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diff --git a/site/AbstractCardiacTissue_8cpp_source.html b/site/AbstractCardiacTissue_8cpp_source.html index da41f2083..44e9db3ad 100644 --- a/site/AbstractCardiacTissue_8cpp_source.html +++ b/site/AbstractCardiacTissue_8cpp_source.html @@ -23,7 +23,7 @@ Logo -
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diff --git a/site/AbstractCardiacTissue_8hpp_source.html b/site/AbstractCardiacTissue_8hpp_source.html index f768a11e3..6c901ebd0 100644 --- a/site/AbstractCardiacTissue_8hpp_source.html +++ b/site/AbstractCardiacTissue_8hpp_source.html @@ -23,7 +23,7 @@ Logo -
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diff --git a/site/AbstractCellBasedSimulationModifier_8cpp_source.html b/site/AbstractCellBasedSimulationModifier_8cpp_source.html index b31b167bf..489c967b5 100644 --- a/site/AbstractCellBasedSimulationModifier_8cpp_source.html +++ b/site/AbstractCellBasedSimulationModifier_8cpp_source.html @@ -23,7 +23,7 @@ Logo -
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diff --git a/site/AbstractCellBasedSimulationModifier_8hpp_source.html b/site/AbstractCellBasedSimulationModifier_8hpp_source.html index acc14846c..d25e1c59a 100644 --- a/site/AbstractCellBasedSimulationModifier_8hpp_source.html +++ b/site/AbstractCellBasedSimulationModifier_8hpp_source.html @@ -23,7 +23,7 @@ Logo -
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diff --git a/site/AbstractCellBasedSimulation_8cpp_source.html b/site/AbstractCellBasedSimulation_8cpp_source.html index 9fd4489ab..363f1f196 100644 --- a/site/AbstractCellBasedSimulation_8cpp_source.html +++ b/site/AbstractCellBasedSimulation_8cpp_source.html @@ -23,7 +23,7 @@ Logo -
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@@ -591,326 +591,329 @@
457 UpdateCellPopulation();
458 }
459
-
460 // Store whether we are sampling results at the current timestep
-
461 SimulationTime* p_time = SimulationTime::Instance();
-
462 bool at_sampling_timestep = (p_time->GetTimeStepsElapsed()%this->mSamplingTimestepMultiple == 0);
-
463
-
464 /*
-
465 * If required, store the current locations of cell centres. Note that we need to
-
466 * use a std::map between cells and locations, rather than (say) a std::vector with
-
467 * location indices corresponding to cells, since once we call UpdateCellLocations()
-
468 * the location index of each cell may change. This is especially true in the case
-
469 * of a CaBasedCellPopulation.
+
460 /*
+
461 * Store whether we are sampling results at the current timestep note we have +1 here as we caculate this
+
462 * before the timestep is increaced.
+
463 */
+
464 SimulationTime* p_time = SimulationTime::Instance();
+
465 bool at_sampling_timestep = ((p_time->GetTimeStepsElapsed()+1)%this->mSamplingTimestepMultiple == 0);
+
466
+
467 /*
+
468 * If required, store the current locations of cell centres. Note that we need to
+
469 * use a std::map between cells and locations, rather than (say) a std::vector with
-
470 */
-
471 std::map<CellPtr, c_vector<double, SPACE_DIM> > old_cell_locations;
-
472 if (mOutputCellVelocities && at_sampling_timestep)
-
473 {
-
474 for (typename AbstractCellPopulation<ELEMENT_DIM, SPACE_DIM>::Iterator cell_iter = mrCellPopulation.Begin();
+
470 * location indices corresponding to cells, since once we call UpdateCellLocations()
+
471 * the location index of each cell may change. This is especially true in the case
+
472 * of a CaBasedCellPopulation.
+
473 */
+
474 std::map<CellPtr, c_vector<double, SPACE_DIM> > old_cell_locations;
-
475 cell_iter != mrCellPopulation.End();
-
476 ++cell_iter)
-
477 {
-
478 old_cell_locations[*cell_iter] = mrCellPopulation.GetLocationOfCellCentre(*cell_iter);
-
479 }
+
475 if (mOutputCellVelocities && at_sampling_timestep)
+
476 {
+
477 for (typename AbstractCellPopulation<ELEMENT_DIM, SPACE_DIM>::Iterator cell_iter = mrCellPopulation.Begin();
+
478 cell_iter != mrCellPopulation.End();
+
479 ++cell_iter)
-
480 }
-
481
-
482 /* Call UpdateAtEndOfTimeStep() on each topology update modifier */
-
483 CellBasedEventHandler::BeginEvent(CellBasedEventHandler::UPDATESIMULATION);
-
484 for (typename std::vector<boost::shared_ptr<AbstractCellBasedSimulationModifier<ELEMENT_DIM, SPACE_DIM> > >::iterator iter = mTopologyUpdateSimulationModifiers.begin();
+
480 {
+
481 old_cell_locations[*cell_iter] = mrCellPopulation.GetLocationOfCellCentre(*cell_iter);
+
482 }
+
483 }
+
484
-
485 iter != mTopologyUpdateSimulationModifiers.end();
-
486 ++iter)
-
487 {
-
488 (*iter)->UpdateAtEndOfTimeStep(this->mrCellPopulation);
-
489 }
-
490 CellBasedEventHandler::EndEvent(CellBasedEventHandler::UPDATESIMULATION);
-
491
+
485 /* Call UpdateAtEndOfTimeStep() on each topology update modifier */
+
486 CellBasedEventHandler::BeginEvent(CellBasedEventHandler::UPDATESIMULATION);
+
487 for (typename std::vector<boost::shared_ptr<AbstractCellBasedSimulationModifier<ELEMENT_DIM, SPACE_DIM> > >::iterator iter = mTopologyUpdateSimulationModifiers.begin();
+
488 iter != mTopologyUpdateSimulationModifiers.end();
+
489 ++iter)
+
490 {
+
491 (*iter)->UpdateAtEndOfTimeStep(this->mrCellPopulation);
-
492 // Update cell locations and topology
-
493 UpdateCellLocationsAndTopology();
+
492 }
+
493 CellBasedEventHandler::EndEvent(CellBasedEventHandler::UPDATESIMULATION);
494
-
495 // Now write cell velocities to file if required
-
496 if (mOutputCellVelocities && at_sampling_timestep)
+
495 // Update cell locations and topology
+
496 UpdateCellLocationsAndTopology();
-
497 {
-
498 // Offset as doing this before we increase time by mDt
-
499 *mpCellVelocitiesFile << p_time->GetTime() + mDt<< "\t";
-
500
-
501 for (typename AbstractCellPopulation<ELEMENT_DIM, SPACE_DIM>::Iterator cell_iter = mrCellPopulation.Begin();
-
502 cell_iter != mrCellPopulation.End();
-
503 ++cell_iter)
+
497
+
498 // Now write cell velocities to file if required
+
499 if (mOutputCellVelocities && at_sampling_timestep)
+
500 {
+
501 // Offset as doing this before we increase time by mDt
+
502 *mpCellVelocitiesFile << p_time->GetTime() + mDt<< "\t";
+
503
-
504 {
-
505 unsigned index = mrCellPopulation.GetLocationIndexUsingCell(*cell_iter);
-
506 const c_vector<double,SPACE_DIM>& position = mrCellPopulation.GetLocationOfCellCentre(*cell_iter);
-
507
-
508 c_vector<double, SPACE_DIM> velocity; // Two lines for profile build
-
509 velocity = (position - old_cell_locations[*cell_iter])/mDt;
+
504 for (typename AbstractCellPopulation<ELEMENT_DIM, SPACE_DIM>::Iterator cell_iter = mrCellPopulation.Begin();
+
505 cell_iter != mrCellPopulation.End();
+
506 ++cell_iter)
+
507 {
+
508 unsigned index = mrCellPopulation.GetLocationIndexUsingCell(*cell_iter);
+
509 const c_vector<double,SPACE_DIM>& position = mrCellPopulation.GetLocationOfCellCentre(*cell_iter);
510
-
511 *mpCellVelocitiesFile << index << " ";
-
512 for (unsigned i=0; i<SPACE_DIM; i++)
-
513 {
+
511 c_vector<double, SPACE_DIM> velocity; // Two lines for profile build
+
512 velocity = (position - old_cell_locations[*cell_iter])/mDt;
+
513
-
514 *mpCellVelocitiesFile << position[i] << " ";
-
515 }
-
516
-
517 for (unsigned i=0; i<SPACE_DIM; i++)
-
518 {
-
519 *mpCellVelocitiesFile << velocity[i] << " ";
-
520 }
-
521 }
-
522 *mpCellVelocitiesFile << "\n";
-
523 }
-
524
-
525 // Update the assignment of cells to processes.
-
526 mrCellPopulation.UpdateCellProcessLocation();
+
514 *mpCellVelocitiesFile << index << " ";
+
515 for (unsigned i=0; i<SPACE_DIM; i++)
+
516 {
+
517 *mpCellVelocitiesFile << position[i] << " ";
+
518 }
+
519
+
520 for (unsigned i=0; i<SPACE_DIM; i++)
+
521 {
+
522 *mpCellVelocitiesFile << velocity[i] << " ";
+
523 }
+
524 }
+
525 *mpCellVelocitiesFile << "\n";
+
526 }
527
-
528 // Increment simulation time here, so results files look sensible
-
529 p_simulation_time->IncrementTimeOneStep();
+
528 // Update the assignment of cells to processes.
+
529 mrCellPopulation.UpdateCellProcessLocation();
530
-
531 /* Call UpdateAtEndOfTimeStep() on each modifier */
-
532 CellBasedEventHandler::BeginEvent(CellBasedEventHandler::UPDATESIMULATION);
-
533 for (typename std::vector<boost::shared_ptr<AbstractCellBasedSimulationModifier<ELEMENT_DIM, SPACE_DIM> > >::iterator iter = mSimulationModifiers.begin();
-
534 iter != mSimulationModifiers.end();
-
535 ++iter)
-
536 {
-
537 (*iter)->UpdateAtEndOfTimeStep(this->mrCellPopulation);
-
538 }
-
539 CellBasedEventHandler::EndEvent(CellBasedEventHandler::UPDATESIMULATION);
-
540
-
541 // Output current results to file
-
542 CellBasedEventHandler::BeginEvent(CellBasedEventHandler::OUTPUT);
-
543 if (p_simulation_time->GetTimeStepsElapsed()%mSamplingTimestepMultiple == 0)// should be at_sampling_timestep !
-
544 {
-
545 mrCellPopulation.WriteResultsToFiles(results_directory+"/");
-
546
-
547 // Call UpdateAtEndOfOutputTimeStep() on each modifier
-
548 for (typename std::vector<boost::shared_ptr<AbstractCellBasedSimulationModifier<ELEMENT_DIM, SPACE_DIM> > >::iterator iter = mSimulationModifiers.begin();
-
549 iter != mSimulationModifiers.end();
-
550 ++iter)
-
551 {
-
552 (*iter)->UpdateAtEndOfOutputTimeStep(this->mrCellPopulation);
-
553 }
-
554 }
-
555 CellBasedEventHandler::EndEvent(CellBasedEventHandler::OUTPUT);
-
556 }
-
557
-
558 LOG(1, "--END TIME = " << p_simulation_time->GetTime() << "\n");
-
559
-
560 /*
-
561 * Carry out a final update so that cell population is coherent with new cell positions.
-
562 * Note that cell birth and death still need to be checked because they may be spatially
-
563 * dependent.
-
564 */
-
565 UpdateCellPopulation();
-
566
-
567 CellBasedEventHandler::BeginEvent(CellBasedEventHandler::UPDATESIMULATION);
-
568 // Call UpdateAtEndOfSolve(), on each modifier
-
569 for (typename std::vector<boost::shared_ptr<AbstractCellBasedSimulationModifier<ELEMENT_DIM, SPACE_DIM> > >::iterator iter = mSimulationModifiers.begin();
-
570 iter != mSimulationModifiers.end();
-
571 ++iter)
-
572 {
-
573 (*iter)->UpdateAtEndOfSolve(this->mrCellPopulation);
-
574 }
-
575 CellBasedEventHandler::EndEvent(CellBasedEventHandler::UPDATESIMULATION);
-
576
-
577 CellBasedEventHandler::BeginEvent(CellBasedEventHandler::OUTPUT);
-
578
-
579 mrCellPopulation.CloseWritersFiles();
-
580
-
581 if (mOutputCellVelocities)
-
582 {
-
583 mpCellVelocitiesFile->close();
-
584 }
-
585
-
586 if (PetscTools::AmMaster())
-
587 {
-
588 *mpVizSetupFile << "Complete\n";
-
589 mpVizSetupFile->close();
-
590 }
-
591
-
592 CellBasedEventHandler::EndEvent(CellBasedEventHandler::OUTPUT);
-
593 CellBasedEventHandler::EndEvent(CellBasedEventHandler::EVERYTHING);
-
594}
-
595
-
596template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
- -
601
-
602template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
-
-
603void AbstractCellBasedSimulation<ELEMENT_DIM,SPACE_DIM>::UpdateCellPopulation()
-
604{
-
605 // Remove dead cells
-
606 CellBasedEventHandler::BeginEvent(CellBasedEventHandler::DEATH);
-
607 unsigned deaths_this_step = DoCellRemoval();
-
608 mNumDeaths += deaths_this_step;
-
609 LOG(1, "\tNum deaths = " << mNumDeaths << "\n");
-
610 CellBasedEventHandler::EndEvent(CellBasedEventHandler::DEATH);
-
611
-
612 // Divide cells
-
613 CellBasedEventHandler::BeginEvent(CellBasedEventHandler::BIRTH);
-
614 unsigned births_this_step = DoCellBirth();
-
615 mNumBirths += births_this_step;
-
616 LOG(1, "\tNum births = " << mNumBirths << "\n");
-
617 CellBasedEventHandler::EndEvent(CellBasedEventHandler::BIRTH);
-
618
-
619 // This allows NodeBasedCellPopulation::Update() to do the minimum amount of work
-
620 bool births_or_death_occurred = ((births_this_step>0) || (deaths_this_step>0));
+
531 // Increment simulation time here, so results files look sensible
+
532 p_simulation_time->IncrementTimeOneStep();
+
533
+
534 /* Call UpdateAtEndOfTimeStep() on each modifier */
+
535 CellBasedEventHandler::BeginEvent(CellBasedEventHandler::UPDATESIMULATION);
+
536 for (typename std::vector<boost::shared_ptr<AbstractCellBasedSimulationModifier<ELEMENT_DIM, SPACE_DIM> > >::iterator iter = mSimulationModifiers.begin();
+
537 iter != mSimulationModifiers.end();
+
538 ++iter)
+
539 {
+
540 (*iter)->UpdateAtEndOfTimeStep(this->mrCellPopulation);
+
541 }
+
542 CellBasedEventHandler::EndEvent(CellBasedEventHandler::UPDATESIMULATION);
+
543
+
544 // Output current results to file
+
545 CellBasedEventHandler::BeginEvent(CellBasedEventHandler::OUTPUT);
+
546 if (p_simulation_time->GetTimeStepsElapsed()%mSamplingTimestepMultiple == 0)// should be at_sampling_timestep !
+
547 {
+
548 mrCellPopulation.WriteResultsToFiles(results_directory+"/");
+
549
+
550 // Call UpdateAtEndOfOutputTimeStep() on each modifier
+
551 for (typename std::vector<boost::shared_ptr<AbstractCellBasedSimulationModifier<ELEMENT_DIM, SPACE_DIM> > >::iterator iter = mSimulationModifiers.begin();
+
552 iter != mSimulationModifiers.end();
+
553 ++iter)
+
554 {
+
555 (*iter)->UpdateAtEndOfOutputTimeStep(this->mrCellPopulation);
+
556 }
+
557 }
+
558 CellBasedEventHandler::EndEvent(CellBasedEventHandler::OUTPUT);
+
559 }
+
560
+
561 LOG(1, "--END TIME = " << p_simulation_time->GetTime() << "\n");
+
562
+
563 /*
+
564 * Carry out a final update so that cell population is coherent with new cell positions.
+
565 * Note that cell birth and death still need to be checked because they may be spatially
+
566 * dependent.
+
567 */
+
568 UpdateCellPopulation();
+
569
+
570 CellBasedEventHandler::BeginEvent(CellBasedEventHandler::UPDATESIMULATION);
+
571 // Call UpdateAtEndOfSolve(), on each modifier
+
572 for (typename std::vector<boost::shared_ptr<AbstractCellBasedSimulationModifier<ELEMENT_DIM, SPACE_DIM> > >::iterator iter = mSimulationModifiers.begin();
+
573 iter != mSimulationModifiers.end();
+
574 ++iter)
+
575 {
+
576 (*iter)->UpdateAtEndOfSolve(this->mrCellPopulation);
+
577 }
+
578 CellBasedEventHandler::EndEvent(CellBasedEventHandler::UPDATESIMULATION);
+
579
+
580 CellBasedEventHandler::BeginEvent(CellBasedEventHandler::OUTPUT);
+
581
+
582 mrCellPopulation.CloseWritersFiles();
+
583
+
584 if (mOutputCellVelocities)
+
585 {
+
586 mpCellVelocitiesFile->close();
+
587 }
+
588
+
589 if (PetscTools::AmMaster())
+
590 {
+
591 *mpVizSetupFile << "Complete\n";
+
592 mpVizSetupFile->close();
+
593 }
+
594
+
595 CellBasedEventHandler::EndEvent(CellBasedEventHandler::OUTPUT);
+
596 CellBasedEventHandler::EndEvent(CellBasedEventHandler::EVERYTHING);
+
597}
+
598
+
599template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
+ +
604
+
605template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
+
+
606void AbstractCellBasedSimulation<ELEMENT_DIM,SPACE_DIM>::UpdateCellPopulation()
+
607{
+
608 // Remove dead cells
+
609 CellBasedEventHandler::BeginEvent(CellBasedEventHandler::DEATH);
+
610 unsigned deaths_this_step = DoCellRemoval();
+
611 mNumDeaths += deaths_this_step;
+
612 LOG(1, "\tNum deaths = " << mNumDeaths << "\n");
+
613 CellBasedEventHandler::EndEvent(CellBasedEventHandler::DEATH);
+
614
+
615 // Divide cells
+
616 CellBasedEventHandler::BeginEvent(CellBasedEventHandler::BIRTH);
+
617 unsigned births_this_step = DoCellBirth();
+
618 mNumBirths += births_this_step;
+
619 LOG(1, "\tNum births = " << mNumBirths << "\n");
+
620 CellBasedEventHandler::EndEvent(CellBasedEventHandler::BIRTH);
621
-
622 // Update topology of cell population
-
623 CellBasedEventHandler::BeginEvent(CellBasedEventHandler::UPDATECELLPOPULATION);
-
624 SimulationTime* p_time = SimulationTime::Instance();
-
625 if (mUpdateCellPopulation && (p_time->GetTimeStepsElapsed() % mUpdatingTimestepMultiple == 0) )
-
626 {
-
627 LOG(1, "\tUpdating cell population...");
-
628 mrCellPopulation.Update(births_or_death_occurred);
-
629 LOG(1, "\tdone.\n");
-
630 }
-
631 else if (births_or_death_occurred)
-
632 {
-
633 if (!mUpdateCellPopulation)
-
634 {
-
635 EXCEPTION("CellPopulation has had births or deaths but mUpdateCellPopulation is set to false, please set it to true.");
-
636 }
-
637 else if ((p_time->GetTimeStepsElapsed() % mUpdatingTimestepMultiple != 0))
-
638 {
-
639 EXCEPTION("CellPopulation has had births or deaths but you were on a non update step, make sure your cell cycle model and killer only operate on update steps.");
-
640 }
-
641 else
-
642 {
-
643 NEVER_REACHED;
-
644 }
-
645 }
-
646 CellBasedEventHandler::EndEvent(CellBasedEventHandler::UPDATECELLPOPULATION);
-
647}
-
-
648
-
649template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
-
-
650bool AbstractCellBasedSimulation<ELEMENT_DIM,SPACE_DIM>::GetOutputDivisionLocations()
-
651{
-
652 return mOutputDivisionLocations;
-
653}
-
-
654
-
655template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
-
-
656void AbstractCellBasedSimulation<ELEMENT_DIM,SPACE_DIM>::SetOutputDivisionLocations(bool outputDivisionLocations)
-
657{
-
658 mOutputDivisionLocations = outputDivisionLocations;
-
659}
-
-
660
-
661template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
-
-
662bool AbstractCellBasedSimulation<ELEMENT_DIM,SPACE_DIM>::GetOutputCellVelocities()
-
663{
-
664 return mOutputCellVelocities;
-
665}
-
-
666
-
667template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
-
-
668void AbstractCellBasedSimulation<ELEMENT_DIM,SPACE_DIM>::SetOutputCellVelocities(bool outputCellVelocities)
-
669{
-
670 mOutputCellVelocities = outputCellVelocities;
-
671}
-
-
672
-
673template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
-
-
674void AbstractCellBasedSimulation<ELEMENT_DIM,SPACE_DIM>::OutputSimulationSetup()
-
675{
-
676 OutputFileHandler output_file_handler(this->mSimulationOutputDirectory + "/", false);
-
677
-
678 // Output machine information
-
679 ExecutableSupport::SetOutputDirectory(output_file_handler.GetOutputDirectoryFullPath());
-
680 ExecutableSupport::WriteMachineInfoFile("system_info");
-
681
-
682 if (PetscTools::AmMaster())
-
683 {
-
684 // Output Chaste provenance information
-
685 out_stream build_info_file = output_file_handler.OpenOutputFile("build.info");
-
686 std::string build_info;
-
687 ExecutableSupport::GetBuildInfo(build_info);
-
688 *build_info_file << build_info;
-
689 build_info_file->close();
-
690
-
691 // Output simulation parameter and setup details
-
692 out_stream parameter_file = output_file_handler.OpenOutputFile("results.parameters");
+
622 // This allows NodeBasedCellPopulation::Update() to do the minimum amount of work
+
623 bool births_or_death_occurred = ((births_this_step>0) || (deaths_this_step>0));
+
624
+
625 // Update topology of cell population
+
626 CellBasedEventHandler::BeginEvent(CellBasedEventHandler::UPDATECELLPOPULATION);
+
627 SimulationTime* p_time = SimulationTime::Instance();
+
628 if (mUpdateCellPopulation && (p_time->GetTimeStepsElapsed() % mUpdatingTimestepMultiple == 0) )
+
629 {
+
630 LOG(1, "\tUpdating cell population...");
+
631 mrCellPopulation.Update(births_or_death_occurred);
+
632 LOG(1, "\tdone.\n");
+
633 }
+
634 else if (births_or_death_occurred)
+
635 {
+
636 if (!mUpdateCellPopulation)
+
637 {
+
638 EXCEPTION("CellPopulation has had births or deaths but mUpdateCellPopulation is set to false, please set it to true.");
+
639 }
+
640 else if ((p_time->GetTimeStepsElapsed() % mUpdatingTimestepMultiple != 0))
+
641 {
+
642 EXCEPTION("CellPopulation has had births or deaths but you were on a non update step, make sure your cell cycle model and killer only operate on update steps.");
+
643 }
+
644 else
+
645 {
+
646 NEVER_REACHED;
+
647 }
+
648 }
+
649 CellBasedEventHandler::EndEvent(CellBasedEventHandler::UPDATECELLPOPULATION);
+
650}
+
+
651
+
652template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
+
+
653bool AbstractCellBasedSimulation<ELEMENT_DIM,SPACE_DIM>::GetOutputDivisionLocations()
+
654{
+
655 return mOutputDivisionLocations;
+
656}
+
+
657
+
658template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
+
+
659void AbstractCellBasedSimulation<ELEMENT_DIM,SPACE_DIM>::SetOutputDivisionLocations(bool outputDivisionLocations)
+
660{
+
661 mOutputDivisionLocations = outputDivisionLocations;
+
662}
+
+
663
+
664template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
+
+
665bool AbstractCellBasedSimulation<ELEMENT_DIM,SPACE_DIM>::GetOutputCellVelocities()
+
666{
+
667 return mOutputCellVelocities;
+
668}
+
+
669
+
670template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
+
+
671void AbstractCellBasedSimulation<ELEMENT_DIM,SPACE_DIM>::SetOutputCellVelocities(bool outputCellVelocities)
+
672{
+
673 mOutputCellVelocities = outputCellVelocities;
+
674}
+
+
675
+
676template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
+
+
677void AbstractCellBasedSimulation<ELEMENT_DIM,SPACE_DIM>::OutputSimulationSetup()
+
678{
+
679 OutputFileHandler output_file_handler(this->mSimulationOutputDirectory + "/", false);
+
680
+
681 // Output machine information
+
682 ExecutableSupport::SetOutputDirectory(output_file_handler.GetOutputDirectoryFullPath());
+
683 ExecutableSupport::WriteMachineInfoFile("system_info");
+
684
+
685 if (PetscTools::AmMaster())
+
686 {
+
687 // Output Chaste provenance information
+
688 out_stream build_info_file = output_file_handler.OpenOutputFile("build.info");
+
689 std::string build_info;
+
690 ExecutableSupport::GetBuildInfo(build_info);
+
691 *build_info_file << build_info;
+
692 build_info_file->close();
693
-
694 // Output simulation details
-
695 std::string simulation_type = GetIdentifier();
+
694 // Output simulation parameter and setup details
+
695 out_stream parameter_file = output_file_handler.OpenOutputFile("results.parameters");
696
-
697 *parameter_file << "<Chaste>\n";
-
698 *parameter_file << "\n\t<" << simulation_type << ">\n";
-
699 OutputSimulationParameters(parameter_file);
-
700 *parameter_file << "\t</" << simulation_type << ">\n";
-
701 *parameter_file << "\n";
-
702
-
703 // Output cell population details (includes cell-cycle model details)
-
704 mrCellPopulation.OutputCellPopulationInfo(parameter_file);
+
697 // Output simulation details
+
698 std::string simulation_type = GetIdentifier();
+
699
+
700 *parameter_file << "<Chaste>\n";
+
701 *parameter_file << "\n\t<" << simulation_type << ">\n";
+
702 OutputSimulationParameters(parameter_file);
+
703 *parameter_file << "\t</" << simulation_type << ">\n";
+
704 *parameter_file << "\n";
705
-
706 // Loop over cell killers
-
707 *parameter_file << "\n\t<CellKillers>\n";
-
708 for (typename std::vector<boost::shared_ptr<AbstractCellKiller<SPACE_DIM> > >::iterator iter = mCellKillers.begin();
-
709 iter != mCellKillers.end();
-
710 ++iter)
-
711 {
-
712 // Output cell killer details
-
713 (*iter)->OutputCellKillerInfo(parameter_file);
-
714 }
-
715 *parameter_file << "\t</CellKillers>\n";
-
716
-
717 // Iterate over simulationmodifiers
-
718 *parameter_file << "\n\t<SimulationModifiers>\n";
-
719 for (typename std::vector<boost::shared_ptr<AbstractCellBasedSimulationModifier<ELEMENT_DIM, SPACE_DIM> > >::iterator iter = mSimulationModifiers.begin();
-
720 iter != mSimulationModifiers.end();
-
721 ++iter)
-
722 {
-
723 // Output simulation modifier details
-
724 (*iter)->OutputSimulationModifierInfo(parameter_file);
-
725 }
-
726 *parameter_file << "\t</SimulationModifiers>\n";
-
727
-
728 // This is used to output information about subclasses
-
729 OutputAdditionalSimulationSetup(parameter_file);
+
706 // Output cell population details (includes cell-cycle model details)
+
707 mrCellPopulation.OutputCellPopulationInfo(parameter_file);
+
708
+
709 // Loop over cell killers
+
710 *parameter_file << "\n\t<CellKillers>\n";
+
711 for (typename std::vector<boost::shared_ptr<AbstractCellKiller<SPACE_DIM> > >::iterator iter = mCellKillers.begin();
+
712 iter != mCellKillers.end();
+
713 ++iter)
+
714 {
+
715 // Output cell killer details
+
716 (*iter)->OutputCellKillerInfo(parameter_file);
+
717 }
+
718 *parameter_file << "\t</CellKillers>\n";
+
719
+
720 // Iterate over simulationmodifiers
+
721 *parameter_file << "\n\t<SimulationModifiers>\n";
+
722 for (typename std::vector<boost::shared_ptr<AbstractCellBasedSimulationModifier<ELEMENT_DIM, SPACE_DIM> > >::iterator iter = mSimulationModifiers.begin();
+
723 iter != mSimulationModifiers.end();
+
724 ++iter)
+
725 {
+
726 // Output simulation modifier details
+
727 (*iter)->OutputSimulationModifierInfo(parameter_file);
+
728 }
+
729 *parameter_file << "\t</SimulationModifiers>\n";
730
-
731 *parameter_file << "\n</Chaste>\n";
-
732 parameter_file->close();
-
733 }
-
734}
+
731 // This is used to output information about subclasses
+
732 OutputAdditionalSimulationSetup(parameter_file);
+
733
+
734 *parameter_file << "\n</Chaste>\n";
+
735 parameter_file->close();
+
736 }
+
737}
-
735
-
736template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
-
-
737void AbstractCellBasedSimulation<ELEMENT_DIM,SPACE_DIM>::OutputSimulationParameters(out_stream& rParamsFile)
-
738{
-
739 *rParamsFile << "\t\t<Dt>" << mDt << "</Dt>\n";
-
740 *rParamsFile << "\t\t<EndTime>" << mEndTime << "</EndTime>\n";
-
741 *rParamsFile << "\t\t<UpdateCellPopulation>" << mUpdateCellPopulation << "</UpdateCellPopulation>\n";
-
742 *rParamsFile << "\t\t<SamplingTimestepMultiple>" << mSamplingTimestepMultiple << "</SamplingTimestepMultiple>\n";
-
743 *rParamsFile << "\t\t<UpdatingTimestepMultiple>" << mUpdatingTimestepMultiple << "</UpdatingTimestepMultiple>\n";
-
744 *rParamsFile << "\t\t<OutputDivisionLocations>" << mOutputDivisionLocations << "</OutputDivisionLocations>\n";
-
745 *rParamsFile << "\t\t<OutputCellVelocities>" << mOutputCellVelocities << "</OutputCellVelocities>\n";
-
746}
+
738
+
739template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
+
+
740void AbstractCellBasedSimulation<ELEMENT_DIM,SPACE_DIM>::OutputSimulationParameters(out_stream& rParamsFile)
+
741{
+
742 *rParamsFile << "\t\t<Dt>" << mDt << "</Dt>\n";
+
743 *rParamsFile << "\t\t<EndTime>" << mEndTime << "</EndTime>\n";
+
744 *rParamsFile << "\t\t<UpdateCellPopulation>" << mUpdateCellPopulation << "</UpdateCellPopulation>\n";
+
745 *rParamsFile << "\t\t<SamplingTimestepMultiple>" << mSamplingTimestepMultiple << "</SamplingTimestepMultiple>\n";
+
746 *rParamsFile << "\t\t<UpdatingTimestepMultiple>" << mUpdatingTimestepMultiple << "</UpdatingTimestepMultiple>\n";
+
747 *rParamsFile << "\t\t<OutputDivisionLocations>" << mOutputDivisionLocations << "</OutputDivisionLocations>\n";
+
748 *rParamsFile << "\t\t<OutputCellVelocities>" << mOutputCellVelocities << "</OutputCellVelocities>\n";
+
749}
-
747
-
748// Explicit instantiation
-
749template class AbstractCellBasedSimulation<1,1>;
-
750template class AbstractCellBasedSimulation<1,2>;
-
751template class AbstractCellBasedSimulation<2,2>;
-
752template class AbstractCellBasedSimulation<1,3>;
-
753template class AbstractCellBasedSimulation<2,3>;
-
754template class AbstractCellBasedSimulation<3,3>;
+
750
+
751// Explicit instantiation
+
752template class AbstractCellBasedSimulation<1,1>;
+
753template class AbstractCellBasedSimulation<1,2>;
+
754template class AbstractCellBasedSimulation<2,2>;
+
755template class AbstractCellBasedSimulation<1,3>;
+
756template class AbstractCellBasedSimulation<2,3>;
+
757template class AbstractCellBasedSimulation<3,3>;
@@ -953,24 +956,24 @@
AbstractCellBasedSimulation::mrCellPopulation
AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > & mrCellPopulation
Definition AbstractCellBasedSimulation.hpp:120
AbstractCellBasedSimulation::SetUpdateCellPopulationRule
void SetUpdateCellPopulationRule(bool updateCellPopulation)
Definition AbstractCellBasedSimulation.cpp:248
-
AbstractCellBasedSimulation::SetOutputCellVelocities
void SetOutputCellVelocities(bool outputCellVelocities)
Definition AbstractCellBasedSimulation.cpp:668
+
AbstractCellBasedSimulation::SetOutputCellVelocities
void SetOutputCellVelocities(bool outputCellVelocities)
Definition AbstractCellBasedSimulation.cpp:671
AbstractCellBasedSimulation::SetUpdatingTimestepMultiple
void SetUpdatingTimestepMultiple(unsigned updatingTimestepMultiple)
Definition AbstractCellBasedSimulation.cpp:229
- +
AbstractCellBasedSimulation::rGetCellPopulation
AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > & rGetCellPopulation()
Definition AbstractCellBasedSimulation.cpp:236
AbstractCellBasedSimulation::GetSimulationModifiers
std::vector< boost::shared_ptr< AbstractCellBasedSimulationModifier< ELEMENT_DIM, SPACE_DIM > > > * GetSimulationModifiers()
Definition AbstractCellBasedSimulation.cpp:284
- +
AbstractCellBasedSimulation::AddSimulationModifier
void AddSimulationModifier(boost::shared_ptr< AbstractCellBasedSimulationModifier< ELEMENT_DIM, SPACE_DIM > > pSimulationModifier)
Definition AbstractCellBasedSimulation.cpp:278
AbstractCellBasedSimulation::AddTopologyUpdateSimulationModifier
void AddTopologyUpdateSimulationModifier(boost::shared_ptr< AbstractCellBasedSimulationModifier< ELEMENT_DIM, SPACE_DIM > > pSimulationModifier)
Definition AbstractCellBasedSimulation.cpp:290
-
AbstractCellBasedSimulation::OutputSimulationParameters
virtual void OutputSimulationParameters(out_stream &rParamsFile)=0
Definition AbstractCellBasedSimulation.cpp:737
- - +
AbstractCellBasedSimulation::OutputSimulationParameters
virtual void OutputSimulationParameters(out_stream &rParamsFile)=0
Definition AbstractCellBasedSimulation.cpp:740
+ + - +
AbstractCellBasedSimulation::SetOutputDirectory
void SetOutputDirectory(std::string outputDirectory)
Definition AbstractCellBasedSimulation.cpp:209
AbstractCellBasedSimulation::AddCellKiller
void AddCellKiller(boost::shared_ptr< AbstractCellKiller< SPACE_DIM > > pCellKiller)
Definition AbstractCellBasedSimulation.cpp:266
@@ -984,7 +987,7 @@
AbstractCellBasedSimulation::SetSamplingTimestepMultiple
void SetSamplingTimestepMultiple(unsigned samplingTimestepMultiple)
Definition AbstractCellBasedSimulation.cpp:222
-
AbstractCellBasedSimulation::SetOutputDivisionLocations
void SetOutputDivisionLocations(bool outputDivisionLocations)
Definition AbstractCellBasedSimulation.cpp:656
+
AbstractCellBasedSimulation::SetOutputDivisionLocations
void SetOutputDivisionLocations(bool outputDivisionLocations)
Definition AbstractCellBasedSimulation.cpp:659
diff --git a/site/AbstractCellBasedSimulation_8hpp_source.html b/site/AbstractCellBasedSimulation_8hpp_source.html index 384e9280c..b138dbf89 100644 --- a/site/AbstractCellBasedSimulation_8hpp_source.html +++ b/site/AbstractCellBasedSimulation_8hpp_source.html @@ -23,7 +23,7 @@ Logo -
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AbstractCellBasedSimulation::UpdateCellLocationsAndTopology
virtual void UpdateCellLocationsAndTopology()=0
AbstractCellBasedSimulation::mCellKillers
std::vector< boost::shared_ptr< AbstractCellKiller< SPACE_DIM > > > mCellKillers
Definition AbstractCellBasedSimulation.hpp:165
-
AbstractCellBasedSimulation::SetOutputCellVelocities
void SetOutputCellVelocities(bool outputCellVelocities)
Definition AbstractCellBasedSimulation.cpp:668
+
AbstractCellBasedSimulation::SetOutputCellVelocities
void SetOutputCellVelocities(bool outputCellVelocities)
Definition AbstractCellBasedSimulation.cpp:671
AbstractCellBasedSimulation::SetUpdatingTimestepMultiple
void SetUpdatingTimestepMultiple(unsigned updatingTimestepMultiple)
Definition AbstractCellBasedSimulation.cpp:229
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AbstractCellBasedSimulation::rGetCellPopulation
AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > & rGetCellPopulation()
Definition AbstractCellBasedSimulation.cpp:236
@@ -320,21 +320,21 @@
AbstractCellBasedSimulation::GetSimulationModifiers
std::vector< boost::shared_ptr< AbstractCellBasedSimulationModifier< ELEMENT_DIM, SPACE_DIM > > > * GetSimulationModifiers()
Definition AbstractCellBasedSimulation.cpp:284
AbstractCellBasedSimulation::mTopologyUpdateSimulationModifiers
std::vector< boost::shared_ptr< AbstractCellBasedSimulationModifier< ELEMENT_DIM, SPACE_DIM > > > mTopologyUpdateSimulationModifiers
Definition AbstractCellBasedSimulation.hpp:173
- +
AbstractCellBasedSimulation::AddSimulationModifier
void AddSimulationModifier(boost::shared_ptr< AbstractCellBasedSimulationModifier< ELEMENT_DIM, SPACE_DIM > > pSimulationModifier)
Definition AbstractCellBasedSimulation.cpp:278
AbstractCellBasedSimulation::serialize
void serialize(Archive &archive, const unsigned int version)
Definition AbstractCellBasedSimulation.hpp:87
AbstractCellBasedSimulation::AddTopologyUpdateSimulationModifier
void AddTopologyUpdateSimulationModifier(boost::shared_ptr< AbstractCellBasedSimulationModifier< ELEMENT_DIM, SPACE_DIM > > pSimulationModifier)
Definition AbstractCellBasedSimulation.cpp:290
-
AbstractCellBasedSimulation::OutputSimulationParameters
virtual void OutputSimulationParameters(out_stream &rParamsFile)=0
Definition AbstractCellBasedSimulation.cpp:737
+
AbstractCellBasedSimulation::OutputSimulationParameters
virtual void OutputSimulationParameters(out_stream &rParamsFile)=0
Definition AbstractCellBasedSimulation.cpp:740
AbstractCellBasedSimulation::OutputAdditionalSimulationSetup
virtual void OutputAdditionalSimulationSetup(out_stream &rParamsFile)=0
- - + + - +
AbstractCellBasedSimulation::SetOutputDirectory
void SetOutputDirectory(std::string outputDirectory)
Definition AbstractCellBasedSimulation.cpp:209
@@ -356,7 +356,7 @@
AbstractCellBasedSimulation::SetSamplingTimestepMultiple
void SetSamplingTimestepMultiple(unsigned samplingTimestepMultiple)
Definition AbstractCellBasedSimulation.cpp:222
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AbstractCellBasedSimulation::SetOutputDivisionLocations
void SetOutputDivisionLocations(bool outputDivisionLocations)
Definition AbstractCellBasedSimulation.cpp:656
+
AbstractCellBasedSimulation::SetOutputDivisionLocations
void SetOutputDivisionLocations(bool outputDivisionLocations)
Definition AbstractCellBasedSimulation.cpp:659
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@@ -401,7 +401,7 @@
EXPORT_TEMPLATE_CLASS_ALL_DIMS
#define EXPORT_TEMPLATE_CLASS_ALL_DIMS(CLASS)
Definition SerializationExportWrapper.hpp:358
-
AbstractCellBasedSimulation::OutputSimulationParameters
virtual void OutputSimulationParameters(out_stream &rParamsFile)=0
Definition AbstractCellBasedSimulation.cpp:737
+
AbstractCellBasedSimulation::OutputSimulationParameters
virtual void OutputSimulationParameters(out_stream &rParamsFile)=0
Definition AbstractCellBasedSimulation.cpp:740
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EXPORT_TEMPLATE_CLASS_SAME_DIMS
#define EXPORT_TEMPLATE_CLASS_SAME_DIMS(CLASS)
Definition SerializationExportWrapper.hpp:352
- -
AbstractCellBasedSimulation::OutputSimulationParameters
virtual void OutputSimulationParameters(out_stream &rParamsFile)=0
Definition AbstractCellBasedSimulation.cpp:737
+ +
AbstractCellBasedSimulation::OutputSimulationParameters
virtual void OutputSimulationParameters(out_stream &rParamsFile)=0
Definition AbstractCellBasedSimulation.cpp:740
AbstractOnLatticeCellPopulation::GetUpdateRuleCollection
virtual const std::vector< boost::shared_ptr< AbstractUpdateRule< DIM > > > GetUpdateRuleCollection() const
Definition AbstractOnLatticeCellPopulation.cpp:125
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@@ -596,7 +596,7 @@

Returns
mOutputCellVelocities
-

Definition at line 662 of file AbstractCellBasedSimulation.cpp.

+

Definition at line 665 of file AbstractCellBasedSimulation.cpp.

@@ -640,7 +640,7 @@

Returns
mOutputDivisionLocations
-

Definition at line 650 of file AbstractCellBasedSimulation.cpp.

+

Definition at line 653 of file AbstractCellBasedSimulation.cpp.

@@ -785,7 +785,7 @@

OffLatticeSimulation< ELEMENT_DIM, SPACE_DIM >, OffLatticeSimulation< 1 >, OffLatticeSimulation< 2 >, OnLatticeSimulation< DIM >, CryptSimulation1d, and CryptSimulation2d.

-

Definition at line 737 of file AbstractCellBasedSimulation.cpp.

+

Definition at line 740 of file AbstractCellBasedSimulation.cpp.

Referenced by OffLatticeSimulation< ELEMENT_DIM, SPACE_DIM >::OutputSimulationParameters(), and OnLatticeSimulation< DIM >::OutputSimulationParameters().

@@ -817,7 +817,7 @@

Helper method to output all the simulations parameters and information to file.

-

Definition at line 674 of file AbstractCellBasedSimulation.cpp.

+

Definition at line 677 of file AbstractCellBasedSimulation.cpp.

References PetscTools::AmMaster(), ExecutableSupport::GetBuildInfo(), OutputFileHandler::GetOutputDirectoryFullPath(), OutputFileHandler::OpenOutputFile(), ExecutableSupport::SetOutputDirectory(), and ExecutableSupport::WriteMachineInfoFile().

@@ -1053,7 +1053,7 @@

Definition at line 668 of file AbstractCellBasedSimulation.cpp.

+

Definition at line 671 of file AbstractCellBasedSimulation.cpp.

@@ -1111,7 +1111,7 @@

Definition at line 656 of file AbstractCellBasedSimulation.cpp.

+

Definition at line 659 of file AbstractCellBasedSimulation.cpp.

@@ -1295,7 +1295,7 @@

A child class can overload this if they want the simulation to stop based on certain conditions before the specified end time (for example, run until a crypt becomes monoclonal).

Returns
true if stopping event has occurred
-

Definition at line 597 of file AbstractCellBasedSimulation.cpp.

+

Definition at line 600 of file AbstractCellBasedSimulation.cpp.

@@ -1360,7 +1360,7 @@

OnLatticeSimulation< DIM >.

-

Definition at line 603 of file AbstractCellBasedSimulation.cpp.

+

Definition at line 606 of file AbstractCellBasedSimulation.cpp.

References GenericEventHandler< 11, CellBasedEventHandler >::BeginEvent(), GenericEventHandler< 11, CellBasedEventHandler >::EndEvent(), EXCEPTION, SimulationTime::GetTimeStepsElapsed(), SimulationTime::Instance(), and NEVER_REACHED.

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diff --git a/site/classAbstractCellKiller-members.html b/site/classAbstractCellKiller-members.html index 289ed4d9b..708dcc713 100644 --- a/site/classAbstractCellKiller-members.html +++ b/site/classAbstractCellKiller-members.html @@ -23,7 +23,7 @@ Logo -
Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
diff --git a/site/classAbstractCellKiller.html b/site/classAbstractCellKiller.html index 262a591c7..08eae7f2b 100644 --- a/site/classAbstractCellKiller.html +++ b/site/classAbstractCellKiller.html @@ -23,7 +23,7 @@ Logo -
Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
diff --git a/site/classAbstractCellMutationState-members.html b/site/classAbstractCellMutationState-members.html index 70c32b3c1..f4ddf1535 100644 --- a/site/classAbstractCellMutationState-members.html +++ b/site/classAbstractCellMutationState-members.html @@ -23,7 +23,7 @@ Logo -
Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
diff --git a/site/classAbstractCellMutationState.html b/site/classAbstractCellMutationState.html index 2c36f686a..0f78a239f 100644 --- a/site/classAbstractCellMutationState.html +++ b/site/classAbstractCellMutationState.html @@ -23,7 +23,7 @@ Logo -
Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
diff --git a/site/classAbstractCellPopulation-members.html b/site/classAbstractCellPopulation-members.html index a2b45f468..8bb60ec2b 100644 --- a/site/classAbstractCellPopulation-members.html +++ b/site/classAbstractCellPopulation-members.html @@ -23,7 +23,7 @@ Logo -
Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
diff --git a/site/classAbstractCellPopulation.html b/site/classAbstractCellPopulation.html index 8b0793509..62f0ecf8e 100644 --- a/site/classAbstractCellPopulation.html +++ b/site/classAbstractCellPopulation.html @@ -23,7 +23,7 @@ Logo -
Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
@@ -1588,7 +1588,7 @@

Get the cell corresponding to a given location index.

-

This method assumes that there is at most one cell attached to a location index and an assertion fails if not.

Todo:
should be an exception?
+

This method assumes that there is at most one cell attached to a location index and an assertion fails if not.

Todo:
should be an exception?
Parameters
@@ -2616,9 +2616,9 @@

Todo:
this currently ignores different parameter regimes (#1453)
-

Loop over cells and generate a set of SRN model classes that are present in the population.

Todo:
this currently ignores different parameter regimes (#1453)
+

Loop over cells and generate a set of SRN model classes that are present in the population.

+
Todo:
this currently ignores different parameter regimes (#1453)

Definition at line 731 of file AbstractCellPopulation.cpp.

diff --git a/site/classAbstractCellPopulationBoundaryCondition-members.html b/site/classAbstractCellPopulationBoundaryCondition-members.html index bdc4302cc..3f0524b8a 100644 --- a/site/classAbstractCellPopulationBoundaryCondition-members.html +++ b/site/classAbstractCellPopulationBoundaryCondition-members.html @@ -23,7 +23,7 @@

diff --git a/site/classAbstractCellPopulationBoundaryCondition.html b/site/classAbstractCellPopulationBoundaryCondition.html index 2452ae392..a4e17fdfe 100644 --- a/site/classAbstractCellPopulationBoundaryCondition.html +++ b/site/classAbstractCellPopulationBoundaryCondition.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCellPopulationCountWriter-members.html b/site/classAbstractCellPopulationCountWriter-members.html index e8264e509..5acb8020d 100644 --- a/site/classAbstractCellPopulationCountWriter-members.html +++ b/site/classAbstractCellPopulationCountWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCellPopulationCountWriter.html b/site/classAbstractCellPopulationCountWriter.html index a04705963..5db325e3f 100644 --- a/site/classAbstractCellPopulationCountWriter.html +++ b/site/classAbstractCellPopulationCountWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCellPopulationEventWriter-members.html b/site/classAbstractCellPopulationEventWriter-members.html index 979b56c8c..874379ddd 100644 --- a/site/classAbstractCellPopulationEventWriter-members.html +++ b/site/classAbstractCellPopulationEventWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCellPopulationEventWriter.html b/site/classAbstractCellPopulationEventWriter.html index 8bdb9972e..6453a200b 100644 --- a/site/classAbstractCellPopulationEventWriter.html +++ b/site/classAbstractCellPopulationEventWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCellPopulationWriter-members.html b/site/classAbstractCellPopulationWriter-members.html index 0e5509f6c..fad7ec208 100644 --- a/site/classAbstractCellPopulationWriter-members.html +++ b/site/classAbstractCellPopulationWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCellPopulationWriter.html b/site/classAbstractCellPopulationWriter.html index 575e9f557..5a83e3a27 100644 --- a/site/classAbstractCellPopulationWriter.html +++ b/site/classAbstractCellPopulationWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCellPopulation_1_1Iterator-members.html b/site/classAbstractCellPopulation_1_1Iterator-members.html index 8c2a6be42..1eaf856c5 100644 --- a/site/classAbstractCellPopulation_1_1Iterator-members.html +++ b/site/classAbstractCellPopulation_1_1Iterator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCellPopulation_1_1Iterator.html b/site/classAbstractCellPopulation_1_1Iterator.html index 1f29ce576..8a6e52709 100644 --- a/site/classAbstractCellPopulation_1_1Iterator.html +++ b/site/classAbstractCellPopulation_1_1Iterator.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCellPopulation_3_01ELEMENT__DIM_00_01SPACE__DIM_01_4_01_5.html b/site/classAbstractCellPopulation_3_01ELEMENT__DIM_00_01SPACE__DIM_01_4_01_5.html index 2d3deaae4..c67a83ecc 100644 --- a/site/classAbstractCellPopulation_3_01ELEMENT__DIM_00_01SPACE__DIM_01_4_01_5.html +++ b/site/classAbstractCellPopulation_3_01ELEMENT__DIM_00_01SPACE__DIM_01_4_01_5.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCellPopulation_3_01ELEMENT__DIM_00_01SPACE__DIM_01_4_01_6.html b/site/classAbstractCellPopulation_3_01ELEMENT__DIM_00_01SPACE__DIM_01_4_01_6.html index bc29b9cd8..ae3fea938 100644 --- a/site/classAbstractCellPopulation_3_01ELEMENT__DIM_00_01SPACE__DIM_01_4_01_6.html +++ b/site/classAbstractCellPopulation_3_01ELEMENT__DIM_00_01SPACE__DIM_01_4_01_6.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCellProliferativeType-members.html b/site/classAbstractCellProliferativeType-members.html index 32019f8ef..93079caae 100644 --- a/site/classAbstractCellProliferativeType-members.html +++ b/site/classAbstractCellProliferativeType-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCellProliferativeType.html b/site/classAbstractCellProliferativeType.html index 3b76a96a6..11bcc2383 100644 --- a/site/classAbstractCellProliferativeType.html +++ b/site/classAbstractCellProliferativeType.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCellProperty-members.html b/site/classAbstractCellProperty-members.html index 2bc132d5b..58356241f 100644 --- a/site/classAbstractCellProperty-members.html +++ b/site/classAbstractCellProperty-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCellProperty.html b/site/classAbstractCellProperty.html index b74a7ee29..9894a042d 100644 --- a/site/classAbstractCellProperty.html +++ b/site/classAbstractCellProperty.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCellWriter-members.html b/site/classAbstractCellWriter-members.html index 495c164b5..bd14c196b 100644 --- a/site/classAbstractCellWriter-members.html +++ b/site/classAbstractCellWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCellWriter.html b/site/classAbstractCellWriter.html index 87a297db6..93cd361f1 100644 --- a/site/classAbstractCellWriter.html +++ b/site/classAbstractCellWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCentreBasedCellPopulation-members.html b/site/classAbstractCentreBasedCellPopulation-members.html index fa0883dbe..9c10f2d64 100644 --- a/site/classAbstractCentreBasedCellPopulation-members.html +++ b/site/classAbstractCentreBasedCellPopulation-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCentreBasedCellPopulation.html b/site/classAbstractCentreBasedCellPopulation.html index fadddf42c..e78cb9583 100644 --- a/site/classAbstractCentreBasedCellPopulation.html +++ b/site/classAbstractCentreBasedCellPopulation.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCentreBasedDivisionRule-members.html b/site/classAbstractCentreBasedDivisionRule-members.html index d574cc0b8..575e97602 100644 --- a/site/classAbstractCentreBasedDivisionRule-members.html +++ b/site/classAbstractCentreBasedDivisionRule-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCentreBasedDivisionRule.html b/site/classAbstractCentreBasedDivisionRule.html index cc7a48867..1ccf6ab5e 100644 --- a/site/classAbstractCentreBasedDivisionRule.html +++ b/site/classAbstractCentreBasedDivisionRule.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractChasteRegion-members.html b/site/classAbstractChasteRegion-members.html index fc1ec1889..d00b60c60 100644 --- a/site/classAbstractChasteRegion-members.html +++ b/site/classAbstractChasteRegion-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractChasteRegion.html b/site/classAbstractChasteRegion.html index a45e950ea..ee5ade8e3 100644 --- a/site/classAbstractChasteRegion.html +++ b/site/classAbstractChasteRegion.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCompressibleMaterialLaw-members.html b/site/classAbstractCompressibleMaterialLaw-members.html index cd53bc463..855f5c031 100644 --- a/site/classAbstractCompressibleMaterialLaw-members.html +++ b/site/classAbstractCompressibleMaterialLaw-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCompressibleMaterialLaw.html b/site/classAbstractCompressibleMaterialLaw.html index 9270ba0c1..cc9e54c10 100644 --- a/site/classAbstractCompressibleMaterialLaw.html +++ b/site/classAbstractCompressibleMaterialLaw.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractConductivityModifier-members.html b/site/classAbstractConductivityModifier-members.html index 37205014f..ffcbf6005 100644 --- a/site/classAbstractConductivityModifier-members.html +++ b/site/classAbstractConductivityModifier-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractConductivityModifier.html b/site/classAbstractConductivityModifier.html index 1398ed62e..b0447172d 100644 --- a/site/classAbstractConductivityModifier.html +++ b/site/classAbstractConductivityModifier.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractConductivityTensors-members.html b/site/classAbstractConductivityTensors-members.html index 183c55f31..1211d3977 100644 --- a/site/classAbstractConductivityTensors-members.html +++ b/site/classAbstractConductivityTensors-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractConductivityTensors.html b/site/classAbstractConductivityTensors.html index e75d4cf0a..84d53ace4 100644 --- a/site/classAbstractConductivityTensors.html +++ b/site/classAbstractConductivityTensors.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractContinuumMechanicsAssembler-members.html b/site/classAbstractContinuumMechanicsAssembler-members.html index b1db54917..1a00d335c 100644 --- a/site/classAbstractContinuumMechanicsAssembler-members.html +++ b/site/classAbstractContinuumMechanicsAssembler-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractContinuumMechanicsAssembler.html b/site/classAbstractContinuumMechanicsAssembler.html index 1914cba59..5e56aacd7 100644 --- a/site/classAbstractContinuumMechanicsAssembler.html +++ b/site/classAbstractContinuumMechanicsAssembler.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractContinuumMechanicsSolver-members.html b/site/classAbstractContinuumMechanicsSolver-members.html index 55159b6a3..e73f24ef9 100644 --- a/site/classAbstractContinuumMechanicsSolver-members.html +++ b/site/classAbstractContinuumMechanicsSolver-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractContinuumMechanicsSolver.html b/site/classAbstractContinuumMechanicsSolver.html index a87234e93..4a21cf19c 100644 --- a/site/classAbstractContinuumMechanicsSolver.html +++ b/site/classAbstractContinuumMechanicsSolver.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractContractionCellFactory-members.html b/site/classAbstractContractionCellFactory-members.html index c17d6e584..14a1fb17f 100644 --- a/site/classAbstractContractionCellFactory-members.html +++ b/site/classAbstractContractionCellFactory-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractContractionCellFactory.html b/site/classAbstractContractionCellFactory.html index 9313fa9ae..e17fbbeec 100644 --- a/site/classAbstractContractionCellFactory.html +++ b/site/classAbstractContractionCellFactory.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractContractionModel-members.html b/site/classAbstractContractionModel-members.html index 3043ed87c..9adee4ceb 100644 --- a/site/classAbstractContractionModel-members.html +++ b/site/classAbstractContractionModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractContractionModel.html b/site/classAbstractContractionModel.html index 1f2ee111a..1f96313ef 100644 --- a/site/classAbstractContractionModel.html +++ b/site/classAbstractContractionModel.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractConvergenceTester-members.html b/site/classAbstractConvergenceTester-members.html index af25d3507..9cfcd83dc 100644 --- a/site/classAbstractConvergenceTester-members.html +++ b/site/classAbstractConvergenceTester-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractConvergenceTester.html b/site/classAbstractConvergenceTester.html index d8a8e66cc..7dd0af5a6 100644 --- a/site/classAbstractConvergenceTester.html +++ b/site/classAbstractConvergenceTester.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCorrectionTermAssembler-members.html b/site/classAbstractCorrectionTermAssembler-members.html index b5fb9afb9..cf344091b 100644 --- a/site/classAbstractCorrectionTermAssembler-members.html +++ b/site/classAbstractCorrectionTermAssembler-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCorrectionTermAssembler.html b/site/classAbstractCorrectionTermAssembler.html index dd4baf711..3b6a8f658 100644 --- a/site/classAbstractCorrectionTermAssembler.html +++ b/site/classAbstractCorrectionTermAssembler.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCryptStatistics-members.html b/site/classAbstractCryptStatistics-members.html index cccc64e27..ed6870a7b 100644 --- a/site/classAbstractCryptStatistics-members.html +++ b/site/classAbstractCryptStatistics-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCryptStatistics.html b/site/classAbstractCryptStatistics.html index 540e00f68..cce440360 100644 --- a/site/classAbstractCryptStatistics.html +++ b/site/classAbstractCryptStatistics.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCvodeCell-members.html b/site/classAbstractCvodeCell-members.html index c664a648c..b29baf9b7 100644 --- a/site/classAbstractCvodeCell-members.html +++ b/site/classAbstractCvodeCell-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCvodeCell.html b/site/classAbstractCvodeCell.html index 636950b6a..1e3f376eb 100644 --- a/site/classAbstractCvodeCell.html +++ b/site/classAbstractCvodeCell.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCvodeCellWithDataClamp-members.html b/site/classAbstractCvodeCellWithDataClamp-members.html index 7292b52d5..40d6dafa1 100644 --- a/site/classAbstractCvodeCellWithDataClamp-members.html +++ b/site/classAbstractCvodeCellWithDataClamp-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCvodeCellWithDataClamp.html b/site/classAbstractCvodeCellWithDataClamp.html index baea42cb9..ab5dce664 100644 --- a/site/classAbstractCvodeCellWithDataClamp.html +++ b/site/classAbstractCvodeCellWithDataClamp.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCvodeSystem-members.html b/site/classAbstractCvodeSystem-members.html index ebc871847..99bbf3054 100644 --- a/site/classAbstractCvodeSystem-members.html +++ b/site/classAbstractCvodeSystem-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractCvodeSystem.html b/site/classAbstractCvodeSystem.html index 8609436e1..4595bcdf3 100644 --- a/site/classAbstractCvodeSystem.html +++ b/site/classAbstractCvodeSystem.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractDataReader-members.html b/site/classAbstractDataReader-members.html index fb258d77c..7c39c3356 100644 --- a/site/classAbstractDataReader-members.html +++ b/site/classAbstractDataReader-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractDataReader.html b/site/classAbstractDataReader.html index 1236ba539..4cd293cbc 100644 --- a/site/classAbstractDataReader.html +++ b/site/classAbstractDataReader.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractDataWriter-members.html b/site/classAbstractDataWriter-members.html index c0ffc766a..9841ce001 100644 --- a/site/classAbstractDataWriter-members.html +++ b/site/classAbstractDataWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractDataWriter.html b/site/classAbstractDataWriter.html index 08b122d5e..6fde2dacf 100644 --- a/site/classAbstractDataWriter.html +++ b/site/classAbstractDataWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractDynamicLinearPdeSolver-members.html b/site/classAbstractDynamicLinearPdeSolver-members.html index 0ad90a135..42bcb1a48 100644 --- a/site/classAbstractDynamicLinearPdeSolver-members.html +++ b/site/classAbstractDynamicLinearPdeSolver-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractDynamicLinearPdeSolver.html b/site/classAbstractDynamicLinearPdeSolver.html index db5bb8060..1e37fc6d8 100644 --- a/site/classAbstractDynamicLinearPdeSolver.html +++ b/site/classAbstractDynamicLinearPdeSolver.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractDynamicallyLoadableEntity-members.html b/site/classAbstractDynamicallyLoadableEntity-members.html index ebc14bb68..eba97c7d7 100644 --- a/site/classAbstractDynamicallyLoadableEntity-members.html +++ b/site/classAbstractDynamicallyLoadableEntity-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractDynamicallyLoadableEntity.html b/site/classAbstractDynamicallyLoadableEntity.html index aa78fe6ec..a3082570a 100644 --- a/site/classAbstractDynamicallyLoadableEntity.html +++ b/site/classAbstractDynamicallyLoadableEntity.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractElement-members.html b/site/classAbstractElement-members.html index 2e67d0c0a..4086daa20 100644 --- a/site/classAbstractElement-members.html +++ b/site/classAbstractElement-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractElement.html b/site/classAbstractElement.html index bce605509..47a03dabc 100644 --- a/site/classAbstractElement.html +++ b/site/classAbstractElement.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractExtendedBidomainSolver-members.html b/site/classAbstractExtendedBidomainSolver-members.html index c38bc6614..084bc58b4 100644 --- a/site/classAbstractExtendedBidomainSolver-members.html +++ b/site/classAbstractExtendedBidomainSolver-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractExtendedBidomainSolver.html b/site/classAbstractExtendedBidomainSolver.html index 10e21f5b7..5bead19ed 100644 --- a/site/classAbstractExtendedBidomainSolver.html +++ b/site/classAbstractExtendedBidomainSolver.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractFeAssemblerCommon-members.html b/site/classAbstractFeAssemblerCommon-members.html index 005581b6b..90bde2b4e 100644 --- a/site/classAbstractFeAssemblerCommon-members.html +++ b/site/classAbstractFeAssemblerCommon-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractFeAssemblerCommon.html b/site/classAbstractFeAssemblerCommon.html index 99d528bed..6671bff69 100644 --- a/site/classAbstractFeAssemblerCommon.html +++ b/site/classAbstractFeAssemblerCommon.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractFeAssemblerInterface-members.html b/site/classAbstractFeAssemblerInterface-members.html index 7066797b2..cfe9d8fd9 100644 --- a/site/classAbstractFeAssemblerInterface-members.html +++ b/site/classAbstractFeAssemblerInterface-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractFeAssemblerInterface.html b/site/classAbstractFeAssemblerInterface.html index 9965b1ab2..6b5dd2133 100644 --- a/site/classAbstractFeAssemblerInterface.html +++ b/site/classAbstractFeAssemblerInterface.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractFeCableIntegralAssembler-members.html b/site/classAbstractFeCableIntegralAssembler-members.html index f86908bb6..6d90e4ae4 100644 --- a/site/classAbstractFeCableIntegralAssembler-members.html +++ b/site/classAbstractFeCableIntegralAssembler-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractFeCableIntegralAssembler.html b/site/classAbstractFeCableIntegralAssembler.html index a5e5e255d..9375cff40 100644 --- a/site/classAbstractFeCableIntegralAssembler.html +++ b/site/classAbstractFeCableIntegralAssembler.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractFeSurfaceIntegralAssembler-members.html b/site/classAbstractFeSurfaceIntegralAssembler-members.html index b578cbe8e..5f783d13c 100644 --- a/site/classAbstractFeSurfaceIntegralAssembler-members.html +++ b/site/classAbstractFeSurfaceIntegralAssembler-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractFeSurfaceIntegralAssembler.html b/site/classAbstractFeSurfaceIntegralAssembler.html index 820632fbe..0c200c882 100644 --- 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Todo:
#2057 Make better choices..
+
Todo:
#2057 Make better choices..

Definition at line 1566 of file AbstractNonlinearElasticitySolver.hpp.

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a/site/classAbstractOnLatticeCellPopulation-members.html +++ b/site/classAbstractOnLatticeCellPopulation-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractOnLatticeCellPopulation.html b/site/classAbstractOnLatticeCellPopulation.html index 1aa147a60..2cab2aba5 100644 --- a/site/classAbstractOnLatticeCellPopulation.html +++ b/site/classAbstractOnLatticeCellPopulation.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractOneStepIvpOdeSolver-members.html b/site/classAbstractOneStepIvpOdeSolver-members.html index b5ad80f20..4f8326efc 100644 --- a/site/classAbstractOneStepIvpOdeSolver-members.html +++ b/site/classAbstractOneStepIvpOdeSolver-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractOneStepIvpOdeSolver.html b/site/classAbstractOneStepIvpOdeSolver.html index 6e2baf23d..df82d41e8 100644 --- a/site/classAbstractOneStepIvpOdeSolver.html +++ b/site/classAbstractOneStepIvpOdeSolver.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractOutputModifier-members.html b/site/classAbstractOutputModifier-members.html index 7273a8db2..a6708ccba 100644 --- a/site/classAbstractOutputModifier-members.html +++ b/site/classAbstractOutputModifier-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractOutputModifier.html b/site/classAbstractOutputModifier.html index f06edbb4d..00bc949fb 100644 --- a/site/classAbstractOutputModifier.html +++ b/site/classAbstractOutputModifier.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractParameterisedSystem-members.html b/site/classAbstractParameterisedSystem-members.html index 4079d153d..140522368 100644 --- a/site/classAbstractParameterisedSystem-members.html +++ b/site/classAbstractParameterisedSystem-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractParameterisedSystem.html b/site/classAbstractParameterisedSystem.html index c12a1493d..81089eaa0 100644 --- a/site/classAbstractParameterisedSystem.html +++ b/site/classAbstractParameterisedSystem.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractPdeModifier-members.html b/site/classAbstractPdeModifier-members.html index eee5b72f7..0cdaec5d1 100644 --- a/site/classAbstractPdeModifier-members.html +++ b/site/classAbstractPdeModifier-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractPdeModifier.html b/site/classAbstractPdeModifier.html index c0c6f994b..568c19b12 100644 --- a/site/classAbstractPdeModifier.html +++ b/site/classAbstractPdeModifier.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractPerElementWriter-members.html b/site/classAbstractPerElementWriter-members.html index c8b166156..bcd2857e4 100644 --- a/site/classAbstractPerElementWriter-members.html +++ b/site/classAbstractPerElementWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractPerElementWriter.html b/site/classAbstractPerElementWriter.html index 51ba251dc..971c41baa 100644 --- a/site/classAbstractPerElementWriter.html +++ b/site/classAbstractPerElementWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractPhaseBasedCellCycleModel-members.html b/site/classAbstractPhaseBasedCellCycleModel-members.html index 106635d7f..3baddde12 100644 --- a/site/classAbstractPhaseBasedCellCycleModel-members.html +++ b/site/classAbstractPhaseBasedCellCycleModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractPhaseBasedCellCycleModel.html b/site/classAbstractPhaseBasedCellCycleModel.html index ccd10bc18..8cd878b06 100644 --- a/site/classAbstractPhaseBasedCellCycleModel.html +++ b/site/classAbstractPhaseBasedCellCycleModel.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractPottsUpdateRule-members.html b/site/classAbstractPottsUpdateRule-members.html index dc5779dd5..2dd39bf55 100644 --- a/site/classAbstractPottsUpdateRule-members.html +++ b/site/classAbstractPottsUpdateRule-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractPottsUpdateRule.html b/site/classAbstractPottsUpdateRule.html index 97e1ecff8..914f19237 100644 --- a/site/classAbstractPottsUpdateRule.html +++ b/site/classAbstractPottsUpdateRule.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractPurkinjeCellFactory-members.html b/site/classAbstractPurkinjeCellFactory-members.html index 599ee5efa..b6ab0d4af 100644 --- a/site/classAbstractPurkinjeCellFactory-members.html +++ b/site/classAbstractPurkinjeCellFactory-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractPurkinjeCellFactory.html b/site/classAbstractPurkinjeCellFactory.html index 25499949d..31a969413 100644 --- a/site/classAbstractPurkinjeCellFactory.html +++ b/site/classAbstractPurkinjeCellFactory.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractRushLarsenCardiacCell-members.html b/site/classAbstractRushLarsenCardiacCell-members.html index 735e6a8dd..a15eea4fe 100644 --- a/site/classAbstractRushLarsenCardiacCell-members.html +++ b/site/classAbstractRushLarsenCardiacCell-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractRushLarsenCardiacCell.html b/site/classAbstractRushLarsenCardiacCell.html index 1b9f341ce..f77483403 100644 --- a/site/classAbstractRushLarsenCardiacCell.html +++ b/site/classAbstractRushLarsenCardiacCell.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractSimpleCellCycleModel-members.html b/site/classAbstractSimpleCellCycleModel-members.html index 3fcff1ca4..70f64610b 100644 --- a/site/classAbstractSimpleCellCycleModel-members.html +++ b/site/classAbstractSimpleCellCycleModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractSimpleCellCycleModel.html b/site/classAbstractSimpleCellCycleModel.html index 0e37b2cde..dfaaf2483 100644 --- a/site/classAbstractSimpleCellCycleModel.html +++ b/site/classAbstractSimpleCellCycleModel.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractSimpleGenerationalCellCycleModel-members.html b/site/classAbstractSimpleGenerationalCellCycleModel-members.html index f7210fb4b..866b7a726 100644 --- a/site/classAbstractSimpleGenerationalCellCycleModel-members.html +++ b/site/classAbstractSimpleGenerationalCellCycleModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractSimpleGenerationalCellCycleModel.html b/site/classAbstractSimpleGenerationalCellCycleModel.html index 06c18e2e1..6c0623283 100644 --- a/site/classAbstractSimpleGenerationalCellCycleModel.html +++ b/site/classAbstractSimpleGenerationalCellCycleModel.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractSimplePhaseBasedCellCycleModel-members.html b/site/classAbstractSimplePhaseBasedCellCycleModel-members.html index 0ef64c611..0b4628e52 100644 --- a/site/classAbstractSimplePhaseBasedCellCycleModel-members.html +++ b/site/classAbstractSimplePhaseBasedCellCycleModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractSimplePhaseBasedCellCycleModel.html b/site/classAbstractSimplePhaseBasedCellCycleModel.html index 95822260d..2d70484fe 100644 --- a/site/classAbstractSimplePhaseBasedCellCycleModel.html +++ b/site/classAbstractSimplePhaseBasedCellCycleModel.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractSrnModel-members.html b/site/classAbstractSrnModel-members.html index 978bd6e50..726167e1c 100644 --- a/site/classAbstractSrnModel-members.html +++ b/site/classAbstractSrnModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractSrnModel.html b/site/classAbstractSrnModel.html index b90602e79..3a8ea45e4 100644 --- a/site/classAbstractSrnModel.html +++ b/site/classAbstractSrnModel.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractStaticLinearPdeSolver-members.html b/site/classAbstractStaticLinearPdeSolver-members.html index 56d7d4439..aef55cfac 100644 --- a/site/classAbstractStaticLinearPdeSolver-members.html +++ b/site/classAbstractStaticLinearPdeSolver-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractStaticLinearPdeSolver.html b/site/classAbstractStaticLinearPdeSolver.html index af51dccb0..5284def3d 100644 --- a/site/classAbstractStaticLinearPdeSolver.html +++ b/site/classAbstractStaticLinearPdeSolver.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractSteadyStateRunner-members.html b/site/classAbstractSteadyStateRunner-members.html index a75f39741..7211d0da3 100644 --- a/site/classAbstractSteadyStateRunner-members.html +++ b/site/classAbstractSteadyStateRunner-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractSteadyStateRunner.html b/site/classAbstractSteadyStateRunner.html index dd24c67b3..cb40e2b49 100644 --- a/site/classAbstractSteadyStateRunner.html +++ b/site/classAbstractSteadyStateRunner.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractStimulusFactory-members.html b/site/classAbstractStimulusFactory-members.html index e8ec06111..1a604c672 100644 --- a/site/classAbstractStimulusFactory-members.html +++ b/site/classAbstractStimulusFactory-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractStimulusFactory.html b/site/classAbstractStimulusFactory.html index 5d7e7d192..445f50521 100644 --- a/site/classAbstractStimulusFactory.html +++ b/site/classAbstractStimulusFactory.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractStimulusFunction-members.html b/site/classAbstractStimulusFunction-members.html index 69fd021e7..300f624f0 100644 --- a/site/classAbstractStimulusFunction-members.html +++ b/site/classAbstractStimulusFunction-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractStimulusFunction.html b/site/classAbstractStimulusFunction.html index 853bc05b4..805e02383 100644 --- a/site/classAbstractStimulusFunction.html +++ b/site/classAbstractStimulusFunction.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractTargetAreaModifier-members.html b/site/classAbstractTargetAreaModifier-members.html index 2443b96cd..c0389525e 100644 --- a/site/classAbstractTargetAreaModifier-members.html +++ b/site/classAbstractTargetAreaModifier-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractTargetAreaModifier.html b/site/classAbstractTargetAreaModifier.html index f68c07b13..108281d1c 100644 --- a/site/classAbstractTargetAreaModifier.html +++ b/site/classAbstractTargetAreaModifier.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractTetrahedralElement-members.html b/site/classAbstractTetrahedralElement-members.html index 89f8cba71..2c9c170b2 100644 --- a/site/classAbstractTetrahedralElement-members.html +++ b/site/classAbstractTetrahedralElement-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractTetrahedralElement.html b/site/classAbstractTetrahedralElement.html index d8ddd6fc4..1dd26d539 100644 --- a/site/classAbstractTetrahedralElement.html +++ b/site/classAbstractTetrahedralElement.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractTetrahedralElement_3_010_00_01SPACE__DIM_01_4-members.html b/site/classAbstractTetrahedralElement_3_010_00_01SPACE__DIM_01_4-members.html index 5f8121744..0735df5aa 100644 --- a/site/classAbstractTetrahedralElement_3_010_00_01SPACE__DIM_01_4-members.html +++ b/site/classAbstractTetrahedralElement_3_010_00_01SPACE__DIM_01_4-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractTetrahedralElement_3_010_00_01SPACE__DIM_01_4.html b/site/classAbstractTetrahedralElement_3_010_00_01SPACE__DIM_01_4.html index 342f37d2a..9c7e4ad4b 100644 --- a/site/classAbstractTetrahedralElement_3_010_00_01SPACE__DIM_01_4.html +++ b/site/classAbstractTetrahedralElement_3_010_00_01SPACE__DIM_01_4.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractTetrahedralMesh-members.html b/site/classAbstractTetrahedralMesh-members.html index 32b1f8fcf..d17600b7a 100644 --- a/site/classAbstractTetrahedralMesh-members.html +++ b/site/classAbstractTetrahedralMesh-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractTetrahedralMesh.html b/site/classAbstractTetrahedralMesh.html index 068cd6804..e8e756d7a 100644 --- a/site/classAbstractTetrahedralMesh.html +++ b/site/classAbstractTetrahedralMesh.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractTetrahedralMeshWriter-members.html b/site/classAbstractTetrahedralMeshWriter-members.html index d867cdf92..f30243f37 100644 --- a/site/classAbstractTetrahedralMeshWriter-members.html +++ b/site/classAbstractTetrahedralMeshWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractTetrahedralMeshWriter.html b/site/classAbstractTetrahedralMeshWriter.html index 25bcceca1..494a5681d 100644 --- a/site/classAbstractTetrahedralMeshWriter.html +++ b/site/classAbstractTetrahedralMeshWriter.html @@ -23,7 +23,7 @@ @@ -690,10 +690,10 @@

Todo:
#1322 Mesh should really be const!
-
Todo:
#1322 Mesh should be const
-
Todo:
#1322 This should be const too
-
Todo:
#1322, This should be const too
+
Todo:
#1322 Mesh should really be const!
+
Todo:
#1322 Mesh should be const
+
Todo:
#1322 This should be const too
+
Todo:
#1322, This should be const too

Reimplemented in VtkMeshWriter< ELEMENT_DIM, SPACE_DIM >, and XdmfMeshWriter< ELEMENT_DIM, SPACE_DIM >.

@@ -779,7 +779,7 @@

Todo:
#2351 Also exclude VTK writer
+
Todo:
#2351 Also exclude VTK writer

Definition at line 532 of file AbstractTetrahedralMeshWriter.cpp.

diff --git a/site/classAbstractTetrahedralMesh_1_1ElementIterator-members.html b/site/classAbstractTetrahedralMesh_1_1ElementIterator-members.html index 0c4d268e3..917821527 100644 --- a/site/classAbstractTetrahedralMesh_1_1ElementIterator-members.html +++ b/site/classAbstractTetrahedralMesh_1_1ElementIterator-members.html @@ -23,7 +23,7 @@

diff --git a/site/classAbstractTetrahedralMesh_1_1ElementIterator.html b/site/classAbstractTetrahedralMesh_1_1ElementIterator.html index 63629dc25..828403431 100644 --- a/site/classAbstractTetrahedralMesh_1_1ElementIterator.html +++ b/site/classAbstractTetrahedralMesh_1_1ElementIterator.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractTimeAdaptivityController-members.html b/site/classAbstractTimeAdaptivityController-members.html index a5964fd6a..730c20052 100644 --- a/site/classAbstractTimeAdaptivityController-members.html +++ b/site/classAbstractTimeAdaptivityController-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractTimeAdaptivityController.html b/site/classAbstractTimeAdaptivityController.html index 5747ced59..4cc5fa6af 100644 --- a/site/classAbstractTimeAdaptivityController.html +++ b/site/classAbstractTimeAdaptivityController.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractTwoBodyInteractionForce-members.html b/site/classAbstractTwoBodyInteractionForce-members.html index 69e0c37b2..c2888a5ac 100644 --- a/site/classAbstractTwoBodyInteractionForce-members.html +++ b/site/classAbstractTwoBodyInteractionForce-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractTwoBodyInteractionForce.html b/site/classAbstractTwoBodyInteractionForce.html index 6e5a38e3a..2124ebfcc 100644 --- a/site/classAbstractTwoBodyInteractionForce.html +++ b/site/classAbstractTwoBodyInteractionForce.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractUntemplatedCardiacProblem-members.html b/site/classAbstractUntemplatedCardiacProblem-members.html index 136d5fc63..dfdc892eb 100644 --- a/site/classAbstractUntemplatedCardiacProblem-members.html +++ b/site/classAbstractUntemplatedCardiacProblem-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractUntemplatedCardiacProblem.html b/site/classAbstractUntemplatedCardiacProblem.html index e3bbc64f1..cb78b117c 100644 --- a/site/classAbstractUntemplatedCardiacProblem.html +++ b/site/classAbstractUntemplatedCardiacProblem.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractUntemplatedConvergenceTester-members.html b/site/classAbstractUntemplatedConvergenceTester-members.html index e5c83e5d6..34538bb91 100644 --- a/site/classAbstractUntemplatedConvergenceTester-members.html +++ b/site/classAbstractUntemplatedConvergenceTester-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractUntemplatedConvergenceTester.html b/site/classAbstractUntemplatedConvergenceTester.html index af9005c7e..23f30c81a 100644 --- a/site/classAbstractUntemplatedConvergenceTester.html +++ b/site/classAbstractUntemplatedConvergenceTester.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractUntemplatedParameterisedSystem-members.html b/site/classAbstractUntemplatedParameterisedSystem-members.html index ba5471dc7..35dba8c40 100644 --- a/site/classAbstractUntemplatedParameterisedSystem-members.html +++ b/site/classAbstractUntemplatedParameterisedSystem-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractUntemplatedParameterisedSystem.html b/site/classAbstractUntemplatedParameterisedSystem.html index 77ce3c82a..c73cc835d 100644 --- a/site/classAbstractUntemplatedParameterisedSystem.html +++ b/site/classAbstractUntemplatedParameterisedSystem.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractUpdateRule-members.html b/site/classAbstractUpdateRule-members.html index ffd64bf2f..c49a5e5ae 100644 --- a/site/classAbstractUpdateRule-members.html +++ b/site/classAbstractUpdateRule-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractUpdateRule.html b/site/classAbstractUpdateRule.html index dcbdd6c54..f89900601 100644 --- a/site/classAbstractUpdateRule.html +++ b/site/classAbstractUpdateRule.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractVanLeeuwen2009WntSwatCellCycleModel-members.html b/site/classAbstractVanLeeuwen2009WntSwatCellCycleModel-members.html index aeaa440ca..6c38d141f 100644 --- a/site/classAbstractVanLeeuwen2009WntSwatCellCycleModel-members.html +++ b/site/classAbstractVanLeeuwen2009WntSwatCellCycleModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractVanLeeuwen2009WntSwatCellCycleModel.html b/site/classAbstractVanLeeuwen2009WntSwatCellCycleModel.html index aafe77de8..7dbed797f 100644 --- a/site/classAbstractVanLeeuwen2009WntSwatCellCycleModel.html +++ b/site/classAbstractVanLeeuwen2009WntSwatCellCycleModel.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractVertexBasedDivisionRule-members.html b/site/classAbstractVertexBasedDivisionRule-members.html index 5ca6e9abf..87b312d06 100644 --- a/site/classAbstractVertexBasedDivisionRule-members.html +++ b/site/classAbstractVertexBasedDivisionRule-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractVertexBasedDivisionRule.html b/site/classAbstractVertexBasedDivisionRule.html index 6a247d97c..d3f3c4a3a 100644 --- a/site/classAbstractVertexBasedDivisionRule.html +++ b/site/classAbstractVertexBasedDivisionRule.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractWntOdeBasedCellCycleModel-members.html b/site/classAbstractWntOdeBasedCellCycleModel-members.html index b63976cf6..e1e6fdd27 100644 --- a/site/classAbstractWntOdeBasedCellCycleModel-members.html +++ b/site/classAbstractWntOdeBasedCellCycleModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAbstractWntOdeBasedCellCycleModel.html b/site/classAbstractWntOdeBasedCellCycleModel.html index e4c495cda..7e562fc76 100644 --- a/site/classAbstractWntOdeBasedCellCycleModel.html +++ b/site/classAbstractWntOdeBasedCellCycleModel.html @@ -23,7 +23,7 @@ diff --git a/site/classActivationOutputModifier-members.html b/site/classActivationOutputModifier-members.html index 22a929c22..a6aa570ee 100644 --- a/site/classActivationOutputModifier-members.html +++ b/site/classActivationOutputModifier-members.html @@ -23,7 +23,7 @@ diff --git a/site/classActivationOutputModifier.html b/site/classActivationOutputModifier.html index f3619198a..7ae991015 100644 --- a/site/classActivationOutputModifier.html +++ b/site/classActivationOutputModifier.html @@ -23,7 +23,7 @@ diff --git a/site/classAdhesionPottsUpdateRule-members.html b/site/classAdhesionPottsUpdateRule-members.html index b6de0cd90..4219752c7 100644 --- a/site/classAdhesionPottsUpdateRule-members.html +++ b/site/classAdhesionPottsUpdateRule-members.html @@ -23,7 +23,7 @@ diff --git a/site/classAdhesionPottsUpdateRule.html b/site/classAdhesionPottsUpdateRule.html index 44b2eac8f..7db9ec710 100644 --- a/site/classAdhesionPottsUpdateRule.html +++ b/site/classAdhesionPottsUpdateRule.html @@ -23,7 +23,7 @@ diff --git a/site/classAlarcon2004OxygenBasedCellCycleModel-members.html b/site/classAlarcon2004OxygenBasedCellCycleModel-members.html index 71b2062c3..86cf2ed2e 100644 --- a/site/classAlarcon2004OxygenBasedCellCycleModel-members.html +++ 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Calculate the propensity of a dividing into a given site. Overridden in child classes to define other division methods, e.g. directed division.

-
Todo:
This functionality should be moved into the CA-based division rule hierarchy
+
Todo:
This functionality should be moved into the CA-based division rule hierarchy
Parameters

indexthe location index
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@@ -1477,7 +1477,7 @@

Returns
whether the node is an empty site
-
Todo:
this is where to deal with carrying capacity
+
Todo:
this is where to deal with carrying capacity

Definition at line 122 of file CaBasedCellPopulation.cpp.

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diff --git a/site/classCardiacElectroMechProbRegularGeom.html b/site/classCardiacElectroMechProbRegularGeom.html index 572365990..6c9be665b 100644 --- a/site/classCardiacElectroMechProbRegularGeom.html +++ b/site/classCardiacElectroMechProbRegularGeom.html @@ -23,7 +23,7 @@ diff --git a/site/classCardiacElectroMechanicsProblem-members.html b/site/classCardiacElectroMechanicsProblem-members.html index fdf3155bd..191855973 100644 --- a/site/classCardiacElectroMechanicsProblem-members.html +++ b/site/classCardiacElectroMechanicsProblem-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCardiacElectroMechanicsProblem.html b/site/classCardiacElectroMechanicsProblem.html index bf40e7719..897a9eb13 100644 --- a/site/classCardiacElectroMechanicsProblem.html +++ b/site/classCardiacElectroMechanicsProblem.html @@ -23,7 +23,7 @@ diff --git a/site/classCardiacNewtonSolver-members.html b/site/classCardiacNewtonSolver-members.html index a3633927b..cf1190cf4 100644 --- a/site/classCardiacNewtonSolver-members.html +++ b/site/classCardiacNewtonSolver-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCardiacNewtonSolver.html b/site/classCardiacNewtonSolver.html index 4a2f6c9ae..4fed456b2 100644 --- a/site/classCardiacNewtonSolver.html +++ b/site/classCardiacNewtonSolver.html @@ -23,7 +23,7 @@ diff --git a/site/classCardiacSimulation-members.html b/site/classCardiacSimulation-members.html index 7c3798ba8..1390612ad 100644 --- a/site/classCardiacSimulation-members.html +++ b/site/classCardiacSimulation-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCardiacSimulation.html b/site/classCardiacSimulation.html index 7ec163c66..83df3f4c5 100644 --- a/site/classCardiacSimulation.html +++ b/site/classCardiacSimulation.html @@ -23,7 +23,7 @@ diff --git a/site/classCardiacSimulationArchiver-members.html b/site/classCardiacSimulationArchiver-members.html index dc28e990a..6779cd471 100644 --- a/site/classCardiacSimulationArchiver-members.html +++ b/site/classCardiacSimulationArchiver-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCardiacSimulationArchiver.html b/site/classCardiacSimulationArchiver.html index 30636bacd..5155801ff 100644 --- a/site/classCardiacSimulationArchiver.html +++ b/site/classCardiacSimulationArchiver.html @@ -23,7 +23,7 @@ diff --git a/site/classCell-members.html b/site/classCell-members.html index 3fe3ca29f..a5595be24 100644 --- a/site/classCell-members.html +++ b/site/classCell-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCell.html b/site/classCell.html index 5257e1fd8..c2b72b7a7 100644 --- a/site/classCell.html +++ b/site/classCell.html @@ -23,7 +23,7 @@ diff --git a/site/classCellAgesWriter-members.html b/site/classCellAgesWriter-members.html index 53e40d996..d517403f1 100644 --- a/site/classCellAgesWriter-members.html +++ b/site/classCellAgesWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellAgesWriter.html b/site/classCellAgesWriter.html index 57da394fe..65fae15b6 100644 --- a/site/classCellAgesWriter.html +++ b/site/classCellAgesWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classCellAncestor-members.html b/site/classCellAncestor-members.html index 0b8e847ae..988c2eef2 100644 --- a/site/classCellAncestor-members.html +++ b/site/classCellAncestor-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellAncestor.html b/site/classCellAncestor.html index 445e91172..fc4e24cf6 100644 --- a/site/classCellAncestor.html +++ b/site/classCellAncestor.html @@ -23,7 +23,7 @@ diff --git a/site/classCellAncestorWriter-members.html b/site/classCellAncestorWriter-members.html index 88ac7651c..f74ebb46b 100644 --- a/site/classCellAncestorWriter-members.html +++ b/site/classCellAncestorWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellAncestorWriter.html b/site/classCellAncestorWriter.html index 7b0d2ae07..2d0d4e850 100644 --- a/site/classCellAncestorWriter.html +++ b/site/classCellAncestorWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classCellAppliedForceWriter-members.html b/site/classCellAppliedForceWriter-members.html index aaf0981e9..14005c3ad 100644 --- a/site/classCellAppliedForceWriter-members.html +++ b/site/classCellAppliedForceWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellAppliedForceWriter.html b/site/classCellAppliedForceWriter.html index f8f4dafbe..26ca1eda9 100644 --- a/site/classCellAppliedForceWriter.html +++ b/site/classCellAppliedForceWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classCellBasedEllipticPdeSolver-members.html b/site/classCellBasedEllipticPdeSolver-members.html index 0f1ee97ea..da0dc5254 100644 --- a/site/classCellBasedEllipticPdeSolver-members.html +++ b/site/classCellBasedEllipticPdeSolver-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellBasedEllipticPdeSolver.html b/site/classCellBasedEllipticPdeSolver.html index 2c7e850fe..46005354a 100644 --- a/site/classCellBasedEllipticPdeSolver.html +++ b/site/classCellBasedEllipticPdeSolver.html @@ -23,7 +23,7 @@ diff --git a/site/classCellBasedEventHandler-members.html b/site/classCellBasedEventHandler-members.html index c95ae3472..810f2d68f 100644 --- a/site/classCellBasedEventHandler-members.html +++ b/site/classCellBasedEventHandler-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellBasedEventHandler.html b/site/classCellBasedEventHandler.html index 61f592373..fe04daef6 100644 --- a/site/classCellBasedEventHandler.html +++ b/site/classCellBasedEventHandler.html @@ -23,7 +23,7 @@ diff --git a/site/classCellBasedParabolicPdeSolver-members.html b/site/classCellBasedParabolicPdeSolver-members.html index fcdde62c6..82438ce88 100644 --- a/site/classCellBasedParabolicPdeSolver-members.html +++ b/site/classCellBasedParabolicPdeSolver-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellBasedParabolicPdeSolver.html b/site/classCellBasedParabolicPdeSolver.html index ef439f53d..1e8655481 100644 --- a/site/classCellBasedParabolicPdeSolver.html +++ 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b/site/classCellCycleTimesGenerator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellCycleTimesGenerator.html b/site/classCellCycleTimesGenerator.html index ed298a5d6..1cb64416c 100644 --- a/site/classCellCycleTimesGenerator.html +++ b/site/classCellCycleTimesGenerator.html @@ -23,7 +23,7 @@ diff --git a/site/classCellData-members.html b/site/classCellData-members.html index b100157d2..7f9b35a95 100644 --- a/site/classCellData-members.html +++ b/site/classCellData-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellData.html b/site/classCellData.html index 027036a79..62b263bf9 100644 --- a/site/classCellData.html +++ b/site/classCellData.html @@ -23,7 +23,7 @@ diff --git a/site/classCellDataItemWriter-members.html b/site/classCellDataItemWriter-members.html index 9c120461d..0791a827d 100644 --- a/site/classCellDataItemWriter-members.html +++ b/site/classCellDataItemWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellDataItemWriter.html b/site/classCellDataItemWriter.html index 50a3a4b66..ae2186304 100644 --- a/site/classCellDataItemWriter.html +++ b/site/classCellDataItemWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classCellDeltaNotchWriter-members.html b/site/classCellDeltaNotchWriter-members.html index d90c8eb05..41e9ca0df 100644 --- a/site/classCellDeltaNotchWriter-members.html +++ b/site/classCellDeltaNotchWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellDeltaNotchWriter.html b/site/classCellDeltaNotchWriter.html index 7db52ef46..bbc9fb62a 100644 --- a/site/classCellDeltaNotchWriter.html +++ b/site/classCellDeltaNotchWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classCellDivisionLocationsWriter-members.html b/site/classCellDivisionLocationsWriter-members.html index 666bd3a33..4a7cf5cf8 100644 --- a/site/classCellDivisionLocationsWriter-members.html +++ b/site/classCellDivisionLocationsWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellDivisionLocationsWriter.html b/site/classCellDivisionLocationsWriter.html index f4fe4981a..df3d522b4 100644 --- a/site/classCellDivisionLocationsWriter.html +++ b/site/classCellDivisionLocationsWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classCellEdgeData-members.html b/site/classCellEdgeData-members.html index a70cbcfdb..9c98d04fa 100644 --- a/site/classCellEdgeData-members.html +++ b/site/classCellEdgeData-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellEdgeData.html b/site/classCellEdgeData.html index 31aaf38a9..2648c7a58 100644 --- a/site/classCellEdgeData.html +++ b/site/classCellEdgeData.html @@ -23,7 +23,7 @@ diff --git a/site/classCellId-members.html b/site/classCellId-members.html index 88a911434..53a7e0bd6 100644 --- a/site/classCellId-members.html +++ b/site/classCellId-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellId.html b/site/classCellId.html index 31bc3af84..70af7e1b4 100644 --- a/site/classCellId.html +++ b/site/classCellId.html @@ -23,7 +23,7 @@ diff --git a/site/classCellIdWriter-members.html b/site/classCellIdWriter-members.html index 4526b58d8..3b1bffca6 100644 --- a/site/classCellIdWriter-members.html +++ b/site/classCellIdWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellIdWriter.html b/site/classCellIdWriter.html index fb708d09b..9c05ce108 100644 --- a/site/classCellIdWriter.html +++ b/site/classCellIdWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classCellLabel-members.html b/site/classCellLabel-members.html index 087895ccf..5431f05e4 100644 --- a/site/classCellLabel-members.html +++ b/site/classCellLabel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellLabel.html b/site/classCellLabel.html index f028dfd56..9c007202e 100644 --- a/site/classCellLabel.html +++ b/site/classCellLabel.html @@ -23,7 +23,7 @@ diff --git a/site/classCellLabelWriter-members.html b/site/classCellLabelWriter-members.html index 9511c3a86..012d5b7c0 100644 --- a/site/classCellLabelWriter-members.html +++ b/site/classCellLabelWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellLabelWriter.html b/site/classCellLabelWriter.html index 64e9dc63a..f89999f3b 100644 --- a/site/classCellLabelWriter.html +++ b/site/classCellLabelWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classCellLocationIndexWriter-members.html b/site/classCellLocationIndexWriter-members.html index c609cf7c8..babd4bcaf 100644 --- a/site/classCellLocationIndexWriter-members.html +++ b/site/classCellLocationIndexWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellLocationIndexWriter.html b/site/classCellLocationIndexWriter.html index 3735a2df8..30a32587c 100644 --- a/site/classCellLocationIndexWriter.html +++ b/site/classCellLocationIndexWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classCellMLLoader-members.html b/site/classCellMLLoader-members.html index e51e62426..76a1dc4cf 100644 --- a/site/classCellMLLoader-members.html +++ b/site/classCellMLLoader-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellMLLoader.html b/site/classCellMLLoader.html index fe7e9750a..8edeb33be 100644 --- a/site/classCellMLLoader.html +++ b/site/classCellMLLoader.html @@ -23,7 +23,7 @@ diff --git a/site/classCellMLToSharedLibraryConverter-members.html b/site/classCellMLToSharedLibraryConverter-members.html index 5978f53fa..6d7675bf9 100644 --- a/site/classCellMLToSharedLibraryConverter-members.html +++ b/site/classCellMLToSharedLibraryConverter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellMLToSharedLibraryConverter.html b/site/classCellMLToSharedLibraryConverter.html index 361dd3c78..c7a5c8a33 100644 --- a/site/classCellMLToSharedLibraryConverter.html +++ b/site/classCellMLToSharedLibraryConverter.html @@ -23,7 +23,7 @@ diff --git a/site/classCellMutationStatesCountWriter-members.html b/site/classCellMutationStatesCountWriter-members.html index 8d98768ba..7cfe7d118 100644 --- a/site/classCellMutationStatesCountWriter-members.html +++ b/site/classCellMutationStatesCountWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellMutationStatesCountWriter.html b/site/classCellMutationStatesCountWriter.html index b841d533e..474110976 100644 --- a/site/classCellMutationStatesCountWriter.html +++ b/site/classCellMutationStatesCountWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classCellMutationStatesWriter-members.html b/site/classCellMutationStatesWriter-members.html index 91938c677..0175f08c8 100644 --- a/site/classCellMutationStatesWriter-members.html +++ b/site/classCellMutationStatesWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellMutationStatesWriter.html b/site/classCellMutationStatesWriter.html index aa130ca56..4868633bc 100644 --- a/site/classCellMutationStatesWriter.html +++ b/site/classCellMutationStatesWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classCellPopulationAdjacencyMatrixWriter-members.html b/site/classCellPopulationAdjacencyMatrixWriter-members.html index d8b20906d..3b974977f 100644 --- a/site/classCellPopulationAdjacencyMatrixWriter-members.html +++ b/site/classCellPopulationAdjacencyMatrixWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellPopulationAdjacencyMatrixWriter.html b/site/classCellPopulationAdjacencyMatrixWriter.html index c03120b27..f35df2a67 100644 --- a/site/classCellPopulationAdjacencyMatrixWriter.html +++ b/site/classCellPopulationAdjacencyMatrixWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classCellPopulationAreaWriter-members.html b/site/classCellPopulationAreaWriter-members.html index 94a497adf..8142ff8ab 100644 --- a/site/classCellPopulationAreaWriter-members.html +++ b/site/classCellPopulationAreaWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellPopulationAreaWriter.html b/site/classCellPopulationAreaWriter.html index 7584f43c1..ab736bccf 100644 --- a/site/classCellPopulationAreaWriter.html +++ b/site/classCellPopulationAreaWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classCellPopulationElementWriter-members.html b/site/classCellPopulationElementWriter-members.html index 84057f355..0b2f9d0e9 100644 --- a/site/classCellPopulationElementWriter-members.html +++ b/site/classCellPopulationElementWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellPopulationElementWriter.html b/site/classCellPopulationElementWriter.html index 249dd8434..a1d7c58a6 100644 --- a/site/classCellPopulationElementWriter.html +++ b/site/classCellPopulationElementWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classCellProliferativePhasesCountWriter-members.html b/site/classCellProliferativePhasesCountWriter-members.html index 40c17b149..7c62a98d3 100644 --- a/site/classCellProliferativePhasesCountWriter-members.html +++ b/site/classCellProliferativePhasesCountWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellProliferativePhasesCountWriter.html b/site/classCellProliferativePhasesCountWriter.html index 7ba71a114..f3246c729 100644 --- a/site/classCellProliferativePhasesCountWriter.html +++ b/site/classCellProliferativePhasesCountWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classCellProliferativePhasesWriter-members.html b/site/classCellProliferativePhasesWriter-members.html index 95737f9af..6363373eb 100644 --- a/site/classCellProliferativePhasesWriter-members.html +++ b/site/classCellProliferativePhasesWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellProliferativePhasesWriter.html b/site/classCellProliferativePhasesWriter.html index ea6dfaa68..3d8c10c5c 100644 --- a/site/classCellProliferativePhasesWriter.html +++ b/site/classCellProliferativePhasesWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classCellProliferativeTypesCountWriter-members.html b/site/classCellProliferativeTypesCountWriter-members.html index f57f9bb88..b84188717 100644 --- a/site/classCellProliferativeTypesCountWriter-members.html +++ b/site/classCellProliferativeTypesCountWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellProliferativeTypesCountWriter.html b/site/classCellProliferativeTypesCountWriter.html index 3cdf076cc..896b3f18e 100644 --- a/site/classCellProliferativeTypesCountWriter.html +++ b/site/classCellProliferativeTypesCountWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classCellProliferativeTypesWriter-members.html b/site/classCellProliferativeTypesWriter-members.html index 820e43e8c..d8449b0c3 100644 --- a/site/classCellProliferativeTypesWriter-members.html +++ b/site/classCellProliferativeTypesWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellProliferativeTypesWriter.html b/site/classCellProliferativeTypesWriter.html index a40a5efb0..54f91433d 100644 --- a/site/classCellProliferativeTypesWriter.html +++ b/site/classCellProliferativeTypesWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classCellProperties-members.html b/site/classCellProperties-members.html index 6f4d8e946..e859245a6 100644 --- a/site/classCellProperties-members.html +++ b/site/classCellProperties-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellProperties.html b/site/classCellProperties.html index fad4e7ce6..065622518 100644 --- a/site/classCellProperties.html +++ b/site/classCellProperties.html @@ -23,7 +23,7 @@ diff --git a/site/classCellPropertyCollection-members.html b/site/classCellPropertyCollection-members.html index 0e9f506eb..b31106f43 100644 --- a/site/classCellPropertyCollection-members.html +++ b/site/classCellPropertyCollection-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellPropertyCollection.html b/site/classCellPropertyCollection.html index c6ae4b3d3..a916b20e7 100644 --- a/site/classCellPropertyCollection.html +++ b/site/classCellPropertyCollection.html @@ -23,7 +23,7 @@ diff --git a/site/classCellPropertyRegistry-members.html b/site/classCellPropertyRegistry-members.html index 8691d2c3d..82f26b1e9 100644 --- a/site/classCellPropertyRegistry-members.html +++ b/site/classCellPropertyRegistry-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellPropertyRegistry.html b/site/classCellPropertyRegistry.html index 0f8a414fd..fc052ebce 100644 --- a/site/classCellPropertyRegistry.html +++ b/site/classCellPropertyRegistry.html @@ -23,7 +23,7 @@ diff --git a/site/classCellRadiusWriter-members.html b/site/classCellRadiusWriter-members.html index d87cfdd9f..64633c79d 100644 --- a/site/classCellRadiusWriter-members.html +++ b/site/classCellRadiusWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellRadiusWriter.html b/site/classCellRadiusWriter.html index ea9b02dc7..b84f66932 100644 --- a/site/classCellRadiusWriter.html +++ b/site/classCellRadiusWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classCellRemovalLocationsWriter-members.html b/site/classCellRemovalLocationsWriter-members.html index 23e8d0d0b..ba572a8bf 100644 --- a/site/classCellRemovalLocationsWriter-members.html +++ b/site/classCellRemovalLocationsWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellRemovalLocationsWriter.html b/site/classCellRemovalLocationsWriter.html index 7022057c7..af76ce07c 100644 --- a/site/classCellRemovalLocationsWriter.html +++ b/site/classCellRemovalLocationsWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classCellRosetteRankWriter-members.html b/site/classCellRosetteRankWriter-members.html index 314c64c44..77e850b80 100644 --- a/site/classCellRosetteRankWriter-members.html +++ b/site/classCellRosetteRankWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellRosetteRankWriter.html b/site/classCellRosetteRankWriter.html index eef89a5bd..be895caf1 100644 --- a/site/classCellRosetteRankWriter.html +++ b/site/classCellRosetteRankWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classCellSrnModel-members.html b/site/classCellSrnModel-members.html index e88abf79e..f0d0dcaba 100644 --- a/site/classCellSrnModel-members.html +++ b/site/classCellSrnModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellSrnModel.html b/site/classCellSrnModel.html index 6c9f2ab73..b5d11c29a 100644 --- a/site/classCellSrnModel.html +++ b/site/classCellSrnModel.html @@ -23,7 +23,7 @@ diff --git a/site/classCellVecData-members.html b/site/classCellVecData-members.html index b14dc2fa5..0641f0c23 100644 --- a/site/classCellVecData-members.html +++ b/site/classCellVecData-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellVecData.html b/site/classCellVecData.html index eadb027ca..40be1e14c 100644 --- a/site/classCellVecData.html +++ b/site/classCellVecData.html @@ -23,7 +23,7 @@ diff --git a/site/classCellVolumesWriter-members.html b/site/classCellVolumesWriter-members.html index 46fffcd88..77b592bef 100644 --- a/site/classCellVolumesWriter-members.html +++ b/site/classCellVolumesWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellVolumesWriter.html b/site/classCellVolumesWriter.html index 953096f3b..01c592015 100644 --- a/site/classCellVolumesWriter.html +++ b/site/classCellVolumesWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classCellsGenerator-members.html b/site/classCellsGenerator-members.html index 3bde96e35..3f2868cc4 100644 --- a/site/classCellsGenerator-members.html +++ b/site/classCellsGenerator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellsGenerator.html b/site/classCellsGenerator.html index e15eb2ceb..65351e739 100644 --- a/site/classCellsGenerator.html +++ b/site/classCellsGenerator.html @@ -23,7 +23,7 @@ diff --git a/site/classCellwiseDataGradient-members.html b/site/classCellwiseDataGradient-members.html index 451debb14..5cb5afde3 100644 --- a/site/classCellwiseDataGradient-members.html +++ b/site/classCellwiseDataGradient-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellwiseDataGradient.html b/site/classCellwiseDataGradient.html index de67e9853..5d2bae636 100644 --- a/site/classCellwiseDataGradient.html +++ b/site/classCellwiseDataGradient.html @@ -23,7 +23,7 @@ diff --git a/site/classCellwiseOdeSystemInformation-members.html b/site/classCellwiseOdeSystemInformation-members.html index 2a5c1bf98..d77090aa7 100644 --- a/site/classCellwiseOdeSystemInformation-members.html +++ b/site/classCellwiseOdeSystemInformation-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellwiseOdeSystemInformation.html b/site/classCellwiseOdeSystemInformation.html index d2dd0b10d..a43e3b924 100644 --- a/site/classCellwiseOdeSystemInformation.html +++ b/site/classCellwiseOdeSystemInformation.html @@ -23,7 +23,7 @@ diff --git a/site/classCellwiseSourceEllipticPde-members.html b/site/classCellwiseSourceEllipticPde-members.html index f9e3c8d9b..82983db94 100644 --- a/site/classCellwiseSourceEllipticPde-members.html +++ b/site/classCellwiseSourceEllipticPde-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellwiseSourceEllipticPde.html b/site/classCellwiseSourceEllipticPde.html index 9bdbb00d3..85a61b779 100644 --- a/site/classCellwiseSourceEllipticPde.html +++ b/site/classCellwiseSourceEllipticPde.html @@ -23,7 +23,7 @@ diff --git a/site/classCellwiseSourceParabolicPde-members.html b/site/classCellwiseSourceParabolicPde-members.html index 15bb3e9cc..d122a69a5 100644 --- a/site/classCellwiseSourceParabolicPde-members.html +++ b/site/classCellwiseSourceParabolicPde-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCellwiseSourceParabolicPde.html b/site/classCellwiseSourceParabolicPde.html index 1f6ba172c..f9f65c6cd 100644 --- a/site/classCellwiseSourceParabolicPde.html +++ b/site/classCellwiseSourceParabolicPde.html @@ -23,7 +23,7 @@ diff --git a/site/classChasteBuildInfo-members.html b/site/classChasteBuildInfo-members.html index 286d84ac7..732cdad27 100644 --- a/site/classChasteBuildInfo-members.html +++ b/site/classChasteBuildInfo-members.html @@ -23,7 +23,7 @@ diff --git a/site/classChasteBuildInfo.html b/site/classChasteBuildInfo.html index f3d74f15f..db3055d88 100644 --- a/site/classChasteBuildInfo.html +++ b/site/classChasteBuildInfo.html @@ -23,7 +23,7 @@ diff --git a/site/classChasteCuboid-members.html b/site/classChasteCuboid-members.html index 9e00d4596..13bc7cd76 100644 --- a/site/classChasteCuboid-members.html +++ b/site/classChasteCuboid-members.html @@ -23,7 +23,7 @@ diff --git a/site/classChasteCuboid.html b/site/classChasteCuboid.html index b6d226399..fd7512ab3 100644 --- a/site/classChasteCuboid.html +++ b/site/classChasteCuboid.html @@ -23,7 +23,7 @@ diff --git a/site/classChasteEllipsoid-members.html b/site/classChasteEllipsoid-members.html index 8b23eee4f..9bb9ca8f8 100644 --- a/site/classChasteEllipsoid-members.html +++ b/site/classChasteEllipsoid-members.html @@ -23,7 +23,7 @@ diff --git a/site/classChasteEllipsoid.html b/site/classChasteEllipsoid.html index d18b6bc8c..c793ffdc1 100644 --- a/site/classChasteEllipsoid.html +++ b/site/classChasteEllipsoid.html @@ -23,7 +23,7 @@ diff --git a/site/classChasteNodesList-members.html b/site/classChasteNodesList-members.html index b23c4d8ec..6eaaf1831 100644 --- a/site/classChasteNodesList-members.html +++ b/site/classChasteNodesList-members.html @@ -23,7 +23,7 @@ diff --git a/site/classChasteNodesList.html b/site/classChasteNodesList.html index 05b997900..facb83cd2 100644 --- a/site/classChasteNodesList.html +++ b/site/classChasteNodesList.html @@ -23,7 +23,7 @@ diff --git a/site/classChastePoint-members.html b/site/classChastePoint-members.html index edbb3a651..c52e02f7c 100644 --- a/site/classChastePoint-members.html +++ b/site/classChastePoint-members.html @@ -23,7 +23,7 @@ diff --git a/site/classChastePoint.html b/site/classChastePoint.html index 189fe5a86..af5c34852 100644 --- a/site/classChastePoint.html +++ b/site/classChastePoint.html @@ -23,7 +23,7 @@ diff --git a/site/classChastePoint_3_010_01_4-members.html b/site/classChastePoint_3_010_01_4-members.html index b4c7cdcfc..78f83f452 100644 --- a/site/classChastePoint_3_010_01_4-members.html +++ b/site/classChastePoint_3_010_01_4-members.html @@ -23,7 +23,7 @@ diff --git a/site/classChastePoint_3_010_01_4.html b/site/classChastePoint_3_010_01_4.html index f97350455..bfb590d83 100644 --- a/site/classChastePoint_3_010_01_4.html +++ b/site/classChastePoint_3_010_01_4.html @@ -23,7 +23,7 @@ diff --git a/site/classChastePosixPathFixer-members.html b/site/classChastePosixPathFixer-members.html index c9dd27e27..ea0516073 100644 --- a/site/classChastePosixPathFixer-members.html +++ b/site/classChastePosixPathFixer-members.html @@ -23,7 +23,7 @@ diff --git a/site/classChastePosixPathFixer.html b/site/classChastePosixPathFixer.html index 74c65ab35..fe7b1e060 100644 --- a/site/classChastePosixPathFixer.html +++ b/site/classChastePosixPathFixer.html @@ -23,7 +23,7 @@ diff --git a/site/classChemotacticForce-members.html b/site/classChemotacticForce-members.html index 839c8f78d..b11450cde 100644 --- a/site/classChemotacticForce-members.html +++ b/site/classChemotacticForce-members.html @@ -23,7 +23,7 @@ diff --git a/site/classChemotacticForce.html b/site/classChemotacticForce.html index 6c9038d4f..e2f59151a 100644 --- a/site/classChemotacticForce.html +++ b/site/classChemotacticForce.html @@ -23,7 +23,7 @@ diff --git a/site/classChemotaxisPottsUpdateRule-members.html b/site/classChemotaxisPottsUpdateRule-members.html index 786f13251..38c0e2efd 100644 --- a/site/classChemotaxisPottsUpdateRule-members.html +++ b/site/classChemotaxisPottsUpdateRule-members.html @@ -23,7 +23,7 @@ diff --git a/site/classChemotaxisPottsUpdateRule.html b/site/classChemotaxisPottsUpdateRule.html index 72d47f05f..c1cc5e96f 100644 --- a/site/classChemotaxisPottsUpdateRule.html +++ b/site/classChemotaxisPottsUpdateRule.html @@ -23,7 +23,7 @@ diff --git a/site/classCitations-members.html b/site/classCitations-members.html index c7218f7b1..030771bec 100644 --- a/site/classCitations-members.html +++ b/site/classCitations-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCitations.html b/site/classCitations.html index c978b047d..915f865b3 100644 --- a/site/classCitations.html +++ b/site/classCitations.html @@ -23,7 +23,7 @@ diff --git a/site/classCmguiDeformedSolutionsWriter-members.html b/site/classCmguiDeformedSolutionsWriter-members.html index 6d6998b11..b68bc2127 100644 --- a/site/classCmguiDeformedSolutionsWriter-members.html +++ b/site/classCmguiDeformedSolutionsWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCmguiDeformedSolutionsWriter.html b/site/classCmguiDeformedSolutionsWriter.html index b91b991c2..868a82758 100644 --- a/site/classCmguiDeformedSolutionsWriter.html +++ b/site/classCmguiDeformedSolutionsWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classCmguiMeshWriter-members.html b/site/classCmguiMeshWriter-members.html index 80872e1d4..96d0db761 100644 --- a/site/classCmguiMeshWriter-members.html +++ b/site/classCmguiMeshWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCmguiMeshWriter.html b/site/classCmguiMeshWriter.html index e90aec7d8..e05b28fcd 100644 --- a/site/classCmguiMeshWriter.html +++ b/site/classCmguiMeshWriter.html @@ -23,7 +23,7 @@ @@ -604,7 +604,7 @@

Write mesh data to files.

-
Todo:
: EXCEPTION maybe...
+
Todo:
: EXCEPTION maybe...

Implements AbstractMeshWriter< ELEMENT_DIM, SPACE_DIM >.

diff --git a/site/classColumnDataReader-members.html b/site/classColumnDataReader-members.html index 035732010..ffe5af9d9 100644 --- a/site/classColumnDataReader-members.html +++ b/site/classColumnDataReader-members.html @@ -23,7 +23,7 @@

diff --git a/site/classColumnDataReader.html b/site/classColumnDataReader.html index 5bf29d90c..b5f4218b7 100644 --- a/site/classColumnDataReader.html +++ b/site/classColumnDataReader.html @@ -23,7 +23,7 @@ diff --git a/site/classColumnDataWriter-members.html b/site/classColumnDataWriter-members.html index 0d8775a57..887ab1a68 100644 --- a/site/classColumnDataWriter-members.html +++ b/site/classColumnDataWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classColumnDataWriter.html b/site/classColumnDataWriter.html index c51574460..0d010157f 100644 --- a/site/classColumnDataWriter.html +++ b/site/classColumnDataWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classCombinedOdeSystem-members.html b/site/classCombinedOdeSystem-members.html index 28a5c8175..3f606f7a9 100644 --- a/site/classCombinedOdeSystem-members.html +++ b/site/classCombinedOdeSystem-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCombinedOdeSystem.html b/site/classCombinedOdeSystem.html index 5709370ff..00814ba92 100644 --- a/site/classCombinedOdeSystem.html +++ b/site/classCombinedOdeSystem.html @@ -23,7 +23,7 @@ diff --git a/site/classCombinedOdeSystemInformation-members.html b/site/classCombinedOdeSystemInformation-members.html index 7d1145476..30bcc8298 100644 --- a/site/classCombinedOdeSystemInformation-members.html +++ b/site/classCombinedOdeSystemInformation-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCombinedOdeSystemInformation.html b/site/classCombinedOdeSystemInformation.html index 5c57fc4f2..3361ba461 100644 --- a/site/classCombinedOdeSystemInformation.html +++ b/site/classCombinedOdeSystemInformation.html @@ -23,7 +23,7 @@ diff --git a/site/classCommandLineArguments-members.html b/site/classCommandLineArguments-members.html index b13526e34..0ccbcae57 100644 --- a/site/classCommandLineArguments-members.html +++ b/site/classCommandLineArguments-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCommandLineArguments.html b/site/classCommandLineArguments.html index 588ef152d..4cdf9f919 100644 --- a/site/classCommandLineArguments.html +++ b/site/classCommandLineArguments.html @@ -23,7 +23,7 @@ diff --git a/site/classCommandLineArgumentsMocker-members.html b/site/classCommandLineArgumentsMocker-members.html index afdf601ec..2c5c13953 100644 --- a/site/classCommandLineArgumentsMocker-members.html +++ b/site/classCommandLineArgumentsMocker-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCommandLineArgumentsMocker.html b/site/classCommandLineArgumentsMocker.html index 8ae964954..51b07953e 100644 --- a/site/classCommandLineArgumentsMocker.html +++ b/site/classCommandLineArgumentsMocker.html @@ -23,7 +23,7 @@ diff --git a/site/classCompareDoubles-members.html b/site/classCompareDoubles-members.html index dec999ed9..201f2c316 100644 --- a/site/classCompareDoubles-members.html +++ b/site/classCompareDoubles-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCompareDoubles.html b/site/classCompareDoubles.html index 4bcb7523e..75bba575a 100644 --- a/site/classCompareDoubles.html +++ b/site/classCompareDoubles.html @@ -23,7 +23,7 @@ diff --git a/site/classCompressibleExponentialLaw-members.html b/site/classCompressibleExponentialLaw-members.html index f468f1c71..384a2ce3f 100644 --- a/site/classCompressibleExponentialLaw-members.html +++ b/site/classCompressibleExponentialLaw-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCompressibleExponentialLaw.html b/site/classCompressibleExponentialLaw.html index b9589b53a..60fc3c622 100644 --- a/site/classCompressibleExponentialLaw.html +++ b/site/classCompressibleExponentialLaw.html @@ -23,7 +23,7 @@ diff --git a/site/classCompressibleMooneyRivlinMaterialLaw-members.html b/site/classCompressibleMooneyRivlinMaterialLaw-members.html index bf915ada1..abb846d48 100644 --- a/site/classCompressibleMooneyRivlinMaterialLaw-members.html +++ b/site/classCompressibleMooneyRivlinMaterialLaw-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCompressibleMooneyRivlinMaterialLaw.html b/site/classCompressibleMooneyRivlinMaterialLaw.html index e28c39ce0..aee31143a 100644 --- a/site/classCompressibleMooneyRivlinMaterialLaw.html +++ b/site/classCompressibleMooneyRivlinMaterialLaw.html @@ -23,7 +23,7 @@ diff --git a/site/classCompressibleNonlinearElasticitySolver-members.html b/site/classCompressibleNonlinearElasticitySolver-members.html index 914282e97..b549478fc 100644 --- a/site/classCompressibleNonlinearElasticitySolver-members.html +++ b/site/classCompressibleNonlinearElasticitySolver-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCompressibleNonlinearElasticitySolver.html b/site/classCompressibleNonlinearElasticitySolver.html index e82a92c36..fadd03800 100644 --- a/site/classCompressibleNonlinearElasticitySolver.html +++ b/site/classCompressibleNonlinearElasticitySolver.html @@ -23,7 +23,7 @@ diff --git a/site/classConstBoundaryCondition-members.html b/site/classConstBoundaryCondition-members.html index a926c89ea..5b7d12c48 100644 --- a/site/classConstBoundaryCondition-members.html +++ b/site/classConstBoundaryCondition-members.html @@ -23,7 +23,7 @@ diff --git a/site/classConstBoundaryCondition.html b/site/classConstBoundaryCondition.html index 45546ceeb..3282c530b 100644 --- a/site/classConstBoundaryCondition.html +++ b/site/classConstBoundaryCondition.html @@ -23,7 +23,7 @@ diff --git a/site/classConstantActiveTension-members.html b/site/classConstantActiveTension-members.html index 487168eca..675950793 100644 --- a/site/classConstantActiveTension-members.html +++ b/site/classConstantActiveTension-members.html @@ -23,7 +23,7 @@ diff --git a/site/classConstantActiveTension.html b/site/classConstantActiveTension.html index 1bdbdf3c7..e7994bd9b 100644 --- a/site/classConstantActiveTension.html +++ b/site/classConstantActiveTension.html @@ -23,7 +23,7 @@ diff --git a/site/classContactInhibitionCellCycleModel-members.html b/site/classContactInhibitionCellCycleModel-members.html index 6eb9e598f..edeff9e85 100644 --- a/site/classContactInhibitionCellCycleModel-members.html +++ b/site/classContactInhibitionCellCycleModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classContactInhibitionCellCycleModel.html b/site/classContactInhibitionCellCycleModel.html index 26566c6c1..9eaf54ed6 100644 --- a/site/classContactInhibitionCellCycleModel.html +++ b/site/classContactInhibitionCellCycleModel.html @@ -23,7 +23,7 @@ diff --git a/site/classContinuumMechanicsNeumannBcsAssembler-members.html b/site/classContinuumMechanicsNeumannBcsAssembler-members.html index 4ddc61d0f..4ee6d36f2 100644 --- a/site/classContinuumMechanicsNeumannBcsAssembler-members.html +++ b/site/classContinuumMechanicsNeumannBcsAssembler-members.html @@ -23,7 +23,7 @@ diff --git a/site/classContinuumMechanicsNeumannBcsAssembler.html b/site/classContinuumMechanicsNeumannBcsAssembler.html index df9f30a07..e4d72b8c0 100644 --- a/site/classContinuumMechanicsNeumannBcsAssembler.html +++ b/site/classContinuumMechanicsNeumannBcsAssembler.html @@ -23,7 +23,7 @@ diff --git a/site/classContinuumMechanicsProblemDefinition-members.html b/site/classContinuumMechanicsProblemDefinition-members.html index fc5f6779a..607b1334f 100644 --- a/site/classContinuumMechanicsProblemDefinition-members.html +++ b/site/classContinuumMechanicsProblemDefinition-members.html @@ -23,7 +23,7 @@ diff --git a/site/classContinuumMechanicsProblemDefinition.html b/site/classContinuumMechanicsProblemDefinition.html index 450d75177..e29f2fb17 100644 --- a/site/classContinuumMechanicsProblemDefinition.html +++ b/site/classContinuumMechanicsProblemDefinition.html @@ -23,7 +23,7 @@ diff --git a/site/classCorriasBuistICCModified-members.html b/site/classCorriasBuistICCModified-members.html index 76d40140c..526bdb7aa 100644 --- a/site/classCorriasBuistICCModified-members.html +++ b/site/classCorriasBuistICCModified-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCorriasBuistICCModified.html b/site/classCorriasBuistICCModified.html index a581d7b61..5c9809fc4 100644 --- a/site/classCorriasBuistICCModified.html +++ b/site/classCorriasBuistICCModified.html @@ -23,7 +23,7 @@ diff --git a/site/classCorriasBuistSMCModified-members.html b/site/classCorriasBuistSMCModified-members.html index 1083b5664..4ff12c35d 100644 --- a/site/classCorriasBuistSMCModified-members.html +++ b/site/classCorriasBuistSMCModified-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCorriasBuistSMCModified.html b/site/classCorriasBuistSMCModified.html index 2d172f2cc..6ff5f7b31 100644 --- a/site/classCorriasBuistSMCModified.html +++ b/site/classCorriasBuistSMCModified.html @@ -23,7 +23,7 @@ diff --git a/site/classCreateElectricsProblem-members.html b/site/classCreateElectricsProblem-members.html index 7fd474db8..ec1d8572b 100644 --- a/site/classCreateElectricsProblem-members.html +++ b/site/classCreateElectricsProblem-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCreateElectricsProblem.html b/site/classCreateElectricsProblem.html index 388164133..638dfe585 100644 --- a/site/classCreateElectricsProblem.html +++ b/site/classCreateElectricsProblem.html @@ -23,7 +23,7 @@ diff --git a/site/classCreateElectricsProblem_3_01DIM_00_011u_01_4-members.html b/site/classCreateElectricsProblem_3_01DIM_00_011u_01_4-members.html index eed33703c..a0a42736e 100644 --- a/site/classCreateElectricsProblem_3_01DIM_00_011u_01_4-members.html +++ b/site/classCreateElectricsProblem_3_01DIM_00_011u_01_4-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCreateElectricsProblem_3_01DIM_00_011u_01_4.html b/site/classCreateElectricsProblem_3_01DIM_00_011u_01_4.html index b57e2873f..dda3acc72 100644 --- a/site/classCreateElectricsProblem_3_01DIM_00_011u_01_4.html +++ b/site/classCreateElectricsProblem_3_01DIM_00_011u_01_4.html @@ -23,7 +23,7 @@ diff --git a/site/classCreateElectricsProblem_3_01DIM_00_012u_01_4-members.html b/site/classCreateElectricsProblem_3_01DIM_00_012u_01_4-members.html index dd6a3923b..83065e7fe 100644 --- a/site/classCreateElectricsProblem_3_01DIM_00_012u_01_4-members.html +++ b/site/classCreateElectricsProblem_3_01DIM_00_012u_01_4-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCreateElectricsProblem_3_01DIM_00_012u_01_4.html b/site/classCreateElectricsProblem_3_01DIM_00_012u_01_4.html index 3ddeef0ec..0ff93f534 100644 --- a/site/classCreateElectricsProblem_3_01DIM_00_012u_01_4.html +++ b/site/classCreateElectricsProblem_3_01DIM_00_012u_01_4.html @@ -23,7 +23,7 @@ diff --git a/site/classCryptCellsGenerator-members.html b/site/classCryptCellsGenerator-members.html index 2eae221e4..d73d17f46 100644 --- a/site/classCryptCellsGenerator-members.html +++ b/site/classCryptCellsGenerator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCryptCellsGenerator.html b/site/classCryptCellsGenerator.html index 774ad23ab..5464840e7 100644 --- a/site/classCryptCellsGenerator.html +++ b/site/classCryptCellsGenerator.html @@ -23,7 +23,7 @@ diff --git a/site/classCryptCentreBasedDivisionRule-members.html b/site/classCryptCentreBasedDivisionRule-members.html index 1163edabd..4669f9b0e 100644 --- a/site/classCryptCentreBasedDivisionRule-members.html +++ b/site/classCryptCentreBasedDivisionRule-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCryptCentreBasedDivisionRule.html b/site/classCryptCentreBasedDivisionRule.html index 7f84c5ff4..cbee37eab 100644 --- a/site/classCryptCentreBasedDivisionRule.html +++ b/site/classCryptCentreBasedDivisionRule.html @@ -23,7 +23,7 @@ diff --git a/site/classCryptProjectionForce-members.html b/site/classCryptProjectionForce-members.html index 67759daff..0a2343c47 100644 --- a/site/classCryptProjectionForce-members.html +++ b/site/classCryptProjectionForce-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCryptProjectionForce.html b/site/classCryptProjectionForce.html index de652c254..e7192cbcc 100644 --- a/site/classCryptProjectionForce.html +++ b/site/classCryptProjectionForce.html @@ -23,7 +23,7 @@ diff --git a/site/classCryptProjectionStatistics-members.html b/site/classCryptProjectionStatistics-members.html index 21c5a5dd7..7540fbd72 100644 --- a/site/classCryptProjectionStatistics-members.html +++ b/site/classCryptProjectionStatistics-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCryptProjectionStatistics.html b/site/classCryptProjectionStatistics.html index 4b36760cc..3ea040759 100644 --- a/site/classCryptProjectionStatistics.html +++ b/site/classCryptProjectionStatistics.html @@ -23,7 +23,7 @@ diff --git a/site/classCryptShovingCaBasedDivisionRule-members.html b/site/classCryptShovingCaBasedDivisionRule-members.html index 487332b9c..424d367b5 100644 --- a/site/classCryptShovingCaBasedDivisionRule-members.html +++ b/site/classCryptShovingCaBasedDivisionRule-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCryptShovingCaBasedDivisionRule.html b/site/classCryptShovingCaBasedDivisionRule.html index e8d8dbefb..94e6933b3 100644 --- a/site/classCryptShovingCaBasedDivisionRule.html +++ b/site/classCryptShovingCaBasedDivisionRule.html @@ -23,7 +23,7 @@ diff --git a/site/classCryptSimulation1d-members.html b/site/classCryptSimulation1d-members.html index f7f2cf816..f9f44bfa4 100644 --- a/site/classCryptSimulation1d-members.html +++ b/site/classCryptSimulation1d-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCryptSimulation1d.html b/site/classCryptSimulation1d.html index b809e643c..a88eb56e3 100644 --- a/site/classCryptSimulation1d.html +++ b/site/classCryptSimulation1d.html @@ -23,7 +23,7 @@ diff --git a/site/classCryptSimulation2d-members.html b/site/classCryptSimulation2d-members.html index d64a01a91..f4a727deb 100644 --- a/site/classCryptSimulation2d-members.html +++ b/site/classCryptSimulation2d-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCryptSimulation2d.html b/site/classCryptSimulation2d.html index 73a47cc92..fc9cbe1a7 100644 --- a/site/classCryptSimulation2d.html +++ b/site/classCryptSimulation2d.html @@ -23,7 +23,7 @@ diff --git a/site/classCryptSimulationBoundaryCondition-members.html b/site/classCryptSimulationBoundaryCondition-members.html index 42f37a9cf..681c7e9eb 100644 --- a/site/classCryptSimulationBoundaryCondition-members.html +++ b/site/classCryptSimulationBoundaryCondition-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCryptSimulationBoundaryCondition.html b/site/classCryptSimulationBoundaryCondition.html index cb6fe0d96..d466a9c49 100644 --- a/site/classCryptSimulationBoundaryCondition.html +++ b/site/classCryptSimulationBoundaryCondition.html @@ -23,7 +23,7 @@ diff --git a/site/classCryptStatistics-members.html b/site/classCryptStatistics-members.html index adb2ee253..f5fc1d778 100644 --- a/site/classCryptStatistics-members.html +++ b/site/classCryptStatistics-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCryptStatistics.html b/site/classCryptStatistics.html index fc3bd32d3..56a865e40 100644 --- a/site/classCryptStatistics.html +++ b/site/classCryptStatistics.html @@ -23,7 +23,7 @@ diff --git a/site/classCryptVertexBasedDivisionRule-members.html b/site/classCryptVertexBasedDivisionRule-members.html index f154405fa..790cfa8d1 100644 --- a/site/classCryptVertexBasedDivisionRule-members.html +++ b/site/classCryptVertexBasedDivisionRule-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCryptVertexBasedDivisionRule.html b/site/classCryptVertexBasedDivisionRule.html index 1a3a1416e..f3ab8e9d5 100644 --- a/site/classCryptVertexBasedDivisionRule.html +++ b/site/classCryptVertexBasedDivisionRule.html @@ -23,7 +23,7 @@ diff --git a/site/classCuboidMeshConstructor-members.html b/site/classCuboidMeshConstructor-members.html index 4d66d15e9..82932c563 100644 --- a/site/classCuboidMeshConstructor-members.html +++ b/site/classCuboidMeshConstructor-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCuboidMeshConstructor.html b/site/classCuboidMeshConstructor.html index a889dae57..8187a365f 100644 --- a/site/classCuboidMeshConstructor.html +++ b/site/classCuboidMeshConstructor.html @@ -23,7 +23,7 @@ diff --git a/site/classCvodeAdaptor-members.html b/site/classCvodeAdaptor-members.html index fb861cc01..6759ba25e 100644 --- a/site/classCvodeAdaptor-members.html +++ b/site/classCvodeAdaptor-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCvodeAdaptor.html b/site/classCvodeAdaptor.html index e89aa8e7e..793f68cdd 100644 --- a/site/classCvodeAdaptor.html +++ b/site/classCvodeAdaptor.html @@ -23,7 +23,7 @@ diff --git a/site/classCylindrical2dMesh-members.html b/site/classCylindrical2dMesh-members.html index 060de05e1..ed07fe4de 100644 --- a/site/classCylindrical2dMesh-members.html +++ b/site/classCylindrical2dMesh-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCylindrical2dMesh.html b/site/classCylindrical2dMesh.html index 24d872185..0dc7226a1 100644 --- a/site/classCylindrical2dMesh.html +++ b/site/classCylindrical2dMesh.html @@ -23,7 +23,7 @@ diff --git a/site/classCylindrical2dNodesOnlyMesh-members.html b/site/classCylindrical2dNodesOnlyMesh-members.html index f785cdbea..6043cbddb 100644 --- a/site/classCylindrical2dNodesOnlyMesh-members.html +++ b/site/classCylindrical2dNodesOnlyMesh-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCylindrical2dNodesOnlyMesh.html b/site/classCylindrical2dNodesOnlyMesh.html index 769b8d9ef..f9af8fce5 100644 --- a/site/classCylindrical2dNodesOnlyMesh.html +++ b/site/classCylindrical2dNodesOnlyMesh.html @@ -23,7 +23,7 @@ diff --git a/site/classCylindrical2dVertexMesh-members.html b/site/classCylindrical2dVertexMesh-members.html index a6c508545..9ee25053f 100644 --- a/site/classCylindrical2dVertexMesh-members.html +++ b/site/classCylindrical2dVertexMesh-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCylindrical2dVertexMesh.html b/site/classCylindrical2dVertexMesh.html index e143f8ba3..2eccbb1e3 100644 --- a/site/classCylindrical2dVertexMesh.html +++ b/site/classCylindrical2dVertexMesh.html @@ -23,7 +23,7 @@ diff --git a/site/classCylindricalHoneycombMeshGenerator-members.html b/site/classCylindricalHoneycombMeshGenerator-members.html index 6fae009c2..faf96905f 100644 --- a/site/classCylindricalHoneycombMeshGenerator-members.html +++ b/site/classCylindricalHoneycombMeshGenerator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCylindricalHoneycombMeshGenerator.html b/site/classCylindricalHoneycombMeshGenerator.html index 7836ddbf4..94b2ebe08 100644 --- a/site/classCylindricalHoneycombMeshGenerator.html +++ b/site/classCylindricalHoneycombMeshGenerator.html @@ -23,7 +23,7 @@ diff --git a/site/classCylindricalHoneycombVertexMeshGenerator-members.html b/site/classCylindricalHoneycombVertexMeshGenerator-members.html index 05b0aef02..d4b462629 100644 --- a/site/classCylindricalHoneycombVertexMeshGenerator-members.html +++ b/site/classCylindricalHoneycombVertexMeshGenerator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classCylindricalHoneycombVertexMeshGenerator.html b/site/classCylindricalHoneycombVertexMeshGenerator.html index 8a0c5829b..267466733 100644 --- a/site/classCylindricalHoneycombVertexMeshGenerator.html +++ b/site/classCylindricalHoneycombVertexMeshGenerator.html @@ -23,7 +23,7 @@ diff --git a/site/classDefaultCellProliferativeType-members.html b/site/classDefaultCellProliferativeType-members.html index 216bd107f..fdfe61cb8 100644 --- a/site/classDefaultCellProliferativeType-members.html +++ b/site/classDefaultCellProliferativeType-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDefaultCellProliferativeType.html b/site/classDefaultCellProliferativeType.html index 2d0eb1103..2989866df 100644 --- a/site/classDefaultCellProliferativeType.html +++ b/site/classDefaultCellProliferativeType.html @@ -23,7 +23,7 @@ diff --git a/site/classDeltaNotchEdgeInteriorTrackingModifier-members.html b/site/classDeltaNotchEdgeInteriorTrackingModifier-members.html index 76f882ad3..c95dc7c32 100644 --- a/site/classDeltaNotchEdgeInteriorTrackingModifier-members.html +++ b/site/classDeltaNotchEdgeInteriorTrackingModifier-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDeltaNotchEdgeInteriorTrackingModifier.html b/site/classDeltaNotchEdgeInteriorTrackingModifier.html index 1bb3c12c7..dc4eee59e 100644 --- a/site/classDeltaNotchEdgeInteriorTrackingModifier.html +++ b/site/classDeltaNotchEdgeInteriorTrackingModifier.html @@ -23,7 +23,7 @@ diff --git a/site/classDeltaNotchEdgeOdeSystem-members.html b/site/classDeltaNotchEdgeOdeSystem-members.html index a2abf6fc6..53121796c 100644 --- a/site/classDeltaNotchEdgeOdeSystem-members.html +++ b/site/classDeltaNotchEdgeOdeSystem-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDeltaNotchEdgeOdeSystem.html b/site/classDeltaNotchEdgeOdeSystem.html index 97c8d9aff..e81bdf106 100644 --- a/site/classDeltaNotchEdgeOdeSystem.html +++ b/site/classDeltaNotchEdgeOdeSystem.html @@ -23,7 +23,7 @@ diff --git a/site/classDeltaNotchEdgeSrnModel-members.html b/site/classDeltaNotchEdgeSrnModel-members.html index f9969b625..36bc73709 100644 --- a/site/classDeltaNotchEdgeSrnModel-members.html +++ b/site/classDeltaNotchEdgeSrnModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDeltaNotchEdgeSrnModel.html b/site/classDeltaNotchEdgeSrnModel.html index 8a5e0ef53..ae4a27964 100644 --- a/site/classDeltaNotchEdgeSrnModel.html +++ b/site/classDeltaNotchEdgeSrnModel.html @@ -23,7 +23,7 @@ diff --git a/site/classDeltaNotchEdgeTrackingModifier-members.html b/site/classDeltaNotchEdgeTrackingModifier-members.html index 6751b016b..6274cdb37 100644 --- a/site/classDeltaNotchEdgeTrackingModifier-members.html +++ b/site/classDeltaNotchEdgeTrackingModifier-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDeltaNotchEdgeTrackingModifier.html b/site/classDeltaNotchEdgeTrackingModifier.html index a191f593e..5b3cd12d4 100644 --- a/site/classDeltaNotchEdgeTrackingModifier.html +++ b/site/classDeltaNotchEdgeTrackingModifier.html @@ -23,7 +23,7 @@ diff --git a/site/classDeltaNotchInteriorOdeSystem-members.html b/site/classDeltaNotchInteriorOdeSystem-members.html index a2a0521f9..598369f2b 100644 --- a/site/classDeltaNotchInteriorOdeSystem-members.html +++ b/site/classDeltaNotchInteriorOdeSystem-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDeltaNotchInteriorOdeSystem.html b/site/classDeltaNotchInteriorOdeSystem.html index 9be3eb97c..9f5497a27 100644 --- a/site/classDeltaNotchInteriorOdeSystem.html +++ b/site/classDeltaNotchInteriorOdeSystem.html @@ -23,7 +23,7 @@ diff --git a/site/classDeltaNotchInteriorSrnModel-members.html b/site/classDeltaNotchInteriorSrnModel-members.html index 6a3aaaf9f..72401d741 100644 --- a/site/classDeltaNotchInteriorSrnModel-members.html +++ b/site/classDeltaNotchInteriorSrnModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDeltaNotchInteriorSrnModel.html b/site/classDeltaNotchInteriorSrnModel.html index 5779fe174..82e93e485 100644 --- a/site/classDeltaNotchInteriorSrnModel.html +++ b/site/classDeltaNotchInteriorSrnModel.html @@ -23,7 +23,7 @@ diff --git a/site/classDeltaNotchOdeSystem-members.html b/site/classDeltaNotchOdeSystem-members.html index beb5420a8..22e4cf58c 100644 --- a/site/classDeltaNotchOdeSystem-members.html +++ b/site/classDeltaNotchOdeSystem-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDeltaNotchOdeSystem.html b/site/classDeltaNotchOdeSystem.html index 29be08e81..e9f4d82a7 100644 --- a/site/classDeltaNotchOdeSystem.html +++ b/site/classDeltaNotchOdeSystem.html @@ -23,7 +23,7 @@ diff --git a/site/classDeltaNotchSrnModel-members.html b/site/classDeltaNotchSrnModel-members.html index 1c0ca2089..3e28812a0 100644 --- a/site/classDeltaNotchSrnModel-members.html +++ b/site/classDeltaNotchSrnModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDeltaNotchSrnModel.html b/site/classDeltaNotchSrnModel.html index 9ccba664f..2be3a3fe2 100644 --- a/site/classDeltaNotchSrnModel.html +++ b/site/classDeltaNotchSrnModel.html @@ -23,7 +23,7 @@ diff --git a/site/classDeltaNotchTrackingModifier-members.html b/site/classDeltaNotchTrackingModifier-members.html index 8346cb007..e12052572 100644 --- a/site/classDeltaNotchTrackingModifier-members.html +++ b/site/classDeltaNotchTrackingModifier-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDeltaNotchTrackingModifier.html b/site/classDeltaNotchTrackingModifier.html index 4d79bb33f..687023cfa 100644 --- a/site/classDeltaNotchTrackingModifier.html +++ b/site/classDeltaNotchTrackingModifier.html @@ -23,7 +23,7 @@ diff --git a/site/classDifferentialAdhesionGeneralisedLinearSpringForce-members.html b/site/classDifferentialAdhesionGeneralisedLinearSpringForce-members.html index c5e8fab1c..a63388b50 100644 --- a/site/classDifferentialAdhesionGeneralisedLinearSpringForce-members.html +++ b/site/classDifferentialAdhesionGeneralisedLinearSpringForce-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDifferentialAdhesionGeneralisedLinearSpringForce.html b/site/classDifferentialAdhesionGeneralisedLinearSpringForce.html index e2d68f805..ba1e03893 100644 --- a/site/classDifferentialAdhesionGeneralisedLinearSpringForce.html +++ b/site/classDifferentialAdhesionGeneralisedLinearSpringForce.html @@ -23,7 +23,7 @@ diff --git a/site/classDifferentialAdhesionPottsUpdateRule-members.html b/site/classDifferentialAdhesionPottsUpdateRule-members.html index fda7baef7..1cc6ad33a 100644 --- a/site/classDifferentialAdhesionPottsUpdateRule-members.html +++ b/site/classDifferentialAdhesionPottsUpdateRule-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDifferentialAdhesionPottsUpdateRule.html b/site/classDifferentialAdhesionPottsUpdateRule.html index 20a669d51..ccd9e0a24 100644 --- a/site/classDifferentialAdhesionPottsUpdateRule.html +++ b/site/classDifferentialAdhesionPottsUpdateRule.html @@ -23,7 +23,7 @@ diff --git a/site/classDifferentiatedCellProliferativeType-members.html b/site/classDifferentiatedCellProliferativeType-members.html index 287143042..c1ecb0cef 100644 --- a/site/classDifferentiatedCellProliferativeType-members.html +++ b/site/classDifferentiatedCellProliferativeType-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDifferentiatedCellProliferativeType.html b/site/classDifferentiatedCellProliferativeType.html index e7bc904ee..3dacb97a8 100644 --- a/site/classDifferentiatedCellProliferativeType.html +++ b/site/classDifferentiatedCellProliferativeType.html @@ -23,7 +23,7 @@ diff --git a/site/classDiffusionCaUpdateRule-members.html b/site/classDiffusionCaUpdateRule-members.html index 624038e17..5d53b5eb0 100644 --- a/site/classDiffusionCaUpdateRule-members.html +++ b/site/classDiffusionCaUpdateRule-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDiffusionCaUpdateRule.html b/site/classDiffusionCaUpdateRule.html index 85cb616a8..ef6dcab0f 100644 --- a/site/classDiffusionCaUpdateRule.html +++ b/site/classDiffusionCaUpdateRule.html @@ -23,7 +23,7 @@ diff --git a/site/classDiffusionForce-members.html b/site/classDiffusionForce-members.html index 2a57d3180..c9d47232f 100644 --- a/site/classDiffusionForce-members.html +++ b/site/classDiffusionForce-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDiffusionForce.html b/site/classDiffusionForce.html index 9386d8247..e7b159283 100644 --- a/site/classDiffusionForce.html +++ b/site/classDiffusionForce.html @@ -23,7 +23,7 @@ diff --git a/site/classDiscreteSystemForceCalculator-members.html b/site/classDiscreteSystemForceCalculator-members.html index 4ec72fbb9..9e0970220 100644 --- a/site/classDiscreteSystemForceCalculator-members.html +++ b/site/classDiscreteSystemForceCalculator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDiscreteSystemForceCalculator.html b/site/classDiscreteSystemForceCalculator.html index a6b81a24d..4f2b8fa5f 100644 --- a/site/classDiscreteSystemForceCalculator.html +++ b/site/classDiscreteSystemForceCalculator.html @@ -23,7 +23,7 @@ diff --git a/site/classDistanceMapCalculator-members.html b/site/classDistanceMapCalculator-members.html index e0d5ec714..e1849821c 100644 --- a/site/classDistanceMapCalculator-members.html +++ b/site/classDistanceMapCalculator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDistanceMapCalculator.html b/site/classDistanceMapCalculator.html index 5b65985a7..96af2de72 100644 --- a/site/classDistanceMapCalculator.html +++ b/site/classDistanceMapCalculator.html @@ -23,7 +23,7 @@ diff --git a/site/classDistributedBoxCollection-members.html b/site/classDistributedBoxCollection-members.html index 6674ea5f2..d0f3318a4 100644 --- a/site/classDistributedBoxCollection-members.html +++ b/site/classDistributedBoxCollection-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDistributedBoxCollection.html b/site/classDistributedBoxCollection.html index ec73ef21b..3d40e8441 100644 --- a/site/classDistributedBoxCollection.html +++ b/site/classDistributedBoxCollection.html @@ -23,7 +23,7 @@ diff --git a/site/classDistributedQuadraticMesh-members.html b/site/classDistributedQuadraticMesh-members.html index ff7b20211..76470b215 100644 --- a/site/classDistributedQuadraticMesh-members.html +++ b/site/classDistributedQuadraticMesh-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDistributedQuadraticMesh.html b/site/classDistributedQuadraticMesh.html index b2dd9ad09..e65892ca1 100644 --- a/site/classDistributedQuadraticMesh.html +++ b/site/classDistributedQuadraticMesh.html @@ -23,7 +23,7 @@ diff --git a/site/classDistributedTetrahedralMesh-members.html b/site/classDistributedTetrahedralMesh-members.html index 25f362b4f..b8b67d2af 100644 --- a/site/classDistributedTetrahedralMesh-members.html +++ b/site/classDistributedTetrahedralMesh-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDistributedTetrahedralMesh.html b/site/classDistributedTetrahedralMesh.html index 8194c5e49..e692bbce8 100644 --- a/site/classDistributedTetrahedralMesh.html +++ b/site/classDistributedTetrahedralMesh.html @@ -23,7 +23,7 @@ diff --git a/site/classDistributedVector-members.html b/site/classDistributedVector-members.html index d656d6d21..6b6136420 100644 --- a/site/classDistributedVector-members.html +++ b/site/classDistributedVector-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDistributedVector.html b/site/classDistributedVector.html index 54578f15c..f9c464680 100644 --- a/site/classDistributedVector.html +++ b/site/classDistributedVector.html @@ -23,7 +23,7 @@ diff --git a/site/classDistributedVectorException-members.html b/site/classDistributedVectorException-members.html index 5dbc51010..c9482481d 100644 --- a/site/classDistributedVectorException-members.html +++ b/site/classDistributedVectorException-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDistributedVectorException.html b/site/classDistributedVectorException.html index cf9de266b..115482b84 100644 --- a/site/classDistributedVectorException.html +++ b/site/classDistributedVectorException.html @@ -23,7 +23,7 @@ diff --git a/site/classDistributedVectorFactory-members.html b/site/classDistributedVectorFactory-members.html index b847d1e67..c185752ee 100644 --- a/site/classDistributedVectorFactory-members.html +++ b/site/classDistributedVectorFactory-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDistributedVectorFactory.html b/site/classDistributedVectorFactory.html index 9f541726b..08376d46c 100644 --- a/site/classDistributedVectorFactory.html +++ b/site/classDistributedVectorFactory.html @@ -23,7 +23,7 @@ diff --git a/site/classDistributedVector_1_1Chunk-members.html b/site/classDistributedVector_1_1Chunk-members.html index 57fd8395f..164a78f33 100644 --- a/site/classDistributedVector_1_1Chunk-members.html +++ b/site/classDistributedVector_1_1Chunk-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDistributedVector_1_1Chunk.html b/site/classDistributedVector_1_1Chunk.html index ff864a1dd..327499fc0 100644 --- a/site/classDistributedVector_1_1Chunk.html +++ b/site/classDistributedVector_1_1Chunk.html @@ -23,7 +23,7 @@ diff --git a/site/classDistributedVector_1_1Iterator-members.html b/site/classDistributedVector_1_1Iterator-members.html index 03f111892..a3d5a48db 100644 --- a/site/classDistributedVector_1_1Iterator-members.html +++ b/site/classDistributedVector_1_1Iterator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDistributedVector_1_1Iterator.html b/site/classDistributedVector_1_1Iterator.html index cfe374583..8c7b597df 100644 --- a/site/classDistributedVector_1_1Iterator.html +++ b/site/classDistributedVector_1_1Iterator.html @@ -23,7 +23,7 @@ diff --git a/site/classDistributedVector_1_1Stripe-members.html b/site/classDistributedVector_1_1Stripe-members.html index c84bdd883..cfe381f67 100644 --- a/site/classDistributedVector_1_1Stripe-members.html +++ b/site/classDistributedVector_1_1Stripe-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDistributedVector_1_1Stripe.html b/site/classDistributedVector_1_1Stripe.html index 19f577db2..1ab19593a 100644 --- a/site/classDistributedVector_1_1Stripe.html +++ b/site/classDistributedVector_1_1Stripe.html @@ -23,7 +23,7 @@ diff --git a/site/classDivisionBiasTrackingModifier-members.html b/site/classDivisionBiasTrackingModifier-members.html index c908323e2..2a88bedb1 100644 --- a/site/classDivisionBiasTrackingModifier-members.html +++ b/site/classDivisionBiasTrackingModifier-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDivisionBiasTrackingModifier.html b/site/classDivisionBiasTrackingModifier.html index 52fa0e2ef..4c08ad44d 100644 --- a/site/classDivisionBiasTrackingModifier.html +++ b/site/classDivisionBiasTrackingModifier.html @@ -23,7 +23,7 @@ diff --git a/site/classDummyModifier-members.html b/site/classDummyModifier-members.html index 1b1f5c8ba..0541d77c9 100644 --- a/site/classDummyModifier-members.html +++ b/site/classDummyModifier-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDummyModifier.html b/site/classDummyModifier.html index 705fe76cf..23b71a2a9 100644 --- a/site/classDummyModifier.html +++ b/site/classDummyModifier.html @@ -23,7 +23,7 @@ diff --git a/site/classDynamicCellModelLoader-members.html b/site/classDynamicCellModelLoader-members.html index 1add85cbc..8cf209491 100644 --- a/site/classDynamicCellModelLoader-members.html +++ b/site/classDynamicCellModelLoader-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDynamicCellModelLoader.html b/site/classDynamicCellModelLoader.html index 588399782..0a6a7aad2 100644 --- a/site/classDynamicCellModelLoader.html +++ b/site/classDynamicCellModelLoader.html @@ -23,7 +23,7 @@ diff --git a/site/classDynamicModelLoaderRegistry-members.html b/site/classDynamicModelLoaderRegistry-members.html index 918a87fa7..a5dd9f6b0 100644 --- a/site/classDynamicModelLoaderRegistry-members.html +++ b/site/classDynamicModelLoaderRegistry-members.html @@ -23,7 +23,7 @@ diff --git a/site/classDynamicModelLoaderRegistry.html b/site/classDynamicModelLoaderRegistry.html index e2fc6ed9e..e319beea6 100644 --- a/site/classDynamicModelLoaderRegistry.html +++ b/site/classDynamicModelLoaderRegistry.html @@ -23,7 +23,7 @@ diff --git a/site/classELASTICITY__SOLVER.html b/site/classELASTICITY__SOLVER.html index ba3679b49..ab48d3d3a 100644 --- a/site/classELASTICITY__SOLVER.html +++ b/site/classELASTICITY__SOLVER.html @@ -23,7 +23,7 @@ diff --git a/site/classEdge-members.html b/site/classEdge-members.html index 52ab8c637..709b0a670 100644 --- a/site/classEdge-members.html +++ b/site/classEdge-members.html @@ -23,7 +23,7 @@ diff --git a/site/classEdge.html b/site/classEdge.html index fbaab1b9f..5fea68dac 100644 --- a/site/classEdge.html +++ b/site/classEdge.html @@ -23,7 +23,7 @@ diff --git a/site/classEdgeHelper-members.html b/site/classEdgeHelper-members.html index ebf7a21dd..5d9ffc6c9 100644 --- a/site/classEdgeHelper-members.html +++ b/site/classEdgeHelper-members.html @@ -23,7 +23,7 @@ diff --git a/site/classEdgeHelper.html b/site/classEdgeHelper.html index f7d4fcbe0..fb2f78156 100644 --- a/site/classEdgeHelper.html +++ b/site/classEdgeHelper.html @@ -23,7 +23,7 @@ diff --git a/site/classEdgeHelper_3_01SPACE__DIM_01_4.html b/site/classEdgeHelper_3_01SPACE__DIM_01_4.html index f3aeaf71e..41338d1a7 100644 --- a/site/classEdgeHelper_3_01SPACE__DIM_01_4.html +++ b/site/classEdgeHelper_3_01SPACE__DIM_01_4.html @@ -23,7 +23,7 @@ diff --git a/site/classEdgeHelper_3_01SPACE__DIM_01_4_01_5.html b/site/classEdgeHelper_3_01SPACE__DIM_01_4_01_5.html index f61ae2f13..e0361ce43 100644 --- a/site/classEdgeHelper_3_01SPACE__DIM_01_4_01_5.html +++ b/site/classEdgeHelper_3_01SPACE__DIM_01_4_01_5.html @@ -23,7 +23,7 @@ diff --git a/site/classEdgeOperation-members.html b/site/classEdgeOperation-members.html index b1f2097b5..682106527 100644 --- a/site/classEdgeOperation-members.html +++ b/site/classEdgeOperation-members.html @@ -23,7 +23,7 @@ diff --git a/site/classEdgeOperation.html b/site/classEdgeOperation.html index 419a219d5..d07c587a1 100644 --- a/site/classEdgeOperation.html +++ b/site/classEdgeOperation.html @@ -23,7 +23,7 @@ diff --git a/site/classEdgeRemapInfo-members.html b/site/classEdgeRemapInfo-members.html index 5af445aa1..a8c5dc27b 100644 --- a/site/classEdgeRemapInfo-members.html +++ b/site/classEdgeRemapInfo-members.html @@ -23,7 +23,7 @@ diff --git a/site/classEdgeRemapInfo.html b/site/classEdgeRemapInfo.html index 825486977..a5553a27c 100644 --- a/site/classEdgeRemapInfo.html +++ b/site/classEdgeRemapInfo.html @@ -23,7 +23,7 @@ diff --git a/site/classElectroMechanicsProblemDefinition-members.html b/site/classElectroMechanicsProblemDefinition-members.html index 5f2e3dc4a..8ab2386e4 100644 --- a/site/classElectroMechanicsProblemDefinition-members.html +++ b/site/classElectroMechanicsProblemDefinition-members.html @@ -23,7 +23,7 @@ diff --git a/site/classElectroMechanicsProblemDefinition.html b/site/classElectroMechanicsProblemDefinition.html index 657f299b0..b29969f4e 100644 --- a/site/classElectroMechanicsProblemDefinition.html +++ b/site/classElectroMechanicsProblemDefinition.html @@ -23,7 +23,7 @@ diff --git a/site/classElectrodes-members.html b/site/classElectrodes-members.html index e28fd1850..ac8b27b6b 100644 --- a/site/classElectrodes-members.html +++ b/site/classElectrodes-members.html @@ -23,7 +23,7 @@ diff --git a/site/classElectrodes.html b/site/classElectrodes.html index 97a461e2f..18e239714 100644 --- a/site/classElectrodes.html +++ b/site/classElectrodes.html @@ -23,7 +23,7 @@ diff --git a/site/classElectrodesStimulusFactory-members.html b/site/classElectrodesStimulusFactory-members.html index 06f733f6e..13e7c8f80 100644 --- a/site/classElectrodesStimulusFactory-members.html +++ b/site/classElectrodesStimulusFactory-members.html @@ -23,7 +23,7 @@ diff --git a/site/classElectrodesStimulusFactory.html b/site/classElectrodesStimulusFactory.html index eaac926e4..3111b781a 100644 --- a/site/classElectrodesStimulusFactory.html +++ b/site/classElectrodesStimulusFactory.html @@ -23,7 +23,7 @@ diff --git a/site/classElement-members.html b/site/classElement-members.html index 2e3422320..0da1948ae 100644 --- a/site/classElement-members.html +++ b/site/classElement-members.html @@ -23,7 +23,7 @@ diff --git a/site/classElement.html b/site/classElement.html index 2e050c04f..d88376b83 100644 --- a/site/classElement.html +++ b/site/classElement.html @@ -23,7 +23,7 @@ diff --git a/site/classElementAttributes-members.html b/site/classElementAttributes-members.html index d2139d703..defcb45b3 100644 --- a/site/classElementAttributes-members.html +++ b/site/classElementAttributes-members.html @@ -23,7 +23,7 @@ diff --git a/site/classElementAttributes.html b/site/classElementAttributes.html index 451d0f949..6708051d3 100644 --- a/site/classElementAttributes.html +++ b/site/classElementAttributes.html @@ -23,7 +23,7 @@ diff --git a/site/classEllipticBoxDomainPdeModifier-members.html b/site/classEllipticBoxDomainPdeModifier-members.html index f8f2cbedd..4c105bd21 100644 --- a/site/classEllipticBoxDomainPdeModifier-members.html +++ b/site/classEllipticBoxDomainPdeModifier-members.html @@ -23,7 +23,7 @@ diff --git a/site/classEllipticBoxDomainPdeModifier.html b/site/classEllipticBoxDomainPdeModifier.html index 06042e3c8..7a8eab47b 100644 --- a/site/classEllipticBoxDomainPdeModifier.html +++ b/site/classEllipticBoxDomainPdeModifier.html @@ -23,7 +23,7 @@ diff --git a/site/classEllipticGrowingDomainPdeModifier-members.html b/site/classEllipticGrowingDomainPdeModifier-members.html index eddf9d156..baa3d5825 100644 --- a/site/classEllipticGrowingDomainPdeModifier-members.html +++ b/site/classEllipticGrowingDomainPdeModifier-members.html @@ -23,7 +23,7 @@ diff --git a/site/classEllipticGrowingDomainPdeModifier.html b/site/classEllipticGrowingDomainPdeModifier.html index ead2dce2e..d0e1cde0d 100644 --- a/site/classEllipticGrowingDomainPdeModifier.html +++ b/site/classEllipticGrowingDomainPdeModifier.html @@ -23,7 +23,7 @@ diff --git a/site/classEulerIvpOdeSolver-members.html b/site/classEulerIvpOdeSolver-members.html index dc563b5a7..1ec09198a 100644 --- a/site/classEulerIvpOdeSolver-members.html +++ b/site/classEulerIvpOdeSolver-members.html @@ -23,7 +23,7 @@ diff --git a/site/classEulerIvpOdeSolver.html b/site/classEulerIvpOdeSolver.html index 0a43f0cae..3e314e6ca 100644 --- a/site/classEulerIvpOdeSolver.html +++ b/site/classEulerIvpOdeSolver.html @@ -23,7 +23,7 @@ diff --git a/site/classException-members.html b/site/classException-members.html index cac6bf0ea..217b1a9f3 100644 --- a/site/classException-members.html +++ b/site/classException-members.html @@ -23,7 +23,7 @@ diff --git a/site/classException.html b/site/classException.html index cee6ad848..b49dac752 100644 --- a/site/classException.html +++ b/site/classException.html @@ -23,7 +23,7 @@ diff --git a/site/classExclusionCaBasedDivisionRule-members.html b/site/classExclusionCaBasedDivisionRule-members.html index 8cb6009c6..7dbbd02f6 100644 --- a/site/classExclusionCaBasedDivisionRule-members.html +++ b/site/classExclusionCaBasedDivisionRule-members.html @@ -23,7 +23,7 @@ diff --git a/site/classExclusionCaBasedDivisionRule.html b/site/classExclusionCaBasedDivisionRule.html index 15b8638cf..4c08e42a9 100644 --- a/site/classExclusionCaBasedDivisionRule.html +++ b/site/classExclusionCaBasedDivisionRule.html @@ -23,7 +23,7 @@ diff --git a/site/classExecutableSupport-members.html b/site/classExecutableSupport-members.html index 3945d7d39..e8e31a124 100644 --- a/site/classExecutableSupport-members.html +++ b/site/classExecutableSupport-members.html @@ -23,7 +23,7 @@ diff --git a/site/classExecutableSupport.html b/site/classExecutableSupport.html index c0cebc741..56ef1aeb3 100644 --- a/site/classExecutableSupport.html +++ b/site/classExecutableSupport.html @@ -23,7 +23,7 @@ @@ -190,7 +190,7 @@

References ChasteBuildInfo::GetBuilderUnameInfo(), ChasteBuildInfo::GetBuildInformation(), ChasteBuildInfo::GetBuildTime(), ChasteBuildInfo::GetChasteCodegenVersion(), OutputFileHandler::GetChasteTestOutputDirectory(), ChasteBuildInfo::GetCompilerFlags(), ChasteBuildInfo::GetCompilerType(), ChasteBuildInfo::GetCompilerVersion(), ChasteBuildInfo::GetVersionString(), ChasteBuildInfo::GetXsdVersion(), ChasteBuildInfo::IsWorkingCopyModified(), ChasteBuildInfo::rGetIfProjectsModified(), and ChasteBuildInfo::rGetProjectVersions().

-

Referenced by AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::OutputSimulationSetup(), and WriteProvenanceInfoFile().

+

Referenced by AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::OutputSimulationSetup(), and WriteProvenanceInfoFile().

@@ -363,7 +363,7 @@

References RelativeTo::Absolute, RelativeTo::ChasteTestOutput, FileFinder::IsAbsolutePath(), mOutputDirectory, and FileFinder::SetPath().

-

Referenced by CardiacSimulation::CardiacSimulation(), and AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::OutputSimulationSetup().

+

Referenced by CardiacSimulation::CardiacSimulation(), and AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::OutputSimulationSetup().

@@ -562,7 +562,7 @@

References RelativeTo::ChasteTestOutput, PetscTools::GetMyRank(), PetscTools::GetNumProcs(), FileFinder::IsPathSet(), mOutputDirectory, OutputFileHandler::OpenOutputFile(), and FileFinder::SetPath().

-

Referenced by CardiacSimulation::CardiacSimulation(), and AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::OutputSimulationSetup().

+

Referenced by CardiacSimulation::CardiacSimulation(), and AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::OutputSimulationSetup().

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diff --git a/site/classHdf5ToCmguiConverter-members.html b/site/classHdf5ToCmguiConverter-members.html index cd1ed44e8..d17860e0a 100644 --- a/site/classHdf5ToCmguiConverter-members.html +++ b/site/classHdf5ToCmguiConverter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classHdf5ToCmguiConverter.html b/site/classHdf5ToCmguiConverter.html index e4e22e287..1669a1223 100644 --- a/site/classHdf5ToCmguiConverter.html +++ b/site/classHdf5ToCmguiConverter.html @@ -23,7 +23,7 @@ diff --git a/site/classHdf5ToMeshalyzerConverter-members.html b/site/classHdf5ToMeshalyzerConverter-members.html index c0497eeff..331904e4a 100644 --- a/site/classHdf5ToMeshalyzerConverter-members.html +++ b/site/classHdf5ToMeshalyzerConverter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classHdf5ToMeshalyzerConverter.html b/site/classHdf5ToMeshalyzerConverter.html index f9e3e0fee..8ae345236 100644 --- a/site/classHdf5ToMeshalyzerConverter.html +++ b/site/classHdf5ToMeshalyzerConverter.html @@ -23,7 +23,7 @@ diff --git a/site/classHdf5ToTxtConverter-members.html b/site/classHdf5ToTxtConverter-members.html index a823b4dff..b209d98cf 100644 --- a/site/classHdf5ToTxtConverter-members.html +++ b/site/classHdf5ToTxtConverter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classHdf5ToTxtConverter.html b/site/classHdf5ToTxtConverter.html index 5edc947a2..dbbe5e493 100644 --- a/site/classHdf5ToTxtConverter.html +++ b/site/classHdf5ToTxtConverter.html @@ -23,7 +23,7 @@ diff --git a/site/classHdf5ToVtkConverter-members.html b/site/classHdf5ToVtkConverter-members.html index 14cb200b8..b90fd23f9 100644 --- a/site/classHdf5ToVtkConverter-members.html +++ b/site/classHdf5ToVtkConverter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classHdf5ToVtkConverter.html b/site/classHdf5ToVtkConverter.html index dcb6b778a..9030314ea 100644 --- a/site/classHdf5ToVtkConverter.html +++ b/site/classHdf5ToVtkConverter.html @@ -23,7 +23,7 @@ diff --git a/site/classHdf5ToXdmfConverter-members.html b/site/classHdf5ToXdmfConverter-members.html index 5a1fd720b..b2994b045 100644 --- a/site/classHdf5ToXdmfConverter-members.html +++ b/site/classHdf5ToXdmfConverter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classHdf5ToXdmfConverter.html b/site/classHdf5ToXdmfConverter.html index 8e86903f7..66b6e964e 100644 --- a/site/classHdf5ToXdmfConverter.html +++ b/site/classHdf5ToXdmfConverter.html @@ -23,7 +23,7 @@ diff --git a/site/classHeartConfig-members.html b/site/classHeartConfig-members.html index 2941f2955..33f260d3f 100644 --- a/site/classHeartConfig-members.html +++ b/site/classHeartConfig-members.html @@ -23,7 +23,7 @@ diff --git a/site/classHeartConfig.html b/site/classHeartConfig.html index d39d89dbd..fe96d4bb5 100644 --- a/site/classHeartConfig.html +++ b/site/classHeartConfig.html @@ -23,7 +23,7 @@ @@ -1129,7 +1129,7 @@

Todo:
    +
    Todo:
    • do we assume the vectors are initially empty?
    diff --git a/site/classHeartConfigRelatedCellFactory-members.html b/site/classHeartConfigRelatedCellFactory-members.html index 19b2848ce..50ba5a6a2 100644 --- a/site/classHeartConfigRelatedCellFactory-members.html +++ b/site/classHeartConfigRelatedCellFactory-members.html @@ -23,7 +23,7 @@

diff --git a/site/classHeartConfigRelatedCellFactory.html b/site/classHeartConfigRelatedCellFactory.html index 44df1fb7b..98137f8f8 100644 --- a/site/classHeartConfigRelatedCellFactory.html +++ b/site/classHeartConfigRelatedCellFactory.html @@ -23,7 +23,7 @@ diff --git a/site/classHeartEventHandler-members.html b/site/classHeartEventHandler-members.html index f2942d2da..4674bf909 100644 --- a/site/classHeartEventHandler-members.html +++ b/site/classHeartEventHandler-members.html @@ -23,7 +23,7 @@ diff --git a/site/classHeartEventHandler.html b/site/classHeartEventHandler.html index f53d1ad3f..065ea3bef 100644 --- a/site/classHeartEventHandler.html +++ b/site/classHeartEventHandler.html @@ -23,7 +23,7 @@ diff --git a/site/classHeartFileFinder-members.html b/site/classHeartFileFinder-members.html index 55a1cb83d..3733412ad 100644 --- a/site/classHeartFileFinder-members.html +++ b/site/classHeartFileFinder-members.html @@ -23,7 +23,7 @@ diff --git a/site/classHeartFileFinder.html b/site/classHeartFileFinder.html index f601c3771..9ebaf3f0c 100644 --- a/site/classHeartFileFinder.html +++ b/site/classHeartFileFinder.html @@ -23,7 +23,7 @@ diff --git a/site/classHeartGeometryInformation-members.html b/site/classHeartGeometryInformation-members.html index 09bf4c15e..8132fa439 100644 --- a/site/classHeartGeometryInformation-members.html +++ b/site/classHeartGeometryInformation-members.html @@ -23,7 +23,7 @@ diff --git a/site/classHeartGeometryInformation.html b/site/classHeartGeometryInformation.html index 6d96316fd..44a8e6ffd 100644 --- a/site/classHeartGeometryInformation.html +++ b/site/classHeartGeometryInformation.html @@ -23,7 +23,7 @@ diff --git a/site/classHeartRegionCode-members.html b/site/classHeartRegionCode-members.html index cca6cacc5..e221e5e2c 100644 --- a/site/classHeartRegionCode-members.html +++ b/site/classHeartRegionCode-members.html @@ -23,7 +23,7 @@ diff --git a/site/classHeartRegionCode.html b/site/classHeartRegionCode.html index e695f4bb1..420b8cdde 100644 --- a/site/classHeartRegionCode.html +++ b/site/classHeartRegionCode.html @@ -23,7 +23,7 @@ diff --git a/site/classHeterotypicBoundaryLengthWriter-members.html b/site/classHeterotypicBoundaryLengthWriter-members.html index 71c9b92f1..85f673ab5 100644 --- a/site/classHeterotypicBoundaryLengthWriter-members.html +++ b/site/classHeterotypicBoundaryLengthWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classHeterotypicBoundaryLengthWriter.html b/site/classHeterotypicBoundaryLengthWriter.html index 4a70a51e1..908134f5b 100644 --- a/site/classHeterotypicBoundaryLengthWriter.html +++ b/site/classHeterotypicBoundaryLengthWriter.html @@ -23,7 +23,7 @@ @@ -351,8 +351,8 @@

Todo:
#2273 - check if this call is needed
-
Todo:
#2273 - check we have correctly dealt with ghost nodes
+
Todo:
#2273 - check if this call is needed
+
Todo:
#2273 - check we have correctly dealt with ghost nodes

Implements AbstractCellPopulationWriter< ELEMENT_DIM, SPACE_DIM >.

@@ -397,7 +397,7 @@

Todo:
#2273 - check if this call to Update() is needed
+
Todo:
#2273 - check if this call to Update() is needed

Implements AbstractCellPopulationWriter< ELEMENT_DIM, SPACE_DIM >.

@@ -442,7 +442,7 @@

Todo:
#2273 - investigate whether there is a hard-coded assumption that neighbouring nodes in Potts simulations are unit distance apart
+
Todo:
#2273 - investigate whether there is a hard-coded assumption that neighbouring nodes in Potts simulations are unit distance apart

Implements AbstractCellPopulationWriter< ELEMENT_DIM, SPACE_DIM >.

@@ -487,7 +487,7 @@

Todo:
#2273 - check if this call to Update() is needed
+
Todo:
#2273 - check if this call to Update() is needed

Implements AbstractCellPopulationWriter< ELEMENT_DIM, SPACE_DIM >.

diff --git a/site/classHeunIvpOdeSolver-members.html b/site/classHeunIvpOdeSolver-members.html index ab5f520b8..8ee3d1d08 100644 --- a/site/classHeunIvpOdeSolver-members.html +++ b/site/classHeunIvpOdeSolver-members.html @@ -23,7 +23,7 @@

diff --git a/site/classHeunIvpOdeSolver.html b/site/classHeunIvpOdeSolver.html index 4ac3cfbdd..0c5c03ed0 100644 --- a/site/classHeunIvpOdeSolver.html +++ b/site/classHeunIvpOdeSolver.html @@ -23,7 +23,7 @@ diff --git a/site/classHoneycombMeshGenerator-members.html b/site/classHoneycombMeshGenerator-members.html index a849bf05e..2e7b153b3 100644 --- a/site/classHoneycombMeshGenerator-members.html +++ b/site/classHoneycombMeshGenerator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classHoneycombMeshGenerator.html b/site/classHoneycombMeshGenerator.html index 784580b18..8a000bdde 100644 --- a/site/classHoneycombMeshGenerator.html +++ b/site/classHoneycombMeshGenerator.html @@ -23,7 +23,7 @@ diff --git a/site/classHoneycombVertexMeshGenerator-members.html b/site/classHoneycombVertexMeshGenerator-members.html index 17ef650a1..84a78031f 100644 --- a/site/classHoneycombVertexMeshGenerator-members.html +++ b/site/classHoneycombVertexMeshGenerator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classHoneycombVertexMeshGenerator.html b/site/classHoneycombVertexMeshGenerator.html index 36ea9f5ec..1140b7f3f 100644 --- a/site/classHoneycombVertexMeshGenerator.html +++ b/site/classHoneycombVertexMeshGenerator.html @@ -23,7 +23,7 @@ diff --git a/site/classIdentifiable-members.html b/site/classIdentifiable-members.html index 10215e4ac..0dc5fde92 100644 --- a/site/classIdentifiable-members.html +++ b/site/classIdentifiable-members.html @@ -23,7 +23,7 @@ diff --git a/site/classIdentifiable.html b/site/classIdentifiable.html index edfe0ceee..116966325 100644 --- a/site/classIdentifiable.html +++ b/site/classIdentifiable.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundary2dArrays-members.html b/site/classImmersedBoundary2dArrays-members.html index 6a4f77c29..07c8a5a20 100644 --- a/site/classImmersedBoundary2dArrays-members.html +++ b/site/classImmersedBoundary2dArrays-members.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundary2dArrays.html b/site/classImmersedBoundary2dArrays.html index 2493aa03f..cf564dbc4 100644 --- a/site/classImmersedBoundary2dArrays.html +++ b/site/classImmersedBoundary2dArrays.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryBoundaryCellWriter-members.html b/site/classImmersedBoundaryBoundaryCellWriter-members.html index 17f78c9a5..6c278597a 100644 --- a/site/classImmersedBoundaryBoundaryCellWriter-members.html +++ b/site/classImmersedBoundaryBoundaryCellWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryBoundaryCellWriter.html b/site/classImmersedBoundaryBoundaryCellWriter.html index e5e32a91f..c29229936 100644 --- a/site/classImmersedBoundaryBoundaryCellWriter.html +++ b/site/classImmersedBoundaryBoundaryCellWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryCellPopulation-members.html b/site/classImmersedBoundaryCellPopulation-members.html index bf81f6eb6..8346ea6b3 100644 --- a/site/classImmersedBoundaryCellPopulation-members.html +++ b/site/classImmersedBoundaryCellPopulation-members.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryCellPopulation.html b/site/classImmersedBoundaryCellPopulation.html index f4d0fd2ab..f05b1ea9b 100644 --- a/site/classImmersedBoundaryCellPopulation.html +++ b/site/classImmersedBoundaryCellPopulation.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryElement-members.html b/site/classImmersedBoundaryElement-members.html index 099c23079..ab2f08e48 100644 --- a/site/classImmersedBoundaryElement-members.html +++ b/site/classImmersedBoundaryElement-members.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryElement.html b/site/classImmersedBoundaryElement.html index 50983f8c6..187e5fda4 100644 --- a/site/classImmersedBoundaryElement.html +++ b/site/classImmersedBoundaryElement.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryElement_3_011_00_01SPACE__DIM_01_4-members.html b/site/classImmersedBoundaryElement_3_011_00_01SPACE__DIM_01_4-members.html index fdf58f572..d5a75c1f4 100644 --- a/site/classImmersedBoundaryElement_3_011_00_01SPACE__DIM_01_4-members.html +++ b/site/classImmersedBoundaryElement_3_011_00_01SPACE__DIM_01_4-members.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryElement_3_011_00_01SPACE__DIM_01_4.html b/site/classImmersedBoundaryElement_3_011_00_01SPACE__DIM_01_4.html index daa0d7219..4931fa3bb 100644 --- a/site/classImmersedBoundaryElement_3_011_00_01SPACE__DIM_01_4.html +++ b/site/classImmersedBoundaryElement_3_011_00_01SPACE__DIM_01_4.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryFftInterface-members.html b/site/classImmersedBoundaryFftInterface-members.html index adb0faca3..5485fbe16 100644 --- a/site/classImmersedBoundaryFftInterface-members.html +++ b/site/classImmersedBoundaryFftInterface-members.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryFftInterface.html b/site/classImmersedBoundaryFftInterface.html index b67e082c1..b61401bdd 100644 --- a/site/classImmersedBoundaryFftInterface.html +++ b/site/classImmersedBoundaryFftInterface.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryHoneycombMeshGenerator-members.html b/site/classImmersedBoundaryHoneycombMeshGenerator-members.html index 17d7d4ab2..4ee0d3d37 100644 --- a/site/classImmersedBoundaryHoneycombMeshGenerator-members.html +++ b/site/classImmersedBoundaryHoneycombMeshGenerator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryHoneycombMeshGenerator.html b/site/classImmersedBoundaryHoneycombMeshGenerator.html index ad71744c5..43bb8a943 100644 --- a/site/classImmersedBoundaryHoneycombMeshGenerator.html +++ b/site/classImmersedBoundaryHoneycombMeshGenerator.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryKinematicFeedbackForce-members.html b/site/classImmersedBoundaryKinematicFeedbackForce-members.html index 3bbad6471..46a0c2d8f 100644 --- a/site/classImmersedBoundaryKinematicFeedbackForce-members.html +++ b/site/classImmersedBoundaryKinematicFeedbackForce-members.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryKinematicFeedbackForce.html b/site/classImmersedBoundaryKinematicFeedbackForce.html index f1b011527..cf23ec4f3 100644 --- a/site/classImmersedBoundaryKinematicFeedbackForce.html +++ b/site/classImmersedBoundaryKinematicFeedbackForce.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryLinearDifferentialAdhesionForce-members.html b/site/classImmersedBoundaryLinearDifferentialAdhesionForce-members.html index 1cfcee47e..604590add 100644 --- a/site/classImmersedBoundaryLinearDifferentialAdhesionForce-members.html +++ b/site/classImmersedBoundaryLinearDifferentialAdhesionForce-members.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryLinearDifferentialAdhesionForce.html b/site/classImmersedBoundaryLinearDifferentialAdhesionForce.html index 0188a53d2..8d646d41d 100644 --- a/site/classImmersedBoundaryLinearDifferentialAdhesionForce.html +++ b/site/classImmersedBoundaryLinearDifferentialAdhesionForce.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryLinearInteractionForce-members.html b/site/classImmersedBoundaryLinearInteractionForce-members.html index 76ceec898..23e5186ef 100644 --- a/site/classImmersedBoundaryLinearInteractionForce-members.html +++ b/site/classImmersedBoundaryLinearInteractionForce-members.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryLinearInteractionForce.html b/site/classImmersedBoundaryLinearInteractionForce.html index 46bd4130e..85fa7340c 100644 --- a/site/classImmersedBoundaryLinearInteractionForce.html +++ b/site/classImmersedBoundaryLinearInteractionForce.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryLinearMembraneForce-members.html b/site/classImmersedBoundaryLinearMembraneForce-members.html index 1b60f893a..9f0fd1123 100644 --- a/site/classImmersedBoundaryLinearMembraneForce-members.html +++ b/site/classImmersedBoundaryLinearMembraneForce-members.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryLinearMembraneForce.html b/site/classImmersedBoundaryLinearMembraneForce.html index d68e693b7..7d8cb18a7 100644 --- a/site/classImmersedBoundaryLinearMembraneForce.html +++ b/site/classImmersedBoundaryLinearMembraneForce.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryMesh-members.html b/site/classImmersedBoundaryMesh-members.html index 930750f6d..bb05ad4f1 100644 --- a/site/classImmersedBoundaryMesh-members.html +++ b/site/classImmersedBoundaryMesh-members.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryMesh.html b/site/classImmersedBoundaryMesh.html index 29843e21a..6fccad2d7 100644 --- a/site/classImmersedBoundaryMesh.html +++ b/site/classImmersedBoundaryMesh.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryMeshReader-members.html b/site/classImmersedBoundaryMeshReader-members.html index 3e291cd31..b3782c743 100644 --- a/site/classImmersedBoundaryMeshReader-members.html +++ b/site/classImmersedBoundaryMeshReader-members.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryMeshReader.html b/site/classImmersedBoundaryMeshReader.html index 53dbc1e24..2f8315ccc 100644 --- a/site/classImmersedBoundaryMeshReader.html +++ b/site/classImmersedBoundaryMeshReader.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryMeshWriter-members.html b/site/classImmersedBoundaryMeshWriter-members.html index ea36e2ce7..4385ff3f4 100644 --- a/site/classImmersedBoundaryMeshWriter-members.html +++ b/site/classImmersedBoundaryMeshWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryMeshWriter.html b/site/classImmersedBoundaryMeshWriter.html index 27a3719b3..10621c5c2 100644 --- a/site/classImmersedBoundaryMeshWriter.html +++ b/site/classImmersedBoundaryMeshWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryMesh_1_1ImmersedBoundaryElementIterator-members.html b/site/classImmersedBoundaryMesh_1_1ImmersedBoundaryElementIterator-members.html index de66b18dd..0bba6559f 100644 --- a/site/classImmersedBoundaryMesh_1_1ImmersedBoundaryElementIterator-members.html +++ b/site/classImmersedBoundaryMesh_1_1ImmersedBoundaryElementIterator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryMesh_1_1ImmersedBoundaryElementIterator.html b/site/classImmersedBoundaryMesh_1_1ImmersedBoundaryElementIterator.html index 86db46245..952e41ed1 100644 --- a/site/classImmersedBoundaryMesh_1_1ImmersedBoundaryElementIterator.html +++ b/site/classImmersedBoundaryMesh_1_1ImmersedBoundaryElementIterator.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryMesh_1_1ImmersedBoundaryLaminaIterator-members.html b/site/classImmersedBoundaryMesh_1_1ImmersedBoundaryLaminaIterator-members.html index fe8e0b1fc..852e421d4 100644 --- a/site/classImmersedBoundaryMesh_1_1ImmersedBoundaryLaminaIterator-members.html +++ b/site/classImmersedBoundaryMesh_1_1ImmersedBoundaryLaminaIterator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryMesh_1_1ImmersedBoundaryLaminaIterator.html b/site/classImmersedBoundaryMesh_1_1ImmersedBoundaryLaminaIterator.html index abb2f8a79..fc803feef 100644 --- a/site/classImmersedBoundaryMesh_1_1ImmersedBoundaryLaminaIterator.html +++ b/site/classImmersedBoundaryMesh_1_1ImmersedBoundaryLaminaIterator.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryMorseInteractionForce-members.html b/site/classImmersedBoundaryMorseInteractionForce-members.html index bc48dc15f..0b9d176ca 100644 --- a/site/classImmersedBoundaryMorseInteractionForce-members.html +++ b/site/classImmersedBoundaryMorseInteractionForce-members.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryMorseInteractionForce.html b/site/classImmersedBoundaryMorseInteractionForce.html index b6170c5f2..f350a2dd9 100644 --- a/site/classImmersedBoundaryMorseInteractionForce.html +++ b/site/classImmersedBoundaryMorseInteractionForce.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryMorseMembraneForce-members.html b/site/classImmersedBoundaryMorseMembraneForce-members.html index 7801ec869..31810cb65 100644 --- a/site/classImmersedBoundaryMorseMembraneForce-members.html +++ b/site/classImmersedBoundaryMorseMembraneForce-members.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryMorseMembraneForce.html b/site/classImmersedBoundaryMorseMembraneForce.html index 4a0b13bdd..fcb8027ff 100644 --- a/site/classImmersedBoundaryMorseMembraneForce.html +++ b/site/classImmersedBoundaryMorseMembraneForce.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryNeighbourNumberWriter-members.html b/site/classImmersedBoundaryNeighbourNumberWriter-members.html index 186c3f759..6ce85ae0b 100644 --- a/site/classImmersedBoundaryNeighbourNumberWriter-members.html +++ b/site/classImmersedBoundaryNeighbourNumberWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryNeighbourNumberWriter.html b/site/classImmersedBoundaryNeighbourNumberWriter.html index 6729c6f8f..83f6f5592 100644 --- a/site/classImmersedBoundaryNeighbourNumberWriter.html +++ b/site/classImmersedBoundaryNeighbourNumberWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryPalisadeMeshGenerator-members.html b/site/classImmersedBoundaryPalisadeMeshGenerator-members.html index 68d177bbd..ee779fa35 100644 --- a/site/classImmersedBoundaryPalisadeMeshGenerator-members.html +++ b/site/classImmersedBoundaryPalisadeMeshGenerator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundaryPalisadeMeshGenerator.html b/site/classImmersedBoundaryPalisadeMeshGenerator.html index 24e1b797d..92b58e443 100644 --- a/site/classImmersedBoundaryPalisadeMeshGenerator.html +++ b/site/classImmersedBoundaryPalisadeMeshGenerator.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundarySimulationModifier-members.html b/site/classImmersedBoundarySimulationModifier-members.html index 13379b14a..e955a3f3f 100644 --- a/site/classImmersedBoundarySimulationModifier-members.html +++ b/site/classImmersedBoundarySimulationModifier-members.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundarySimulationModifier.html b/site/classImmersedBoundarySimulationModifier.html index e81ecd672..25244820d 100644 --- a/site/classImmersedBoundarySimulationModifier.html +++ b/site/classImmersedBoundarySimulationModifier.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundarySvgWriter-members.html b/site/classImmersedBoundarySvgWriter-members.html index e20183daf..11911825c 100644 --- a/site/classImmersedBoundarySvgWriter-members.html +++ b/site/classImmersedBoundarySvgWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classImmersedBoundarySvgWriter.html b/site/classImmersedBoundarySvgWriter.html index 95055491f..c0fec0522 100644 --- a/site/classImmersedBoundarySvgWriter.html +++ b/site/classImmersedBoundarySvgWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classImplicitCardiacMechanicsSolver-members.html b/site/classImplicitCardiacMechanicsSolver-members.html index f9dc620da..6e5f5a9e0 100644 --- a/site/classImplicitCardiacMechanicsSolver-members.html +++ b/site/classImplicitCardiacMechanicsSolver-members.html @@ -23,7 +23,7 @@ diff --git a/site/classImplicitCardiacMechanicsSolver.html b/site/classImplicitCardiacMechanicsSolver.html index d566b6981..7dbd93f68 100644 --- a/site/classImplicitCardiacMechanicsSolver.html +++ b/site/classImplicitCardiacMechanicsSolver.html @@ -23,7 +23,7 @@ diff --git a/site/classIncompressibleNonlinearElasticitySolver-members.html b/site/classIncompressibleNonlinearElasticitySolver-members.html index 0160bd714..a8cad724c 100644 --- a/site/classIncompressibleNonlinearElasticitySolver-members.html +++ b/site/classIncompressibleNonlinearElasticitySolver-members.html @@ -23,7 +23,7 @@ diff --git a/site/classIncompressibleNonlinearElasticitySolver.html b/site/classIncompressibleNonlinearElasticitySolver.html index 373d948c9..441640afd 100644 --- a/site/classIncompressibleNonlinearElasticitySolver.html +++ b/site/classIncompressibleNonlinearElasticitySolver.html @@ -23,7 +23,7 @@ @@ -562,7 +562,7 @@

Todo:
#2223 This is unlikely to work using DistributedQuadraticMesh with Non-homogeneous material laws
+
Todo:
#2223 This is unlikely to work using DistributedQuadraticMesh with Non-homogeneous material laws

Definition at line 589 of file IncompressibleNonlinearElasticitySolver.cpp.

diff --git a/site/classIsolatedLabelledCellKiller-members.html b/site/classIsolatedLabelledCellKiller-members.html index 223282610..a132817ea 100644 --- a/site/classIsolatedLabelledCellKiller-members.html +++ b/site/classIsolatedLabelledCellKiller-members.html @@ -23,7 +23,7 @@

diff --git a/site/classIsolatedLabelledCellKiller.html b/site/classIsolatedLabelledCellKiller.html index 77f7aecbd..704110d2c 100644 --- a/site/classIsolatedLabelledCellKiller.html +++ b/site/classIsolatedLabelledCellKiller.html @@ -23,7 +23,7 @@ diff --git a/site/classKerchoffs2003ContractionModel-members.html b/site/classKerchoffs2003ContractionModel-members.html index 7de995552..71e23734d 100644 --- a/site/classKerchoffs2003ContractionModel-members.html +++ b/site/classKerchoffs2003ContractionModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classKerchoffs2003ContractionModel.html b/site/classKerchoffs2003ContractionModel.html index e141ee151..26858fc5f 100644 --- a/site/classKerchoffs2003ContractionModel.html +++ b/site/classKerchoffs2003ContractionModel.html @@ -23,7 +23,7 @@ diff --git a/site/classLabelBasedContractionCellFactory-members.html b/site/classLabelBasedContractionCellFactory-members.html index d54d8db7f..fd119ab5e 100644 --- a/site/classLabelBasedContractionCellFactory-members.html +++ b/site/classLabelBasedContractionCellFactory-members.html @@ -23,7 +23,7 @@ diff --git a/site/classLabelBasedContractionCellFactory.html b/site/classLabelBasedContractionCellFactory.html index d317190f4..87e42cca3 100644 --- a/site/classLabelBasedContractionCellFactory.html +++ b/site/classLabelBasedContractionCellFactory.html @@ -23,7 +23,7 @@ diff --git a/site/classLabelDependentBernoulliTrialCellCycleModel-members.html b/site/classLabelDependentBernoulliTrialCellCycleModel-members.html index 353ca5c73..3284a2d00 100644 --- a/site/classLabelDependentBernoulliTrialCellCycleModel-members.html +++ b/site/classLabelDependentBernoulliTrialCellCycleModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classLabelDependentBernoulliTrialCellCycleModel.html b/site/classLabelDependentBernoulliTrialCellCycleModel.html index 96335a4e8..531ca40ed 100644 --- a/site/classLabelDependentBernoulliTrialCellCycleModel.html +++ b/site/classLabelDependentBernoulliTrialCellCycleModel.html @@ -23,7 +23,7 @@ diff --git a/site/classLegacyCellProliferativeTypesWriter-members.html b/site/classLegacyCellProliferativeTypesWriter-members.html index 01f816ff9..9cee68248 100644 --- a/site/classLegacyCellProliferativeTypesWriter-members.html +++ b/site/classLegacyCellProliferativeTypesWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classLegacyCellProliferativeTypesWriter.html b/site/classLegacyCellProliferativeTypesWriter.html index f005ffd47..6993d2cd4 100644 --- a/site/classLegacyCellProliferativeTypesWriter.html +++ b/site/classLegacyCellProliferativeTypesWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classLinearBasisFunction-members.html b/site/classLinearBasisFunction-members.html index f98c39a92..91ab3ef6d 100644 --- a/site/classLinearBasisFunction-members.html +++ b/site/classLinearBasisFunction-members.html @@ -23,7 +23,7 @@ diff --git a/site/classLinearBasisFunction.html b/site/classLinearBasisFunction.html index 449314e38..4be63cfd2 100644 --- a/site/classLinearBasisFunction.html +++ b/site/classLinearBasisFunction.html @@ -23,7 +23,7 @@ diff --git a/site/classLinearBasisFunction_3_010_01_4-members.html b/site/classLinearBasisFunction_3_010_01_4-members.html index a289ce643..e0da47589 100644 --- a/site/classLinearBasisFunction_3_010_01_4-members.html +++ b/site/classLinearBasisFunction_3_010_01_4-members.html @@ -23,7 +23,7 @@ diff --git a/site/classLinearBasisFunction_3_010_01_4.html b/site/classLinearBasisFunction_3_010_01_4.html index 068fa5482..f6b96d07a 100644 --- a/site/classLinearBasisFunction_3_010_01_4.html +++ b/site/classLinearBasisFunction_3_010_01_4.html @@ -23,7 +23,7 @@ diff --git a/site/classLinearParabolicPdeSystemWithCoupledOdeSystemSolver-members.html b/site/classLinearParabolicPdeSystemWithCoupledOdeSystemSolver-members.html index da7076b96..7b05d6de6 100644 --- a/site/classLinearParabolicPdeSystemWithCoupledOdeSystemSolver-members.html +++ b/site/classLinearParabolicPdeSystemWithCoupledOdeSystemSolver-members.html @@ -23,7 +23,7 @@ diff --git a/site/classLinearParabolicPdeSystemWithCoupledOdeSystemSolver.html b/site/classLinearParabolicPdeSystemWithCoupledOdeSystemSolver.html index 5ea0c2c07..244eb3daa 100644 --- a/site/classLinearParabolicPdeSystemWithCoupledOdeSystemSolver.html +++ b/site/classLinearParabolicPdeSystemWithCoupledOdeSystemSolver.html @@ -23,7 +23,7 @@ diff --git a/site/classLinearSpringWithVariableSpringConstantsForce-members.html b/site/classLinearSpringWithVariableSpringConstantsForce-members.html index dd9fc4007..7feda5a94 100644 --- a/site/classLinearSpringWithVariableSpringConstantsForce-members.html +++ b/site/classLinearSpringWithVariableSpringConstantsForce-members.html @@ -23,7 +23,7 @@ diff --git a/site/classLinearSpringWithVariableSpringConstantsForce.html b/site/classLinearSpringWithVariableSpringConstantsForce.html index 85230113c..46a7b7ae3 100644 --- a/site/classLinearSpringWithVariableSpringConstantsForce.html +++ b/site/classLinearSpringWithVariableSpringConstantsForce.html @@ -23,7 +23,7 @@ diff --git a/site/classLinearSystem-members.html b/site/classLinearSystem-members.html index e5304d077..1c4fa76f6 100644 --- a/site/classLinearSystem-members.html +++ b/site/classLinearSystem-members.html @@ -23,7 +23,7 @@ diff --git a/site/classLinearSystem.html b/site/classLinearSystem.html index 36f2a6fed..e4caae896 100644 --- a/site/classLinearSystem.html +++ b/site/classLinearSystem.html @@ -23,7 +23,7 @@ @@ -312,7 +312,7 @@

Todo:
: if we create a linear system object outside a cardiac solver, these are gonna be the default solver and preconditioner. Not consitent with ChasteDefaults.xml though...
+
Todo:
: if we create a linear system object outside a cardiac solver, these are gonna be the default solver and preconditioner. Not consitent with ChasteDefaults.xml though...

Definition at line 54 of file LinearSystem.cpp.

@@ -362,7 +362,7 @@

Todo:
: if we create a linear system object outside a cardiac solver, these are gonna be the default solver and preconditioner. Not consistent with ChasteDefaults.xml though...
+
Todo:
: if we create a linear system object outside a cardiac solver, these are gonna be the default solver and preconditioner. Not consistent with ChasteDefaults.xml though...

Definition at line 146 of file LinearSystem.cpp.

@@ -405,7 +405,7 @@

Todo:
: if we create a linear system object outside a cardiac solver, these are gonna be the default solver and preconditioner. Not consitent with ChasteDefaults.xml though...
+
Todo:
: if we create a linear system object outside a cardiac solver, these are gonna be the default solver and preconditioner. Not consitent with ChasteDefaults.xml though...

Definition at line 187 of file LinearSystem.cpp.

@@ -475,7 +475,7 @@

Destructor.

-
Todo:
Never tested in linalg component
+
Todo:
Never tested in linalg component

Definition at line 251 of file LinearSystem.cpp.

@@ -1121,7 +1121,7 @@

Method to regenerate all KSP objects, including the solver and the preconditioner (e.g. after changing the PDE time step when using time adaptivity).

-
Todo:
#1695 Store this number in a member variable.
+
Todo:
#1695 Store this number in a member variable.

Definition at line 1249 of file LinearSystem.cpp.

@@ -1430,7 +1430,7 @@

Todo:
: shall we allow modifying the symmetry flag anytime?
+
Todo:
: shall we allow modifying the symmetry flag anytime?

Definition at line 544 of file LinearSystem.cpp.

@@ -1554,10 +1554,10 @@

Todo:
: #1082 is this the way of defining a null pointer as the default value of pBathNodes?
-
Todo:
: #1082 use a single pointer to abstract class
-
Todo:
: #1082 use a single pointer to abstract class
-
Todo:
: #1082 use a single pointer to abstract class
+
Todo:
: #1082 is this the way of defining a null pointer as the default value of pBathNodes?
+
Todo:
: #1082 use a single pointer to abstract class
+
Todo:
: #1082 use a single pointer to abstract class
+
Todo:
: #1082 use a single pointer to abstract class

Definition at line 614 of file LinearSystem.cpp.

@@ -1725,9 +1725,9 @@

Todo:
This is a magic number. Do we want a warning here?
-
Todo:
Should it be compulsory for the caller to supply this and manage the memory?
-
Todo:
#1695 Store this number in a member variable.
+
Todo:
This is a magic number. Do we want a warning here?
+
Todo:
Should it be compulsory for the caller to supply this and manage the memory?
+
Todo:
#1695 Store this number in a member variable.

Definition at line 674 of file LinearSystem.cpp.

@@ -2517,7 +2517,7 @@

-
Todo:
Verify claim that ownership range for Vec and Mat is same. This should only matter for efficiency if the claim is false.
+
Todo:
Verify claim that ownership range for Vec and Mat is same. This should only matter for efficiency if the claim is false.

For parallel code. Stores lowest index of vectors and lowest row of matrix stored locally.

Definition at line 84 of file LinearSystem.hpp.

@@ -2572,7 +2572,7 @@

-
Todo:
: #1082 Create an abstract class for the preconditioners and use a single pointer
+
Todo:
: #1082 Create an abstract class for the preconditioners and use a single pointer

Stores a pointer to a purpose-build preconditioner

Definition at line 109 of file LinearSystem.hpp.

diff --git a/site/classLogFile-members.html b/site/classLogFile-members.html index 2ece6f3bf..6403a71ce 100644 --- a/site/classLogFile-members.html +++ b/site/classLogFile-members.html @@ -23,7 +23,7 @@

diff --git a/site/classLogFile.html b/site/classLogFile.html index f5a2a763a..5d27c59c5 100644 --- a/site/classLogFile.html +++ b/site/classLogFile.html @@ -23,7 +23,7 @@ diff --git a/site/classLuoRudySpiralWaveCellFactory-members.html b/site/classLuoRudySpiralWaveCellFactory-members.html index ba7d18637..c34e9f488 100644 --- a/site/classLuoRudySpiralWaveCellFactory-members.html +++ b/site/classLuoRudySpiralWaveCellFactory-members.html @@ -23,7 +23,7 @@ diff --git a/site/classLuoRudySpiralWaveCellFactory.html b/site/classLuoRudySpiralWaveCellFactory.html index f35d1541c..d1990468f 100644 --- a/site/classLuoRudySpiralWaveCellFactory.html +++ b/site/classLuoRudySpiralWaveCellFactory.html @@ -23,7 +23,7 @@ diff --git a/site/classMPI__Request.html b/site/classMPI__Request.html index be277e3aa..b5e6a1060 100644 --- a/site/classMPI__Request.html +++ b/site/classMPI__Request.html @@ -23,7 +23,7 @@ diff --git a/site/classMassMatrixAssembler-members.html b/site/classMassMatrixAssembler-members.html index 4a9882bd6..d3d77a488 100644 --- a/site/classMassMatrixAssembler-members.html +++ b/site/classMassMatrixAssembler-members.html @@ -23,7 +23,7 @@ diff --git a/site/classMassMatrixAssembler.html b/site/classMassMatrixAssembler.html index da4b9a44a..c1d681277 100644 --- a/site/classMassMatrixAssembler.html +++ b/site/classMassMatrixAssembler.html @@ -23,7 +23,7 @@ diff --git a/site/classMat.html b/site/classMat.html index c4fc55c27..66b374a3f 100644 --- a/site/classMat.html +++ b/site/classMat.html @@ -23,7 +23,7 @@ diff --git a/site/classMechanicsEventHandler-members.html b/site/classMechanicsEventHandler-members.html index 8fc33104b..89159fcd6 100644 --- a/site/classMechanicsEventHandler-members.html +++ b/site/classMechanicsEventHandler-members.html @@ -23,7 +23,7 @@ diff --git a/site/classMechanicsEventHandler.html b/site/classMechanicsEventHandler.html index bd0bb365c..54c0ec79d 100644 --- a/site/classMechanicsEventHandler.html +++ b/site/classMechanicsEventHandler.html @@ -23,7 +23,7 @@ diff --git a/site/classMemfemMeshReader-members.html b/site/classMemfemMeshReader-members.html index 7776c7a19..17e93a2e6 100644 --- a/site/classMemfemMeshReader-members.html +++ b/site/classMemfemMeshReader-members.html @@ -23,7 +23,7 @@ diff --git a/site/classMemfemMeshReader.html b/site/classMemfemMeshReader.html index 3194a9c99..553d19ffb 100644 --- a/site/classMemfemMeshReader.html +++ b/site/classMemfemMeshReader.html @@ -23,7 +23,7 @@ diff --git a/site/classMeshBasedCellPopulation-members.html b/site/classMeshBasedCellPopulation-members.html index faf343f8d..e83fb3ec0 100644 --- a/site/classMeshBasedCellPopulation-members.html +++ b/site/classMeshBasedCellPopulation-members.html @@ -23,7 +23,7 @@ diff --git a/site/classMeshBasedCellPopulation.html b/site/classMeshBasedCellPopulation.html index 15e863484..941eb257e 100644 --- a/site/classMeshBasedCellPopulation.html +++ b/site/classMeshBasedCellPopulation.html @@ -23,7 +23,7 @@ diff --git a/site/classMeshBasedCellPopulationWithGhostNodes-members.html b/site/classMeshBasedCellPopulationWithGhostNodes-members.html index 527b61159..dbc0b10fc 100644 --- a/site/classMeshBasedCellPopulationWithGhostNodes-members.html +++ b/site/classMeshBasedCellPopulationWithGhostNodes-members.html @@ -23,7 +23,7 @@ diff --git a/site/classMeshBasedCellPopulationWithGhostNodes.html b/site/classMeshBasedCellPopulationWithGhostNodes.html index aa6db5f46..871962012 100644 --- a/site/classMeshBasedCellPopulationWithGhostNodes.html +++ b/site/classMeshBasedCellPopulationWithGhostNodes.html @@ -23,7 +23,7 @@ diff --git a/site/classMeshBasedCellPopulation_1_1SpringIterator-members.html b/site/classMeshBasedCellPopulation_1_1SpringIterator-members.html index e7dcaab1e..81cb43a28 100644 --- a/site/classMeshBasedCellPopulation_1_1SpringIterator-members.html +++ b/site/classMeshBasedCellPopulation_1_1SpringIterator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classMeshBasedCellPopulation_1_1SpringIterator.html b/site/classMeshBasedCellPopulation_1_1SpringIterator.html index b60ecf77c..6682cc7c8 100644 --- a/site/classMeshBasedCellPopulation_1_1SpringIterator.html +++ b/site/classMeshBasedCellPopulation_1_1SpringIterator.html @@ -23,7 +23,7 @@ diff --git a/site/classMeshEventHandler-members.html b/site/classMeshEventHandler-members.html index 9b77fd8e4..d46c0a720 100644 --- a/site/classMeshEventHandler-members.html +++ b/site/classMeshEventHandler-members.html @@ -23,7 +23,7 @@ diff --git a/site/classMeshEventHandler.html b/site/classMeshEventHandler.html index a39d650c0..aa0a40514 100644 --- a/site/classMeshEventHandler.html +++ b/site/classMeshEventHandler.html @@ -23,7 +23,7 @@ @@ -136,7 +136,7 @@
currentNodeIndexThe index of the current node/lattice site
-
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Detailed Description

-
Todo:
Temporary for #2351
+
Todo:
Temporary for #2351

Definition at line 63 of file AbstractTetrahedralMeshWriter.hpp.

Member Enumeration Documentation

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Todo:
Serialization of Purkinje problems is untested

+
Todo:
Serialization of Purkinje problems is untested

Definition at line 63 of file MonodomainPurkinjeProblem.hpp.

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Returns
the second derivative d^2W/dI1^2.
-
Todo:
The name of this method should not include underscores.
+
Todo:
The name of this method should not include underscores.
Parameters
@@ -290,7 +290,7 @@

Returns
the second derivative d^2W/dI1dI2.
-
Todo:
The name of this method should not include underscores.
+
Todo:
The name of this method should not include underscores.
Parameters

I1first principal invariant of C
@@ -341,7 +341,7 @@

Returns
the second derivative d^2W/dI2^2.
-
Todo:
The name of this method should not include underscores.
+
Todo:
The name of this method should not include underscores.
Parameters

I1first principal invariant of C
@@ -392,7 +392,7 @@

Returns
the first derivative dW/dI1.
-
Todo:
The name of this method should not include underscores.
+
Todo:
The name of this method should not include underscores.
Parameters

I1first principal invariant of C
@@ -443,7 +443,7 @@

Returns
the first derivative dW/dI2.
-
Todo:
The name of this method should not include underscores.
+
Todo:
The name of this method should not include underscores.
Parameters

I1first principal invariant of C
diff --git a/site/classMultiStimulus-members.html b/site/classMultiStimulus-members.html index 093568129..e5699ce6a 100644 --- a/site/classMultiStimulus-members.html +++ b/site/classMultiStimulus-members.html @@ -23,7 +23,7 @@ diff --git a/site/classMultiStimulus.html b/site/classMultiStimulus.html index 9143f74e5..0d4c716a1 100644 --- a/site/classMultiStimulus.html +++ b/site/classMultiStimulus.html @@ -23,7 +23,7 @@ diff --git a/site/classMutableElement-members.html b/site/classMutableElement-members.html index 57f0c8b67..8e8bcd1a9 100644 --- a/site/classMutableElement-members.html +++ b/site/classMutableElement-members.html @@ -23,7 +23,7 @@ diff --git a/site/classMutableElement.html b/site/classMutableElement.html index 0c0e61a44..57699f6eb 100644 --- a/site/classMutableElement.html +++ b/site/classMutableElement.html @@ -23,7 +23,7 @@ diff --git a/site/classMutableElement_3_011_00_01SPACE__DIM_01_4-members.html b/site/classMutableElement_3_011_00_01SPACE__DIM_01_4-members.html index fcce6c2ff..9bf52eea7 100644 --- a/site/classMutableElement_3_011_00_01SPACE__DIM_01_4-members.html +++ b/site/classMutableElement_3_011_00_01SPACE__DIM_01_4-members.html @@ -23,7 +23,7 @@ diff --git a/site/classMutableElement_3_011_00_01SPACE__DIM_01_4.html b/site/classMutableElement_3_011_00_01SPACE__DIM_01_4.html index 3b5a9e67b..4c3b9b089 100644 --- a/site/classMutableElement_3_011_00_01SPACE__DIM_01_4.html +++ b/site/classMutableElement_3_011_00_01SPACE__DIM_01_4.html @@ -23,7 +23,7 @@ diff --git a/site/classMutableMesh-members.html b/site/classMutableMesh-members.html index 2048a12c4..464666c2e 100644 --- a/site/classMutableMesh-members.html +++ b/site/classMutableMesh-members.html @@ -23,7 +23,7 @@ diff --git a/site/classMutableMesh.html b/site/classMutableMesh.html index 2f848b3e6..cbc76893a 100644 --- a/site/classMutableMesh.html +++ b/site/classMutableMesh.html @@ -23,7 +23,7 @@ diff --git a/site/classMutableVertexMesh-members.html b/site/classMutableVertexMesh-members.html index 9d83f4121..4c649efd0 100644 --- a/site/classMutableVertexMesh-members.html +++ b/site/classMutableVertexMesh-members.html @@ -23,7 +23,7 @@ diff --git a/site/classMutableVertexMesh.html b/site/classMutableVertexMesh.html index 3864443aa..b6ad9202b 100644 --- a/site/classMutableVertexMesh.html +++ b/site/classMutableVertexMesh.html @@ -23,7 +23,7 @@ @@ -789,8 +789,8 @@

ReMesh().

Check if any neighbouring nodes in an element are closer than the mCellRearrangementThreshold and are not contained in any triangular elements. If any such pair of nodes are found, then call IdentifySwapType(), which in turn implements the appropriate local remeshing operation (a T1 swap, void removal, or node merge).

Returns
whether we need to check for, and implement, any further local remeshing operations (true if any swaps are performed).
-
Todo:
Could we search more efficiently by just iterating over edges? (see #2401)
-
Todo:
Use iterators to tidy this up (see #2401)
+
Todo:
Could we search more efficiently by just iterating over edges? (see #2401)
+
Todo:
Use iterators to tidy this up (see #2401)

Definition at line 1058 of file MutableVertexMesh.cpp.

@@ -824,7 +824,7 @@

Returns
whether we need to check for, and implement, any further local remeshing operations
-
Todo:
: cover this line in a test
+
Todo:
: cover this line in a test

Definition at line 1126 of file MutableVertexMesh.cpp.

@@ -1096,7 +1096,7 @@

Returns
the index of the new element

Remove the correct nodes from each element. If placeOriginalElementBelow is true, place the original element below (in the y direction) the new element; otherwise, place it above.

-
Todo:
this could be more efficient (see #2401)
+
Todo:
this could be more efficient (see #2401)

Definition at line 686 of file MutableVertexMesh.cpp.

@@ -1146,7 +1146,7 @@

Returns
the index of the new element
-
Todo:
or should we move a and b apart, it may interfere with neighbouring edges? (see #1399 and #2401)
+
Todo:
or should we move a and b apart, it may interfere with neighbouring edges? (see #1399 and #2401)

Definition at line 410 of file MutableVertexMesh.cpp.

@@ -1670,7 +1670,7 @@

CheckForSwapsFromShortEdges() whether the element is triangular, this exception is redundant for simulations. We leave it in for clarity. ///

Todo:
: consider removing the checking for this exception (see #2401)
+

Here, the triangular element would be along the short edge. Since we are already checking in CheckForSwapsFromShortEdges() whether the element is triangular, this exception is redundant for simulations. We leave it in for clarity. ///

Todo:
: consider removing the checking for this exception (see #2401)

If this is true then one of the elements adjacent to the triangular void is triangular. This element will then not share the short edge that is considered for a swap. Nevertheless, it would loose an edge during the swap. We are currently not able to deal with this situation. Related to #2533 and #2401.

Definition at line 1292 of file MutableVertexMesh.cpp.

@@ -1984,7 +1984,7 @@

Todo:
remove magic number? (see #1884 and #2401)
+
Todo:
remove magic number? (see #1884 and #2401)

Definition at line 1825 of file MutableVertexMesh.cpp.

@@ -2076,7 +2076,7 @@

Todo:
the intersection location is sometimes overwritten when WidenEdgeOrCorrectIntersectionLocationIfNecessary
+
Todo:
the intersection location is sometimes overwritten when WidenEdgeOrCorrectIntersectionLocationIfNecessary

Definition at line 2514 of file MutableVertexMesh.cpp.

@@ -2198,7 +2198,7 @@

Todo:
Implement ReMesh() in 3D (see #1422)
+
Todo:
Implement ReMesh() in 3D (see #1422)

Definition at line 1003 of file MutableVertexMesh.cpp.

@@ -2709,12 +2709,12 @@

Returns
intersection, the corrected location of where we are planning to put the merged node
-

If the edge is shorter than 4.0*mCellRearrangementRatio*mCellRearrangementThreshold move vertexA and vertexB 4.0*mCellRearrangementRatio*mCellRearrangementThreshold apart.

Todo:
investigate if moving A and B causes other issues with nearby nodes (see #2401)
-

Note: this distance is so that there is always enough room for new nodes (if necessary)

Todo:
currently this assumes a worst case scenario of 3 nodes between A and B could be less movement for other cases (see #1399 and #2401)
+

If the edge is shorter than 4.0*mCellRearrangementRatio*mCellRearrangementThreshold move vertexA and vertexB 4.0*mCellRearrangementRatio*mCellRearrangementThreshold apart.

Todo:
investigate if moving A and B causes other issues with nearby nodes (see #2401)
+

Note: this distance is so that there is always enough room for new nodes (if necessary)

Todo:
currently this assumes a worst case scenario of 3 nodes between A and B could be less movement for other cases (see #1399 and #2401)

Reset the intersection away from vertices A and B to allow enough room for new nodes.

If the intersection is within mCellRearrangementRatio^2*mCellRearrangementThreshold of vertexA or vertexB move it mCellRearrangementRatio^2*mCellRearrangementThreshold away.

Note: this distance so that there is always enough room for new nodes (if necessary).

-
Todo:
currently this assumes a worst case scenario of 3 nodes between A and B; could be less movement for other cases (see #2401)
+
Todo:
currently this assumes a worst case scenario of 3 nodes between A and B; could be less movement for other cases (see #2401)

Definition at line 4119 of file MutableVertexMesh.cpp.

diff --git a/site/classN__Vector.html b/site/classN__Vector.html index c5a0f0823..58cb13131 100644 --- a/site/classN__Vector.html +++ b/site/classN__Vector.html @@ -23,7 +23,7 @@

diff --git a/site/classNagaiHondaDifferentialAdhesionForce-members.html b/site/classNagaiHondaDifferentialAdhesionForce-members.html index ff85e174d..c0f18a60e 100644 --- a/site/classNagaiHondaDifferentialAdhesionForce-members.html +++ b/site/classNagaiHondaDifferentialAdhesionForce-members.html @@ -23,7 +23,7 @@ diff --git a/site/classNagaiHondaDifferentialAdhesionForce.html b/site/classNagaiHondaDifferentialAdhesionForce.html index 96995a9dc..b1c76e78d 100644 --- a/site/classNagaiHondaDifferentialAdhesionForce.html +++ b/site/classNagaiHondaDifferentialAdhesionForce.html @@ -23,7 +23,7 @@ diff --git a/site/classNagaiHondaForce-members.html b/site/classNagaiHondaForce-members.html index 728a1ffce..ab76b9503 100644 --- a/site/classNagaiHondaForce-members.html +++ b/site/classNagaiHondaForce-members.html @@ -23,7 +23,7 @@ diff --git a/site/classNagaiHondaForce.html b/site/classNagaiHondaForce.html index 2572aacc0..4fb461daf 100644 --- a/site/classNagaiHondaForce.html +++ b/site/classNagaiHondaForce.html @@ -23,7 +23,7 @@ diff --git a/site/classNash2004ContractionModel-members.html b/site/classNash2004ContractionModel-members.html index f4ec900af..f9f16ba74 100644 --- a/site/classNash2004ContractionModel-members.html +++ b/site/classNash2004ContractionModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classNash2004ContractionModel.html b/site/classNash2004ContractionModel.html index f94d5002f..5e7f25357 100644 --- a/site/classNash2004ContractionModel.html +++ b/site/classNash2004ContractionModel.html @@ -23,7 +23,7 @@ diff --git a/site/classNashHunterPoleZeroLaw-members.html b/site/classNashHunterPoleZeroLaw-members.html index a0ce3e9f1..8e851b785 100644 --- a/site/classNashHunterPoleZeroLaw-members.html +++ b/site/classNashHunterPoleZeroLaw-members.html @@ -23,7 +23,7 @@ diff --git a/site/classNashHunterPoleZeroLaw.html b/site/classNashHunterPoleZeroLaw.html index 9f9196b0e..01ce501a6 100644 --- a/site/classNashHunterPoleZeroLaw.html +++ b/site/classNashHunterPoleZeroLaw.html @@ -23,7 +23,7 @@ diff --git a/site/classNaturalNeumannSurfaceTermAssembler-members.html b/site/classNaturalNeumannSurfaceTermAssembler-members.html index 7690b26a9..4577c7e01 100644 --- a/site/classNaturalNeumannSurfaceTermAssembler-members.html +++ b/site/classNaturalNeumannSurfaceTermAssembler-members.html @@ -23,7 +23,7 @@ diff --git a/site/classNaturalNeumannSurfaceTermAssembler.html b/site/classNaturalNeumannSurfaceTermAssembler.html index d9ac9ed32..2300d5d1b 100644 --- a/site/classNaturalNeumannSurfaceTermAssembler.html +++ b/site/classNaturalNeumannSurfaceTermAssembler.html @@ -23,7 +23,7 @@ diff --git a/site/classNaturalNeumannSurfaceTermAssembler_3_01ELEMENT__DIM_00_01SPACE__DIM_00_01PROBLEM__DIM_01_4.html b/site/classNaturalNeumannSurfaceTermAssembler_3_01ELEMENT__DIM_00_01SPACE__DIM_00_01PROBLEM__DIM_01_4.html index b0e9700f8..ac67ab245 100644 --- a/site/classNaturalNeumannSurfaceTermAssembler_3_01ELEMENT__DIM_00_01SPACE__DIM_00_01PROBLEM__DIM_01_4.html +++ b/site/classNaturalNeumannSurfaceTermAssembler_3_01ELEMENT__DIM_00_01SPACE__DIM_00_01PROBLEM__DIM_01_4.html @@ -23,7 +23,7 @@ diff --git a/site/classNhsContractionModel-members.html b/site/classNhsContractionModel-members.html index 89d2d24e1..9b79a0e5e 100644 --- a/site/classNhsContractionModel-members.html +++ b/site/classNhsContractionModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classNhsContractionModel.html b/site/classNhsContractionModel.html index 352c49ef5..5f4f2c253 100644 --- a/site/classNhsContractionModel.html +++ b/site/classNhsContractionModel.html @@ -23,7 +23,7 @@ diff --git a/site/classNhsModelWithBackwardSolver-members.html b/site/classNhsModelWithBackwardSolver-members.html index 2a48fee96..3ac64a673 100644 --- a/site/classNhsModelWithBackwardSolver-members.html +++ b/site/classNhsModelWithBackwardSolver-members.html @@ -23,7 +23,7 @@ diff --git a/site/classNhsModelWithBackwardSolver.html b/site/classNhsModelWithBackwardSolver.html index b964860e2..640133549 100644 --- a/site/classNhsModelWithBackwardSolver.html +++ b/site/classNhsModelWithBackwardSolver.html @@ -23,7 +23,7 @@ diff --git a/site/classNoCellCycleModel-members.html b/site/classNoCellCycleModel-members.html index 322f72039..e619c1ee8 100644 --- a/site/classNoCellCycleModel-members.html +++ b/site/classNoCellCycleModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classNoCellCycleModel.html b/site/classNoCellCycleModel.html index de01ffe61..81e528b30 100644 --- a/site/classNoCellCycleModel.html +++ b/site/classNoCellCycleModel.html @@ -23,7 +23,7 @@ diff --git a/site/classNode-members.html b/site/classNode-members.html index 9d6e07b88..89d3a824f 100644 --- a/site/classNode-members.html +++ b/site/classNode-members.html @@ -23,7 +23,7 @@ diff --git a/site/classNode.html b/site/classNode.html index df9483484..314f317c0 100644 --- a/site/classNode.html +++ b/site/classNode.html @@ -23,7 +23,7 @@ diff --git a/site/classNodeAttributes-members.html b/site/classNodeAttributes-members.html index 723d1ae2e..9fdb0d930 100644 --- a/site/classNodeAttributes-members.html +++ b/site/classNodeAttributes-members.html @@ -23,7 +23,7 @@ diff --git a/site/classNodeAttributes.html b/site/classNodeAttributes.html index 5ad447935..8fd0f0b01 100644 --- a/site/classNodeAttributes.html +++ b/site/classNodeAttributes.html @@ -23,7 +23,7 @@ diff --git a/site/classNodeBasedCellPopulation-members.html b/site/classNodeBasedCellPopulation-members.html index 1d9056a67..1e5393071 100644 --- a/site/classNodeBasedCellPopulation-members.html +++ b/site/classNodeBasedCellPopulation-members.html @@ -23,7 +23,7 @@ diff --git a/site/classNodeBasedCellPopulation.html b/site/classNodeBasedCellPopulation.html index dd28b9bd2..88ad83f4e 100644 --- a/site/classNodeBasedCellPopulation.html +++ b/site/classNodeBasedCellPopulation.html @@ -23,7 +23,7 @@ diff --git a/site/classNodeBasedCellPopulationWithBuskeUpdate-members.html b/site/classNodeBasedCellPopulationWithBuskeUpdate-members.html index 6d6482450..d25afb585 100644 --- a/site/classNodeBasedCellPopulationWithBuskeUpdate-members.html +++ b/site/classNodeBasedCellPopulationWithBuskeUpdate-members.html @@ -23,7 +23,7 @@ diff --git a/site/classNodeBasedCellPopulationWithBuskeUpdate.html b/site/classNodeBasedCellPopulationWithBuskeUpdate.html index 7c7a3dbcf..fc29bda3f 100644 --- a/site/classNodeBasedCellPopulationWithBuskeUpdate.html +++ b/site/classNodeBasedCellPopulationWithBuskeUpdate.html @@ -23,7 +23,7 @@ diff --git a/site/classNodeBasedCellPopulationWithParticles-members.html b/site/classNodeBasedCellPopulationWithParticles-members.html index 232b25c18..2b67fae7d 100644 --- a/site/classNodeBasedCellPopulationWithParticles-members.html +++ b/site/classNodeBasedCellPopulationWithParticles-members.html @@ -23,7 +23,7 @@ diff --git a/site/classNodeBasedCellPopulationWithParticles.html b/site/classNodeBasedCellPopulationWithParticles.html index a651945e1..a82c228e5 100644 --- a/site/classNodeBasedCellPopulationWithParticles.html +++ b/site/classNodeBasedCellPopulationWithParticles.html @@ -23,7 +23,7 @@ diff --git a/site/classNodeLocationWriter-members.html b/site/classNodeLocationWriter-members.html index 1369f6519..a3099fce0 100644 --- a/site/classNodeLocationWriter-members.html +++ b/site/classNodeLocationWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classNodeLocationWriter.html b/site/classNodeLocationWriter.html index 503575346..8abbd114a 100644 --- a/site/classNodeLocationWriter.html +++ b/site/classNodeLocationWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classNodeMap-members.html b/site/classNodeMap-members.html index efeefbd60..bbcb184ea 100644 --- a/site/classNodeMap-members.html +++ b/site/classNodeMap-members.html @@ -23,7 +23,7 @@ diff --git a/site/classNodeMap.html b/site/classNodeMap.html index 20804a4b7..a0afdd0a1 100644 --- a/site/classNodeMap.html +++ b/site/classNodeMap.html @@ -23,7 +23,7 @@ diff --git a/site/classNodePartitioner-members.html b/site/classNodePartitioner-members.html index 01cd7518b..e9d1d88fb 100644 --- a/site/classNodePartitioner-members.html +++ b/site/classNodePartitioner-members.html @@ -23,7 +23,7 @@ diff --git a/site/classNodePartitioner.html b/site/classNodePartitioner.html index 3820176f0..70e4c1e23 100644 --- a/site/classNodePartitioner.html +++ b/site/classNodePartitioner.html @@ -23,7 +23,7 @@ diff --git a/site/classNodeVelocityWriter-members.html b/site/classNodeVelocityWriter-members.html index b332ec8a6..9fd265058 100644 --- a/site/classNodeVelocityWriter-members.html +++ b/site/classNodeVelocityWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classNodeVelocityWriter.html b/site/classNodeVelocityWriter.html index 59ba6e58d..236178c0d 100644 --- a/site/classNodeVelocityWriter.html +++ b/site/classNodeVelocityWriter.html @@ -23,7 +23,7 @@ @@ -154,7 +154,7 @@
template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
class NodeVelocityWriter< ELEMENT_DIM, SPACE_DIM >

A class written using the visitor pattern for writing the velocities of the nodes associated with a cell population to file.

The output file is called nodevelocities.dat by default.

-
Todo:
some code duplication in methods; potential for refactoring (#2404)
+
Todo:
some code duplication in methods; potential for refactoring (#2404)

Definition at line 52 of file NodeVelocityWriter.hpp.

Constructor & Destructor Documentation

@@ -350,7 +350,7 @@

Todo:
correct time step? (#2404)
+
Todo:
correct time step? (#2404)

Implements AbstractCellPopulationWriter< ELEMENT_DIM, SPACE_DIM >.

@@ -395,7 +395,7 @@

Todo:
correct time step? (#2404)
+
Todo:
correct time step? (#2404)

Implements AbstractCellPopulationWriter< ELEMENT_DIM, SPACE_DIM >.

@@ -482,7 +482,7 @@

Todo:
correct time step? (#2404)
+
Todo:
correct time step? (#2404)

Implements AbstractCellPopulationWriter< ELEMENT_DIM, SPACE_DIM >.

diff --git a/site/classNode_1_1ContainingBoundaryElementIterator-members.html b/site/classNode_1_1ContainingBoundaryElementIterator-members.html index c48d50092..75a009d46 100644 --- a/site/classNode_1_1ContainingBoundaryElementIterator-members.html +++ b/site/classNode_1_1ContainingBoundaryElementIterator-members.html @@ -23,7 +23,7 @@

diff --git a/site/classNode_1_1ContainingBoundaryElementIterator.html b/site/classNode_1_1ContainingBoundaryElementIterator.html index 23344a6d0..37afb562f 100644 --- a/site/classNode_1_1ContainingBoundaryElementIterator.html +++ b/site/classNode_1_1ContainingBoundaryElementIterator.html @@ -23,7 +23,7 @@ diff --git a/site/classNode_1_1ContainingElementIterator-members.html b/site/classNode_1_1ContainingElementIterator-members.html index 83a7d4833..d35d2dcf8 100644 --- a/site/classNode_1_1ContainingElementIterator-members.html +++ b/site/classNode_1_1ContainingElementIterator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classNode_1_1ContainingElementIterator.html b/site/classNode_1_1ContainingElementIterator.html index 079df9fcc..4f76a35fb 100644 --- a/site/classNode_1_1ContainingElementIterator.html +++ b/site/classNode_1_1ContainingElementIterator.html @@ -23,7 +23,7 @@ diff --git a/site/classNodesOnlyMesh-members.html b/site/classNodesOnlyMesh-members.html index cd40702ef..5fec1f172 100644 --- a/site/classNodesOnlyMesh-members.html +++ b/site/classNodesOnlyMesh-members.html @@ -23,7 +23,7 @@ diff --git a/site/classNodesOnlyMesh.html b/site/classNodesOnlyMesh.html index 75fade5a6..dc250fdc8 100644 --- a/site/classNodesOnlyMesh.html +++ b/site/classNodesOnlyMesh.html @@ -23,7 +23,7 @@ diff --git a/site/classNonCachedTetrahedralMesh-members.html b/site/classNonCachedTetrahedralMesh-members.html index 6630b744b..1ed83ff8a 100644 --- a/site/classNonCachedTetrahedralMesh-members.html +++ b/site/classNonCachedTetrahedralMesh-members.html @@ -23,7 +23,7 @@ diff --git a/site/classNonCachedTetrahedralMesh.html b/site/classNonCachedTetrahedralMesh.html index abb324379..9f5a0ac25 100644 --- a/site/classNonCachedTetrahedralMesh.html +++ b/site/classNonCachedTetrahedralMesh.html @@ -23,7 +23,7 @@ diff --git a/site/classNonPhysiologicalContractionModel-members.html b/site/classNonPhysiologicalContractionModel-members.html index 0db029c07..87d45677b 100644 --- a/site/classNonPhysiologicalContractionModel-members.html +++ b/site/classNonPhysiologicalContractionModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classNonPhysiologicalContractionModel.html b/site/classNonPhysiologicalContractionModel.html index 6445e93a9..5b3d19c07 100644 --- a/site/classNonPhysiologicalContractionModel.html +++ b/site/classNonPhysiologicalContractionModel.html @@ -23,7 +23,7 @@ diff --git a/site/classNonlinearElasticityTools-members.html b/site/classNonlinearElasticityTools-members.html index e62acff03..674cc33c2 100644 --- a/site/classNonlinearElasticityTools-members.html +++ b/site/classNonlinearElasticityTools-members.html @@ -23,7 +23,7 @@ diff --git a/site/classNonlinearElasticityTools.html b/site/classNonlinearElasticityTools.html index 4723bc25b..fd7f48381 100644 --- a/site/classNonlinearElasticityTools.html +++ b/site/classNonlinearElasticityTools.html @@ -23,7 +23,7 @@ diff --git a/site/classNormallyDistributedTargetAreaModifier-members.html b/site/classNormallyDistributedTargetAreaModifier-members.html index 903b41a6b..ee00b1cac 100644 --- a/site/classNormallyDistributedTargetAreaModifier-members.html +++ b/site/classNormallyDistributedTargetAreaModifier-members.html @@ -23,7 +23,7 @@ diff --git a/site/classNormallyDistributedTargetAreaModifier.html b/site/classNormallyDistributedTargetAreaModifier.html index 67f3cefbd..ff81c27d3 100644 --- a/site/classNormallyDistributedTargetAreaModifier.html +++ b/site/classNormallyDistributedTargetAreaModifier.html @@ -23,7 +23,7 @@ diff --git a/site/classNullSrnModel-members.html b/site/classNullSrnModel-members.html index dafab2d10..568464aed 100644 --- a/site/classNullSrnModel-members.html +++ b/site/classNullSrnModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classNullSrnModel.html b/site/classNullSrnModel.html index 3194f7815..0c9789384 100644 --- a/site/classNullSrnModel.html +++ b/site/classNullSrnModel.html @@ -23,7 +23,7 @@ diff --git a/site/classNumericFileComparison-members.html b/site/classNumericFileComparison-members.html index ad29b4d61..e964386bb 100644 --- a/site/classNumericFileComparison-members.html +++ b/site/classNumericFileComparison-members.html @@ -23,7 +23,7 @@ diff --git a/site/classNumericFileComparison.html b/site/classNumericFileComparison.html index ac6bef4a6..5aef224b8 100644 --- a/site/classNumericFileComparison.html +++ b/site/classNumericFileComparison.html @@ -23,7 +23,7 @@ diff --git a/site/classObjectCommunicator-members.html b/site/classObjectCommunicator-members.html index d89c07462..e1e3f5446 100644 --- a/site/classObjectCommunicator-members.html +++ b/site/classObjectCommunicator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classObjectCommunicator.html b/site/classObjectCommunicator.html index 6f4112468..9afec266e 100644 --- a/site/classObjectCommunicator.html +++ b/site/classObjectCommunicator.html @@ -23,7 +23,7 @@ diff --git a/site/classObsoleteBoxCollection-members.html b/site/classObsoleteBoxCollection-members.html index 25125c73b..50ce3b52e 100644 --- a/site/classObsoleteBoxCollection-members.html +++ b/site/classObsoleteBoxCollection-members.html @@ -23,7 +23,7 @@ diff --git a/site/classObsoleteBoxCollection.html b/site/classObsoleteBoxCollection.html index 6064bca34..5216dbe3b 100644 --- a/site/classObsoleteBoxCollection.html +++ b/site/classObsoleteBoxCollection.html @@ -23,7 +23,7 @@ diff --git a/site/classOdeConvergenceTester-members.html b/site/classOdeConvergenceTester-members.html index 6bf2616a2..6bcebf461 100644 --- a/site/classOdeConvergenceTester-members.html +++ b/site/classOdeConvergenceTester-members.html @@ -23,7 +23,7 @@ diff --git a/site/classOdeConvergenceTester.html b/site/classOdeConvergenceTester.html index f3747ba20..74350cbb4 100644 --- a/site/classOdeConvergenceTester.html +++ b/site/classOdeConvergenceTester.html @@ -23,7 +23,7 @@ diff --git a/site/classOdeLinearSystemSolver-members.html b/site/classOdeLinearSystemSolver-members.html index 64782baf1..af425e99d 100644 --- a/site/classOdeLinearSystemSolver-members.html +++ b/site/classOdeLinearSystemSolver-members.html @@ -23,7 +23,7 @@ diff --git a/site/classOdeLinearSystemSolver.html b/site/classOdeLinearSystemSolver.html index d4987b8b6..932f3a051 100644 --- a/site/classOdeLinearSystemSolver.html +++ b/site/classOdeLinearSystemSolver.html @@ -23,7 +23,7 @@ diff --git a/site/classOdePdeConvergenceTester-members.html b/site/classOdePdeConvergenceTester-members.html index f620bd6af..e3887f6c4 100644 --- a/site/classOdePdeConvergenceTester-members.html +++ b/site/classOdePdeConvergenceTester-members.html @@ -23,7 +23,7 @@ diff --git a/site/classOdePdeConvergenceTester.html b/site/classOdePdeConvergenceTester.html index 5ed8bb0dd..d1e7de2f0 100644 --- a/site/classOdePdeConvergenceTester.html +++ b/site/classOdePdeConvergenceTester.html @@ -23,7 +23,7 @@ diff --git a/site/classOdeSolution-members.html b/site/classOdeSolution-members.html index 7ebacd51d..a432f2c74 100644 --- a/site/classOdeSolution-members.html +++ b/site/classOdeSolution-members.html @@ -23,7 +23,7 @@ diff --git a/site/classOdeSolution.html b/site/classOdeSolution.html index 3233a499d..afc6cc87f 100644 --- a/site/classOdeSolution.html +++ b/site/classOdeSolution.html @@ -23,7 +23,7 @@ diff --git a/site/classOdeSystemForCoupledHeatEquation-members.html b/site/classOdeSystemForCoupledHeatEquation-members.html index 7b2a6bd82..2bf90884c 100644 --- a/site/classOdeSystemForCoupledHeatEquation-members.html +++ b/site/classOdeSystemForCoupledHeatEquation-members.html @@ -23,7 +23,7 @@ diff --git a/site/classOdeSystemForCoupledHeatEquation.html b/site/classOdeSystemForCoupledHeatEquation.html index 1a977ad7d..fb614e15d 100644 --- a/site/classOdeSystemForCoupledHeatEquation.html +++ b/site/classOdeSystemForCoupledHeatEquation.html @@ -23,7 +23,7 @@ diff --git a/site/classOdeSystemForCoupledHeatEquationWithSource-members.html b/site/classOdeSystemForCoupledHeatEquationWithSource-members.html index 8378ce1a6..f7187d4f0 100644 --- a/site/classOdeSystemForCoupledHeatEquationWithSource-members.html +++ b/site/classOdeSystemForCoupledHeatEquationWithSource-members.html @@ -23,7 +23,7 @@ diff --git a/site/classOdeSystemForCoupledHeatEquationWithSource.html b/site/classOdeSystemForCoupledHeatEquationWithSource.html index 2fcab4ea3..45384b797 100644 --- a/site/classOdeSystemForCoupledHeatEquationWithSource.html +++ b/site/classOdeSystemForCoupledHeatEquationWithSource.html @@ -23,7 +23,7 @@ diff --git a/site/classOdeSystemInformation-members.html b/site/classOdeSystemInformation-members.html index 181edd67e..ab61579ff 100644 --- a/site/classOdeSystemInformation-members.html +++ b/site/classOdeSystemInformation-members.html @@ -23,7 +23,7 @@ diff --git a/site/classOdeSystemInformation.html b/site/classOdeSystemInformation.html index ba6f38cfb..8abbb3814 100644 --- a/site/classOdeSystemInformation.html +++ b/site/classOdeSystemInformation.html @@ -23,7 +23,7 @@ diff --git a/site/classOffLatticeRandomFieldGenerator-members.html b/site/classOffLatticeRandomFieldGenerator-members.html index 062881a37..a36fbc24e 100644 --- a/site/classOffLatticeRandomFieldGenerator-members.html +++ b/site/classOffLatticeRandomFieldGenerator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classOffLatticeRandomFieldGenerator.html b/site/classOffLatticeRandomFieldGenerator.html index a84d91efb..250570fb7 100644 --- a/site/classOffLatticeRandomFieldGenerator.html +++ b/site/classOffLatticeRandomFieldGenerator.html @@ -23,7 +23,7 @@ diff --git a/site/classOffLatticeSimulation-members.html b/site/classOffLatticeSimulation-members.html index 088404c61..84cf1e4dc 100644 --- a/site/classOffLatticeSimulation-members.html +++ b/site/classOffLatticeSimulation-members.html @@ -23,7 +23,7 @@ diff --git a/site/classOffLatticeSimulation.html b/site/classOffLatticeSimulation.html index 2823f5128..91635d0e5 100644 --- a/site/classOffLatticeSimulation.html +++ b/site/classOffLatticeSimulation.html @@ -23,7 +23,7 @@ @@ -517,7 +517,7 @@

Definition at line 258 of file OffLatticeSimulation.cpp.

-

References AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::OutputSimulationParameters().

+

References AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::OutputSimulationParameters().

Referenced by CryptSimulation1d::OutputSimulationParameters(), and CryptSimulation2d::OutputSimulationParameters().

diff --git a/site/classOnLatticeSimulation-members.html b/site/classOnLatticeSimulation-members.html index 3c7f261df..7bdf64474 100644 --- a/site/classOnLatticeSimulation-members.html +++ b/site/classOnLatticeSimulation-members.html @@ -23,7 +23,7 @@

diff --git a/site/classOnLatticeSimulation.html b/site/classOnLatticeSimulation.html index 5558e54f6..701180e34 100644 --- a/site/classOnLatticeSimulation.html +++ b/site/classOnLatticeSimulation.html @@ -23,7 +23,7 @@ @@ -404,7 +404,7 @@

Definition at line 107 of file OnLatticeSimulation.cpp.

-

References AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::OutputSimulationParameters().

+

References AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::OutputSimulationParameters().

@@ -548,7 +548,7 @@

Definition at line 77 of file OnLatticeSimulation.cpp.

-

References SimulationTime::GetTimeStepsElapsed(), SimulationTime::Instance(), and AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::UpdateCellPopulation().

+

References SimulationTime::GetTimeStepsElapsed(), SimulationTime::Instance(), and AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::UpdateCellPopulation().

diff --git a/site/classOpenSimplex2S-members.html b/site/classOpenSimplex2S-members.html index f5aed5ee7..4a6005051 100644 --- a/site/classOpenSimplex2S-members.html +++ b/site/classOpenSimplex2S-members.html @@ -23,7 +23,7 @@

diff --git a/site/classOpenSimplex2S.html b/site/classOpenSimplex2S.html index c2d0d1421..745e4c280 100644 --- a/site/classOpenSimplex2S.html +++ b/site/classOpenSimplex2S.html @@ -23,7 +23,7 @@ diff --git a/site/classOperatorSplittingMonodomainSolver-members.html b/site/classOperatorSplittingMonodomainSolver-members.html index b8e1a791d..ed35b23d2 100644 --- a/site/classOperatorSplittingMonodomainSolver-members.html +++ b/site/classOperatorSplittingMonodomainSolver-members.html @@ -23,7 +23,7 @@ diff --git a/site/classOperatorSplittingMonodomainSolver.html b/site/classOperatorSplittingMonodomainSolver.html index 93ebdc13a..c2565094e 100644 --- a/site/classOperatorSplittingMonodomainSolver.html +++ b/site/classOperatorSplittingMonodomainSolver.html @@ -23,7 +23,7 @@ diff --git a/site/classOrthotropicConductivityTensors-members.html b/site/classOrthotropicConductivityTensors-members.html index 3c6cbaea6..523ec8b24 100644 --- a/site/classOrthotropicConductivityTensors-members.html +++ b/site/classOrthotropicConductivityTensors-members.html @@ -23,7 +23,7 @@ diff --git a/site/classOrthotropicConductivityTensors.html b/site/classOrthotropicConductivityTensors.html index 2910d2dd7..6c53870cd 100644 --- a/site/classOrthotropicConductivityTensors.html +++ b/site/classOrthotropicConductivityTensors.html @@ -23,7 +23,7 @@ diff --git a/site/classOutputDirectoryFifoQueue-members.html b/site/classOutputDirectoryFifoQueue-members.html index 613d6cbf7..49ef696ae 100644 --- a/site/classOutputDirectoryFifoQueue-members.html +++ b/site/classOutputDirectoryFifoQueue-members.html @@ -23,7 +23,7 @@ diff --git a/site/classOutputDirectoryFifoQueue.html b/site/classOutputDirectoryFifoQueue.html index 25f614dab..7b56b289e 100644 --- a/site/classOutputDirectoryFifoQueue.html +++ b/site/classOutputDirectoryFifoQueue.html @@ -23,7 +23,7 @@ diff --git a/site/classOutputFileHandler-members.html b/site/classOutputFileHandler-members.html index 65c11edca..87f96fbfe 100644 --- a/site/classOutputFileHandler-members.html +++ b/site/classOutputFileHandler-members.html @@ -23,7 +23,7 @@ diff --git a/site/classOutputFileHandler.html b/site/classOutputFileHandler.html index c048dc28c..5aaca36a9 100644 --- a/site/classOutputFileHandler.html +++ b/site/classOutputFileHandler.html @@ -23,7 +23,7 @@ @@ -425,7 +425,7 @@

References mDirectory.

-

Referenced by ColumnDataReader::ColumnDataReader(), CylindricalHoneycombMeshGenerator::CylindricalHoneycombMeshGenerator(), HoneycombMeshGenerator::HoneycombMeshGenerator(), ToroidalHoneycombMeshGenerator::ToroidalHoneycombMeshGenerator(), DistributedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM >::ConstructCuboid(), DistributedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM >::ConstructLinearMesh(), DistributedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM >::ConstructRectangularMesh(), CopyFileTo(), CardiacSimulation::CreateResumeXmlFile(), FindFile(), ColumnDataWriter::GetOutputDirectory(), ImmersedBoundaryCellPopulation< DIM >::GetTetrahedralMeshForPdeModifier(), VertexBasedCellPopulation< DIM >::GetTetrahedralMeshForPdeModifier(), AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::OutputSimulationSetup(), CardiacSimulationArchiver< PROBLEM_CLASS >::Save(), SetArchiveDirectory(), and HeartConfig::Write().

+

Referenced by ColumnDataReader::ColumnDataReader(), CylindricalHoneycombMeshGenerator::CylindricalHoneycombMeshGenerator(), HoneycombMeshGenerator::HoneycombMeshGenerator(), ToroidalHoneycombMeshGenerator::ToroidalHoneycombMeshGenerator(), DistributedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM >::ConstructCuboid(), DistributedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM >::ConstructLinearMesh(), DistributedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM >::ConstructRectangularMesh(), CopyFileTo(), CardiacSimulation::CreateResumeXmlFile(), FindFile(), ColumnDataWriter::GetOutputDirectory(), ImmersedBoundaryCellPopulation< DIM >::GetTetrahedralMeshForPdeModifier(), VertexBasedCellPopulation< DIM >::GetTetrahedralMeshForPdeModifier(), AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::OutputSimulationSetup(), CardiacSimulationArchiver< PROBLEM_CLASS >::Save(), SetArchiveDirectory(), and HeartConfig::Write().

@@ -532,7 +532,7 @@

References EXCEPTION, and mDirectory.

-

Referenced by CylindricalHoneycombMeshGenerator::CylindricalHoneycombMeshGenerator(), Hdf5ToTxtConverter< ELEMENT_DIM, SPACE_DIM >::Hdf5ToTxtConverter(), HoneycombMeshGenerator::HoneycombMeshGenerator(), ProgressReporter::ProgressReporter(), SimpleDataWriter::SimpleDataWriter(), ToroidalHoneycombMeshGenerator::ToroidalHoneycombMeshGenerator(), AbstractCellPopulation< DIM >::AddCellUsingLocationIndex(), AbstractConvergenceTester< CELL, CARDIAC_PROBLEM, DIM, PROBLEM_DIM >::Converge(), ColumnDataWriter::CreateFixedDimensionFile(), ColumnDataWriter::CreateInfoFile(), CardiacSimulation::CreateResumeXmlFile(), CardiacElectroMechanicsProblem< DIM, ELEC_PROB_DIM >::DetermineWatchedNodes(), ColumnDataWriter::EndDefineMode(), ActivationOutputModifier::FinaliseAtEnd(), ImmersedBoundaryCellPopulation< DIM >::GetTetrahedralMeshForPdeModifier(), VertexBasedCellPopulation< DIM >::GetTetrahedralMeshForPdeModifier(), SingleTraceOutputModifier::InitialiseAtStart(), OpenOutputFile(), AbstractCellBasedWriter< ELEMENT_DIM, SPACE_DIM >::OpenOutputFile(), AbstractCellBasedWriter< ELEMENT_DIM, SPACE_DIM >::OpenOutputFileForAppend(), AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::OutputSimulationSetup(), StreeterFibreGenerator< SPACE_DIM >::PreWriteCalculations(), ExecutableSupport::PrintError(), LogFile::Set(), AbstractPdeModifier< DIM >::SetupSolve(), LinearParabolicPdeSystemWithCoupledOdeSystemSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >::SolveAndWriteResultsToFile(), ImmersedBoundarySvgWriter< DIM >::UpdateAtEndOfTimeStep(), AbstractPerElementWriter< ELEMENT_DIM, SPACE_DIM, DATA_SIZE >::WriteData(), PostProcessingWriter< ELEMENT_DIM, SPACE_DIM >::WriteGenericFileToMeshalyzer(), HeartGeometryInformation< SPACE_DIM >::WriteLayerForEachNode(), ExecutableSupport::WriteMachineInfoFile(), ExecutableSupport::WriteProvenanceInfoFile(), PseudoEcgCalculator< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >::WritePseudoEcg(), and DiscreteSystemForceCalculator::WriteResultsToFile().

+

Referenced by CylindricalHoneycombMeshGenerator::CylindricalHoneycombMeshGenerator(), Hdf5ToTxtConverter< ELEMENT_DIM, SPACE_DIM >::Hdf5ToTxtConverter(), HoneycombMeshGenerator::HoneycombMeshGenerator(), ProgressReporter::ProgressReporter(), SimpleDataWriter::SimpleDataWriter(), ToroidalHoneycombMeshGenerator::ToroidalHoneycombMeshGenerator(), AbstractCellPopulation< DIM >::AddCellUsingLocationIndex(), AbstractConvergenceTester< CELL, CARDIAC_PROBLEM, DIM, PROBLEM_DIM >::Converge(), ColumnDataWriter::CreateFixedDimensionFile(), ColumnDataWriter::CreateInfoFile(), CardiacSimulation::CreateResumeXmlFile(), CardiacElectroMechanicsProblem< DIM, ELEC_PROB_DIM >::DetermineWatchedNodes(), ColumnDataWriter::EndDefineMode(), ActivationOutputModifier::FinaliseAtEnd(), ImmersedBoundaryCellPopulation< DIM >::GetTetrahedralMeshForPdeModifier(), VertexBasedCellPopulation< DIM >::GetTetrahedralMeshForPdeModifier(), SingleTraceOutputModifier::InitialiseAtStart(), OpenOutputFile(), AbstractCellBasedWriter< ELEMENT_DIM, SPACE_DIM >::OpenOutputFile(), AbstractCellBasedWriter< ELEMENT_DIM, SPACE_DIM >::OpenOutputFileForAppend(), AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::OutputSimulationSetup(), StreeterFibreGenerator< SPACE_DIM >::PreWriteCalculations(), ExecutableSupport::PrintError(), LogFile::Set(), AbstractPdeModifier< DIM >::SetupSolve(), LinearParabolicPdeSystemWithCoupledOdeSystemSolver< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >::SolveAndWriteResultsToFile(), ImmersedBoundarySvgWriter< DIM >::UpdateAtEndOfTimeStep(), AbstractPerElementWriter< ELEMENT_DIM, SPACE_DIM, DATA_SIZE >::WriteData(), PostProcessingWriter< ELEMENT_DIM, SPACE_DIM >::WriteGenericFileToMeshalyzer(), HeartGeometryInformation< SPACE_DIM >::WriteLayerForEachNode(), ExecutableSupport::WriteMachineInfoFile(), ExecutableSupport::WriteProvenanceInfoFile(), PseudoEcgCalculator< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >::WritePseudoEcg(), and DiscreteSystemForceCalculator::WriteResultsToFile().

diff --git a/site/classPCBlockDiagonal-members.html b/site/classPCBlockDiagonal-members.html index 987f59521..d500c2bf5 100644 --- a/site/classPCBlockDiagonal-members.html +++ b/site/classPCBlockDiagonal-members.html @@ -23,7 +23,7 @@

diff --git a/site/classPCBlockDiagonal.html b/site/classPCBlockDiagonal.html index c95352d06..26508bc5e 100644 --- a/site/classPCBlockDiagonal.html +++ b/site/classPCBlockDiagonal.html @@ -23,7 +23,7 @@ diff --git a/site/classPCLDUFactorisation-members.html b/site/classPCLDUFactorisation-members.html index 159cf0152..cc6c323c2 100644 --- a/site/classPCLDUFactorisation-members.html +++ b/site/classPCLDUFactorisation-members.html @@ -23,7 +23,7 @@ diff --git a/site/classPCLDUFactorisation.html b/site/classPCLDUFactorisation.html index a88da7186..c6e7c03e7 100644 --- a/site/classPCLDUFactorisation.html +++ b/site/classPCLDUFactorisation.html @@ -23,7 +23,7 @@ diff --git a/site/classPCTwoLevelsBlockDiagonal-members.html b/site/classPCTwoLevelsBlockDiagonal-members.html index 8a25bba16..2206b61bb 100644 --- a/site/classPCTwoLevelsBlockDiagonal-members.html +++ b/site/classPCTwoLevelsBlockDiagonal-members.html @@ -23,7 +23,7 @@ diff --git a/site/classPCTwoLevelsBlockDiagonal.html b/site/classPCTwoLevelsBlockDiagonal.html index 7cdf8e7f6..0eb2f1a21 100644 --- a/site/classPCTwoLevelsBlockDiagonal.html +++ b/site/classPCTwoLevelsBlockDiagonal.html @@ -23,7 +23,7 @@ @@ -106,7 +106,7 @@
I1first principal invariant of C
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Detailed Description

-
Todo:
: #1082 update this description
+
Todo:
: #1082 update this description

This class defines a PETSc-compliant purpose-build preconditioner.

Let A be a matrix arising in the FEM discretisation of the bidomain equations with the following block structure:

A = (A11 B') (B A22)

@@ -223,11 +223,11 @@

Todo:
: #1082 won't work in parallel

Todo:
: #1082 won't work in parallel
-
Todo:
: #1082 won't work in parallel
Todo:
: #1082 assert size(x1) = size(x21) + size(x22)
Todo:
: #1082 legacy, no need to use the references
-
Todo:
: #1082 OK in parallel. Use as an example for the other two blocks
+
Todo:
: #1082 OK in parallel. Use as an example for the other two blocks

Definition at line 71 of file PCTwoLevelsBlockDiagonal.cpp.

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Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
diff --git a/site/classPetscSetup-members.html b/site/classPetscSetup-members.html index 0d168934a..3a45615bb 100644 --- a/site/classPetscSetup-members.html +++ b/site/classPetscSetup-members.html @@ -23,7 +23,7 @@ Logo -
Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
diff --git a/site/classPetscSetup.html b/site/classPetscSetup.html index b693f88b9..4623b9512 100644 --- a/site/classPetscSetup.html +++ b/site/classPetscSetup.html @@ -23,7 +23,7 @@ Logo -
Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
diff --git a/site/classPetscSetupUtils-members.html b/site/classPetscSetupUtils-members.html index de5b387d8..32a2faec1 100644 --- a/site/classPetscSetupUtils-members.html +++ b/site/classPetscSetupUtils-members.html @@ -23,7 +23,7 @@ Logo -
Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
diff --git a/site/classPetscSetupUtils.html b/site/classPetscSetupUtils.html index 007d4f063..b034525a7 100644 --- a/site/classPetscSetupUtils.html +++ b/site/classPetscSetupUtils.html @@ -23,7 +23,7 @@ Logo -
Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
diff --git a/site/classPetscTools-members.html b/site/classPetscTools-members.html index 5959f669e..f0fb663a9 100644 --- a/site/classPetscTools-members.html +++ b/site/classPetscTools-members.html @@ -23,7 +23,7 @@ Logo -
Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
diff --git a/site/classPetscTools.html b/site/classPetscTools.html index 77fdceb8e..a4b7f341b 100644 --- a/site/classPetscTools.html +++ b/site/classPetscTools.html @@ -23,7 +23,7 @@ Logo -
Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
@@ -195,7 +195,7 @@

References CheckCache(), MASTER_RANK, mIsolateProcesses, and mRank.

-

Referenced by ArchiveOpener< Archive, Stream >::ArchiveOpener(), Hdf5ToTxtConverter< ELEMENT_DIM, SPACE_DIM >::Hdf5ToTxtConverter(), ProgressReporter::ProgressReporter(), LinearSystem::~LinearSystem(), ProgressReporter::~ProgressReporter(), NodeBasedCellPopulation< DIM >::AddReceivedCells(), NodeBasedCellPopulation< DIM >::AddReceivedHaloCells(), ParallelColumnDataWriter::AdvanceAlongUnlimitedDimension(), ParallelColumnDataWriter::Close(), OutputFileHandler::CommonConstructor(), NumericFileComparison::CompareFiles(), FileComparison::CompareFiles(), DistributedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM >::ConstructCuboid(), DistributedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM >::ConstructLinearMesh(), DistributedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM >::ConstructRectangularMesh(), AbstractConvergenceTester< CELL, CARDIAC_PROBLEM, DIM, PROBLEM_DIM >::Converge(), CellMLToSharedLibraryConverter::ConvertCellmlToSo(), OutputFileHandler::CopyFileTo(), OutputDirectoryFifoQueue::CreateNextDir(), CardiacSimulation::CreateResumeXmlFile(), AbstractConvergenceTester< CELL, CARDIAC_PROBLEM, DIM, PROBLEM_DIM >::DisplayRun(), ParallelColumnDataWriter::EndDefineMode(), NodesOnlyMesh< SPACE_DIM >::EnlargeBoxCollection(), ActivationOutputModifier::FinaliseAtEnd(), AbstractCellPopulation< DIM >::GetNeighbouringEdgeIndices(), AbstractTetrahedralMeshWriter< ELEMENT_DIM, SPACE_DIM >::GetNextBoundaryElement(), AbstractTetrahedralMeshWriter< ELEMENT_DIM, SPACE_DIM >::GetNextCableElement(), AbstractTetrahedralMeshWriter< ELEMENT_DIM, SPACE_DIM >::GetNextElement(), AbstractTetrahedralMeshWriter< ELEMENT_DIM, SPACE_DIM >::GetNextNode(), DistributedBoxCollection< DIM >::GetProcessOwningNode(), DistributedTetrahedralMesh< DIM, DIM >::GetProcessRegion(), NodeBasedCellPopulation< DIM >::GetReceivedCells(), GenericEventHandler< NUM_EVENTS, CONCRETE >::HeadingsImpl(), AbstractBidomainSolver< ELEMENT_DIM, SPACE_DIM >::InitialiseForSolve(), DistributedBoxCollection< DIM >::LoadBalance(), OutputFileHandler::MakeFoldersAndReturnFullPath(), NodeBasedCellPopulation< DIM >::NonBlockingSendCellsToNeighbourProcesses(), AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::OutputSimulationSetup(), NodePartitioner< ELEMENT_DIM, SPACE_DIM >::PetscMatrixPartitioning(), StreeterFibreGenerator< SPACE_DIM >::PreWriteCalculations(), Citations::Print(), ExecutableSupport::Print(), ExecutableSupport::PrintError(), ProgressReporter::PrintFinalising(), ProgressReporter::PrintInitialising(), Hdf5DataWriter::PutUnlimitedVariable(), ParallelColumnDataWriter::PutVariable(), ParallelColumnDataWriter::PutVector(), GenericEventHandler< NUM_EVENTS, CONCRETE >::ReportImpl(), AbstractFileComparison::ResetFiles(), HeartConfig::save(), AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM >::save(), CardiacSimulationArchiver< PROBLEM_CLASS >::Save(), NodeBasedCellPopulation< DIM >::SendCellsToNeighbourProcesses(), AbstractFileComparison::Setup(), AbstractPdeModifier< DIM >::SetupSolve(), ExecutableSupport::ShowCopyright(), AbstractFileComparison::SkipHeaderLines(), LinearSystem::Solve(), ProgressReporter::Update(), AbstractPdeModifier< DIM >::UpdateAtEndOfOutputTimeStep(), AbstractPdeModifier< DIM >::UpdateAtEndOfSolve(), CellMutationStatesCountWriter< ELEMENT_DIM, SPACE_DIM >::Visit(), CellProliferativePhasesCountWriter< ELEMENT_DIM, SPACE_DIM >::Visit(), CellProliferativeTypesCountWriter< ELEMENT_DIM, SPACE_DIM >::Visit(), CellMutationStatesCountWriter< ELEMENT_DIM, SPACE_DIM >::VisitAnyPopulation(), CellProliferativePhasesCountWriter< ELEMENT_DIM, SPACE_DIM >::VisitAnyPopulation(), CellProliferativeTypesCountWriter< ELEMENT_DIM, SPACE_DIM >::VisitAnyPopulation(), HeartConfig::Write(), Hdf5ToCmguiConverter< ELEMENT_DIM, SPACE_DIM >::Write(), Hdf5ToMeshalyzerConverter< ELEMENT_DIM, SPACE_DIM >::Write(), Hdf5ToCmguiConverter< ELEMENT_DIM, SPACE_DIM >::WriteCmguiScript(), AbstractContinuumMechanicsSolver< DIM >::WriteCurrentPressureSolution(), AbstractContinuumMechanicsSolver< DIM >::WriteCurrentSpatialSolution(), AbstractPerElementWriter< ELEMENT_DIM, SPACE_DIM, DATA_SIZE >::WriteData(), XdmfMeshWriter< ELEMENT_DIM, SPACE_DIM >::WriteFiles(), AbstractTetrahedralMeshWriter< ELEMENT_DIM, SPACE_DIM >::WriteFilesUsingMesh(), VtkMeshWriter< ELEMENT_DIM, SPACE_DIM >::WriteFilesUsingMesh(), XdmfMeshWriter< ELEMENT_DIM, SPACE_DIM >::WriteFilesUsingMesh(), AbstractTetrahedralMeshWriter< ELEMENT_DIM, SPACE_DIM >::WriteFilesUsingParallelMesh(), PostProcessingWriter< ELEMENT_DIM, SPACE_DIM >::WriteGenericFileToMeshalyzer(), CellMutationStatesCountWriter< ELEMENT_DIM, SPACE_DIM >::WriteHeader(), BidomainProblem< DIM >::WriteInfo(), ExtendedBidomainProblem< DIM >::WriteInfo(), MonodomainProblem< ELEMENT_DIM, SPACE_DIM >::WriteInfo(), MonodomainPurkinjeProblem< ELEMENT_DIM, SPACE_DIM >::WriteInfo(), AbstractHdf5Converter< ELEMENT_DIM, SPACE_DIM >::WriteInfoFile(), HeartGeometryInformation< SPACE_DIM >::WriteLayerForEachNode(), AbstractTetrahedralMeshWriter< ELEMENT_DIM, SPACE_DIM >::WriteNclFile(), PseudoEcgCalculator< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >::WritePseudoEcg(), OdeSolution::WriteToFile(), PostProcessingWriter< ELEMENT_DIM, SPACE_DIM >::WriteVariablesOverTimeAtNodes(), OffLatticeSimulation< ELEMENT_DIM, SPACE_DIM >::WriteVisualizerSetupFile(), and XdmfMeshWriter< ELEMENT_DIM, SPACE_DIM >::WriteXdmfMasterFile().

+

Referenced by ArchiveOpener< Archive, Stream >::ArchiveOpener(), Hdf5ToTxtConverter< ELEMENT_DIM, SPACE_DIM >::Hdf5ToTxtConverter(), ProgressReporter::ProgressReporter(), LinearSystem::~LinearSystem(), ProgressReporter::~ProgressReporter(), NodeBasedCellPopulation< DIM >::AddReceivedCells(), NodeBasedCellPopulation< DIM >::AddReceivedHaloCells(), ParallelColumnDataWriter::AdvanceAlongUnlimitedDimension(), ParallelColumnDataWriter::Close(), OutputFileHandler::CommonConstructor(), NumericFileComparison::CompareFiles(), FileComparison::CompareFiles(), DistributedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM >::ConstructCuboid(), DistributedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM >::ConstructLinearMesh(), DistributedTetrahedralMesh< ELEMENT_DIM, SPACE_DIM >::ConstructRectangularMesh(), AbstractConvergenceTester< CELL, CARDIAC_PROBLEM, DIM, PROBLEM_DIM >::Converge(), CellMLToSharedLibraryConverter::ConvertCellmlToSo(), OutputFileHandler::CopyFileTo(), OutputDirectoryFifoQueue::CreateNextDir(), CardiacSimulation::CreateResumeXmlFile(), AbstractConvergenceTester< CELL, CARDIAC_PROBLEM, DIM, PROBLEM_DIM >::DisplayRun(), ParallelColumnDataWriter::EndDefineMode(), NodesOnlyMesh< SPACE_DIM >::EnlargeBoxCollection(), ActivationOutputModifier::FinaliseAtEnd(), AbstractCellPopulation< DIM >::GetNeighbouringEdgeIndices(), AbstractTetrahedralMeshWriter< ELEMENT_DIM, SPACE_DIM >::GetNextBoundaryElement(), AbstractTetrahedralMeshWriter< ELEMENT_DIM, SPACE_DIM >::GetNextCableElement(), AbstractTetrahedralMeshWriter< ELEMENT_DIM, SPACE_DIM >::GetNextElement(), AbstractTetrahedralMeshWriter< ELEMENT_DIM, SPACE_DIM >::GetNextNode(), DistributedBoxCollection< DIM >::GetProcessOwningNode(), DistributedTetrahedralMesh< DIM, DIM >::GetProcessRegion(), NodeBasedCellPopulation< DIM >::GetReceivedCells(), GenericEventHandler< NUM_EVENTS, CONCRETE >::HeadingsImpl(), AbstractBidomainSolver< ELEMENT_DIM, SPACE_DIM >::InitialiseForSolve(), DistributedBoxCollection< DIM >::LoadBalance(), OutputFileHandler::MakeFoldersAndReturnFullPath(), NodeBasedCellPopulation< DIM >::NonBlockingSendCellsToNeighbourProcesses(), AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::OutputSimulationSetup(), NodePartitioner< ELEMENT_DIM, SPACE_DIM >::PetscMatrixPartitioning(), StreeterFibreGenerator< SPACE_DIM >::PreWriteCalculations(), Citations::Print(), ExecutableSupport::Print(), ExecutableSupport::PrintError(), ProgressReporter::PrintFinalising(), ProgressReporter::PrintInitialising(), Hdf5DataWriter::PutUnlimitedVariable(), ParallelColumnDataWriter::PutVariable(), ParallelColumnDataWriter::PutVector(), GenericEventHandler< NUM_EVENTS, CONCRETE >::ReportImpl(), AbstractFileComparison::ResetFiles(), HeartConfig::save(), AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM >::save(), CardiacSimulationArchiver< PROBLEM_CLASS >::Save(), NodeBasedCellPopulation< DIM >::SendCellsToNeighbourProcesses(), AbstractFileComparison::Setup(), AbstractPdeModifier< DIM >::SetupSolve(), ExecutableSupport::ShowCopyright(), AbstractFileComparison::SkipHeaderLines(), LinearSystem::Solve(), ProgressReporter::Update(), AbstractPdeModifier< DIM >::UpdateAtEndOfOutputTimeStep(), AbstractPdeModifier< DIM >::UpdateAtEndOfSolve(), CellMutationStatesCountWriter< ELEMENT_DIM, SPACE_DIM >::Visit(), CellProliferativePhasesCountWriter< ELEMENT_DIM, SPACE_DIM >::Visit(), CellProliferativeTypesCountWriter< ELEMENT_DIM, SPACE_DIM >::Visit(), CellMutationStatesCountWriter< ELEMENT_DIM, SPACE_DIM >::VisitAnyPopulation(), CellProliferativePhasesCountWriter< ELEMENT_DIM, SPACE_DIM >::VisitAnyPopulation(), CellProliferativeTypesCountWriter< ELEMENT_DIM, SPACE_DIM >::VisitAnyPopulation(), HeartConfig::Write(), Hdf5ToCmguiConverter< ELEMENT_DIM, SPACE_DIM >::Write(), Hdf5ToMeshalyzerConverter< ELEMENT_DIM, SPACE_DIM >::Write(), Hdf5ToCmguiConverter< ELEMENT_DIM, SPACE_DIM >::WriteCmguiScript(), AbstractContinuumMechanicsSolver< DIM >::WriteCurrentPressureSolution(), AbstractContinuumMechanicsSolver< DIM >::WriteCurrentSpatialSolution(), AbstractPerElementWriter< ELEMENT_DIM, SPACE_DIM, DATA_SIZE >::WriteData(), XdmfMeshWriter< ELEMENT_DIM, SPACE_DIM >::WriteFiles(), AbstractTetrahedralMeshWriter< ELEMENT_DIM, SPACE_DIM >::WriteFilesUsingMesh(), VtkMeshWriter< ELEMENT_DIM, SPACE_DIM >::WriteFilesUsingMesh(), XdmfMeshWriter< ELEMENT_DIM, SPACE_DIM >::WriteFilesUsingMesh(), AbstractTetrahedralMeshWriter< ELEMENT_DIM, SPACE_DIM >::WriteFilesUsingParallelMesh(), PostProcessingWriter< ELEMENT_DIM, SPACE_DIM >::WriteGenericFileToMeshalyzer(), CellMutationStatesCountWriter< ELEMENT_DIM, SPACE_DIM >::WriteHeader(), BidomainProblem< DIM >::WriteInfo(), ExtendedBidomainProblem< DIM >::WriteInfo(), MonodomainProblem< ELEMENT_DIM, SPACE_DIM >::WriteInfo(), MonodomainPurkinjeProblem< ELEMENT_DIM, SPACE_DIM >::WriteInfo(), AbstractHdf5Converter< ELEMENT_DIM, SPACE_DIM >::WriteInfoFile(), HeartGeometryInformation< SPACE_DIM >::WriteLayerForEachNode(), AbstractTetrahedralMeshWriter< ELEMENT_DIM, SPACE_DIM >::WriteNclFile(), PseudoEcgCalculator< ELEMENT_DIM, SPACE_DIM, PROBLEM_DIM >::WritePseudoEcg(), OdeSolution::WriteToFile(), PostProcessingWriter< ELEMENT_DIM, SPACE_DIM >::WriteVariablesOverTimeAtNodes(), OffLatticeSimulation< ELEMENT_DIM, SPACE_DIM >::WriteVisualizerSetupFile(), and XdmfMeshWriter< ELEMENT_DIM, SPACE_DIM >::WriteXdmfMasterFile().

diff --git a/site/classPetscVecTools-members.html b/site/classPetscVecTools-members.html index a670ba941..0cab0947c 100644 --- a/site/classPetscVecTools-members.html +++ b/site/classPetscVecTools-members.html @@ -23,7 +23,7 @@ Logo -
Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
diff --git a/site/classPetscVecTools.html b/site/classPetscVecTools.html index 8766e1f26..a4f054222 100644 --- a/site/classPetscVecTools.html +++ b/site/classPetscVecTools.html @@ -23,7 +23,7 @@ Logo -
Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
diff --git a/site/classPlanarPolarisedFarhadifarForce-members.html b/site/classPlanarPolarisedFarhadifarForce-members.html index 37d25fc01..47449ceb1 100644 --- a/site/classPlanarPolarisedFarhadifarForce-members.html +++ b/site/classPlanarPolarisedFarhadifarForce-members.html @@ -23,7 +23,7 @@ Logo -
Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
diff --git a/site/classPlanarPolarisedFarhadifarForce.html b/site/classPlanarPolarisedFarhadifarForce.html index 549c2f669..650af6584 100644 --- a/site/classPlanarPolarisedFarhadifarForce.html +++ b/site/classPlanarPolarisedFarhadifarForce.html @@ -23,7 +23,7 @@ Logo -
Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
diff --git a/site/classPlaneBasedCellKiller-members.html b/site/classPlaneBasedCellKiller-members.html index 7f3b8b26b..0ce3db529 100644 --- a/site/classPlaneBasedCellKiller-members.html +++ b/site/classPlaneBasedCellKiller-members.html @@ -23,7 +23,7 @@ Logo -
Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
diff --git a/site/classPlaneBasedCellKiller.html b/site/classPlaneBasedCellKiller.html index 115455ba8..f26036031 100644 --- a/site/classPlaneBasedCellKiller.html +++ b/site/classPlaneBasedCellKiller.html @@ -23,7 +23,7 @@ Logo -
Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
diff --git a/site/classPlaneBoundaryCondition-members.html b/site/classPlaneBoundaryCondition-members.html index ddc8d2246..902c29d8f 100644 --- a/site/classPlaneBoundaryCondition-members.html +++ b/site/classPlaneBoundaryCondition-members.html @@ -23,7 +23,7 @@ Logo -
Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
diff --git a/site/classPlaneBoundaryCondition.html b/site/classPlaneBoundaryCondition.html index fcd008dcc..bd047d3ee 100644 --- a/site/classPlaneBoundaryCondition.html +++ b/site/classPlaneBoundaryCondition.html @@ -23,7 +23,7 @@ Logo -
Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
@@ -256,7 +256,7 @@

Todo:
Move this to constructor. If this is in the constructor then Exception always throws.
+
Todo:
Move this to constructor. If this is in the constructor then Exception always throws.

Implements AbstractCellPopulationBoundaryCondition< ELEMENT_DIM, SPACE_DIM >.

diff --git a/site/classPlaneStimulusCellFactory-members.html b/site/classPlaneStimulusCellFactory-members.html index 6146f219d..91421e78a 100644 --- a/site/classPlaneStimulusCellFactory-members.html +++ b/site/classPlaneStimulusCellFactory-members.html @@ -23,7 +23,7 @@ Logo -
Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
diff --git a/site/classPlaneStimulusCellFactory.html b/site/classPlaneStimulusCellFactory.html index 973f62039..9f957e9c4 100644 --- a/site/classPlaneStimulusCellFactory.html +++ b/site/classPlaneStimulusCellFactory.html @@ -23,7 +23,7 @@ Logo -
Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
diff --git a/site/classPoleZeroMaterialLaw-members.html b/site/classPoleZeroMaterialLaw-members.html index 6dd1f333c..2f8961f2d 100644 --- a/site/classPoleZeroMaterialLaw-members.html +++ b/site/classPoleZeroMaterialLaw-members.html @@ -23,7 +23,7 @@ Logo -
Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
diff --git a/site/classPoleZeroMaterialLaw.html b/site/classPoleZeroMaterialLaw.html index 16fe4b6c3..0b78af9df 100644 --- a/site/classPoleZeroMaterialLaw.html +++ b/site/classPoleZeroMaterialLaw.html @@ -23,7 +23,7 @@ Logo -
Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
diff --git a/site/classPolynomialMaterialLaw3d-members.html b/site/classPolynomialMaterialLaw3d-members.html index 9d9cf31a3..a0f7f27bf 100644 --- a/site/classPolynomialMaterialLaw3d-members.html +++ b/site/classPolynomialMaterialLaw3d-members.html @@ -23,7 +23,7 @@ Logo -
Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
diff --git a/site/classPolynomialMaterialLaw3d.html b/site/classPolynomialMaterialLaw3d.html index b7cf92f40..9fee04345 100644 --- a/site/classPolynomialMaterialLaw3d.html +++ b/site/classPolynomialMaterialLaw3d.html @@ -23,7 +23,7 @@ Logo -
Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
@@ -238,7 +238,7 @@

Returns
the second derivative d^2W/dI1^2.
-
Todo:
The name of this method should not include underscores.
+
Todo:
The name of this method should not include underscores.
Parameters
@@ -289,7 +289,7 @@

Returns
the second derivative d^2W/dI1dI2.
-
Todo:
The name of this method should not include underscores.
+
Todo:
The name of this method should not include underscores.
Parameters

I1first principal invariant of C
@@ -340,7 +340,7 @@

Returns
the second derivative d^2W/dI2^2.
-
Todo:
The name of this method should not include underscores.
+
Todo:
The name of this method should not include underscores.
Parameters

I1first principal invariant of C
@@ -391,7 +391,7 @@

Returns
the first derivative dW/dI1.
-
Todo:
The name of this method should not include underscores.
+
Todo:
The name of this method should not include underscores.
Parameters

I1first principal invariant of C
@@ -442,7 +442,7 @@

Returns
the first derivative dW/dI2.
-
Todo:
The name of this method should not include underscores.
+
Todo:
The name of this method should not include underscores.
Parameters

I1first principal invariant of C
diff --git a/site/classPopulationTestingForce-members.html b/site/classPopulationTestingForce-members.html index 0896af166..542597cf4 100644 --- a/site/classPopulationTestingForce-members.html +++ b/site/classPopulationTestingForce-members.html @@ -23,7 +23,7 @@ diff --git a/site/classPopulationTestingForce.html b/site/classPopulationTestingForce.html index ba91f6583..3fd153002 100644 --- a/site/classPopulationTestingForce.html +++ b/site/classPopulationTestingForce.html @@ -23,7 +23,7 @@ diff --git a/site/classPostProcessingWriter-members.html b/site/classPostProcessingWriter-members.html index 09dadc6c1..1ed0cdacd 100644 --- a/site/classPostProcessingWriter-members.html +++ b/site/classPostProcessingWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classPostProcessingWriter.html b/site/classPostProcessingWriter.html index 4d2cbadbd..43865bffd 100644 --- a/site/classPostProcessingWriter.html +++ b/site/classPostProcessingWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classPottsBasedCellPopulation-members.html b/site/classPottsBasedCellPopulation-members.html index 87c439ead..28349488a 100644 --- a/site/classPottsBasedCellPopulation-members.html +++ b/site/classPottsBasedCellPopulation-members.html @@ -23,7 +23,7 @@ diff --git a/site/classPottsBasedCellPopulation.html b/site/classPottsBasedCellPopulation.html index d82a278b8..178ae5f54 100644 --- a/site/classPottsBasedCellPopulation.html +++ b/site/classPottsBasedCellPopulation.html @@ -23,7 +23,7 @@ diff --git a/site/classPottsElement-members.html b/site/classPottsElement-members.html index ce6f1a6d4..e2b7328d8 100644 --- a/site/classPottsElement-members.html +++ b/site/classPottsElement-members.html @@ -23,7 +23,7 @@ diff --git a/site/classPottsElement.html b/site/classPottsElement.html index 79e5a665a..480bca063 100644 --- a/site/classPottsElement.html +++ b/site/classPottsElement.html @@ -23,7 +23,7 @@ diff --git a/site/classPottsMesh-members.html b/site/classPottsMesh-members.html index 21818333a..0d1eef364 100644 --- a/site/classPottsMesh-members.html +++ b/site/classPottsMesh-members.html @@ -23,7 +23,7 @@ diff --git a/site/classPottsMesh.html b/site/classPottsMesh.html index d7406766c..18d8fa8ff 100644 --- a/site/classPottsMesh.html +++ b/site/classPottsMesh.html @@ -23,7 +23,7 @@ diff --git a/site/classPottsMeshGenerator-members.html b/site/classPottsMeshGenerator-members.html index 41d003029..ae75e42c3 100644 --- a/site/classPottsMeshGenerator-members.html +++ b/site/classPottsMeshGenerator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classPottsMeshGenerator.html b/site/classPottsMeshGenerator.html index 8686f12d7..bcc435e76 100644 --- a/site/classPottsMeshGenerator.html +++ b/site/classPottsMeshGenerator.html @@ -23,7 +23,7 @@ diff --git a/site/classPottsMeshReader-members.html b/site/classPottsMeshReader-members.html index 80eb518d4..b755a88bf 100644 --- a/site/classPottsMeshReader-members.html +++ b/site/classPottsMeshReader-members.html @@ -23,7 +23,7 @@ diff --git a/site/classPottsMeshReader.html b/site/classPottsMeshReader.html index 46c0871d0..19bd1eec3 100644 --- a/site/classPottsMeshReader.html +++ b/site/classPottsMeshReader.html @@ -23,7 +23,7 @@ diff --git a/site/classPottsMeshWriter-members.html b/site/classPottsMeshWriter-members.html index b9e9aa650..51e2cf9f2 100644 --- a/site/classPottsMeshWriter-members.html +++ b/site/classPottsMeshWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classPottsMeshWriter.html b/site/classPottsMeshWriter.html index 13a5ea14e..e95c98e7f 100644 --- a/site/classPottsMeshWriter.html +++ b/site/classPottsMeshWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classPottsMesh_1_1PottsElementIterator-members.html b/site/classPottsMesh_1_1PottsElementIterator-members.html index 82b3dc65b..87b4fdbfc 100644 --- a/site/classPottsMesh_1_1PottsElementIterator-members.html +++ b/site/classPottsMesh_1_1PottsElementIterator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classPottsMesh_1_1PottsElementIterator.html b/site/classPottsMesh_1_1PottsElementIterator.html index edc4c594c..adb541d27 100644 --- a/site/classPottsMesh_1_1PottsElementIterator.html +++ b/site/classPottsMesh_1_1PottsElementIterator.html @@ -23,7 +23,7 @@ diff --git a/site/classProcessSpecificArchive-members.html b/site/classProcessSpecificArchive-members.html index 258b2ddb7..13f7ff1d0 100644 --- a/site/classProcessSpecificArchive-members.html +++ b/site/classProcessSpecificArchive-members.html @@ -23,7 +23,7 @@ diff --git a/site/classProcessSpecificArchive.html b/site/classProcessSpecificArchive.html index 81af4b622..99ce46c32 100644 --- a/site/classProcessSpecificArchive.html +++ b/site/classProcessSpecificArchive.html @@ -23,7 +23,7 @@ diff --git a/site/classProgressReporter-members.html b/site/classProgressReporter-members.html index 6b2ac5006..c65652e23 100644 --- a/site/classProgressReporter-members.html +++ b/site/classProgressReporter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classProgressReporter.html b/site/classProgressReporter.html index 45c4b1b18..06484f139 100644 --- a/site/classProgressReporter.html +++ b/site/classProgressReporter.html @@ -23,7 +23,7 @@ diff --git a/site/classPropagationPropertiesCalculator-members.html b/site/classPropagationPropertiesCalculator-members.html index eb38980b9..e335ee198 100644 --- a/site/classPropagationPropertiesCalculator-members.html +++ b/site/classPropagationPropertiesCalculator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classPropagationPropertiesCalculator.html b/site/classPropagationPropertiesCalculator.html index b436aa9db..e39b6bb86 100644 --- a/site/classPropagationPropertiesCalculator.html +++ b/site/classPropagationPropertiesCalculator.html @@ -23,7 +23,7 @@ diff --git a/site/classPseudoEcgCalculator-members.html b/site/classPseudoEcgCalculator-members.html index c0ad7dec9..a982a89e2 100644 --- a/site/classPseudoEcgCalculator-members.html +++ b/site/classPseudoEcgCalculator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classPseudoEcgCalculator.html b/site/classPseudoEcgCalculator.html index 1c0ea03c5..5a8ac7fd0 100644 --- a/site/classPseudoEcgCalculator.html +++ b/site/classPseudoEcgCalculator.html @@ -23,7 +23,7 @@ diff --git a/site/classPurkinjeVentricularJunctionStimulus-members.html b/site/classPurkinjeVentricularJunctionStimulus-members.html index 8a32bb6b7..28e1e1c52 100644 --- a/site/classPurkinjeVentricularJunctionStimulus-members.html +++ b/site/classPurkinjeVentricularJunctionStimulus-members.html @@ -23,7 +23,7 @@ diff --git a/site/classPurkinjeVentricularJunctionStimulus.html b/site/classPurkinjeVentricularJunctionStimulus.html index e81221942..afdf37754 100644 --- a/site/classPurkinjeVentricularJunctionStimulus.html +++ b/site/classPurkinjeVentricularJunctionStimulus.html @@ -23,7 +23,7 @@ diff --git a/site/classQuadraticBasisFunction-members.html b/site/classQuadraticBasisFunction-members.html index d7234fe70..916c381ca 100644 --- a/site/classQuadraticBasisFunction-members.html +++ b/site/classQuadraticBasisFunction-members.html @@ -23,7 +23,7 @@ diff --git a/site/classQuadraticBasisFunction.html b/site/classQuadraticBasisFunction.html index af235d7da..ceee2f056 100644 --- a/site/classQuadraticBasisFunction.html +++ b/site/classQuadraticBasisFunction.html @@ -23,7 +23,7 @@ diff --git a/site/classQuadraticBasisFunction_3_010_01_4-members.html b/site/classQuadraticBasisFunction_3_010_01_4-members.html index 2cb0ebcfb..15f5ec102 100644 --- a/site/classQuadraticBasisFunction_3_010_01_4-members.html +++ b/site/classQuadraticBasisFunction_3_010_01_4-members.html @@ -23,7 +23,7 @@ diff --git a/site/classQuadraticBasisFunction_3_010_01_4.html b/site/classQuadraticBasisFunction_3_010_01_4.html index de4731ac2..0ccefea65 100644 --- a/site/classQuadraticBasisFunction_3_010_01_4.html +++ b/site/classQuadraticBasisFunction_3_010_01_4.html @@ -23,7 +23,7 @@ diff --git a/site/classQuadraticMesh-members.html b/site/classQuadraticMesh-members.html index 7e5a901e1..9bb16b713 100644 --- a/site/classQuadraticMesh-members.html +++ b/site/classQuadraticMesh-members.html @@ -23,7 +23,7 @@ diff --git a/site/classQuadraticMesh.html b/site/classQuadraticMesh.html index 83b29f19b..90f90bf09 100644 --- a/site/classQuadraticMesh.html +++ b/site/classQuadraticMesh.html @@ -23,7 +23,7 @@ diff --git a/site/classQuadraticMeshHelper-members.html b/site/classQuadraticMeshHelper-members.html index 4bc08ea07..0bbdf20b7 100644 --- a/site/classQuadraticMeshHelper-members.html +++ b/site/classQuadraticMeshHelper-members.html @@ -23,7 +23,7 @@ diff --git a/site/classQuadraticMeshHelper.html b/site/classQuadraticMeshHelper.html index 714b0e165..de97c6a0b 100644 --- a/site/classQuadraticMeshHelper.html +++ b/site/classQuadraticMeshHelper.html @@ -23,7 +23,7 @@ diff --git a/site/classQuadraturePointsGroup-members.html b/site/classQuadraturePointsGroup-members.html index a167b9af4..212b9b96b 100644 --- a/site/classQuadraturePointsGroup-members.html +++ b/site/classQuadraturePointsGroup-members.html @@ -23,7 +23,7 @@ diff --git a/site/classQuadraturePointsGroup.html b/site/classQuadraturePointsGroup.html index ecabe6d18..eeb7249f7 100644 --- a/site/classQuadraturePointsGroup.html +++ b/site/classQuadraturePointsGroup.html @@ -23,7 +23,7 @@ diff --git a/site/classRKC21IvpOdeSolver-members.html b/site/classRKC21IvpOdeSolver-members.html index 4c3174699..1a59e38ca 100644 --- a/site/classRKC21IvpOdeSolver-members.html +++ b/site/classRKC21IvpOdeSolver-members.html @@ -23,7 +23,7 @@ diff --git a/site/classRKC21IvpOdeSolver.html b/site/classRKC21IvpOdeSolver.html index aeb383779..f35041b51 100644 --- a/site/classRKC21IvpOdeSolver.html +++ b/site/classRKC21IvpOdeSolver.html @@ -23,7 +23,7 @@ diff --git a/site/classRadialCellDataDistributionWriter-members.html b/site/classRadialCellDataDistributionWriter-members.html index 3d92740bc..b3283c87e 100644 --- a/site/classRadialCellDataDistributionWriter-members.html +++ b/site/classRadialCellDataDistributionWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classRadialCellDataDistributionWriter.html b/site/classRadialCellDataDistributionWriter.html index 968055c77..a21551de4 100644 --- a/site/classRadialCellDataDistributionWriter.html +++ b/site/classRadialCellDataDistributionWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classRadialSloughingCellKiller-members.html b/site/classRadialSloughingCellKiller-members.html index 79b54c7e8..6bd6d4f02 100644 --- a/site/classRadialSloughingCellKiller-members.html +++ b/site/classRadialSloughingCellKiller-members.html @@ -23,7 +23,7 @@ diff --git a/site/classRadialSloughingCellKiller.html b/site/classRadialSloughingCellKiller.html index 0154a5619..f05f85cd8 100644 --- a/site/classRadialSloughingCellKiller.html +++ b/site/classRadialSloughingCellKiller.html @@ -23,7 +23,7 @@ diff --git a/site/classRampedQuarterStimulusCellFactory-members.html b/site/classRampedQuarterStimulusCellFactory-members.html index 756bf93ea..a4857a525 100644 --- a/site/classRampedQuarterStimulusCellFactory-members.html +++ b/site/classRampedQuarterStimulusCellFactory-members.html @@ -23,7 +23,7 @@ diff --git a/site/classRampedQuarterStimulusCellFactory.html b/site/classRampedQuarterStimulusCellFactory.html index 5eb3acdd0..986a9effd 100644 --- a/site/classRampedQuarterStimulusCellFactory.html +++ b/site/classRampedQuarterStimulusCellFactory.html @@ -23,7 +23,7 @@ diff --git a/site/classRandomCaSwitchingUpdateRule-members.html b/site/classRandomCaSwitchingUpdateRule-members.html index a74ed2887..c41324a38 100644 --- a/site/classRandomCaSwitchingUpdateRule-members.html +++ b/site/classRandomCaSwitchingUpdateRule-members.html @@ -23,7 +23,7 @@ diff --git a/site/classRandomCaSwitchingUpdateRule.html b/site/classRandomCaSwitchingUpdateRule.html index cb968253e..7ef4407ab 100644 --- a/site/classRandomCaSwitchingUpdateRule.html +++ b/site/classRandomCaSwitchingUpdateRule.html @@ -23,7 +23,7 @@ @@ -482,7 +482,7 @@

-

Switching parameter for update rule. Set to the default value 0.5 in the constructor.

Todo:
provide units
+

Switching parameter for update rule. Set to the default value 0.5 in the constructor.

Todo:
provide units

Definition at line 68 of file RandomCaSwitchingUpdateRule.hpp.

diff --git a/site/classRandomCellKiller-members.html b/site/classRandomCellKiller-members.html index b2a7e5fa9..b37cf0405 100644 --- a/site/classRandomCellKiller-members.html +++ b/site/classRandomCellKiller-members.html @@ -23,7 +23,7 @@

diff --git a/site/classRandomCellKiller.html b/site/classRandomCellKiller.html index 5653c4670..e92e05906 100644 --- a/site/classRandomCellKiller.html +++ b/site/classRandomCellKiller.html @@ -23,7 +23,7 @@ diff --git a/site/classRandomDirectionCentreBasedDivisionRule-members.html b/site/classRandomDirectionCentreBasedDivisionRule-members.html index 1134ccb28..c93f16e18 100644 --- a/site/classRandomDirectionCentreBasedDivisionRule-members.html +++ b/site/classRandomDirectionCentreBasedDivisionRule-members.html @@ -23,7 +23,7 @@ diff --git a/site/classRandomDirectionCentreBasedDivisionRule.html b/site/classRandomDirectionCentreBasedDivisionRule.html index 5766e9445..ce6eb6029 100644 --- a/site/classRandomDirectionCentreBasedDivisionRule.html +++ b/site/classRandomDirectionCentreBasedDivisionRule.html @@ -23,7 +23,7 @@ diff --git a/site/classRandomDirectionVertexBasedDivisionRule-members.html b/site/classRandomDirectionVertexBasedDivisionRule-members.html index ba6b79674..a2616a9e9 100644 --- a/site/classRandomDirectionVertexBasedDivisionRule-members.html +++ b/site/classRandomDirectionVertexBasedDivisionRule-members.html @@ -23,7 +23,7 @@ diff --git a/site/classRandomDirectionVertexBasedDivisionRule.html b/site/classRandomDirectionVertexBasedDivisionRule.html index cb2a5f758..b4b875562 100644 --- a/site/classRandomDirectionVertexBasedDivisionRule.html +++ b/site/classRandomDirectionVertexBasedDivisionRule.html @@ -23,7 +23,7 @@ diff --git a/site/classRandomNumberGenerator-members.html b/site/classRandomNumberGenerator-members.html index 37f5f4713..fbf9d24d8 100644 --- a/site/classRandomNumberGenerator-members.html +++ b/site/classRandomNumberGenerator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classRandomNumberGenerator.html b/site/classRandomNumberGenerator.html index 2337c7eff..9a7c03203 100644 --- a/site/classRandomNumberGenerator.html +++ b/site/classRandomNumberGenerator.html @@ -23,7 +23,7 @@ diff --git a/site/classRegularStimulus-members.html b/site/classRegularStimulus-members.html index 67f03b1ff..14dcfaf44 100644 --- a/site/classRegularStimulus-members.html +++ b/site/classRegularStimulus-members.html @@ -23,7 +23,7 @@ diff --git a/site/classRegularStimulus.html b/site/classRegularStimulus.html index 81739b22b..93fff5b69 100644 --- a/site/classRegularStimulus.html +++ b/site/classRegularStimulus.html @@ -23,7 +23,7 @@ diff --git a/site/classRegularStimulusZeroNetCharge-members.html b/site/classRegularStimulusZeroNetCharge-members.html index 368f19db8..21d9e4495 100644 --- a/site/classRegularStimulusZeroNetCharge-members.html +++ b/site/classRegularStimulusZeroNetCharge-members.html @@ -23,7 +23,7 @@ diff --git a/site/classRegularStimulusZeroNetCharge.html b/site/classRegularStimulusZeroNetCharge.html index 07a07310f..845d6bc87 100644 --- a/site/classRegularStimulusZeroNetCharge.html +++ b/site/classRegularStimulusZeroNetCharge.html @@ -23,7 +23,7 @@ diff --git a/site/classReplicatableVector-members.html b/site/classReplicatableVector-members.html index 92b2a38b4..5f7e19db0 100644 --- a/site/classReplicatableVector-members.html +++ b/site/classReplicatableVector-members.html @@ -23,7 +23,7 @@ diff --git a/site/classReplicatableVector.html b/site/classReplicatableVector.html index 01d5af80a..e4edd3f9d 100644 --- a/site/classReplicatableVector.html +++ b/site/classReplicatableVector.html @@ -23,7 +23,7 @@ diff --git a/site/classRepulsionForce-members.html b/site/classRepulsionForce-members.html index dccb042aa..8338806c0 100644 --- a/site/classRepulsionForce-members.html +++ b/site/classRepulsionForce-members.html @@ -23,7 +23,7 @@ diff --git a/site/classRepulsionForce.html b/site/classRepulsionForce.html index 1b7fe7d44..193c7f602 100644 --- a/site/classRepulsionForce.html +++ b/site/classRepulsionForce.html @@ -23,7 +23,7 @@ diff --git a/site/classRungeKutta2IvpOdeSolver-members.html b/site/classRungeKutta2IvpOdeSolver-members.html index 241137200..595c66672 100644 --- a/site/classRungeKutta2IvpOdeSolver-members.html +++ b/site/classRungeKutta2IvpOdeSolver-members.html @@ -23,7 +23,7 @@ diff --git a/site/classRungeKutta2IvpOdeSolver.html b/site/classRungeKutta2IvpOdeSolver.html index cd83f49b1..17a1d44eb 100644 --- a/site/classRungeKutta2IvpOdeSolver.html +++ b/site/classRungeKutta2IvpOdeSolver.html @@ -23,7 +23,7 @@ diff --git a/site/classRungeKutta4IvpOdeSolver-members.html b/site/classRungeKutta4IvpOdeSolver-members.html index 77d25e135..1a32d1de7 100644 --- a/site/classRungeKutta4IvpOdeSolver-members.html +++ b/site/classRungeKutta4IvpOdeSolver-members.html @@ -23,7 +23,7 @@ diff --git a/site/classRungeKutta4IvpOdeSolver.html b/site/classRungeKutta4IvpOdeSolver.html index 21e8bd11f..dfa40e0f2 100644 --- a/site/classRungeKutta4IvpOdeSolver.html +++ b/site/classRungeKutta4IvpOdeSolver.html @@ -23,7 +23,7 @@ diff --git a/site/classRungeKuttaFehlbergIvpOdeSolver-members.html b/site/classRungeKuttaFehlbergIvpOdeSolver-members.html index e7e6648f9..841524590 100644 --- a/site/classRungeKuttaFehlbergIvpOdeSolver-members.html +++ b/site/classRungeKuttaFehlbergIvpOdeSolver-members.html @@ -23,7 +23,7 @@ diff --git a/site/classRungeKuttaFehlbergIvpOdeSolver.html b/site/classRungeKuttaFehlbergIvpOdeSolver.html index c0e0db9ec..ecaa3fa4a 100644 --- a/site/classRungeKuttaFehlbergIvpOdeSolver.html +++ b/site/classRungeKuttaFehlbergIvpOdeSolver.html @@ -23,7 +23,7 @@ diff --git a/site/classS1S2Stimulus-members.html b/site/classS1S2Stimulus-members.html index 0b84d6de9..b4673d4ff 100644 --- a/site/classS1S2Stimulus-members.html +++ b/site/classS1S2Stimulus-members.html @@ -23,7 +23,7 @@ diff --git a/site/classS1S2Stimulus.html b/site/classS1S2Stimulus.html index 4633d3e7e..317040b64 100644 --- a/site/classS1S2Stimulus.html +++ b/site/classS1S2Stimulus.html @@ -23,7 +23,7 @@ diff --git a/site/classSchmidCostaExponentialLaw2d-members.html b/site/classSchmidCostaExponentialLaw2d-members.html index 37fb6ef68..a18bd4f9a 100644 --- a/site/classSchmidCostaExponentialLaw2d-members.html +++ b/site/classSchmidCostaExponentialLaw2d-members.html @@ -23,7 +23,7 @@ diff --git a/site/classSchmidCostaExponentialLaw2d.html b/site/classSchmidCostaExponentialLaw2d.html index 4b901a854..0c5f809b4 100644 --- a/site/classSchmidCostaExponentialLaw2d.html +++ b/site/classSchmidCostaExponentialLaw2d.html @@ -23,7 +23,7 @@ diff --git a/site/classSerializableSingleton-members.html b/site/classSerializableSingleton-members.html index e04180045..3783ea87f 100644 --- a/site/classSerializableSingleton-members.html +++ b/site/classSerializableSingleton-members.html @@ -23,7 +23,7 @@ diff --git a/site/classSerializableSingleton.html b/site/classSerializableSingleton.html index 9c11f6e5d..aca257b72 100644 --- a/site/classSerializableSingleton.html +++ b/site/classSerializableSingleton.html @@ -23,7 +23,7 @@ diff --git a/site/classShortAxisImmersedBoundaryDivisionRule-members.html b/site/classShortAxisImmersedBoundaryDivisionRule-members.html index 2e13a25a8..9ecca44bd 100644 --- a/site/classShortAxisImmersedBoundaryDivisionRule-members.html +++ b/site/classShortAxisImmersedBoundaryDivisionRule-members.html @@ -23,7 +23,7 @@ diff --git a/site/classShortAxisImmersedBoundaryDivisionRule.html b/site/classShortAxisImmersedBoundaryDivisionRule.html index 03b5a8cd9..777997f79 100644 --- a/site/classShortAxisImmersedBoundaryDivisionRule.html +++ b/site/classShortAxisImmersedBoundaryDivisionRule.html @@ -23,7 +23,7 @@ diff --git a/site/classShortAxisVertexBasedDivisionRule-members.html b/site/classShortAxisVertexBasedDivisionRule-members.html index b9fccdba1..ef2e59ef1 100644 --- a/site/classShortAxisVertexBasedDivisionRule-members.html +++ b/site/classShortAxisVertexBasedDivisionRule-members.html @@ -23,7 +23,7 @@ diff --git a/site/classShortAxisVertexBasedDivisionRule.html b/site/classShortAxisVertexBasedDivisionRule.html index 5f0ab513b..37a7b8f91 100644 --- a/site/classShortAxisVertexBasedDivisionRule.html +++ b/site/classShortAxisVertexBasedDivisionRule.html @@ -23,7 +23,7 @@ diff --git a/site/classShovingCaBasedDivisionRule-members.html b/site/classShovingCaBasedDivisionRule-members.html index d4227e6ce..0e016e0e7 100644 --- a/site/classShovingCaBasedDivisionRule-members.html +++ b/site/classShovingCaBasedDivisionRule-members.html @@ -23,7 +23,7 @@ diff --git a/site/classShovingCaBasedDivisionRule.html b/site/classShovingCaBasedDivisionRule.html index 3b8e0c2bb..6ec853700 100644 --- a/site/classShovingCaBasedDivisionRule.html +++ b/site/classShovingCaBasedDivisionRule.html @@ -23,7 +23,7 @@ diff --git a/site/classSimpleDataWriter-members.html b/site/classSimpleDataWriter-members.html index f7705b6ac..ed70da816 100644 --- a/site/classSimpleDataWriter-members.html +++ b/site/classSimpleDataWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classSimpleDataWriter.html b/site/classSimpleDataWriter.html index 822080e23..b792a7219 100644 --- a/site/classSimpleDataWriter.html +++ b/site/classSimpleDataWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classSimpleLinearEllipticSolver-members.html b/site/classSimpleLinearEllipticSolver-members.html index 693096b71..cb40bff63 100644 --- a/site/classSimpleLinearEllipticSolver-members.html +++ b/site/classSimpleLinearEllipticSolver-members.html @@ -23,7 +23,7 @@ diff --git a/site/classSimpleLinearEllipticSolver.html b/site/classSimpleLinearEllipticSolver.html index 104e73a49..fb8ed744a 100644 --- a/site/classSimpleLinearEllipticSolver.html +++ b/site/classSimpleLinearEllipticSolver.html @@ -23,7 +23,7 @@ diff --git a/site/classSimpleLinearParabolicSolver-members.html b/site/classSimpleLinearParabolicSolver-members.html index ccc481515..9181f4d3f 100644 --- a/site/classSimpleLinearParabolicSolver-members.html +++ b/site/classSimpleLinearParabolicSolver-members.html @@ -23,7 +23,7 @@ diff --git a/site/classSimpleLinearParabolicSolver.html b/site/classSimpleLinearParabolicSolver.html index 2451b4014..8ded81f47 100644 --- a/site/classSimpleLinearParabolicSolver.html +++ b/site/classSimpleLinearParabolicSolver.html @@ -23,7 +23,7 @@ diff --git a/site/classSimpleNewtonNonlinearSolver-members.html b/site/classSimpleNewtonNonlinearSolver-members.html index 300af89c3..0337b6392 100644 --- a/site/classSimpleNewtonNonlinearSolver-members.html +++ b/site/classSimpleNewtonNonlinearSolver-members.html @@ -23,7 +23,7 @@ diff --git a/site/classSimpleNewtonNonlinearSolver.html b/site/classSimpleNewtonNonlinearSolver.html index 15eb67609..00c5512df 100644 --- a/site/classSimpleNewtonNonlinearSolver.html +++ b/site/classSimpleNewtonNonlinearSolver.html @@ -23,7 +23,7 @@ diff --git a/site/classSimpleNonlinearEllipticSolver-members.html b/site/classSimpleNonlinearEllipticSolver-members.html index f551577ba..a6f0590f2 100644 --- a/site/classSimpleNonlinearEllipticSolver-members.html +++ b/site/classSimpleNonlinearEllipticSolver-members.html @@ -23,7 +23,7 @@ diff --git a/site/classSimpleNonlinearEllipticSolver.html b/site/classSimpleNonlinearEllipticSolver.html index 0f48c4c11..2742f56d6 100644 --- a/site/classSimpleNonlinearEllipticSolver.html +++ b/site/classSimpleNonlinearEllipticSolver.html @@ -23,7 +23,7 @@ diff --git a/site/classSimpleOxygenBasedCellCycleModel-members.html b/site/classSimpleOxygenBasedCellCycleModel-members.html index 48d50740f..9f5ae55fd 100644 --- a/site/classSimpleOxygenBasedCellCycleModel-members.html +++ b/site/classSimpleOxygenBasedCellCycleModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classSimpleOxygenBasedCellCycleModel.html b/site/classSimpleOxygenBasedCellCycleModel.html index af4149f8e..0c92714a5 100644 --- a/site/classSimpleOxygenBasedCellCycleModel.html +++ b/site/classSimpleOxygenBasedCellCycleModel.html @@ -23,7 +23,7 @@ diff --git a/site/classSimplePetscNonlinearSolver-members.html b/site/classSimplePetscNonlinearSolver-members.html index d0ab8933a..dbb807927 100644 --- a/site/classSimplePetscNonlinearSolver-members.html +++ b/site/classSimplePetscNonlinearSolver-members.html @@ -23,7 +23,7 @@ diff --git a/site/classSimplePetscNonlinearSolver.html b/site/classSimplePetscNonlinearSolver.html index 8ad0a72c1..5380b1dc0 100644 --- a/site/classSimplePetscNonlinearSolver.html +++ b/site/classSimplePetscNonlinearSolver.html @@ -23,7 +23,7 @@ diff --git a/site/classSimpleStimulus-members.html b/site/classSimpleStimulus-members.html index ada9bb049..90869d44b 100644 --- a/site/classSimpleStimulus-members.html +++ b/site/classSimpleStimulus-members.html @@ -23,7 +23,7 @@ diff --git a/site/classSimpleStimulus.html b/site/classSimpleStimulus.html index 92b054755..a4754978a 100644 --- a/site/classSimpleStimulus.html +++ b/site/classSimpleStimulus.html @@ -23,7 +23,7 @@ diff --git a/site/classSimpleTargetAreaModifier-members.html b/site/classSimpleTargetAreaModifier-members.html index 868316b0c..82c2e1574 100644 --- a/site/classSimpleTargetAreaModifier-members.html +++ b/site/classSimpleTargetAreaModifier-members.html @@ -23,7 +23,7 @@ diff --git a/site/classSimpleTargetAreaModifier.html b/site/classSimpleTargetAreaModifier.html index 6efecc747..dbed47ee2 100644 --- a/site/classSimpleTargetAreaModifier.html +++ b/site/classSimpleTargetAreaModifier.html @@ -23,7 +23,7 @@ diff --git a/site/classSimpleWntCellCycleModel-members.html b/site/classSimpleWntCellCycleModel-members.html index 425497781..b166a709c 100644 --- a/site/classSimpleWntCellCycleModel-members.html +++ b/site/classSimpleWntCellCycleModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classSimpleWntCellCycleModel.html b/site/classSimpleWntCellCycleModel.html index a26f58186..76372cba2 100644 --- a/site/classSimpleWntCellCycleModel.html +++ b/site/classSimpleWntCellCycleModel.html @@ -23,7 +23,7 @@ diff --git a/site/classSimulationTime-members.html b/site/classSimulationTime-members.html index 777de20f6..dc220bdf3 100644 --- a/site/classSimulationTime-members.html +++ b/site/classSimulationTime-members.html @@ -23,7 +23,7 @@ diff --git a/site/classSimulationTime.html b/site/classSimulationTime.html index ebac1a164..c836a6eff 100644 --- a/site/classSimulationTime.html +++ b/site/classSimulationTime.html @@ -23,7 +23,7 @@ @@ -245,7 +245,7 @@

References DOUBLE_UNSET, mpTimeStepper, and mStartTime.

-

Referenced by SimpleOxygenBasedCellCycleModel::SimpleOxygenBasedCellCycleModel(), T2SwapCellKiller< DIM >::CheckAndLabelCellsForApoptosisOrDeath(), AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::DoCellBirth(), AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GenerateRemovalInformation(), AbstractCellCycleModel::GetAge(), AbstractCellBasedSimulation< ELEMENT_DIM, ELEMENT_DIM >::GetOutputCellVelocities(), Cell::GetTimeUntilDeath(), AbstractOdeBasedCellCycleModel::ReadyToDivide(), AbstractCellCycleModel::ResetForDivision(), CellBasedSimulationArchiver< ELEMENT_DIM, SIM, SPACE_DIM >::Save(), AbstractOdeSrnModel::SimulateToCurrentTime(), NullSrnModel::SimulateToCurrentTime(), Cell::StartApoptosis(), AbstractPdeModifier< DIM >::UpdateAtEndOfOutputTimeStep(), ParabolicBoxDomainPdeModifier< DIM >::UpdateAtEndOfTimeStep(), ParabolicGrowingDomainPdeModifier< DIM >::UpdateAtEndOfTimeStep(), AbstractOdeBasedPhaseBasedCellCycleModel::UpdateCellCyclePhase(), ContactInhibitionCellCycleModel::UpdateCellCyclePhase(), SimpleOxygenBasedCellCycleModel::UpdateHypoxicDuration(), NormallyDistributedTargetAreaModifier< DIM >::UpdateTargetAreaOfCell(), SimpleTargetAreaModifier< DIM >::UpdateTargetAreaOfCell(), TargetAreaLinearGrowthModifier< DIM >::UpdateTargetAreaOfCell(), DiscreteSystemForceCalculator::WriteResultsToFile(), and AbstractCellBasedWriter< ELEMENT_DIM, SPACE_DIM >::WriteTimeStamp().

+

Referenced by SimpleOxygenBasedCellCycleModel::SimpleOxygenBasedCellCycleModel(), T2SwapCellKiller< DIM >::CheckAndLabelCellsForApoptosisOrDeath(), AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::DoCellBirth(), AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GenerateRemovalInformation(), AbstractCellCycleModel::GetAge(), AbstractCellBasedSimulation< ELEMENT_DIM, ELEMENT_DIM >::GetOutputCellVelocities(), Cell::GetTimeUntilDeath(), AbstractOdeBasedCellCycleModel::ReadyToDivide(), AbstractCellCycleModel::ResetForDivision(), CellBasedSimulationArchiver< ELEMENT_DIM, SIM, SPACE_DIM >::Save(), AbstractOdeSrnModel::SimulateToCurrentTime(), NullSrnModel::SimulateToCurrentTime(), Cell::StartApoptosis(), AbstractPdeModifier< DIM >::UpdateAtEndOfOutputTimeStep(), ParabolicBoxDomainPdeModifier< DIM >::UpdateAtEndOfTimeStep(), ParabolicGrowingDomainPdeModifier< DIM >::UpdateAtEndOfTimeStep(), AbstractOdeBasedPhaseBasedCellCycleModel::UpdateCellCyclePhase(), ContactInhibitionCellCycleModel::UpdateCellCyclePhase(), SimpleOxygenBasedCellCycleModel::UpdateHypoxicDuration(), NormallyDistributedTargetAreaModifier< DIM >::UpdateTargetAreaOfCell(), SimpleTargetAreaModifier< DIM >::UpdateTargetAreaOfCell(), TargetAreaLinearGrowthModifier< DIM >::UpdateTargetAreaOfCell(), DiscreteSystemForceCalculator::WriteResultsToFile(), and AbstractCellBasedWriter< ELEMENT_DIM, SPACE_DIM >::WriteTimeStamp().

@@ -296,7 +296,7 @@

References mpTimeStepper.

-

Referenced by AbstractPdeModifier< DIM >::UpdateAtEndOfOutputTimeStep(), ImmersedBoundarySvgWriter< DIM >::UpdateAtEndOfTimeStep(), AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::UpdateCellPopulation(), OnLatticeSimulation< DIM >::UpdateCellPopulation(), ImmersedBoundaryCellPopulation< DIM >::UpdateNodeLocations(), VertexBasedCellPopulation< DIM >::WriteCellEdgeVtkResultsToFile(), VertexBasedCellPopulation< DIM >::WriteCellVtkResultsToFile(), CaBasedCellPopulation< DIM >::WriteVtkResultsToFile(), ImmersedBoundaryCellPopulation< DIM >::WriteVtkResultsToFile(), MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM >::WriteVtkResultsToFile(), MeshBasedCellPopulationWithGhostNodes< DIM >::WriteVtkResultsToFile(), NodeBasedCellPopulation< DIM >::WriteVtkResultsToFile(), NodeBasedCellPopulationWithParticles< DIM >::WriteVtkResultsToFile(), and PottsBasedCellPopulation< DIM >::WriteVtkResultsToFile().

+

Referenced by AbstractPdeModifier< DIM >::UpdateAtEndOfOutputTimeStep(), ImmersedBoundarySvgWriter< DIM >::UpdateAtEndOfTimeStep(), AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::UpdateCellPopulation(), OnLatticeSimulation< DIM >::UpdateCellPopulation(), ImmersedBoundaryCellPopulation< DIM >::UpdateNodeLocations(), VertexBasedCellPopulation< DIM >::WriteCellEdgeVtkResultsToFile(), VertexBasedCellPopulation< DIM >::WriteCellVtkResultsToFile(), CaBasedCellPopulation< DIM >::WriteVtkResultsToFile(), ImmersedBoundaryCellPopulation< DIM >::WriteVtkResultsToFile(), MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM >::WriteVtkResultsToFile(), MeshBasedCellPopulationWithGhostNodes< DIM >::WriteVtkResultsToFile(), NodeBasedCellPopulation< DIM >::WriteVtkResultsToFile(), NodeBasedCellPopulationWithParticles< DIM >::WriteVtkResultsToFile(), and PottsBasedCellPopulation< DIM >::WriteVtkResultsToFile().

@@ -351,7 +351,7 @@

References SimulationTime(), Destroy(), mpInstance, and mpTimeStepper.

-

Referenced by Cell::Cell(), SimpleOxygenBasedCellCycleModel::SimpleOxygenBasedCellCycleModel(), DiffusionForce< DIM >::AddForceContribution(), ImmersedBoundarySimulationModifier< DIM >::AddNormalNoise(), CryptProjectionForce::CalculateForceBetweenNodes(), ImmersedBoundaryKinematicFeedbackForce< DIM >::CalculateRelativeVelocityComponent(), T2SwapCellKiller< DIM >::CheckAndLabelCellsForApoptosisOrDeath(), RandomCellKiller< DIM >::CheckAndLabelSingleCellForApoptosis(), AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::DoCellBirth(), AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GenerateRemovalInformation(), AbstractCellCycleModel::GetAge(), VertexBasedCellPopulation< DIM >::GetDampingConstant(), CellCycleModelOdeHandler::GetDt(), Cell::GetTimeUntilDeath(), Cell::IsDead(), AbstractOdeBasedCellCycleModel::ReadyToDivide(), BernoulliTrialCellCycleModel::ReadyToDivide(), BiasedBernoulliTrialCellCycleModel::ReadyToDivide(), LabelDependentBernoulliTrialCellCycleModel::ReadyToDivide(), AbstractCellCycleModel::ResetForDivision(), AbstractSrnModel::ResetForDivision(), CellSrnModel::ResetForDivision(), MeshBasedCellPopulation< DIM >::rGetMesh(), CellBasedSimulationArchiver< ELEMENT_DIM, SIM, SPACE_DIM >::Save(), AbstractCellCycleModel::serialize(), AbstractSrnModel::serialize(), AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::serialize(), AbstractCellBasedTestSuite::setUp(), ImmersedBoundarySimulationModifier< DIM >::SetupConstantMemberVariables(), AbstractOdeSrnModel::SimulateToCurrentTime(), NullSrnModel::SimulateToCurrentTime(), ImmersedBoundarySimulationModifier< DIM >::SolveNavierStokesSpectral(), Cell::StartApoptosis(), NodeBasedCellPopulation< DIM >::Update(), AbstractPdeModifier< DIM >::UpdateAtEndOfOutputTimeStep(), ParabolicBoxDomainPdeModifier< DIM >::UpdateAtEndOfTimeStep(), ParabolicGrowingDomainPdeModifier< DIM >::UpdateAtEndOfTimeStep(), ExtrinsicPullModifier< DIM >::UpdateAtEndOfTimeStep(), ImmersedBoundarySimulationModifier< DIM >::UpdateAtEndOfTimeStep(), ImmersedBoundarySvgWriter< DIM >::UpdateAtEndOfTimeStep(), AbstractOdeBasedPhaseBasedCellCycleModel::UpdateCellCyclePhase(), ContactInhibitionCellCycleModel::UpdateCellCyclePhase(), SimpleOxygenBasedCellCycleModel::UpdateCellCyclePhase(), AbstractWntOdeBasedCellCycleModel::UpdateCellCyclePhase(), SingleOdeWntCellCycleModel::UpdateCellCyclePhase(), AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::UpdateCellPopulation(), OnLatticeSimulation< DIM >::UpdateCellPopulation(), SimpleOxygenBasedCellCycleModel::UpdateHypoxicDuration(), ImmersedBoundaryCellPopulation< DIM >::UpdateNodeLocations(), NormallyDistributedTargetAreaModifier< DIM >::UpdateTargetAreaOfCell(), SimpleTargetAreaModifier< DIM >::UpdateTargetAreaOfCell(), TargetAreaLinearGrowthModifier< DIM >::UpdateTargetAreaOfCell(), ImmersedBoundaryCellPopulation< DIM >::Validate(), NodeBasedCellPopulation< DIM >::Validate(), PottsBasedCellPopulation< DIM >::Validate(), VertexBasedCellPopulation< DIM >::Validate(), NodeVelocityWriter< ELEMENT_DIM, SPACE_DIM >::Visit(), NodeVelocityWriter< ELEMENT_DIM, SPACE_DIM >::Visit(), NodeVelocityWriter< ELEMENT_DIM, SPACE_DIM >::Visit(), VertexBasedCellPopulation< DIM >::WriteCellEdgeVtkResultsToFile(), VertexBasedCellPopulation< DIM >::WriteCellVtkResultsToFile(), DiscreteSystemForceCalculator::WriteResultsToFile(), MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM >::WriteResultsToFiles(), AbstractCellBasedWriter< ELEMENT_DIM, SPACE_DIM >::WriteTimeStamp(), CaBasedCellPopulation< DIM >::WriteVtkResultsToFile(), ImmersedBoundaryCellPopulation< DIM >::WriteVtkResultsToFile(), MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM >::WriteVtkResultsToFile(), MeshBasedCellPopulationWithGhostNodes< DIM >::WriteVtkResultsToFile(), NodeBasedCellPopulation< DIM >::WriteVtkResultsToFile(), NodeBasedCellPopulationWithParticles< DIM >::WriteVtkResultsToFile(), and PottsBasedCellPopulation< DIM >::WriteVtkResultsToFile().

+

Referenced by Cell::Cell(), SimpleOxygenBasedCellCycleModel::SimpleOxygenBasedCellCycleModel(), DiffusionForce< DIM >::AddForceContribution(), ImmersedBoundarySimulationModifier< DIM >::AddNormalNoise(), CryptProjectionForce::CalculateForceBetweenNodes(), ImmersedBoundaryKinematicFeedbackForce< DIM >::CalculateRelativeVelocityComponent(), T2SwapCellKiller< DIM >::CheckAndLabelCellsForApoptosisOrDeath(), RandomCellKiller< DIM >::CheckAndLabelSingleCellForApoptosis(), AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::DoCellBirth(), AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GenerateRemovalInformation(), AbstractCellCycleModel::GetAge(), VertexBasedCellPopulation< DIM >::GetDampingConstant(), CellCycleModelOdeHandler::GetDt(), Cell::GetTimeUntilDeath(), Cell::IsDead(), AbstractOdeBasedCellCycleModel::ReadyToDivide(), BernoulliTrialCellCycleModel::ReadyToDivide(), BiasedBernoulliTrialCellCycleModel::ReadyToDivide(), LabelDependentBernoulliTrialCellCycleModel::ReadyToDivide(), AbstractCellCycleModel::ResetForDivision(), AbstractSrnModel::ResetForDivision(), CellSrnModel::ResetForDivision(), MeshBasedCellPopulation< DIM >::rGetMesh(), CellBasedSimulationArchiver< ELEMENT_DIM, SIM, SPACE_DIM >::Save(), AbstractCellCycleModel::serialize(), AbstractSrnModel::serialize(), AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::serialize(), AbstractCellBasedTestSuite::setUp(), ImmersedBoundarySimulationModifier< DIM >::SetupConstantMemberVariables(), AbstractOdeSrnModel::SimulateToCurrentTime(), NullSrnModel::SimulateToCurrentTime(), ImmersedBoundarySimulationModifier< DIM >::SolveNavierStokesSpectral(), Cell::StartApoptosis(), NodeBasedCellPopulation< DIM >::Update(), AbstractPdeModifier< DIM >::UpdateAtEndOfOutputTimeStep(), ParabolicBoxDomainPdeModifier< DIM >::UpdateAtEndOfTimeStep(), ParabolicGrowingDomainPdeModifier< DIM >::UpdateAtEndOfTimeStep(), ExtrinsicPullModifier< DIM >::UpdateAtEndOfTimeStep(), ImmersedBoundarySimulationModifier< DIM >::UpdateAtEndOfTimeStep(), ImmersedBoundarySvgWriter< DIM >::UpdateAtEndOfTimeStep(), AbstractOdeBasedPhaseBasedCellCycleModel::UpdateCellCyclePhase(), ContactInhibitionCellCycleModel::UpdateCellCyclePhase(), SimpleOxygenBasedCellCycleModel::UpdateCellCyclePhase(), AbstractWntOdeBasedCellCycleModel::UpdateCellCyclePhase(), SingleOdeWntCellCycleModel::UpdateCellCyclePhase(), AbstractCellBasedSimulation< ELEMENT_DIM, SPACE_DIM >::UpdateCellPopulation(), OnLatticeSimulation< DIM >::UpdateCellPopulation(), SimpleOxygenBasedCellCycleModel::UpdateHypoxicDuration(), ImmersedBoundaryCellPopulation< DIM >::UpdateNodeLocations(), NormallyDistributedTargetAreaModifier< DIM >::UpdateTargetAreaOfCell(), SimpleTargetAreaModifier< DIM >::UpdateTargetAreaOfCell(), TargetAreaLinearGrowthModifier< DIM >::UpdateTargetAreaOfCell(), ImmersedBoundaryCellPopulation< DIM >::Validate(), NodeBasedCellPopulation< DIM >::Validate(), PottsBasedCellPopulation< DIM >::Validate(), VertexBasedCellPopulation< DIM >::Validate(), NodeVelocityWriter< ELEMENT_DIM, SPACE_DIM >::Visit(), NodeVelocityWriter< ELEMENT_DIM, SPACE_DIM >::Visit(), NodeVelocityWriter< ELEMENT_DIM, SPACE_DIM >::Visit(), VertexBasedCellPopulation< DIM >::WriteCellEdgeVtkResultsToFile(), VertexBasedCellPopulation< DIM >::WriteCellVtkResultsToFile(), DiscreteSystemForceCalculator::WriteResultsToFile(), MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM >::WriteResultsToFiles(), AbstractCellBasedWriter< ELEMENT_DIM, SPACE_DIM >::WriteTimeStamp(), CaBasedCellPopulation< DIM >::WriteVtkResultsToFile(), ImmersedBoundaryCellPopulation< DIM >::WriteVtkResultsToFile(), MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM >::WriteVtkResultsToFile(), MeshBasedCellPopulationWithGhostNodes< DIM >::WriteVtkResultsToFile(), NodeBasedCellPopulation< DIM >::WriteVtkResultsToFile(), NodeBasedCellPopulationWithParticles< DIM >::WriteVtkResultsToFile(), and PottsBasedCellPopulation< DIM >::WriteVtkResultsToFile().

diff --git a/site/classSingleOdeWntCellCycleModel-members.html b/site/classSingleOdeWntCellCycleModel-members.html index e1a5f954a..68d696cff 100644 --- a/site/classSingleOdeWntCellCycleModel-members.html +++ b/site/classSingleOdeWntCellCycleModel-members.html @@ -23,7 +23,7 @@

diff --git a/site/classSingleOdeWntCellCycleModel.html b/site/classSingleOdeWntCellCycleModel.html index 8b28189fb..a59688376 100644 --- a/site/classSingleOdeWntCellCycleModel.html +++ b/site/classSingleOdeWntCellCycleModel.html @@ -23,7 +23,7 @@ diff --git a/site/classSingleTraceOutputModifier-members.html b/site/classSingleTraceOutputModifier-members.html index f47ad0f49..720f1bd54 100644 --- a/site/classSingleTraceOutputModifier-members.html +++ b/site/classSingleTraceOutputModifier-members.html @@ -23,7 +23,7 @@ diff --git a/site/classSingleTraceOutputModifier.html b/site/classSingleTraceOutputModifier.html index c8108bb1e..80129583e 100644 --- a/site/classSingleTraceOutputModifier.html +++ b/site/classSingleTraceOutputModifier.html @@ -23,7 +23,7 @@ diff --git a/site/classSlidingBoundaryCondition-members.html b/site/classSlidingBoundaryCondition-members.html index f91f6ee6f..a25e738e8 100644 --- a/site/classSlidingBoundaryCondition-members.html +++ b/site/classSlidingBoundaryCondition-members.html @@ -23,7 +23,7 @@ diff --git a/site/classSlidingBoundaryCondition.html b/site/classSlidingBoundaryCondition.html index a293df27e..e775e43a3 100644 --- a/site/classSlidingBoundaryCondition.html +++ b/site/classSlidingBoundaryCondition.html @@ -23,7 +23,7 @@ @@ -231,7 +231,7 @@

Todo:
Move this to constructor. If this is in the constructor then Exception always throws.
+
Todo:
Move this to constructor. If this is in the constructor then Exception always throws.

Definition at line 55 of file SlidingBoundaryCondition.cpp.

diff --git a/site/classSloughingCellKiller-members.html b/site/classSloughingCellKiller-members.html index c3c483d6f..9a738fcae 100644 --- a/site/classSloughingCellKiller-members.html +++ b/site/classSloughingCellKiller-members.html @@ -23,7 +23,7 @@

diff --git a/site/classSloughingCellKiller.html b/site/classSloughingCellKiller.html index a286da493..ac26792cf 100644 --- a/site/classSloughingCellKiller.html +++ b/site/classSloughingCellKiller.html @@ -23,7 +23,7 @@ diff --git a/site/classSolidMechanicsProblemDefinition-members.html b/site/classSolidMechanicsProblemDefinition-members.html index e13fb88f0..4ef26573e 100644 --- a/site/classSolidMechanicsProblemDefinition-members.html +++ b/site/classSolidMechanicsProblemDefinition-members.html @@ -23,7 +23,7 @@ diff --git a/site/classSolidMechanicsProblemDefinition.html b/site/classSolidMechanicsProblemDefinition.html index 00d683ba9..dcace7ce5 100644 --- a/site/classSolidMechanicsProblemDefinition.html +++ b/site/classSolidMechanicsProblemDefinition.html @@ -23,7 +23,7 @@ diff --git a/site/classSpaceConvergenceTester-members.html b/site/classSpaceConvergenceTester-members.html index 9229f80f1..e6de29f6d 100644 --- a/site/classSpaceConvergenceTester-members.html +++ b/site/classSpaceConvergenceTester-members.html @@ -23,7 +23,7 @@ diff --git a/site/classSpaceConvergenceTester.html b/site/classSpaceConvergenceTester.html index 7fb4809a0..926c61f70 100644 --- a/site/classSpaceConvergenceTester.html +++ b/site/classSpaceConvergenceTester.html @@ -23,7 +23,7 @@ diff --git a/site/classSphereGeometryBoundaryCondition-members.html b/site/classSphereGeometryBoundaryCondition-members.html index 926eef98e..049b52e31 100644 --- a/site/classSphereGeometryBoundaryCondition-members.html +++ b/site/classSphereGeometryBoundaryCondition-members.html @@ -23,7 +23,7 @@ diff --git a/site/classSphereGeometryBoundaryCondition.html b/site/classSphereGeometryBoundaryCondition.html index 9e9353720..d06e87253 100644 --- a/site/classSphereGeometryBoundaryCondition.html +++ b/site/classSphereGeometryBoundaryCondition.html @@ -23,7 +23,7 @@ diff --git a/site/classSteadyStateRestitutionStimulus-members.html b/site/classSteadyStateRestitutionStimulus-members.html index 42afb7ca1..3a69b0061 100644 --- a/site/classSteadyStateRestitutionStimulus-members.html +++ b/site/classSteadyStateRestitutionStimulus-members.html @@ -23,7 +23,7 @@ diff --git a/site/classSteadyStateRestitutionStimulus.html b/site/classSteadyStateRestitutionStimulus.html index 4b0a48182..df4aae0ad 100644 --- a/site/classSteadyStateRestitutionStimulus.html +++ b/site/classSteadyStateRestitutionStimulus.html @@ -23,7 +23,7 @@ diff --git a/site/classSteadyStateRunner-members.html b/site/classSteadyStateRunner-members.html index ee56aa149..e3efd72a1 100644 --- a/site/classSteadyStateRunner-members.html +++ b/site/classSteadyStateRunner-members.html @@ -23,7 +23,7 @@ diff --git a/site/classSteadyStateRunner.html b/site/classSteadyStateRunner.html index f61e07e05..6386e8395 100644 --- a/site/classSteadyStateRunner.html +++ b/site/classSteadyStateRunner.html @@ -23,7 +23,7 @@ diff --git a/site/classStemCellProliferativeType-members.html b/site/classStemCellProliferativeType-members.html index f4bba5724..a7b7f60cf 100644 --- a/site/classStemCellProliferativeType-members.html +++ b/site/classStemCellProliferativeType-members.html @@ -23,7 +23,7 @@ diff --git a/site/classStemCellProliferativeType.html b/site/classStemCellProliferativeType.html index 5abc89a30..2a8297764 100644 --- a/site/classStemCellProliferativeType.html +++ b/site/classStemCellProliferativeType.html @@ -23,7 +23,7 @@ diff --git a/site/classStepSizeException-members.html b/site/classStepSizeException-members.html index d0b2b12c5..d4a60d86a 100644 --- a/site/classStepSizeException-members.html +++ b/site/classStepSizeException-members.html @@ -23,7 +23,7 @@ diff --git a/site/classStepSizeException.html b/site/classStepSizeException.html index b6ee5551b..9fdb52ba5 100644 --- a/site/classStepSizeException.html +++ b/site/classStepSizeException.html @@ -23,7 +23,7 @@ diff --git a/site/classStiffnessMatrixAssembler-members.html b/site/classStiffnessMatrixAssembler-members.html index 96a618e28..8457d6484 100644 --- a/site/classStiffnessMatrixAssembler-members.html +++ b/site/classStiffnessMatrixAssembler-members.html @@ -23,7 +23,7 @@ diff --git a/site/classStiffnessMatrixAssembler.html b/site/classStiffnessMatrixAssembler.html index 8ab5af9f0..a59bb66ea 100644 --- a/site/classStiffnessMatrixAssembler.html +++ b/site/classStiffnessMatrixAssembler.html @@ -23,7 +23,7 @@ diff --git a/site/classStimulusBoundaryCondition-members.html b/site/classStimulusBoundaryCondition-members.html index 4fb6a87d3..261b1de4c 100644 --- a/site/classStimulusBoundaryCondition-members.html +++ b/site/classStimulusBoundaryCondition-members.html @@ -23,7 +23,7 @@ diff --git a/site/classStimulusBoundaryCondition.html b/site/classStimulusBoundaryCondition.html index 16ea0c5ce..416198514 100644 --- a/site/classStimulusBoundaryCondition.html +++ b/site/classStimulusBoundaryCondition.html @@ -23,7 +23,7 @@ diff --git a/site/classStochasticOxygenBasedCellCycleModel-members.html b/site/classStochasticOxygenBasedCellCycleModel-members.html index 9854c4973..b067d515c 100644 --- a/site/classStochasticOxygenBasedCellCycleModel-members.html +++ b/site/classStochasticOxygenBasedCellCycleModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classStochasticOxygenBasedCellCycleModel.html b/site/classStochasticOxygenBasedCellCycleModel.html index 12aeb9ee5..44b6d4c71 100644 --- a/site/classStochasticOxygenBasedCellCycleModel.html +++ b/site/classStochasticOxygenBasedCellCycleModel.html @@ -23,7 +23,7 @@ diff --git a/site/classStochasticWntCellCycleModel-members.html b/site/classStochasticWntCellCycleModel-members.html index cc6083495..3b701580e 100644 --- a/site/classStochasticWntCellCycleModel-members.html +++ b/site/classStochasticWntCellCycleModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classStochasticWntCellCycleModel.html b/site/classStochasticWntCellCycleModel.html index c72d4dff8..9fc25c9a3 100644 --- a/site/classStochasticWntCellCycleModel.html +++ b/site/classStochasticWntCellCycleModel.html @@ -23,7 +23,7 @@ diff --git a/site/classStokesFlowAssembler-members.html b/site/classStokesFlowAssembler-members.html index e01043ebc..171fab9c5 100644 --- a/site/classStokesFlowAssembler-members.html +++ b/site/classStokesFlowAssembler-members.html @@ -23,7 +23,7 @@ diff --git a/site/classStokesFlowAssembler.html b/site/classStokesFlowAssembler.html index 1b41e3211..22877b016 100644 --- a/site/classStokesFlowAssembler.html +++ b/site/classStokesFlowAssembler.html @@ -23,7 +23,7 @@ diff --git a/site/classStokesFlowPreconditionerAssembler-members.html b/site/classStokesFlowPreconditionerAssembler-members.html index bd9e82226..cb87e40fb 100644 --- a/site/classStokesFlowPreconditionerAssembler-members.html +++ b/site/classStokesFlowPreconditionerAssembler-members.html @@ -23,7 +23,7 @@ diff --git a/site/classStokesFlowPreconditionerAssembler.html b/site/classStokesFlowPreconditionerAssembler.html index 790d43a4a..01735dd32 100644 --- a/site/classStokesFlowPreconditionerAssembler.html +++ b/site/classStokesFlowPreconditionerAssembler.html @@ -23,7 +23,7 @@ diff --git a/site/classStokesFlowProblemDefinition-members.html b/site/classStokesFlowProblemDefinition-members.html index 2281ecee1..1f0ea0a6d 100644 --- a/site/classStokesFlowProblemDefinition-members.html +++ b/site/classStokesFlowProblemDefinition-members.html @@ -23,7 +23,7 @@ diff --git a/site/classStokesFlowProblemDefinition.html b/site/classStokesFlowProblemDefinition.html index 1f8f7c972..8fe2909f8 100644 --- a/site/classStokesFlowProblemDefinition.html +++ b/site/classStokesFlowProblemDefinition.html @@ -23,7 +23,7 @@ diff --git a/site/classStokesFlowSolver-members.html b/site/classStokesFlowSolver-members.html index 74fa6fd4c..dc77e75a7 100644 --- a/site/classStokesFlowSolver-members.html +++ b/site/classStokesFlowSolver-members.html @@ -23,7 +23,7 @@ diff --git a/site/classStokesFlowSolver.html b/site/classStokesFlowSolver.html index 2cf6da5aa..d6ad2e3c1 100644 --- a/site/classStokesFlowSolver.html +++ b/site/classStokesFlowSolver.html @@ -23,7 +23,7 @@ diff --git a/site/classStreeterFibreGenerator-members.html b/site/classStreeterFibreGenerator-members.html index a2dcb50e2..d0e0abe72 100644 --- a/site/classStreeterFibreGenerator-members.html +++ b/site/classStreeterFibreGenerator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classStreeterFibreGenerator.html b/site/classStreeterFibreGenerator.html index 2ef42f9bc..d5a061c80 100644 --- a/site/classStreeterFibreGenerator.html +++ b/site/classStreeterFibreGenerator.html @@ -23,7 +23,7 @@ diff --git a/site/classStressPerElementWriter-members.html b/site/classStressPerElementWriter-members.html index 7f81c8629..d2c525fff 100644 --- a/site/classStressPerElementWriter-members.html +++ b/site/classStressPerElementWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classStressPerElementWriter.html b/site/classStressPerElementWriter.html index 181c0da19..fd821b131 100644 --- a/site/classStressPerElementWriter.html +++ b/site/classStressPerElementWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classStressRecoveror.html b/site/classStressRecoveror.html index 321fb49a5..1b473b2f1 100644 --- a/site/classStressRecoveror.html +++ b/site/classStressRecoveror.html @@ -23,7 +23,7 @@ diff --git a/site/classSuperellipseGenerator-members.html b/site/classSuperellipseGenerator-members.html index c5eeee864..80c032c11 100644 --- a/site/classSuperellipseGenerator-members.html +++ b/site/classSuperellipseGenerator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classSuperellipseGenerator.html b/site/classSuperellipseGenerator.html index a270a58a2..572906300 100644 --- a/site/classSuperellipseGenerator.html +++ b/site/classSuperellipseGenerator.html @@ -23,7 +23,7 @@ diff --git a/site/classSurfaceAreaConstraintPottsUpdateRule-members.html b/site/classSurfaceAreaConstraintPottsUpdateRule-members.html index 982925128..0307b2078 100644 --- a/site/classSurfaceAreaConstraintPottsUpdateRule-members.html +++ b/site/classSurfaceAreaConstraintPottsUpdateRule-members.html @@ -23,7 +23,7 @@ diff --git a/site/classSurfaceAreaConstraintPottsUpdateRule.html b/site/classSurfaceAreaConstraintPottsUpdateRule.html index 954b9d217..fda8d9cbe 100644 --- a/site/classSurfaceAreaConstraintPottsUpdateRule.html +++ b/site/classSurfaceAreaConstraintPottsUpdateRule.html @@ -23,7 +23,7 @@ @@ -526,7 +526,7 @@

-

Cell deformation energy parameter. Set to the default value 0.5 in the constructor.

Todo:
provide units
+

Cell deformation energy parameter. Set to the default value 0.5 in the constructor.

Todo:
provide units

Definition at line 63 of file SurfaceAreaConstraintPottsUpdateRule.hpp.

@@ -555,7 +555,7 @@

-
Todo:
provide units #1829 Non-dimensional target surface area of a mature (fully-grown) cell, given in units of area of lattice site. Set to the default value 16 in the constructor.
+
Todo:
provide units #1829 Non-dimensional target surface area of a mature (fully-grown) cell, given in units of area of lattice site. Set to the default value 16 in the constructor.

Definition at line 71 of file SurfaceAreaConstraintPottsUpdateRule.hpp.

diff --git a/site/classT2SwapCellKiller-members.html b/site/classT2SwapCellKiller-members.html index f981bff79..15336c56a 100644 --- a/site/classT2SwapCellKiller-members.html +++ b/site/classT2SwapCellKiller-members.html @@ -23,7 +23,7 @@

diff --git a/site/classT2SwapCellKiller.html b/site/classT2SwapCellKiller.html index 285d2b9ff..fb44cfc9f 100644 --- a/site/classT2SwapCellKiller.html +++ b/site/classT2SwapCellKiller.html @@ -23,7 +23,7 @@ diff --git a/site/classTargetAreaLinearGrowthModifier-members.html b/site/classTargetAreaLinearGrowthModifier-members.html index e1d4e3eed..03c267e16 100644 --- a/site/classTargetAreaLinearGrowthModifier-members.html +++ b/site/classTargetAreaLinearGrowthModifier-members.html @@ -23,7 +23,7 @@ diff --git a/site/classTargetAreaLinearGrowthModifier.html b/site/classTargetAreaLinearGrowthModifier.html index 7679598bd..76d044f1e 100644 --- a/site/classTargetAreaLinearGrowthModifier.html +++ b/site/classTargetAreaLinearGrowthModifier.html @@ -23,7 +23,7 @@ diff --git a/site/classTargetedCellKiller-members.html b/site/classTargetedCellKiller-members.html index eb4058d6e..bbd6e287a 100644 --- a/site/classTargetedCellKiller-members.html +++ b/site/classTargetedCellKiller-members.html @@ 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a/site/classTimeStepper.html +++ b/site/classTimeStepper.html @@ -23,7 +23,7 @@ diff --git a/site/classTimer-members.html b/site/classTimer-members.html index 4cd8027cb..bfc748687 100644 --- a/site/classTimer-members.html +++ b/site/classTimer-members.html @@ -23,7 +23,7 @@ diff --git a/site/classTimer.html b/site/classTimer.html index 0a8a5775b..f034560d9 100644 --- a/site/classTimer.html +++ b/site/classTimer.html @@ -23,7 +23,7 @@ diff --git a/site/classToroidal2dMesh-members.html b/site/classToroidal2dMesh-members.html index 60b578634..0eb1b801c 100644 --- a/site/classToroidal2dMesh-members.html +++ b/site/classToroidal2dMesh-members.html @@ -23,7 +23,7 @@ diff --git a/site/classToroidal2dMesh.html b/site/classToroidal2dMesh.html index d2d400bc4..6042274de 100644 --- a/site/classToroidal2dMesh.html +++ b/site/classToroidal2dMesh.html @@ -23,7 +23,7 @@ diff --git a/site/classToroidal2dVertexMesh-members.html b/site/classToroidal2dVertexMesh-members.html index a0492d65d..f23d2b498 100644 --- a/site/classToroidal2dVertexMesh-members.html +++ b/site/classToroidal2dVertexMesh-members.html @@ -23,7 +23,7 @@ diff --git a/site/classToroidal2dVertexMesh.html b/site/classToroidal2dVertexMesh.html index 38c6d6dc0..b371d1ada 100644 --- a/site/classToroidal2dVertexMesh.html +++ b/site/classToroidal2dVertexMesh.html @@ -23,7 +23,7 @@ diff --git a/site/classToroidalHoneycombMeshGenerator-members.html b/site/classToroidalHoneycombMeshGenerator-members.html index b3737325e..be6f91feb 100644 --- a/site/classToroidalHoneycombMeshGenerator-members.html +++ b/site/classToroidalHoneycombMeshGenerator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classToroidalHoneycombMeshGenerator.html b/site/classToroidalHoneycombMeshGenerator.html index 9a6c0760a..b7fb27651 100644 --- a/site/classToroidalHoneycombMeshGenerator.html +++ b/site/classToroidalHoneycombMeshGenerator.html @@ -23,7 +23,7 @@ diff --git a/site/classToroidalHoneycombVertexMeshGenerator-members.html b/site/classToroidalHoneycombVertexMeshGenerator-members.html index f6377e141..12e69020d 100644 --- a/site/classToroidalHoneycombVertexMeshGenerator-members.html +++ b/site/classToroidalHoneycombVertexMeshGenerator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classToroidalHoneycombVertexMeshGenerator.html b/site/classToroidalHoneycombVertexMeshGenerator.html index b38812a9d..f2a09c61e 100644 --- a/site/classToroidalHoneycombVertexMeshGenerator.html +++ b/site/classToroidalHoneycombVertexMeshGenerator.html @@ -23,7 +23,7 @@ diff --git a/site/classTransitCellProliferativeType-members.html b/site/classTransitCellProliferativeType-members.html index fc7150211..47d365374 100644 --- a/site/classTransitCellProliferativeType-members.html +++ b/site/classTransitCellProliferativeType-members.html @@ -23,7 +23,7 @@ diff --git a/site/classTransitCellProliferativeType.html b/site/classTransitCellProliferativeType.html index 08440c1f1..92d7c1db0 100644 --- 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index 3c796f6f3..9f357b285 100644 --- a/site/classTrianglesMeshReader.html +++ b/site/classTrianglesMeshReader.html @@ -23,7 +23,7 @@ diff --git a/site/classTrianglesMeshWriter-members.html b/site/classTrianglesMeshWriter-members.html index 2392a3199..2f31547e7 100644 --- a/site/classTrianglesMeshWriter-members.html +++ b/site/classTrianglesMeshWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classTrianglesMeshWriter.html b/site/classTrianglesMeshWriter.html index 0e8825c3c..6ce971f19 100644 --- a/site/classTrianglesMeshWriter.html +++ b/site/classTrianglesMeshWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classTysonNovak2001OdeSystem-members.html b/site/classTysonNovak2001OdeSystem-members.html index d328588cc..1487d40fc 100644 --- a/site/classTysonNovak2001OdeSystem-members.html +++ b/site/classTysonNovak2001OdeSystem-members.html @@ -23,7 +23,7 @@ diff --git a/site/classTysonNovak2001OdeSystem.html b/site/classTysonNovak2001OdeSystem.html index 35ee3c087..5188a071a 100644 --- a/site/classTysonNovak2001OdeSystem.html +++ b/site/classTysonNovak2001OdeSystem.html @@ -23,7 +23,7 @@ diff --git a/site/classTysonNovakCellCycleModel-members.html b/site/classTysonNovakCellCycleModel-members.html index 8e31c4a0e..fad26fa52 100644 --- a/site/classTysonNovakCellCycleModel-members.html +++ b/site/classTysonNovakCellCycleModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classTysonNovakCellCycleModel.html b/site/classTysonNovakCellCycleModel.html index 69eb33ab3..39169e5c8 100644 --- a/site/classTysonNovakCellCycleModel.html +++ b/site/classTysonNovakCellCycleModel.html @@ -23,7 +23,7 @@ diff --git a/site/classUniformCellCycleModel-members.html b/site/classUniformCellCycleModel-members.html index 0cf5b9982..e393688dd 100644 --- a/site/classUniformCellCycleModel-members.html +++ b/site/classUniformCellCycleModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classUniformCellCycleModel.html b/site/classUniformCellCycleModel.html index c93537c0d..094da4dc3 100644 --- a/site/classUniformCellCycleModel.html +++ b/site/classUniformCellCycleModel.html @@ -23,7 +23,7 @@ diff --git a/site/classUniformG1GenerationalCellCycleModel-members.html b/site/classUniformG1GenerationalCellCycleModel-members.html index aac01658e..ef08777d0 100644 --- a/site/classUniformG1GenerationalCellCycleModel-members.html +++ b/site/classUniformG1GenerationalCellCycleModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classUniformG1GenerationalCellCycleModel.html b/site/classUniformG1GenerationalCellCycleModel.html index d8c780754..e7fdde65e 100644 --- a/site/classUniformG1GenerationalCellCycleModel.html +++ b/site/classUniformG1GenerationalCellCycleModel.html @@ -23,7 +23,7 @@ diff --git a/site/classUniformGridRandomFieldGenerator-members.html b/site/classUniformGridRandomFieldGenerator-members.html index 7ed7e628d..a2c9427f4 100644 --- a/site/classUniformGridRandomFieldGenerator-members.html +++ b/site/classUniformGridRandomFieldGenerator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classUniformGridRandomFieldGenerator.html b/site/classUniformGridRandomFieldGenerator.html index ff34791ef..949157161 100644 --- a/site/classUniformGridRandomFieldGenerator.html +++ b/site/classUniformGridRandomFieldGenerator.html @@ -23,7 +23,7 @@ diff --git a/site/classUniformSourceEllipticPde-members.html b/site/classUniformSourceEllipticPde-members.html index 9a9bf6612..9a3bb4b72 100644 --- a/site/classUniformSourceEllipticPde-members.html +++ b/site/classUniformSourceEllipticPde-members.html @@ -23,7 +23,7 @@ diff --git a/site/classUniformSourceEllipticPde.html b/site/classUniformSourceEllipticPde.html index 8070b57a9..bc0e5f936 100644 --- a/site/classUniformSourceEllipticPde.html +++ b/site/classUniformSourceEllipticPde.html @@ -23,7 +23,7 @@ diff --git a/site/classUniformSourceParabolicPde-members.html b/site/classUniformSourceParabolicPde-members.html index 6975f4bc2..12a297cb3 100644 --- a/site/classUniformSourceParabolicPde-members.html +++ 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b/site/classVertexBasedCellPopulation.html @@ -23,7 +23,7 @@ diff --git a/site/classVertexBasedPopulationSrn-members.html b/site/classVertexBasedPopulationSrn-members.html index 51dc9a633..917f5608a 100644 --- a/site/classVertexBasedPopulationSrn-members.html +++ b/site/classVertexBasedPopulationSrn-members.html @@ -23,7 +23,7 @@ diff --git a/site/classVertexBasedPopulationSrn.html b/site/classVertexBasedPopulationSrn.html index 14d61e080..d3595b0a6 100644 --- a/site/classVertexBasedPopulationSrn.html +++ b/site/classVertexBasedPopulationSrn.html @@ -23,7 +23,7 @@ diff --git a/site/classVertexCryptBoundaryForce-members.html b/site/classVertexCryptBoundaryForce-members.html index cf7f634a1..282eca8ef 100644 --- a/site/classVertexCryptBoundaryForce-members.html +++ b/site/classVertexCryptBoundaryForce-members.html @@ -23,7 +23,7 @@ diff --git a/site/classVertexCryptBoundaryForce.html b/site/classVertexCryptBoundaryForce.html index 88ce03d4f..ca4188cc5 100644 --- a/site/classVertexCryptBoundaryForce.html +++ b/site/classVertexCryptBoundaryForce.html @@ -23,7 +23,7 @@ diff --git a/site/classVertexElement-members.html b/site/classVertexElement-members.html index 83093386a..8254ff8a4 100644 --- a/site/classVertexElement-members.html +++ b/site/classVertexElement-members.html @@ -23,7 +23,7 @@ diff --git a/site/classVertexElement.html b/site/classVertexElement.html index 14d579998..c839cfc31 100644 --- a/site/classVertexElement.html +++ b/site/classVertexElement.html @@ -23,7 +23,7 @@ diff --git a/site/classVertexElementMap-members.html b/site/classVertexElementMap-members.html index d0e65f647..43f9f7280 100644 --- a/site/classVertexElementMap-members.html +++ b/site/classVertexElementMap-members.html @@ -23,7 +23,7 @@ diff --git a/site/classVertexElementMap.html b/site/classVertexElementMap.html index cb2404de2..cd59c28a0 100644 --- a/site/classVertexElementMap.html +++ b/site/classVertexElementMap.html @@ -23,7 +23,7 @@ diff --git a/site/classVertexElement_3_011_00_01SPACE__DIM_01_4-members.html b/site/classVertexElement_3_011_00_01SPACE__DIM_01_4-members.html index f17385cbd..58fd820d0 100644 --- a/site/classVertexElement_3_011_00_01SPACE__DIM_01_4-members.html +++ b/site/classVertexElement_3_011_00_01SPACE__DIM_01_4-members.html @@ -23,7 +23,7 @@ diff --git a/site/classVertexElement_3_011_00_01SPACE__DIM_01_4.html b/site/classVertexElement_3_011_00_01SPACE__DIM_01_4.html index e0d72ad86..24437c1d2 100644 --- a/site/classVertexElement_3_011_00_01SPACE__DIM_01_4.html +++ b/site/classVertexElement_3_011_00_01SPACE__DIM_01_4.html @@ -23,7 +23,7 @@ diff --git a/site/classVertexIntersectionSwapLocationsWriter-members.html b/site/classVertexIntersectionSwapLocationsWriter-members.html index 8da108114..443050bda 100644 --- a/site/classVertexIntersectionSwapLocationsWriter-members.html +++ b/site/classVertexIntersectionSwapLocationsWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classVertexIntersectionSwapLocationsWriter.html b/site/classVertexIntersectionSwapLocationsWriter.html index 78f3a5308..c4667402e 100644 --- a/site/classVertexIntersectionSwapLocationsWriter.html +++ b/site/classVertexIntersectionSwapLocationsWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classVertexMesh-members.html b/site/classVertexMesh-members.html index 87edfdb4f..e4fd0160f 100644 --- a/site/classVertexMesh-members.html +++ b/site/classVertexMesh-members.html @@ -23,7 +23,7 @@ diff --git a/site/classVertexMesh.html b/site/classVertexMesh.html index 7a7ef475d..adc2526c9 100644 --- a/site/classVertexMesh.html +++ b/site/classVertexMesh.html @@ -23,7 +23,7 @@ @@ -453,7 +453,7 @@

VertexMesh constructor is currently only defined for 2D meshes.

Creates a Voronoi tessellation of a given tetrahedral mesh, which must be Delaunay (see TetrahedralMesh::CheckIsVoronoi).

-
Todo:
Merge with 3D Voronoi constructor? (see #1075)
+
Todo:
Merge with 3D Voronoi constructor? (see #1075)
Parameters

I1first principal invariant of C
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@@ -483,7 +483,7 @@

Alternative 3D 'Voronoi' constructor. Creates a Voronoi tessellation of a given tetrahedral mesh, which must be Delaunay (see TetrahedralMesh::CheckIsVoronoi).

-
Todo:
Merge with 2D Voronoi constructor? (see #1075)
+
Todo:
Merge with 2D Voronoi constructor? (see #1075)
Parameters

rMesha tetrahedral mesh
@@ -786,7 +786,7 @@

Returns
if the point is included in the element.
-
Todo:
(see #2387 and #2401) Investigate why the commented implementation causes Test2DVertexBasedCryptRepresentativeSimulation to fail
+
Todo:
(see #2387 and #2401) Investigate why the commented implementation causes Test2DVertexBasedCryptRepresentativeSimulation to fail

Definition at line 1278 of file VertexMesh.cpp.

@@ -957,7 +957,7 @@

Returns
(centroid_x, centroid_y).
-
Todo:
compute centroid rather than centre of mass (see #1422)
+
Todo:
compute centroid rather than centre of mass (see #1422)

Definition at line 782 of file VertexMesh.cpp.

@@ -2109,7 +2109,7 @@

Returns
local index
-
Todo:
sort out boundary elements in a vertex mesh (#1263)
+
Todo:
sort out boundary elements in a vertex mesh (#1263)

Definition at line 634 of file VertexMesh.cpp.

diff --git a/site/classVertexMeshOperationRecorder-members.html b/site/classVertexMeshOperationRecorder-members.html index dad16889c..44b1521f4 100644 --- a/site/classVertexMeshOperationRecorder-members.html +++ b/site/classVertexMeshOperationRecorder-members.html @@ -23,7 +23,7 @@

diff --git a/site/classVertexMeshOperationRecorder.html b/site/classVertexMeshOperationRecorder.html index e551983f2..21a5148b3 100644 --- a/site/classVertexMeshOperationRecorder.html +++ b/site/classVertexMeshOperationRecorder.html @@ -23,7 +23,7 @@ diff --git a/site/classVertexMeshOperationRecorder_3_01ELEMENT__DIM_00_01SPACE__DIM_01_4.html b/site/classVertexMeshOperationRecorder_3_01ELEMENT__DIM_00_01SPACE__DIM_01_4.html index e88ec9a6f..9339dfcd7 100644 --- a/site/classVertexMeshOperationRecorder_3_01ELEMENT__DIM_00_01SPACE__DIM_01_4.html +++ b/site/classVertexMeshOperationRecorder_3_01ELEMENT__DIM_00_01SPACE__DIM_01_4.html @@ -23,7 +23,7 @@ diff --git a/site/classVertexMeshReader-members.html b/site/classVertexMeshReader-members.html index 62fe31de4..364a9b203 100644 --- a/site/classVertexMeshReader-members.html +++ b/site/classVertexMeshReader-members.html @@ -23,7 +23,7 @@ diff --git a/site/classVertexMeshReader.html b/site/classVertexMeshReader.html index c6602a470..87a4d92b0 100644 --- a/site/classVertexMeshReader.html +++ b/site/classVertexMeshReader.html @@ -23,7 +23,7 @@ @@ -352,7 +352,7 @@

Returns
the nodes of each element (and any attribute information, if there is any) in turn, then its faces. This method should only be called in 3D.
-
Todo:
Store face orientations? (#1076/#1377)
+
Todo:
Store face orientations? (#1076/#1377)

Definition at line 185 of file VertexMeshReader.cpp.

@@ -385,7 +385,7 @@

Returns
a vector of the nodes of each face in turn.
-
Todo:
Implement this method (#1076, #1377)
+
Todo:
Implement this method (#1076, #1377)

Implements AbstractMeshReader< ELEMENT_DIM, SPACE_DIM >.

@@ -496,7 +496,7 @@

Returns
the number of edges in the mesh (synonym of GetNumFaces())
-
Todo:
Implement this method (#1076)
+
Todo:
Implement this method (#1076)

Definition at line 91 of file VertexMeshReader.cpp.

@@ -591,7 +591,7 @@

Returns
the number of faces in the mesh (synonym of GetNumEdges()).
-
Todo:
Implement this method (#1076)
+
Todo:
Implement this method (#1076)

Implements AbstractMeshReader< ELEMENT_DIM, SPACE_DIM >.

diff --git a/site/classVertexMeshWriter-members.html b/site/classVertexMeshWriter-members.html index 0459a3c4d..3b1d3ef07 100644 --- a/site/classVertexMeshWriter-members.html +++ b/site/classVertexMeshWriter-members.html @@ -23,7 +23,7 @@

diff --git a/site/classVertexMeshWriter.html b/site/classVertexMeshWriter.html index e1012b889..3579a4f9d 100644 --- a/site/classVertexMeshWriter.html +++ b/site/classVertexMeshWriter.html @@ -23,7 +23,7 @@ @@ -348,7 +348,7 @@

Returns
the data (indices/attributes) of the next element to be written to file
-
Todo:
Assert this method should only be called in 2D? (#1076/#1377)
+
Todo:
Assert this method should only be called in 2D? (#1076/#1377)

Reimplemented from AbstractMeshWriter< ELEMENT_DIM, SPACE_DIM >.

@@ -375,7 +375,7 @@

Returns
the data (indices/attributes) of the next element to be written to file, including its faces. This method should only be called in 3D.
-
Todo:
Store face orientations? (#1076/#1377)
+
Todo:
Store face orientations? (#1076/#1377)

Definition at line 126 of file VertexMeshWriter.cpp.

@@ -473,7 +473,7 @@

Write mesh data to files. This method must be overridden in concrete classes.

-
Todo:
Store face orientations? (#1076/#1377)
+
Todo:
Store face orientations? (#1076/#1377)

Implements AbstractMeshWriter< ELEMENT_DIM, SPACE_DIM >.

@@ -500,7 +500,7 @@

-
Todo:
Mesh should be const (#1076)
+
Todo:
Mesh should be const (#1076)

Write files using a mesh.

Parameters

rMesha tetrahedral mesh
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Todo:
Mesh should be const (#1076)
+
Todo:
Mesh should be const (#1076)

Definition at line 372 of file VertexMeshWriter.cpp.

@@ -732,7 +732,7 @@

-
Todo:
Merge into VtkMeshWriter (#1076)
+
Todo:
Merge into VtkMeshWriter (#1076)

Definition at line 91 of file VertexMeshWriter.hpp.

diff --git a/site/classVertexMesh_1_1VertexElementIterator-members.html b/site/classVertexMesh_1_1VertexElementIterator-members.html index 67ff0a817..3c20d9b6a 100644 --- a/site/classVertexMesh_1_1VertexElementIterator-members.html +++ b/site/classVertexMesh_1_1VertexElementIterator-members.html @@ -23,7 +23,7 @@

diff --git a/site/classVertexMesh_1_1VertexElementIterator.html b/site/classVertexMesh_1_1VertexElementIterator.html index 781902a89..5377995ca 100644 --- a/site/classVertexMesh_1_1VertexElementIterator.html +++ b/site/classVertexMesh_1_1VertexElementIterator.html @@ -23,7 +23,7 @@ @@ -110,7 +110,7 @@

Detailed Description

template<unsigned ELEMENT_DIM, unsigned SPACE_DIM>
class VertexMesh< ELEMENT_DIM, SPACE_DIM >::VertexElementIterator

A smart iterator over the elements in the mesh.

-
Todo:
This is the same as in AbstractTetrahedralMesh and PottsMesh - merge? (#1379)
+
Todo:
This is the same as in AbstractTetrahedralMesh and PottsMesh - merge? (#1379)

Definition at line 637 of file VertexMesh.hpp.

Constructor & Destructor Documentation

diff --git a/site/classVertexT1SwapLocationsWriter-members.html b/site/classVertexT1SwapLocationsWriter-members.html index 48cb1adec..3da8b7f87 100644 --- a/site/classVertexT1SwapLocationsWriter-members.html +++ b/site/classVertexT1SwapLocationsWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classVertexT1SwapLocationsWriter.html b/site/classVertexT1SwapLocationsWriter.html index a7d90ee5f..481d5ab95 100644 --- a/site/classVertexT1SwapLocationsWriter.html +++ b/site/classVertexT1SwapLocationsWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classVertexT2SwapLocationsWriter-members.html b/site/classVertexT2SwapLocationsWriter-members.html index 8fe8e2c82..3d13c2b07 100644 --- a/site/classVertexT2SwapLocationsWriter-members.html +++ b/site/classVertexT2SwapLocationsWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classVertexT2SwapLocationsWriter.html b/site/classVertexT2SwapLocationsWriter.html index f68159c5f..71def8fe3 100644 --- a/site/classVertexT2SwapLocationsWriter.html +++ b/site/classVertexT2SwapLocationsWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classVertexT3SwapLocationsWriter-members.html b/site/classVertexT3SwapLocationsWriter-members.html index cbea79e22..ec0ba430c 100644 --- a/site/classVertexT3SwapLocationsWriter-members.html +++ b/site/classVertexT3SwapLocationsWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classVertexT3SwapLocationsWriter.html b/site/classVertexT3SwapLocationsWriter.html index cafa7fe26..900a56bf1 100644 --- a/site/classVertexT3SwapLocationsWriter.html +++ b/site/classVertexT3SwapLocationsWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classVoltageInterpolaterOntoMechanicsMesh-members.html b/site/classVoltageInterpolaterOntoMechanicsMesh-members.html index 4efab8117..56e491a51 100644 --- a/site/classVoltageInterpolaterOntoMechanicsMesh-members.html +++ b/site/classVoltageInterpolaterOntoMechanicsMesh-members.html @@ -23,7 +23,7 @@ diff --git a/site/classVoltageInterpolaterOntoMechanicsMesh.html b/site/classVoltageInterpolaterOntoMechanicsMesh.html index af4a65c33..2d9c772e6 100644 --- a/site/classVoltageInterpolaterOntoMechanicsMesh.html +++ b/site/classVoltageInterpolaterOntoMechanicsMesh.html @@ -23,7 +23,7 @@ diff --git a/site/classVolumeConstraintPottsUpdateRule-members.html b/site/classVolumeConstraintPottsUpdateRule-members.html index d0ef6f2f1..784f23449 100644 --- a/site/classVolumeConstraintPottsUpdateRule-members.html +++ b/site/classVolumeConstraintPottsUpdateRule-members.html @@ -23,7 +23,7 @@ diff --git a/site/classVolumeConstraintPottsUpdateRule.html b/site/classVolumeConstraintPottsUpdateRule.html index 66787563c..bc6a00802 100644 --- a/site/classVolumeConstraintPottsUpdateRule.html +++ b/site/classVolumeConstraintPottsUpdateRule.html @@ -23,7 +23,7 @@ diff --git a/site/classVolumeDependentAveragedSourceEllipticPde-members.html b/site/classVolumeDependentAveragedSourceEllipticPde-members.html index 98e64e0e1..7af10e3b6 100644 --- a/site/classVolumeDependentAveragedSourceEllipticPde-members.html +++ b/site/classVolumeDependentAveragedSourceEllipticPde-members.html @@ -23,7 +23,7 @@ diff --git a/site/classVolumeDependentAveragedSourceEllipticPde.html b/site/classVolumeDependentAveragedSourceEllipticPde.html index 06bbe9260..817b9aac6 100644 --- a/site/classVolumeDependentAveragedSourceEllipticPde.html +++ b/site/classVolumeDependentAveragedSourceEllipticPde.html @@ -23,7 +23,7 @@ diff --git a/site/classVolumeTrackingModifier-members.html b/site/classVolumeTrackingModifier-members.html index b4f299f25..068142068 100644 --- a/site/classVolumeTrackingModifier-members.html +++ b/site/classVolumeTrackingModifier-members.html @@ -23,7 +23,7 @@ diff --git a/site/classVolumeTrackingModifier.html b/site/classVolumeTrackingModifier.html index 9538b2dff..717c77903 100644 --- a/site/classVolumeTrackingModifier.html +++ b/site/classVolumeTrackingModifier.html @@ -23,7 +23,7 @@ diff --git a/site/classVonMisesVertexBasedDivisionRule-members.html b/site/classVonMisesVertexBasedDivisionRule-members.html index c90d80070..41a3f8242 100644 --- a/site/classVonMisesVertexBasedDivisionRule-members.html +++ b/site/classVonMisesVertexBasedDivisionRule-members.html @@ -23,7 +23,7 @@ diff --git a/site/classVonMisesVertexBasedDivisionRule.html b/site/classVonMisesVertexBasedDivisionRule.html index ad823ad6a..bf3f628e1 100644 --- a/site/classVonMisesVertexBasedDivisionRule.html +++ b/site/classVonMisesVertexBasedDivisionRule.html @@ -23,7 +23,7 @@ diff --git a/site/classVoronoiDataWriter-members.html b/site/classVoronoiDataWriter-members.html index f484abb7f..a8baa2963 100644 --- a/site/classVoronoiDataWriter-members.html +++ b/site/classVoronoiDataWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classVoronoiDataWriter.html b/site/classVoronoiDataWriter.html index 34956d43c..524d08aea 100644 --- a/site/classVoronoiDataWriter.html +++ b/site/classVoronoiDataWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classVoronoiVertexMeshGenerator-members.html b/site/classVoronoiVertexMeshGenerator-members.html index 8ec3bddec..72ee1ea08 100644 --- a/site/classVoronoiVertexMeshGenerator-members.html +++ b/site/classVoronoiVertexMeshGenerator-members.html @@ -23,7 +23,7 @@ diff --git a/site/classVoronoiVertexMeshGenerator.html b/site/classVoronoiVertexMeshGenerator.html index 250fea29d..c7343087c 100644 --- a/site/classVoronoiVertexMeshGenerator.html +++ b/site/classVoronoiVertexMeshGenerator.html @@ -23,7 +23,7 @@ diff --git a/site/classVtkMeshReader-members.html b/site/classVtkMeshReader-members.html index ddf911c8e..3e56b7a43 100644 --- a/site/classVtkMeshReader-members.html +++ b/site/classVtkMeshReader-members.html @@ -23,7 +23,7 @@ diff --git a/site/classVtkMeshReader.html b/site/classVtkMeshReader.html index 7ff13a87a..822c328e0 100644 --- a/site/classVtkMeshReader.html +++ b/site/classVtkMeshReader.html @@ -23,7 +23,7 @@ diff --git a/site/classVtkMeshWriter-members.html b/site/classVtkMeshWriter-members.html index 11cc7f313..84ee95922 100644 --- a/site/classVtkMeshWriter-members.html +++ b/site/classVtkMeshWriter-members.html @@ -23,7 +23,7 @@ diff --git a/site/classVtkMeshWriter.html b/site/classVtkMeshWriter.html index 2d4bdd26a..7e3e282a9 100644 --- a/site/classVtkMeshWriter.html +++ b/site/classVtkMeshWriter.html @@ -23,7 +23,7 @@ @@ -668,7 +668,7 @@

Private helper method which copies the mesh details into the waiting VTK mesh structure. Called by WriteFiles().

-
Todo:
#2351 Temporary workaround for parallel writer
+
Todo:
#2351 Temporary workaround for parallel writer

Definition at line 70 of file VtkMeshWriter.cpp.

@@ -784,7 +784,7 @@

Todo:
#1322 Mesh should really be const!
+
Todo:
#1322 Mesh should really be const!
Todo:
#1322 Mesh should be const
Todo:
This ought to look exactly like the other MakeVtkMesh

Add to the main file

Todo:
#1494 Do we need a barrier?
diff --git a/site/classVtkNonlinearElasticitySolutionWriter-members.html b/site/classVtkNonlinearElasticitySolutionWriter-members.html index c04912935..6924204de 100644 --- a/site/classVtkNonlinearElasticitySolutionWriter-members.html +++ b/site/classVtkNonlinearElasticitySolutionWriter-members.html @@ -23,7 +23,7 @@

diff --git a/site/classVtkNonlinearElasticitySolutionWriter.html b/site/classVtkNonlinearElasticitySolutionWriter.html index e1743f096..23ddbc62b 100644 --- a/site/classVtkNonlinearElasticitySolutionWriter.html +++ b/site/classVtkNonlinearElasticitySolutionWriter.html @@ -23,7 +23,7 @@ diff --git a/site/classWarnings-members.html b/site/classWarnings-members.html index 5d6b3913f..3bad83a34 100644 --- a/site/classWarnings-members.html +++ b/site/classWarnings-members.html @@ -23,7 +23,7 @@ diff --git a/site/classWarnings.html b/site/classWarnings.html index 3b0d8e6bd..f9fb939cd 100644 --- a/site/classWarnings.html +++ b/site/classWarnings.html @@ -23,7 +23,7 @@ diff --git a/site/classWelikyOsterForce-members.html b/site/classWelikyOsterForce-members.html index 26c7b6085..04bc0ed23 100644 --- a/site/classWelikyOsterForce-members.html +++ b/site/classWelikyOsterForce-members.html @@ -23,7 +23,7 @@ diff --git a/site/classWelikyOsterForce.html b/site/classWelikyOsterForce.html index a00ddf954..ce6f6cc52 100644 --- a/site/classWelikyOsterForce.html +++ b/site/classWelikyOsterForce.html @@ -23,7 +23,7 @@ diff --git a/site/classWildTypeCellMutationState-members.html b/site/classWildTypeCellMutationState-members.html index be1f7bcfa..f95a0b403 100644 --- a/site/classWildTypeCellMutationState-members.html +++ b/site/classWildTypeCellMutationState-members.html @@ -23,7 +23,7 @@ diff --git a/site/classWildTypeCellMutationState.html b/site/classWildTypeCellMutationState.html index c1e2aa859..21b21ba9a 100644 --- a/site/classWildTypeCellMutationState.html +++ b/site/classWildTypeCellMutationState.html @@ -23,7 +23,7 @@ diff --git a/site/classWntCellCycleModel-members.html b/site/classWntCellCycleModel-members.html index 1c3370510..f22aeaf37 100644 --- a/site/classWntCellCycleModel-members.html +++ b/site/classWntCellCycleModel-members.html @@ -23,7 +23,7 @@ diff --git a/site/classWntCellCycleModel.html b/site/classWntCellCycleModel.html index a3ab51814..d16a3c630 100644 --- a/site/classWntCellCycleModel.html +++ b/site/classWntCellCycleModel.html @@ -23,7 +23,7 @@ diff --git a/site/classWntCellCycleOdeSystem-members.html b/site/classWntCellCycleOdeSystem-members.html index 3baa08af8..27f459db5 100644 --- a/site/classWntCellCycleOdeSystem-members.html +++ b/site/classWntCellCycleOdeSystem-members.html @@ -23,7 +23,7 @@ diff --git a/site/classWntCellCycleOdeSystem.html b/site/classWntCellCycleOdeSystem.html index 48d946f16..4314494b7 100644 --- a/site/classWntCellCycleOdeSystem.html +++ b/site/classWntCellCycleOdeSystem.html @@ -23,7 +23,7 @@ diff --git a/site/classWntConcentration-members.html b/site/classWntConcentration-members.html index a3147fed6..bc7509a32 100644 --- a/site/classWntConcentration-members.html +++ b/site/classWntConcentration-members.html @@ -23,7 +23,7 @@ diff --git a/site/classWntConcentration.html b/site/classWntConcentration.html index 0324e10a5..27d0ee5fe 100644 --- a/site/classWntConcentration.html +++ 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b/site/structboost_1_1serialization_1_1version_3_01AbstractChasteRegion_3_01SPACE__DIM_01_4_01_4-members.html @@ -23,7 +23,7 @@ diff --git a/site/structboost_1_1serialization_1_1version_3_01AbstractChasteRegion_3_01SPACE__DIM_01_4_01_4.html b/site/structboost_1_1serialization_1_1version_3_01AbstractChasteRegion_3_01SPACE__DIM_01_4_01_4.html index c29617617..099a0908c 100644 --- a/site/structboost_1_1serialization_1_1version_3_01AbstractChasteRegion_3_01SPACE__DIM_01_4_01_4.html +++ b/site/structboost_1_1serialization_1_1version_3_01AbstractChasteRegion_3_01SPACE__DIM_01_4_01_4.html @@ -23,7 +23,7 @@ diff --git a/site/structboost_1_1serialization_1_1version_3_01AbstractTetrahedralMesh_3_01ELEMENT__DIM_00_01SPACE__DIM_01_4_01_4-members.html b/site/structboost_1_1serialization_1_1version_3_01AbstractTetrahedralMesh_3_01ELEMENT__DIM_00_01SPACE__DIM_01_4_01_4-members.html index d72c928c7..429842706 100644 --- a/site/structboost_1_1serialization_1_1version_3_01AbstractTetrahedralMesh_3_01ELEMENT__DIM_00_01SPACE__DIM_01_4_01_4-members.html +++ b/site/structboost_1_1serialization_1_1version_3_01AbstractTetrahedralMesh_3_01ELEMENT__DIM_00_01SPACE__DIM_01_4_01_4-members.html @@ -23,7 +23,7 @@ diff --git a/site/structboost_1_1serialization_1_1version_3_01AbstractTetrahedralMesh_3_01ELEMENT__DIM_00_01SPACE__DIM_01_4_01_4.html b/site/structboost_1_1serialization_1_1version_3_01AbstractTetrahedralMesh_3_01ELEMENT__DIM_00_01SPACE__DIM_01_4_01_4.html index 17d1f4d6f..475aa063f 100644 --- a/site/structboost_1_1serialization_1_1version_3_01AbstractTetrahedralMesh_3_01ELEMENT__DIM_00_01SPACE__DIM_01_4_01_4.html +++ b/site/structboost_1_1serialization_1_1version_3_01AbstractTetrahedralMesh_3_01ELEMENT__DIM_00_01SPACE__DIM_01_4_01_4.html @@ -23,7 +23,7 @@ diff --git a/site/structevent-members.html b/site/structevent-members.html index d39a2b7d6..665931bf7 100644 --- a/site/structevent-members.html +++ b/site/structevent-members.html @@ -23,7 +23,7 @@ diff --git a/site/structevent.html b/site/structevent.html index bf3aaa4f7..d92828d14 100644 --- a/site/structevent.html +++ b/site/structevent.html @@ -23,7 +23,7 @@ diff --git a/site/structflipstacker-members.html b/site/structflipstacker-members.html index 95f80dfbc..e2f6e74c6 100644 --- a/site/structflipstacker-members.html +++ b/site/structflipstacker-members.html @@ -23,7 +23,7 @@ diff --git a/site/structflipstacker.html b/site/structflipstacker.html index 427735eb4..71709f149 100644 --- a/site/structflipstacker.html +++ b/site/structflipstacker.html @@ -23,7 +23,7 @@ diff --git a/site/structmemorypool-members.html b/site/structmemorypool-members.html index 134a81f53..0dde9ca6d 100644 --- a/site/structmemorypool-members.html +++ b/site/structmemorypool-members.html @@ -23,7 +23,7 @@ diff --git a/site/structmemorypool.html b/site/structmemorypool.html index d246f9c5f..916816c04 100644 --- a/site/structmemorypool.html +++ b/site/structmemorypool.html @@ -23,7 +23,7 @@ diff --git a/site/structmesh-members.html b/site/structmesh-members.html index abcb4203e..9dd17e583 100644 --- a/site/structmesh-members.html +++ b/site/structmesh-members.html @@ -23,7 +23,7 @@ diff --git a/site/structmesh.html b/site/structmesh.html index b3a89180f..15fddb32f 100644 --- a/site/structmesh.html +++ b/site/structmesh.html @@ -23,7 +23,7 @@ diff --git a/site/structnull__deleter-members.html b/site/structnull__deleter-members.html index e94597bff..8a1be32c0 100644 --- a/site/structnull__deleter-members.html +++ b/site/structnull__deleter-members.html @@ -23,7 +23,7 @@ diff --git a/site/structnull__deleter.html b/site/structnull__deleter.html index 46aa2ec5b..4b5e9ed7a 100644 --- a/site/structnull__deleter.html +++ b/site/structnull__deleter.html @@ -23,7 +23,7 @@ diff --git a/site/structosub-members.html b/site/structosub-members.html index 8d2832219..d946aca41 100644 --- a/site/structosub-members.html +++ b/site/structosub-members.html @@ -23,7 +23,7 @@ diff --git a/site/structosub.html b/site/structosub.html index f6c907daa..1d7defddf 100644 --- a/site/structosub.html +++ b/site/structosub.html @@ -23,7 +23,7 @@ diff --git a/site/structotri-members.html b/site/structotri-members.html index 38566e875..eae83159f 100644 --- a/site/structotri-members.html +++ b/site/structotri-members.html @@ -23,7 +23,7 @@ diff --git a/site/structotri.html b/site/structotri.html index 89e07d0d1..a1827a68c 100644 --- a/site/structotri.html +++ b/site/structotri.html @@ -23,7 +23,7 @@ diff --git a/site/structpack.html b/site/structpack.html index aef21b82f..6eb9a583c 100644 --- a/site/structpack.html +++ b/site/structpack.html @@ -23,7 +23,7 @@ diff --git a/site/structpack_3_01void_07T_08_4-members.html b/site/structpack_3_01void_07T_08_4-members.html index f27881424..ccd17fb28 100644 --- a/site/structpack_3_01void_07T_08_4-members.html +++ b/site/structpack_3_01void_07T_08_4-members.html @@ -23,7 +23,7 @@ diff --git a/site/structpack_3_01void_07T_08_4.html b/site/structpack_3_01void_07T_08_4.html index 73e28976b..a9dc5759c 100644 --- a/site/structpack_3_01void_07T_08_4.html +++ b/site/structpack_3_01void_07T_08_4.html @@ -23,7 +23,7 @@ diff --git a/site/structsplaynode-members.html b/site/structsplaynode-members.html index 0ba05a446..578393635 100644 --- a/site/structsplaynode-members.html +++ b/site/structsplaynode-members.html @@ -23,7 +23,7 @@ diff --git a/site/structsplaynode.html b/site/structsplaynode.html index 1b917924f..49aece192 100644 --- a/site/structsplaynode.html +++ b/site/structsplaynode.html @@ -23,7 +23,7 @@ diff --git a/site/tetgen_8cpp.html b/site/tetgen_8cpp.html index ec49793fa..d9fa02a6a 100644 --- a/site/tetgen_8cpp.html +++ b/site/tetgen_8cpp.html @@ -23,7 +23,7 @@ diff --git a/site/tetgen_8cpp_source.html b/site/tetgen_8cpp_source.html index 9cd3140cd..824cccd39 100644 --- a/site/tetgen_8cpp_source.html +++ b/site/tetgen_8cpp_source.html @@ -23,7 +23,7 @@ diff --git a/site/todo.html b/site/todo.html index 440bbbdb5..0122f047d 100644 --- a/site/todo.html +++ b/site/todo.html @@ -23,7 +23,7 @@ @@ -88,10 +88,10 @@

#2017 This code will be needed in the future, not being covered now. Add a test which covers this, e.g. by doing a simulation with a bad stimulus for one of the Purkinje cells - stimulating with the wrong choice of sign say.

Member AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::GetCellUsingLocationIndex (unsigned index)
-
should be an exception?
+
should be an exception?
Member AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM >::OutputCellPopulationInfo (out_stream &rParamsFile)
-

this currently ignores different parameter regimes (#1453)

-

this currently ignores different parameter regimes (#1453)

+

this currently ignores different parameter regimes (#1453)

+

this currently ignores different parameter regimes (#1453)

Member AbstractChasteRegion< SPACE_DIM >::Destroy ()
Proper memory management Cleans any data which the concrete class may have created (archiving)
@@ -136,7 +136,7 @@
This loop is setting the column "global_index_outer" of the Jacobian matrix to the result vector in a non-sparse way.
Member AbstractNonlinearElasticitySolver< DIM >::SetKspSolverAndPcType (KSP solver)

#2057 Make better choices here...

-

#2057 Make better choices..

+

#2057 Make better choices..

Member AbstractNumericalMethod< ELEMENT_DIM, SPACE_DIM >::ComputeForcesIncludingDamping ()
#2087 Consider removing dynamic_cast and instead adding a virtual method ApplyForcesToNonCellNodes()
@@ -159,13 +159,13 @@
Member AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM >::load (Archive &archive, const unsigned int version)
#1199 make this work for everything else...
Member AbstractTetrahedralMeshWriter< ELEMENT_DIM, SPACE_DIM >::WriteFilesUsingMesh (AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > &rMesh, bool keepOriginalElementIndexing=true)
-

#1322 Mesh should really be const!

-

#1322, This should be const too

-

#1322 This should be const too

-

#1322 Mesh should be const

+

#1322 Mesh should really be const!

+

#1322, This should be const too

+

#1322 This should be const too

+

#1322 Mesh should be const

Member AbstractTetrahedralMeshWriter< ELEMENT_DIM, SPACE_DIM >::WriteFilesUsingParallelMesh (bool keepOriginalElementIndexing=true)
-
#2351 Also exclude VTK writer
+
#2351 Also exclude VTK writer
Member AbstractTwoBodyInteractionForce< ELEMENT_DIM, SPACE_DIM >::AddForceContribution (AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > &rCellPopulation)
this could be tidied by using the rGetNodePairs for all populations and moving the below calculation into the MutableMesh.
Member ActivationOutputModifier::ProcessSolutionAtTimeStep (double time, Vec solution, unsigned problemDim)
@@ -197,9 +197,9 @@
Class BuskeElasticForce< DIM >
does this mean natural radius of a cell? If so at what age? (#1764) Time is in hours.
Member CaBasedCellPopulation< DIM >::EvaluateDivisionPropensity (unsigned currentNodeIndex, unsigned targetNodeIndex, CellPtr pCell)
-
This functionality should be moved into the CA-based division rule hierarchy
+
This functionality should be moved into the CA-based division rule hierarchy
Member CaBasedCellPopulation< DIM >::IsSiteAvailable (unsigned index, CellPtr pCell)
-

this is where to deal with carrying capacity

+

this is where to deal with carrying capacity

Which subclasses? Why is the second input argument needed?

Member CaBasedCellPopulation< DIM >::UpdateCellLocations (double dt)
@@ -223,7 +223,7 @@
Member CHASTE_CAN_CHECKPOINT_DLLS
#2417 Mac OS X doesn't appear to be able to checkpoint dynamically loaded models, so that functionality is switched off here.
Member CmguiMeshWriter< ELEMENT_DIM, SPACE_DIM >::WriteFiles ()
-
: EXCEPTION maybe...
+
: EXCEPTION maybe...
Member ColumnDataReader::mVariablesToColumns
Change int to unsigned? (#991)
Member CompressibleExponentialLaw< DIM >::ComputeStressAndStressDerivative (c_matrix< double, DIM, DIM > &rC, c_matrix< double, DIM, DIM > &rInvC, double pressure, c_matrix< double, DIM, DIM > &rT, FourthOrderTensor< DIM, DIM, DIM, DIM > &rDTdE, bool computeDTdE)
@@ -279,8 +279,8 @@
Member DivisionBiasTrackingModifier< DIM >::UpdateCellData (AbstractCellPopulation< DIM, DIM > &rCellPopulation)
work out how to properly fix this (#1986)
Member DynamicModelLoaderRegistry::GetLoader (const std::string &rPath)
-

#1957 remove when unloading working

-

#1957 causes segfaults

+

#1957 causes segfaults

+

#1957 remove when unloading working

Member Electrodes< DIM >::SwitchOff (double time)
remove magic number? (#1884)
@@ -297,8 +297,8 @@
Member EllipticBoxDomainPdeModifier< DIM >::ConstructBoundaryConditionsContainer (AbstractCellPopulation< DIM, DIM > &rCellPopulation)
Replace this assertion with an exception in the constructor
Member EllipticBoxDomainPdeModifier< DIM >::UpdateAtEndOfTimeStep (AbstractCellPopulation< DIM, DIM > &rCellPopulation)
-

Use solution at previous time step as an initial guess for Solve()

-

allow other PDE classes to be used with this modifier

+

allow other PDE classes to be used with this modifier

+

Use solution at previous time step as an initial guess for Solve()

Member ExponentialMaterialLaw< DIM >::Get_d2W_dI1 (double I1, double I2)
The name of this method should not include underscores.
@@ -313,8 +313,8 @@
Member ExtendedBidomainProblem< DIM >::SetFixedExtracellularPotentialNodes (std::vector< unsigned > nodes)
turn this into an exception if the user calls this twice...
Member ExtendedBidomainProblem< DIM >::WriteOneStep (double time, Vec voltageVec)
-

write a specific method for this class

-

write a specific method for extended problems that looks in both cell factories

+

write a specific method for extended problems that looks in both cell factories

+

write a specific method for this class

Member ExtendedBidomainSolver< ELEM_DIM, SPACE_DIM >::SetupLinearSystem (Vec currentSolution, bool computeMatrix)
turn these into exceptions somewhere else
@@ -325,8 +325,8 @@
Member FineCoarseMeshPair< DIM >::ComputeFineElementAndWeightForGivenPoint (ChastePoint< DIM > &rPoint, bool safeMode, unsigned boxForThisPoint, unsigned index)
: could possibly merge with ComputeCoarseElementForGivenPoint(). Difference between the methods are: this uses fine mesh and fine mesh box, computes weights as well (and sets the element and weight in the vec), rather than returning the element, and this method saves information in mStatisticsCounters.
Member for (i=STARTINDEX;i< argc;i++)
-

Horrible hack! (#1076/#1377)

-

Store orientations? (#1076/#1377)

+

Store orientations? (#1076/#1377)

+

Horrible hack! (#1076/#1377)

Member Goldbeter1991OdeSystem::Goldbeter1991OdeSystem (std::vector< double > stateVariables=std::vector< double >())
extract model parameters as member variables
@@ -355,7 +355,7 @@
Member HeartConfig::GetConductivityHeterogeneities (std::vector< boost::shared_ptr< AbstractChasteRegion< DIM > > > &conductivitiesHeterogeneityAreas, std::vector< c_vector< double, 3 > > &intraConductivities, std::vector< c_vector< double, 3 > > &extraConductivities) const

When this is implemented, then we require an example in ChasteParametersFullFormat.xml

-

- do we assume the vectors are initially empty?

+

- do we assume the vectors are initially empty?

Member HeartConfig::GetIonicModelRegions (std::vector< boost::shared_ptr< AbstractChasteRegion< DIM > > > &rDefinedRegions, std::vector< cp::ionic_model_selection_type > &rIonicModels) const
When this is implemented, then we require an example in ChasteParametersFullFormat.xml
@@ -376,52 +376,52 @@
Member HeartGeometryInformation< SPACE_DIM >::LEFT_VENTRICLE_WALL
#1703 Perhaps add these constants to HeartConfig...
Member HeterotypicBoundaryLengthWriter< ELEMENT_DIM, SPACE_DIM >::Visit (MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM > *pCellPopulation)
-

#2273 - check if this call is needed

-

#2273 - check we have correctly dealt with ghost nodes

+

#2273 - check if this call is needed

+

#2273 - check we have correctly dealt with ghost nodes

Member HeterotypicBoundaryLengthWriter< ELEMENT_DIM, SPACE_DIM >::Visit (NodeBasedCellPopulation< SPACE_DIM > *pCellPopulation)
-
#2273 - check if this call to Update() is needed
+
#2273 - check if this call to Update() is needed
Member HeterotypicBoundaryLengthWriter< ELEMENT_DIM, SPACE_DIM >::Visit (PottsBasedCellPopulation< SPACE_DIM > *pCellPopulation)
-
#2273 - investigate whether there is a hard-coded assumption that neighbouring nodes in Potts simulations are unit distance apart
+
#2273 - investigate whether there is a hard-coded assumption that neighbouring nodes in Potts simulations are unit distance apart
Member HeterotypicBoundaryLengthWriter< ELEMENT_DIM, SPACE_DIM >::Visit (VertexBasedCellPopulation< SPACE_DIM > *pCellPopulation)
-
#2273 - check if this call to Update() is needed
+
#2273 - check if this call to Update() is needed
Member ImmersedBoundaryCellPopulation< DIM >::GetCellDataItemAtPdeNode (unsigned pdeNodeIndex, std::string &rVariableName, bool dirichletBoundaryConditionApplies=false, double dirichletBoundaryValue=0.0)
Work out a better way to do the nodes not associated with cells
Member ImmersedBoundaryMeshWriter< ELEMENT_DIM, SPACE_DIM >::mpVtkUnstructedMesh
Merge into VtkMeshWriter (#1076)
Member IncompressibleNonlinearElasticitySolver< DIM >::FormInitialGuess ()
-
#2223 This is unlikely to work using DistributedQuadraticMesh with Non-homogeneous material laws
+
#2223 This is unlikely to work using DistributedQuadraticMesh with Non-homogeneous material laws
Member LegacyCellProliferativeTypesWriter< ELEMENT_DIM, SPACE_DIM >::GetCellDataForVtkOutput (CellPtr pCell, AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > *pCellPopulation)
: replace this hard-coded 6 with the ApoptoticCellProperty member mColour?
Member LegacyCellProliferativeTypesWriter< ELEMENT_DIM, SPACE_DIM >::VisitCell (CellPtr pCell, AbstractCellPopulation< ELEMENT_DIM, SPACE_DIM > *pCellPopulation)
: replace this hard-coded 6 with the ApoptoticCellProperty member mColour? (#2512)
-
Member LinearSystem::LinearSystem (Vec residualVector, Mat jacobianMatrix)
-
: if we create a linear system object outside a cardiac solver, these are gonna be the default solver and preconditioner. Not consitent with ChasteDefaults.xml though...
-
Member LinearSystem::LinearSystem (PetscInt lhsVectorSize, unsigned rowPreallocation=UINT_MAX)
-
: if we create a linear system object outside a cardiac solver, these are gonna be the default solver and preconditioner. Not consitent with ChasteDefaults.xml though...
Member LinearSystem::LinearSystem (Vec templateVector, unsigned rowPreallocation, bool newAllocationError=true)
-
: if we create a linear system object outside a cardiac solver, these are gonna be the default solver and preconditioner. Not consistent with ChasteDefaults.xml though...
+
: if we create a linear system object outside a cardiac solver, these are gonna be the default solver and preconditioner. Not consistent with ChasteDefaults.xml though...
+
Member LinearSystem::LinearSystem (PetscInt lhsVectorSize, unsigned rowPreallocation=UINT_MAX)
+
: if we create a linear system object outside a cardiac solver, these are gonna be the default solver and preconditioner. Not consitent with ChasteDefaults.xml though...
+
Member LinearSystem::LinearSystem (Vec residualVector, Mat jacobianMatrix)
+
: if we create a linear system object outside a cardiac solver, these are gonna be the default solver and preconditioner. Not consitent with ChasteDefaults.xml though...
Member LinearSystem::mOwnershipRangeLo
-
Verify claim that ownership range for Vec and Mat is same. This should only matter for efficiency if the claim is false.
+
Verify claim that ownership range for Vec and Mat is same. This should only matter for efficiency if the claim is false.
Member LinearSystem::mpBlockDiagonalPC
-
: #1082 Create an abstract class for the preconditioners and use a single pointer
+
: #1082 Create an abstract class for the preconditioners and use a single pointer
Member LinearSystem::ResetKspSolver ()
-
#1695 Store this number in a member variable.
+
#1695 Store this number in a member variable.
Member LinearSystem::SetMatrixIsSymmetric (bool isSymmetric=true)
-
: shall we allow modifying the symmetry flag anytime?
+
: shall we allow modifying the symmetry flag anytime?
Member LinearSystem::SetPcType (const char *pcType, boost::shared_ptr< std::vector< PetscInt > > pBathNodes=boost::shared_ptr< std::vector< PetscInt > >())
-

: #1082 use a single pointer to abstract class

-

: #1082 use a single pointer to abstract class

-

: #1082 use a single pointer to abstract class

-

: #1082 is this the way of defining a null pointer as the default value of pBathNodes?

+

: #1082 is this the way of defining a null pointer as the default value of pBathNodes?

+

: #1082 use a single pointer to abstract class

+

: #1082 use a single pointer to abstract class

+

: #1082 use a single pointer to abstract class

Member LinearSystem::Solve (Vec lhsGuess=nullptr)
-

#1695 Store this number in a member variable.

-

Should it be compulsory for the caller to supply this and manage the memory?

-

This is a magic number. Do we want a warning here?

+

#1695 Store this number in a member variable.

+

Should it be compulsory for the caller to supply this and manage the memory?

+

This is a magic number. Do we want a warning here?

Member LinearSystem::~LinearSystem ()
-
Never tested in linalg component
+
Never tested in linalg component
Member MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM >::GetVolumeOfVoronoiElement (unsigned index)
This method is somewhat redundant following the introduction of the method GetVolumeOfCell() (see #1985).
Member MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM >::Update (bool hasHadBirthsOrDeaths=true)
@@ -433,21 +433,21 @@

#1975 - deal with possibility of information stored in CellData

Class MeshEventHandler
-
Temporary for #2351
+
Temporary for #2351
Member MonodomainPurkinjeProblem< ELEMENT_DIM, SPACE_DIM >::CreateSolver ()
#2017 give a nice error
Member MonodomainPurkinjeProblem< ELEMENT_DIM, SPACE_DIM >::serialize (Archive &archive, const unsigned int version)
-
Serialization of Purkinje problems is untested
+
Serialization of Purkinje problems is untested
Member MooneyRivlinMaterialLaw< DIM >::Get_d2W_dI1 (double I1, double I2)
-
The name of this method should not include underscores.
+
The name of this method should not include underscores.
Member MooneyRivlinMaterialLaw< DIM >::Get_d2W_dI1I2 (double I1, double I2)
-
The name of this method should not include underscores.
+
The name of this method should not include underscores.
Member MooneyRivlinMaterialLaw< DIM >::Get_d2W_dI2 (double I1, double I2)
-
The name of this method should not include underscores.
+
The name of this method should not include underscores.
Member MooneyRivlinMaterialLaw< DIM >::Get_dW_dI1 (double I1, double I2)
-
The name of this method should not include underscores.
+
The name of this method should not include underscores.
Member MooneyRivlinMaterialLaw< DIM >::Get_dW_dI2 (double I1, double I2)
-
The name of this method should not include underscores.
+
The name of this method should not include underscores.
Member MutableMesh< ELEMENT_DIM, SPACE_DIM >::CheckIsVoronoi (double maxPenetration=0.0)
use ElementIterator here?
Member MutableMesh< ELEMENT_DIM, SPACE_DIM >::RescaleMeshFromBoundaryNode (ChastePoint< 1 > updatedPoint, unsigned boundaryNodeIndex)
@@ -455,48 +455,48 @@
Member MutableMesh< ELEMENT_DIM, SPACE_DIM >::SplitLongEdges (double cutoffLength)
use iterators to tidy this up
Member MutableVertexMesh< ELEMENT_DIM, SPACE_DIM >::CheckForSwapsFromShortEdges ()
-

Could we search more efficiently by just iterating over edges? (see #2401)

-

Use iterators to tidy this up (see #2401)

+

Could we search more efficiently by just iterating over edges? (see #2401)

+

Use iterators to tidy this up (see #2401)

Member MutableVertexMesh< ELEMENT_DIM, SPACE_DIM >::CheckForT2Swaps (VertexElementMap &rElementMap)
-
: cover this line in a test
+
: cover this line in a test
Member MutableVertexMesh< ELEMENT_DIM, SPACE_DIM >::DivideElement (VertexElement< ELEMENT_DIM, SPACE_DIM > *pElement, unsigned nodeAIndex, unsigned nodeBIndex, bool placeOriginalElementBelow=false)
-

this could be more efficient (see #2401)

+

this could be more efficient (see #2401)

This method currently assumes SPACE_DIM = 2 (see #866)

Member MutableVertexMesh< ELEMENT_DIM, SPACE_DIM >::DivideElementAlongGivenAxis (VertexElement< ELEMENT_DIM, SPACE_DIM > *pElement, c_vector< double, SPACE_DIM > axisOfDivision, bool placeOriginalElementBelow=false)
-
or should we move a and b apart, it may interfere with neighbouring edges? (see #1399 and #2401)
+
or should we move a and b apart, it may interfere with neighbouring edges? (see #1399 and #2401)
Member MutableVertexMesh< ELEMENT_DIM, SPACE_DIM >::IdentifySwapType (Node< SPACE_DIM > *pNodeA, Node< SPACE_DIM > *pNodeB)
-
: consider removing the checking for this exception (see #2401)
+
: consider removing the checking for this exception (see #2401)
Member MutableVertexMesh< ELEMENT_DIM, SPACE_DIM >::PerformT1Swap (Node< SPACE_DIM > *pNodeA, Node< SPACE_DIM > *pNodeB, std::set< unsigned > &rElementsContainingNodes)
-
remove magic number? (see #1884 and #2401)
+
remove magic number? (see #1884 and #2401)
Member MutableVertexMesh< ELEMENT_DIM, SPACE_DIM >::PerformT3Swap (Node< SPACE_DIM > *pNode, unsigned elementIndex)
-
the intersection location is sometimes overwritten when WidenEdgeOrCorrectIntersectionLocationIfNecessary
+
the intersection location is sometimes overwritten when WidenEdgeOrCorrectIntersectionLocationIfNecessary
Member MutableVertexMesh< ELEMENT_DIM, SPACE_DIM >::ReMesh ()
This method seems to be redundant; remove it? (#2401)
Member MutableVertexMesh< ELEMENT_DIM, SPACE_DIM >::ReMesh (VertexElementMap &rElementMap)
-
Implement ReMesh() in 3D (see #1422)
+
Implement ReMesh() in 3D (see #1422)
Member MutableVertexMesh< ELEMENT_DIM, SPACE_DIM >::serialize (Archive &archive, const unsigned int version)
: maybe we should archive the mLocationsOfT1Swaps and mDeletedNodeIndices etc. as well?
Member MutableVertexMesh< ELEMENT_DIM, SPACE_DIM >::WidenEdgeOrCorrectIntersectionLocationIfNecessary (unsigned indexA, unsigned indexB, c_vector< double, 2 > intersection)
-

currently this assumes a worst case scenario of 3 nodes between A and B; could be less movement for other cases (see #2401)

-

currently this assumes a worst case scenario of 3 nodes between A and B could be less movement for other cases (see #1399 and #2401)

-

investigate if moving A and B causes other issues with nearby nodes (see #2401)

+

investigate if moving A and B causes other issues with nearby nodes (see #2401)

+

currently this assumes a worst case scenario of 3 nodes between A and B could be less movement for other cases (see #1399 and #2401)

+

currently this assumes a worst case scenario of 3 nodes between A and B; could be less movement for other cases (see #2401)

Member NodeBasedCellPopulation< DIM >::UpdateMapsAfterRemesh (NodeMap &map)
we want to make mCellLocationMap private - we need to find a better way of doing this
Member NodePartitioner< ELEMENT_DIM, SPACE_DIM >::PetscMatrixPartitioning (AbstractMeshReader< ELEMENT_DIM, SPACE_DIM > &rMeshReader, std::vector< unsigned > &rNodePermutation, std::set< unsigned > &rNodesOwned, std::vector< unsigned > &rProcessorsOffset)
-

#1216 change the number 54 below (row nonzero allocation) to be nonmagic

-

: This assembly is likely to generate many communications. Try to interleave other operations by executing them between Begin() and End().

+

: This assembly is likely to generate many communications. Try to interleave other operations by executing them between Begin() and End().

+

#1216 change the number 54 below (row nonzero allocation) to be nonmagic

Class NodeVelocityWriter< ELEMENT_DIM, SPACE_DIM >
-
some code duplication in methods; potential for refactoring (#2404)
-
Member NodeVelocityWriter< ELEMENT_DIM, SPACE_DIM >::Visit (MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM > *pCellPopulation)
-
correct time step? (#2404)
+
some code duplication in methods; potential for refactoring (#2404)
Member NodeVelocityWriter< ELEMENT_DIM, SPACE_DIM >::Visit (VertexBasedCellPopulation< SPACE_DIM > *pCellPopulation)
-
correct time step? (#2404)
+
correct time step? (#2404)
Member NodeVelocityWriter< ELEMENT_DIM, SPACE_DIM >::Visit (NodeBasedCellPopulation< SPACE_DIM > *pCellPopulation)
-
correct time step? (#2404)
+
correct time step? (#2404)
+
Member NodeVelocityWriter< ELEMENT_DIM, SPACE_DIM >::Visit (MeshBasedCellPopulation< ELEMENT_DIM, SPACE_DIM > *pCellPopulation)
+
correct time step? (#2404)
Member NormallyDistributedTargetAreaModifier< DIM >::UpdateTargetAreaOfCell (const CellPtr pCell)
This is a little hack that we might want to clean up in the future.
Member ObsoleteBoxCollection< DIM >::ObsoleteBoxCollection (double boxWidth, c_vector< double, 2 *DIM > domainSize, bool isPeriodicInX=false, bool isPeriodicInY=false, bool isPeriodicInZ=false)
@@ -520,37 +520,37 @@
Member PCLDUFactorisation::PCLDUFactorisationContext::PC_amg_A22
- don't create this every iteration but save it first time is needed.
Class PCTwoLevelsBlockDiagonal
-
: #1082 update this description
+
: #1082 update this description
Member PCTwoLevelsBlockDiagonal::PCTwoLevelsBlockDiagonalCreate (KSP &rKspObject, std::vector< PetscInt > &rBathNodes)
-

: #1082 OK in parallel. Use as an example for the other two blocks

-

: #1082 won't work in parallel

+

: #1082 legacy, no need to use the references

: #1082 won't work in parallel

: #1082 assert size(x1) = size(x21) + size(x22)

-

: #1082 legacy, no need to use the references

+

: #1082 won't work in parallel

+

: #1082 OK in parallel. Use as an example for the other two blocks

Class PdeSimulationTime
Integrate with other time stepping classes or remove? A small convenience class providing a consistent global time to the PDE solver classes.
Member PetscTools::ReadPetscObject (Mat &rMat, const std::string &rOutputFileFullPath, Vec rParallelLayout=nullptr)
: #1082 work out appropriate nz allocation.
Member PlaneBoundaryCondition< ELEMENT_DIM, SPACE_DIM >::ImposeBoundaryCondition (const std::map< Node< SPACE_DIM > *, c_vector< double, SPACE_DIM > > &rOldLocations)
-
Move this to constructor. If this is in the constructor then Exception always throws.
+
Move this to constructor. If this is in the constructor then Exception always throws.
Member PlaneStimulusCellFactory< CELL, ELEMENT_DIM, SPACE_DIM >::CreateCardiacCellForTissueNode (Node< SPACE_DIM > *pNode)
remove magic number? (#1884)
Member PolynomialMaterialLaw3d::Get_d2W_dI1 (double I1, double I2)
-
The name of this method should not include underscores.
+
The name of this method should not include underscores.
Member PolynomialMaterialLaw3d::Get_d2W_dI1I2 (double I1, double I2)
-
The name of this method should not include underscores.
+
The name of this method should not include underscores.
Member PolynomialMaterialLaw3d::Get_d2W_dI2 (double I1, double I2)
-
The name of this method should not include underscores.
+
The name of this method should not include underscores.
Member PolynomialMaterialLaw3d::Get_dW_dI1 (double I1, double I2)
-
The name of this method should not include underscores.
+
The name of this method should not include underscores.
Member PolynomialMaterialLaw3d::Get_dW_dI2 (double I1, double I2)
-
The name of this method should not include underscores.
+
The name of this method should not include underscores.
Member PostProcessingWriter< ELEMENT_DIM, SPACE_DIM >::WriteAboveThresholdDepolarisationFile (double threshold)
This method ought to be private and called by the WritePostProcessingFiles method if the user requests for it. This will be possible after modifying the schema and specifying Get and Set methods in HeartConfig to check whether the user wants this file or not
Member PostProcessingWriter< ELEMENT_DIM, SPACE_DIM >::WritePostProcessingFiles ()
-

#2359 work out how to get rid of these lines

-

#2359 work out how to get rid of this line needed because PseudoEcgCalculator makes its own Hdf5DataReader.

+

#2359 work out how to get rid of this line needed because PseudoEcgCalculator makes its own Hdf5DataReader.

+

#2359 work out how to get rid of these lines

Member PottsBasedCellPopulation< DIM >::CreateElementTessellation ()
implement this method (#1666)
@@ -569,33 +569,33 @@
Member PottsMeshReader< SPACE_DIM >::GetNumFaces () const
Implement this method (#1663)
Member PottsMeshWriter< SPACE_DIM >::WriteFilesUsingMesh (PottsMesh< SPACE_DIM > &rMesh)
-

Mesh should be const (#1663)

-

Mesh should be const (#1076)

+

Mesh should be const (#1076)

+

Mesh should be const (#1663)

Member PropagationPropertiesCalculator::CalculateAllConductionVelocities (unsigned globalNearNodeIndex, unsigned globalFarNodeIndex, const double euclideanDistance)
remove magic number? (#1884)
Member PropagationPropertiesCalculator::CalculateConductionVelocity (unsigned globalNearNodeIndex, unsigned globalFarNodeIndex, const double euclideanDistance)
remove magic number? (#1884)
Member QuadraticMeshHelper< DIM >::AddNodesToBoundaryElements (AbstractTetrahedralMesh< DIM, DIM > *pMesh, AbstractMeshReader< DIM, DIM > *pMeshReader)
-

#1930 Until there is an interator_facade over boundary elements,

-

#1930 Once there is an interator_facade then we can do: elem_index = pMeshReader->GetFaceData(face_index).ContainingElement;

+

#1930 Once there is an interator_facade then we can do: elem_index = pMeshReader->GetFaceData(face_index).ContainingElement;

+

#1930 Until there is an interator_facade over boundary elements,

Member QuadraticMeshHelper< DIM >::HelperMethod1 (unsigned boundaryElemNode0, unsigned boundaryElemNode1, Element< DIM, DIM > *pElement, unsigned node0, unsigned node1, unsigned node2, unsigned &rOffset, bool &rReverse)
document these parameters
Member QuadraticMeshHelper< DIM >::HelperMethod2 (AbstractTetrahedralMesh< DIM, DIM > *pMesh, BoundaryElement< DIM-1, DIM > *pBoundaryElement, Element< DIM, DIM > *pElement, unsigned internalNode0, unsigned internalNode1, unsigned internalNode2, unsigned offset, bool reverse)
document these parameters
Member RandomCaSwitchingUpdateRule< DIM >::mSwitchingParameter
-
provide units
+
provide units
Member SimpleTargetAreaModifier< DIM >::UpdateTargetAreaOfCell (const CellPtr pCell)
This is a little hack that we might want to clean up in the future.
Member SlidingBoundaryCondition< DIM >::ImposeBoundaryCondition (const std::map< Node< DIM > *, c_vector< double, DIM > > &rOldLocations)
-
Move this to constructor. If this is in the constructor then Exception always throws.
+
Move this to constructor. If this is in the constructor then Exception always throws.
Member StressPerElementWriter< DIM >::Visit (Element< DIM, DIM > *pElement, unsigned localIndex, c_vector< double, DIM *DIM > &rData)
#2223 Note that the localIndex is intended for DistributedQuadraticMesh, but we might need a map instead. For now, make sure that it's not a distributed mesh i.e. GetNumLocalElements == GetNumElements and the indexing is always global
Member SurfaceAreaConstraintPottsUpdateRule< DIM >::mDeformationEnergyParameter
-
provide units
+
provide units
Member SurfaceAreaConstraintPottsUpdateRule< DIM >::mMatureCellTargetSurfaceArea
-
provide units #1829 Non-dimensional target surface area of a mature (fully-grown) cell, given in units of area of lattice site. Set to the default value 16 in the constructor.
+
provide units #1829 Non-dimensional target surface area of a mature (fully-grown) cell, given in units of area of lattice site. Set to the default value 16 in the constructor.
Member SurfaceAreaConstraintPottsUpdateRule< DIM >::SurfaceAreaConstraintPottsUpdateRule ()
Default values don't apply in 3D.
Member TargetAreaLinearGrowthModifier< DIM >::UpdateTargetAreaOfCell (const CellPtr pCell)
@@ -615,12 +615,12 @@
Member TrianglesMeshReader< ELEMENT_DIM, SPACE_DIM >::SetNodePermutation (std::vector< unsigned > &rPermutationVector)
#2452 We need a way of propagating this back to the mesh (and insuring that the mesh is NOT being re-partitioned)
Member TrianglesMeshWriter< ELEMENT_DIM, SPACE_DIM >::WriteFiles ()
-

#1949 Will deadlock on GetNode(global ID) in parallel since this code is run on the master process

-

#1949

-

#1949

+

#1949 Readers do not currently support reading of node attributes, so we cannot yet write them from a reader

#1949

-

#1949 Readers do not currently support reading of node attributes, so we cannot yet write them from a reader

-

#1949 Readers do not currently support reading of node attributes, so we cannot yet write them from a reader

+

#1949

+

#1949 Will deadlock on GetNode(global ID) in parallel since this code is run on the master process

+

#1949

+

#1949 Readers do not currently support reading of node attributes, so we cannot yet write them from a reader

Member VertexBasedCellPopulation< DIM >::GetCellDataItemAtPdeNode (unsigned pdeNodeIndex, std::string &rVariableName, bool dirichletBoundaryConditionApplies=false, double dirichletBoundaryValue=0.0)
Work out a better way to do the nodes not associated with cells
@@ -631,36 +631,36 @@
Member VertexBasedCellPopulation< DIM >::Update (bool hasHadBirthsOrDeaths=true)
We want to make these maps private, so we need a better way of doing the code below.
Member VertexMesh< ELEMENT_DIM, SPACE_DIM >::ElementIncludesPoint (const c_vector< double, SPACE_DIM > &rTestPoint, unsigned elementIndex)
-
(see #2387 and #2401) Investigate why the commented implementation causes Test2DVertexBasedCryptRepresentativeSimulation to fail
+
(see #2387 and #2401) Investigate why the commented implementation causes Test2DVertexBasedCryptRepresentativeSimulation to fail
Member VertexMesh< ELEMENT_DIM, SPACE_DIM >::GetCentroidOfElement (unsigned index)
-
compute centroid rather than centre of mass (see #1422)
+
compute centroid rather than centre of mass (see #1422)
Member VertexMesh< ELEMENT_DIM, SPACE_DIM >::SolveBoundaryElementMapping (unsigned index) const
-
sort out boundary elements in a vertex mesh (#1263)
+
sort out boundary elements in a vertex mesh (#1263)
Class VertexMesh< ELEMENT_DIM, SPACE_DIM >::VertexElementIterator
-
This is the same as in AbstractTetrahedralMesh and PottsMesh - merge? (#1379)
+
This is the same as in AbstractTetrahedralMesh and PottsMesh - merge? (#1379)
Member VertexMesh< ELEMENT_DIM, SPACE_DIM >::VertexMesh (TetrahedralMesh< 3, 3 > &rMesh)
-
Merge with 2D Voronoi constructor? (see #1075)
+
Merge with 2D Voronoi constructor? (see #1075)
Member VertexMesh< ELEMENT_DIM, SPACE_DIM >::VertexMesh (TetrahedralMesh< 2, 2 > &rMesh, bool isPeriodic=false, bool isBounded=false)
-
Merge with 3D Voronoi constructor? (see #1075)
+
Merge with 3D Voronoi constructor? (see #1075)
Member VertexMeshReader< ELEMENT_DIM, SPACE_DIM >::GetNextElementDataWithFaces ()
-
Store face orientations? (#1076/#1377)
+
Store face orientations? (#1076/#1377)
Member VertexMeshReader< ELEMENT_DIM, SPACE_DIM >::GetNextFaceData ()
-
Implement this method (#1076, #1377)
+
Implement this method (#1076, #1377)
Member VertexMeshReader< ELEMENT_DIM, SPACE_DIM >::GetNumEdges () const
-
Implement this method (#1076)
+
Implement this method (#1076)
Member VertexMeshReader< ELEMENT_DIM, SPACE_DIM >::GetNumFaces () const
-
Implement this method (#1076)
+
Implement this method (#1076)
Member VertexMeshWriter< ELEMENT_DIM, SPACE_DIM >::GetNextElement ()
-
Assert this method should only be called in 2D? (#1076/#1377)
+
Assert this method should only be called in 2D? (#1076/#1377)
Member VertexMeshWriter< ELEMENT_DIM, SPACE_DIM >::GetNextElementWithFaces ()
-
Store face orientations? (#1076/#1377)
+
Store face orientations? (#1076/#1377)
Member VertexMeshWriter< ELEMENT_DIM, SPACE_DIM >::mpVtkUnstructedMesh
-
Merge into VtkMeshWriter (#1076)
+
Merge into VtkMeshWriter (#1076)
Member VertexMeshWriter< ELEMENT_DIM, SPACE_DIM >::WriteFiles ()
-
Store face orientations? (#1076/#1377)
+
Store face orientations? (#1076/#1377)
Member VertexMeshWriter< ELEMENT_DIM, SPACE_DIM >::WriteFilesUsingMesh (VertexMesh< ELEMENT_DIM, SPACE_DIM > &rMesh)
-

Mesh should be const (#1076)

-

Mesh should be const (#1076)

+

Mesh should be const (#1076)

+

Mesh should be const (#1076)

Member VolumeConstraintPottsUpdateRule< DIM >::mDeformationEnergyParameter
provide units
@@ -671,12 +671,12 @@
Member VolumeTrackingModifier< DIM >::UpdateCellData (AbstractCellPopulation< DIM, DIM > &rCellPopulation)
work out how to properly fix this (#1986)
Member VtkMeshWriter< ELEMENT_DIM, SPACE_DIM >::MakeVtkMesh ()
-
#2351 Temporary workaround for parallel writer
+
#2351 Temporary workaround for parallel writer
Member VtkMeshWriter< ELEMENT_DIM, SPACE_DIM >::WriteFilesUsingMesh (AbstractTetrahedralMesh< ELEMENT_DIM, SPACE_DIM > &rMesh, bool keepOriginalElementIndexing=true)
-

#1322 Mesh should be const

-

#1322 Mesh should really be const!

-

#1494 Do we need a barrier?

-

This ought to look exactly like the other MakeVtkMesh

+

#1494 Do we need a barrier?

+

This ought to look exactly like the other MakeVtkMesh

+

#1322 Mesh should be const

+

#1322 Mesh should really be const!

diff --git a/site/triangle_8cpp.html b/site/triangle_8cpp.html index f616c7813..f72574716 100644 --- a/site/triangle_8cpp.html +++ b/site/triangle_8cpp.html @@ -23,7 +23,7 @@ @@ -6990,8 +6990,8 @@

-
Todo:
Horrible hack! (#1076/#1377)
-
Todo:
Store orientations? (#1076/#1377)
+
Todo:
Horrible hack! (#1076/#1377)
+
Todo:
Store orientations? (#1076/#1377)

Definition at line 3406 of file triangle.cpp.

diff --git a/site/triangle_8cpp_source.html b/site/triangle_8cpp_source.html index 2205e8f33..cda35f968 100644 --- a/site/triangle_8cpp_source.html +++ b/site/triangle_8cpp_source.html @@ -23,7 +23,7 @@

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Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
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Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
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Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
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Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
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Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
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Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70
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Chaste Commit::60e837ec54cfdf0e6b6cce5c8a3e037d883c9a61 +
Chaste Commit::f46efcf82e6943dc95c098b1e87e5193c126ec70