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* CarpetIOHDF5: Checkpoint and recover delta times (time step sizes)Erik Schnetter2011-12-14
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* CarpetIOHDF5: Set times correctly after recoveringErik Schnetter2011-12-14
| | | | | | Recovery happens level-by-level in Cactus. When recovering the refinement level times and the global time, set them correctly according to the current refinement level.
* CarpetIOHDF5: Comment out unused local variableErik Schnetter2011-12-14
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* CarpetIOHDF5: Update to new dh classesErik Schnetter2011-12-14
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* CarpetIOHDF5: Remove explicit bboxset normalizationsErik Schnetter2011-12-14
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* CarpetIOHDF5: Initialise times on all time levels while recoveringErik Schnetter2011-12-14
| | | | | Initialise the times of all time levels of grid arrays while recovering.
* Re-organise time level handlingErik Schnetter2011-12-14
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Store the current Cactus time (and not a fake Carpet time) in the th "time hiearchy". This removes the now redundant "leveltimes" data structure in Carpet. Add past time levels to th, so that it can store the time for past time levels instead of assuming the time step size is constant. This allows changing the time step size during evolution. Share the time hierarchy between all maps, instead of having one time hierarchy per map. Simplify the time level cycling and time stepping code used during evolution. Improve structure of the code that loops over time levels for certain schedule bins. Introduce a new Carpet variable "timelevel", similar to "reflevel". This also makes it possible to avoid time interpolation for the past time levels during regridding. The past time levels of the fine grid then remain aligned (in time) with the past time levels of the coarse grid. This is controlled by a new parameter "time_interpolation_during_regridding", which defaults to "yes" for backwards compatibility. Simplify the three time level initialisation. Instead of initialising all three time levels by taking altogether three time steps (forwards and backwards), initialise only one past time level by taking one time step backwards. The remaining time level is initialised during the first time step of the evolution, which begins by cycling time levels, which drops the non-initialised last time level anyway. Update Carpet and the mode handling correspondingly. Update the CarpetIOHDF5 checkpoint format correspondingly. Update CarpetInterp, CarpetReduce, and CarpetRegrid2 correspondingly. Update CarpetJacobi and CarpetMG correspondingly.
* CarpetIOHDF5: Add commentErik Schnetter2011-12-14
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* CarpetIOHDF5: Allow different numbers of ghost zones on different levelsErik Schnetter2011-12-14
| | | | | | | Allow different numbers of ghost zones and different spatial prolongation orders on different refinement levels. This causes incompatible changes to the checkpoint file format.
* CarpetIOHDF5: Output a warning if multiple input files need to be readErik Schnetter2011-12-14
| | | | | | | Output a warning message if multiple input files need to be read from one MPI process, since this is usually very slow. When reading files from the same number of processes that wrote them, each process is only supposed to need to open one file.
* Import CarpetErik Schnetter2011-12-14
| | | | Ignore-this: 309b4dd613f4af2b84aa5d6743fdb6b3
* CarpetIOHDF5: fix a bug in the recovery of multipatch simulationsThomas Radke2009-01-19
| | | | Due to a wrong upper range in the time hierarchy initialisation loop, only maps on the coarsest refinement level were initialised. This caused an assertion failure when recovering multiple refinement levels which weren't aligned.
* CarpetIOHDF5: in case the grid structure cannot be recovered properly, abort ↵Thomas Radke2008-12-08
| | | | simulation with a proper error message (rather than just an assertion failure)
* Introduce a tree data structure to speed up domain decompositionErik Schnetter2008-06-20
| | | | | | | | | Introduce a tree data structure "fulltree", which decomposes a single, rectangular region into a tree of non-overlapping, rectangular sub-regions. Move the processor decomposition from the regridding thorns into Carpet. Create such trees during processor decomposition. Store these trees with the grid hierarchy.
* CarpetIOHDF5: Correct recovery error when Carpet::regrid_in_level_mode=noErik Schnetter2008-06-17
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* CarpetIOHDF5: Take regrid_in_level_mode into account when recoveringErik Schnetter2008-05-21
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* CarpetIOHDF5: Adapt to API change in Carpet::MakeMultigridBoxesErik Schnetter2008-02-20
| | | | darcs-hash:20080220003219-dae7b-0505c565d4989163b001ee53b1ff6577211649f1.gz
* CarpetIOHDF5: Change some CCTK_REAL to double to make HDF5 native typesErik Schnetter2008-02-19
| | | | | | | Change some CCTK_REAL variables to double, because they are read by HDF5 routines as "native double". darcs-hash:20080219052326-dae7b-0bca03938f51c0ed598e671f5278659e6e051827.gz
* CarpetIOHDF5: Use CCTK_REAL instead of long long for timing measurementsErik Schnetter2008-01-30
| | | | darcs-hash:20080130222154-dae7b-113029d4e40be633fca3253f5e2d47f656ae41ac.gz
* CarpetIOHDF5: Use new-style communication routinesErik Schnetter2008-01-30
| | | | darcs-hash:20080130221846-dae7b-08cd77d33269fc3ec8d20db87731b2b2097d5d38.gz
* CarpetIOHDF5: workaround for excessive HDF5-internal memory requirements ↵tradke2007-10-19
| | | | | | | | | | | | | | | | | | | | | | | during recovery Various people had reported problems of running out of memory when recovering from multiple chunked checkpoint files. It turned out that the HDF5 library itself requires a considerable amount of memory for each opened HDF5 file. When all chunked files of a checkpoint are opened at the same time during recovery (which is the default) this may cause the simulation to abort with an 'out of memory' error in extreme cases. This patch introduces a new steerable boolean parameter IOHDF5::open_one_input_file_at_a_time which, if set to "yes", will tell the recovery code to open/read/close chunked files one after another for each refinement level, thus avoiding excessive HDF5-internal memory requirements due to multiple open files. The default behaviour is (as before) to keep all input files open until all refinement levels are recovered. darcs-hash:20071019091424-3fd61-834471be8da361b235d0a4cbf3d6f16ae0b653f0.gz
* CarpetIOHDF5: fix memory leak in recovery codetradke2007-10-18
| | | | | | | The new code to collect I/O timing statistics introduced a memory leak while accumulating the number of bytes transfered. darcs-hash:20071018115734-3fd61-e087a4ad1c8fdcf8a59320b71f90b92e9fd850de.gz
* CarpetIOHDF5: Correct inconsistency in tracking I/O timingErik Schnetter2007-10-04
| | | | darcs-hash:20071004024754-dae7b-2096582f0b63bd0521d41e3eea01e74f7962bf79.gz
* CarpetIOHDF5: Record time spent in I/OErik Schnetter2007-10-03
| | | | darcs-hash:20071003194857-dae7b-d8bb68e9c4ee52559fea874b3f80a57eebf9650f.gz
* CarpetIOHDF5: Initialise list of variables which need to be synchronisedErik Schnetter2007-08-23
| | | | | | | Initialise the list of variables which need to be synchronised after recovery correctly. darcs-hash:20070823210422-dae7b-31da5366355d1bfbea2e4181b8639c5b4e6caf0c.gz
* CarpetIOHDF5: Synchronise after recoveringErik Schnetter2007-06-08
| | | | | | | Synchronise the recovered grid functions. This removes the need for calling the postregrid bin after recovering. darcs-hash:20070608201848-dae7b-4d2044344f7e8e9a30ca60780199f2906a58d957.gz
* CarpetIOHDF5: Say "simulation time" instead of "physical time"Erik Schnetter2007-05-23
| | | | darcs-hash:20070523204447-dae7b-364638404dec31fbf3f0db103d930fc60c13ad65.gz
* CarpetIOHDF5: Output unsuccessful file names when reading initial dataErik Schnetter2007-05-23
| | | | | | | | | When no files can be found when reading initial data from files, then output all files names that were tried. Since the file names are constructed dynamically, this makes it easier to find errors in parameter files. darcs-hash:20070523204234-dae7b-676f945408731a162d2795ab2559b012eaf4fcaf.gz
* CarpetIOHDF5: Checkpoint and restore each level's current timeErik Schnetter2007-04-19
| | | | darcs-hash:20070419021113-dae7b-baa8e7a012bddab40246f9485d5b3987fd7dc587.gz
* CarpetIOHDF5: Adapt to region_t changesErik Schnetter2007-01-12
| | | | | | | | Adapt to region_t changes. Use the type region_t instead of gridstructure_t. This is an incompatible change to the format of HDF5 files. darcs-hash:20070112223732-dae7b-9f2527492cffa6f929a9dd32604713267621d7fb.gz
* CarpetIOHDF5: Do not use "map" as local variable nameErik Schnetter2007-01-12
| | | | | | | | Use "m" instead of "map" as local variable name. Remove "Carpet::" qualifier in front of variable "maps". darcs-hash:20070112224022-dae7b-0c5241b73c1f4a8ff4722e04bc70ed047d6158da.gz
* CarpetIOHDF5: Use new regridding API when recoveringErik Schnetter2006-09-25
| | | | darcs-hash:20060925220348-dae7b-303594fd2b999c93d2b816a9d3f11d0d97e391c2.gz
* CarpetIOHDF5: Cast size_t to int explicitlyErik Schnetter2006-09-25
| | | | darcs-hash:20060925220323-dae7b-040ddfb0afc83c15cd4802fe26fe4822826a2e8a.gz
* CarpetIOHDF5: fix bug in deletion of recovery fileThomas Radke2006-06-26
| | | | | | | | | | | Due to bug in my previous patch, the logic for removing the checkpoint file after successful recovery was wrong: it was removed if IO::recover_and_remove was set to "false". This patch fixes this bug by reversing the logic. Thanks to Ian Hinder for noticing this and presenting the fix. darcs-hash:20060626162548-776a0-8d3ebc0c43a74cb3faa892aa2a410e13bb37825e.gz
* CarpetIOHDF5: evaluate IO::recover_and_remove parameterThomas Radke2006-06-07
| | | | | | | If IO::recover_and_remove is set, the recovery file will also be removed after IO::checkpoint_keep successful checkpoints have been written. darcs-hash:20060607102431-776a0-92edd93f6dc004ab824b237fbd03ee732f7a3841.gz
* CarpetIOHDF5: don't try to recover variables in groups which have no grid ↵Thomas Radke2006-05-12
| | | | | | points (zero size) darcs-hash:20060512115514-776a0-dba29d6e31a12d4cff6772e69bd1ef54e3aa2d8b.gz
* CarpetIOHDF5: fix the HDF5 library version test when determining the ↵Thomas Radke2006-05-11
| | | | | | | | | datatype for H5Sselect_hyperslab() arguments This patch lets you compile CarpetIOHDF5 also with HDF5-1.8.x (and future versions). darcs-hash:20060511172957-776a0-acbc1bd6b8d92223c0b52a43babf394c0ab9b0f4.gz
* CarpetIOHDF5: Correct handling of "use_grid_structure_from_checkpoint"Erik Schnetter2006-05-08
| | | | | | | Correct errors in the handling of the parameter "use_grid_structure_from_checkpoint". darcs-hash:20060508193609-dae7b-c5cf907171eb31e8298669cf4bd4aa03f2c79429.gz
* CarpetIOHDF5: Add parameter "use_grid_structure_from_checkpoint"Erik Schnetter2006-04-13
| | | | | | | | | | | Add a parameter "use_grid_structure_from_checkpoint" that reads the grid structure from the checkpoint file, and sets up the Carpet grid hierarchy accordingly. The Carpet grid hierarchy is written unconditionally to all checkpoint files. darcs-hash:20060413202124-dae7b-f97e6aac2267ebc5f5e3867cbf78ca52bbd33016.gz
* CarpetIOHDF5: better optimisation during recoveryThomas Radke2006-02-17
| | | | | | | | | When recovering from a checkpoint, each processor now continuously reads through all chunked files until all grid variables on this processor have been fully recovered. This should always minimise the number of individual checkpoint files necessary to open on each processor. darcs-hash:20060217160928-776a0-28c076749861c0b26d1c41a6f4ef3bdb00c23274.gz
* CarpetIOHDF5: more efficient recovery with same number of processorsThomas Radke2006-02-12
| | | | | | | | This patch introduces some optimisation for the case when recovering with the same number of processors as used during the checkpoint: each processor opens only its own chunked file and reads its metadata, skipping all others. darcs-hash:20060212200032-776a0-3dd501d20b8efb66faa715b401038218bb388b4f.gz
* CarpetIOHDF5: fix declaration of scheduled routineThomas Radke2006-02-09
| | | | | | | | | | | | The scheduled routine CarpetIOHDF5_CloseFiles() was declared to return an int and take no arguments. Instead it must be declared to take a 'const cGH* const' argument. It should also return void. See http://www.cactuscode.org/old/pipermail/developers/2006-February/001656.html. This patch also fixes a couple of g++ warning about signed-unsigned integer comparisons. darcs-hash:20060209165534-776a0-24101ebd8c09cea0a9af04acc48f8e2aa2961e34.gz
* CarpetIOHDF5: bugfix for writing checkpointsThomas Radke2006-02-06
| | | | | | | | Accumulate any low-level errors returned by HDF5 library calls and check them after writing a checkpoint. Do not remove an existing checkpoint if there were any low-level errors in generating the previous one. darcs-hash:20060206183846-776a0-549e715d7a3fceafe70678aaf1329052dce724bb.gz
* CarpetIOHDF5: fix warnings about incompletely read variablesThomas Radke2006-02-01
| | | | | | | | When the filereader was used, CarpetIOHDF5 still checked all grid variables whether they had been read completely from a datafile, even those which weren't even specified in the IO::filereader_ID_vars parameter. darcs-hash:20060201174945-776a0-faa9fe295ef273ffd38308bbda7fde092503513c.gz
* CarpetIOHDF5: fix recovery of multiple map grid variablesThomas Radke2006-01-20
| | | | | | | | | | | The recovery code didn't properly recover grid functions with multiple maps: all maps were initialised with the data from map 0. This patch fixes the problem so that checkpointing/recovery should work now also for multipatch applications. The patch only affects recovery code, meaning it will also work with older checkpoint files. darcs-hash:20060120164515-776a0-68f93cb5fb197f805beedfdc176fd8da9b7bfc49.gz
* CarpetIOHDF5: Remove unused local variable in Input.ccErik Schnetter2005-11-19
| | | | darcs-hash:20051119212959-dae7b-d50e2cc4c8a980720b44cfafd9504eb201e3aa8b.gz
* CarpetIOHDF5: bugfix in recovery codeThomas Radke2005-11-20
| | | | | | | | Before reading a variable from a dataset, also check that its timelevel is valid. This fixes problems when recovering from a checkpoint (created with 'Carpet::enable_all_storage = true') and this boolean parameter set to 'false'. darcs-hash:20051120134642-776a0-4fe21611ca733ecb42f8e2a82bfa1fe51a5d9e81.gz
* CarpetIOHDF5: fixed a problem with IOHDF5::use_reflevels_from_checkpoint = ↵Thomas Radke2005-09-06
| | | | | | | | | | | "yes" during recovery When IOHDF5::use_reflevels_from_checkpoint is set, the parameter CarpetLib::refinement_levels is steered to take the number of levels found in the checkpoint. This steering used to happen during parameter recovery where it didn't have any effect if the parameter had been set in the parfile already. Now it's done in a separate routine scheduled at STARTUP. darcs-hash:20050906140808-776a0-bae608c103b161ac67690da2a8803bdff84cf2f4.gz
* CarpetIOHDF5: optimise I/O accesses for the case when all processors recover ↵Thomas Radke2005-07-28
| | | | | | | | | | | | | | from a single chunked checkpoint file The list of HDF5 datasets to process is now reordered so that processor-local components are processed first. When processing the list of datasets, only those will be reopened from which more data is to be read. The check when a variable of a given timelevel has been fully recovered was improved. This closes http://bugs.carpetcode.org/show_bug.cgi?id=87 "Single-file, many-cpu recovery very slow". darcs-hash:20050728122546-776a0-21dfceef87e12e72b8a0ccb0911c76066521e192.gz
* CarpetIOHDF5: implement parallel I/OThomas Radke2005-06-24
Like CactusPUGHIO/IOHDF5, CarpetIOHDF5 now also provides parallel I/O for data and checkpointing/recovery. The I/O mode is set via IOUtils' parameters IO::out_mode and IO::out_unchunked, with parallel output to chunked files (one per processor) being the default. The recovery and filereader interface can read any type of CarpetIOHDF5 data files transparently - regardless of how it was created (serial/parallel, or on a different number of processors). See the updated thorn documentation for details. darcs-hash:20050624123924-776a0-5639aee9677f0362fc94c80c534b47fd1b07ae74.gz
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