument. More... | |
| Protected Member Functions inherited from DPMBase | |
| virtual void | computeAllForces () |
| Computes all the forces acting on the particles using the BaseInteractable::setForce() and BaseInteractable::setTorque() More... | |
| virtual void | computeInternalForce (BaseParticle *, BaseParticle *) |
| Computes the forces between two particles (internal in the sense that the sum over all these forces is zero i.e. fully modelled forces) More... | |
| virtual void | computeExternalForces (BaseParticle *) |
| Computes the external forces, such as gravity, acting on particles. More... | |
| virtual void | computeForcesDueToWalls (BaseParticle *, BaseWall *) |
| Computes the forces on the particles due to the walls (normals are outward normals) More... | |
| virtual void | actionsOnRestart () |
| A virtual function where the users can add extra code which is executed only when the code is restarted. More... | |
| virtual void | actionsBeforeTimeLoop () |
| A virtual function. Allows one to carry out any operations before the start of the time loop. More... | |
| virtual void | computeAdditionalForces () |
| A virtual function which allows to define operations to be executed prior to the OMP force collect. More... | |
| virtual void | actionsAfterSolve () |
| A virtual function which allows to define operations to be executed after the solve(). More... | |
| virtual void | actionsAfterTimeStep () |
| A virtual function which allows to define operations to be executed after time step. More... | |
| void | writeVTKFiles () const |
| virtual void | outputXBallsData (std::ostream &os) const |
| This function writes the location of the walls and particles in a format the XBalls program can read. For more information on the XBalls program, see Visualising data in xballs. More... | |
| virtual void | outputXBallsDataParticle (unsigned int i, unsigned int format, std::ostream &os) const |
| This function writes out the particle locations into an output stream in a format the XBalls program can read. For more information on the XBalls program, see Visualising data in xballs. More... | |
| virtual void | writeEneHeader (std::ostream &os) const |
| Writes a header with a certain format for ENE file. More... | |
| virtual void | writeFstatHeader (std::ostream &os) const |
| Writes a header with a certain format for FStat file. More... | |
| virtual void | writeEneTimeStep (std::ostream &os) const |
| Write the global kinetic, potential energy, etc. in the system. More... | |
| virtual void | initialiseStatistics () |
| virtual void | outputStatistics () |
| void | gatherContactStatistics () |
| virtual void | processStatistics (bool) |
| virtual void | finishStatistics () |
| virtual void | integrateAfterForceComputation () |
| Update particles' and walls' positions and velocities after force computation. More... | |
| virtual void | checkInteractionWithBoundaries () |
| There are a range of boundaries one could implement depending on ones' problem. This methods checks for interactions between particles and such range of boundaries. See BaseBoundary.h and all the boundaries in the Boundaries folder. More... | |
| void | setFixedParticles (unsigned int n) |
Sets a number, n, of particles in the particleHandler as "fixed particles". More... | |
| virtual bool | continueSolve () const |
| A virtual function for deciding whether to continue the simulation, based on a user-specified criterion. More... | |
| void | outputInteractionDetails () const |
| Displays the interaction details corresponding to the pointer objects in the interaction handler. More... | |
| bool | isTimeEqualTo (Mdouble time) const |
| Checks whether the input variable "time" is the current time in the simulation. More... | |
| void | removeDuplicatePeriodicParticles () |
| Removes periodic duplicate Particles. More... | |
| void | checkAndDuplicatePeriodicParticles () |
| For simulations using periodic boundaries, checks and adds particles when necessary into the particle handler. See DPMBase.cc and PeriodicBoundary.cc for more details. More... | |
| void | performGhostParticleUpdate () |
| When the Verlet scheme updates the positions and velocities of particles, ghost particles will need an update as wel. Their status will also be updated accordingly. More... | |
| void | deleteGhostParticles (std::set< BaseParticle * > &particlesToBeDeleted) |
| void | synchroniseParticle (BaseParticle *, unsigned fromProcessor=0) |
| void | performGhostVelocityUpdate () |
| updates the final time-step velocity of the ghost particles More... | |
| void | disableSoftStop () |
| This prevents the initialisation of the soft stop feature. More... | |
| void | discontinueSolve () |
| This discontinues the solve loop after the current time step is finished. More... | |
Particles of a single Species.
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inline |
References loadPeriodicBox().
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inline |
References AddContinuingBottom(), and loadPeriodicBox().
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References AddContinuingBottom(), ExtendInWidth(), and loadPeriodicBox().
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inlineoverridevirtual |
Do not add, only remove particles.
Reimplemented from DPMBase.
References cleanChute().
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References ParticleHandler::addObject(), BaseParticle::copy(), FillChute, BaseHandler< T >::getLastObject(), ParticleHandler::getNumberOfObjects(), BaseHandler< T >::getObject(), DPMBase::getXMax(), i, BaseParticle::isFixed(), j, BaseInteractable::move(), N, DPMBase::particleHandler, BaseParticle::setSpecies(), BaseHandler< T >::setStorageCapacity(), DPMBase::setXMax(), and DPMBase::speciesHandler.
Referenced by ChuteWithPeriodicInflow().
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inline |
assumes first periodic wall is in x direction
References DPMBase::boundaryHandler, BaseHandler< T >::copyAndAddObject(), PeriodicBoundary::getDistance(), Chute::getIsPeriodic(), BaseHandler< T >::getLastObject(), Chute::getMaxInflowParticleRadius(), BaseHandler< T >::getObject(), BaseParticle::getPeriodicFromParticle(), i, InPeriodicBox(), k, DPMBase::particleHandler, BaseParticle::setPeriodicFromParticle(), and PeriodicBoundary::shiftPosition().
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inline |
Remove particles if they fall below a certain height (allows them to become supercritical)
References ParticleHandler::getNumberOfObjects(), BaseHandler< T >::getObject(), BaseInteractable::getPosition(), DPMBase::getXMax(), i, DPMBase::particleHandler, ParticleHandler::removeObject(), and Vec3D::X.
Referenced by actionsBeforeTimeStep().
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inline |
Tangential spring information is always store in the real particle with highest index When a Periodic contact is encountered it is always encoutered twice (for normal periodic walls), but the force is only applied to the real particle The tangential spring information for periodic particles is stored in the normal particle (and thus twice for normal periodic interactions) When a Particle is removed the tangential spring information has to be moved
Both options are up to first order the same (the first one is nicer becaus it always keeps the spring tangential, whereas the second one is in a nicer intergration form)
The second particle (i.e. the particle the force acts on) is always a flow particle
References a, BaseInteractable::addForce(), BaseInteractable::addTorque(), Vec3D::cross(), oomph::VectorHelpers::cross(), MultiOpt::delta, Vec3D::dot(), DPMBase::eneFile, boost::multiprecision::fabs(), DPMBase::fStatFile, DPMBase::gatherContactStatistics(), get_PeriodicBoxLength(), BaseInteractable::getAngularVelocity(), Vec3D::getDistanceSquared(), File::getFstream(), BaseObject::getIndex(), BaseInteractable::getIndSpecies(), ParticleHandler::getLargestParticle(), Vec3D::getLength(), Vec3D::getLengthSquared(), BaseParticle::getMass(), SpeciesHandler::getMixedObject(), BaseParticle::getPeriodicFromParticle(), BaseInteractable::getPosition(), BaseParticle::getRadius(), DPMBase::getTime(), DPMBase::getTimeStep(), BaseInteractable::getVelocity(), InPeriodicBox(), BaseParticle::isFixed(), max, WallFunction::normal(), DPMBase::particleHandler, Eigen::bfloat16_impl::pow(), R, Vec3D::setZero(), DPMBase::speciesHandler, sqrt(), mathsFunc::square(), DPMBase::statFile, and Vec3D::X.
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References ParticleHandler::addObject(), DPMBase::boundaryHandler, BaseParticle::copy(), BaseHandler< T >::getLastObject(), ParticleHandler::getNumberOfObjects(), BaseHandler< T >::getObject(), DPMBase::getYMax(), DPMBase::getYMin(), i, j, BaseInteractable::move(), N, DPMBase::particleHandler, PeriodicBoundary::set(), BaseHandler< T >::setStorageCapacity(), and DPMBase::setYMax().
Referenced by ChuteWithPeriodicInflow().
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References PeriodicBoxLength.
Referenced by computeInternalForces().
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References PeriodicBoxNSpecies.
Referenced by integrateBeforeForceComputation(), and loadPeriodicBox().
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inlineoverridevirtual |
A virtual function that returns some user-specified information about a particle.
Reimplemented from DPMBase.
References Global_Physical_Variables::P.
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References Global_Physical_Variables::P, and PeriodicBoxNSpecies.
Referenced by Check_and_Duplicate_Periodic_Particle(), and computeInternalForces().
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inlinevirtual |
Update particles' and walls' positions and velocities before force computation.
This is where the integration is done, at the moment it is velocity Verlet integration and is done before the forces are computed. See http://en.wikipedia.org/wiki/Verlet_integration#Velocity_Verlet
Performs integration - i.e. updating particle's positions, velocities and accelerations - for all particles and walls within the system (i.e. in the particleHandler and wallHandler). Integration is performed using the BaseParticle::integrateBeforeForceComputation() function.
The velocity Verlet algorithm requires us to integrate twice each time step: both before and after the force computation. This method is therefore used in conjunction with DPMBase::integrateAfterForceComputation(). See http://en.wikipedia.org/wiki/Verlet_integration#Velocity_Verlet for details.
Reimplemented from DPMBase.
References ParticleHandler::addObject(), BaseHandler< T >::begin(), DPMBase::boundaryHandler, DPMBase::dataFile, BaseHandler< T >::end(), get_PeriodicBoxNSpecies(), PeriodicBoundary::getDistance(), MercuryBase::getHGridUpdateEachTimeStep(), BaseInteractable::getIndSpecies(), Chute::getIsPeriodic(), BaseHandler< T >::getLastObject(), ParticleHandler::getNumberOfObjects(), BaseHandler< T >::getObject(), File::getSaveCount(), BaseHandler< T >::getStorageCapacity(), DPMBase::getTimeStep(), Mercury3D::hGridRemoveParticle(), Mercury3D::hGridUpdateParticle(), PeriodicBoundary::isClosestToLeftBoundary(), DPMBase::particleHandler, BaseParticle::setSpecies(), BaseHandler< T >::setStorageCapacity(), PeriodicBoundary::shiftPosition(), and DPMBase::speciesHandler.
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loads periodic chute data from restart file
References FillChute, MergeRestartFiles::found, get_PeriodicBoxNSpecies(), BaseHandler< T >::getNumberOfObjects(), DPMBase::getXMax(), i, DPMBase::readRestartFile(), set_PeriodicBoxLength(), set_PeriodicBoxNSpecies(), DPMBase::setName(), DPMBase::setRestarted(), and DPMBase::speciesHandler.
Referenced by ChuteWithPeriodicInflow().
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inline |
References BaseInteractable::getAngularVelocity(), BaseInteractable::getIndSpecies(), BaseHandler< T >::getObject(), BaseInteractable::getOrientation(), BaseInteractable::getPosition(), BaseParticle::getRadius(), BaseInteractable::getVelocity(), i, DPMBase::particleHandler, Vec3D::X, Vec3D::Y, and Vec3D::Z.
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inlineoverridevirtual |
add some particular output
Reimplemented from DPMBase.
References BaseInteractable::getIndSpecies(), ParticleHandler::getNumberOfObjects(), BaseHandler< T >::getObject(), DPMBase::getTime(), BaseInteractable::getVelocity(), i, BaseParticle::isFixed(), DPMBase::particleHandler, and Vec3D::X.
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inline |
References PeriodicBoxLength.
Referenced by loadPeriodicBox().
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inline |
References PeriodicBoxNSpecies.
Referenced by loadPeriodicBox().
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inlineoverridevirtual |
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inlinevirtual |
This writes a script which can be used to load the xballs problem to display the data just generated.
First put in all the script lines. All these lines do is move you to the correct directory from any location
Reimplemented from DPMBase.
References DPMBase::dataFile, Particles2023AnalysisHung::file_name, format(), File::getFullName(), DPMBase::getName(), DPMBase::getSystemDimensions(), DPMBase::getXBallsAdditionalArguments(), DPMBase::getXBallsColourMode(), DPMBase::getXBallsScale(), DPMBase::getXBallsVectorScale(), DPMBase::getXMax(), DPMBase::getXMin(), DPMBase::getYMax(), DPMBase::getYMin(), DPMBase::getZMax(), DPMBase::getZMin(), Global_Physical_Variables::height(), and max.
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private |
Referenced by AddContinuingBottom(), and loadPeriodicBox().
| SphericalParticle ChuteWithPeriodicInflow::inflowParticle_ |
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private |
stores the length of the periodic box
Referenced by get_PeriodicBoxLength(), and set_PeriodicBoxLength().
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private |
stores the number of species in the periodic box
Referenced by get_PeriodicBoxNSpecies(), InPeriodicBox(), and set_PeriodicBoxNSpecies().
1.9.1 