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* bugfix: remove correct key from options list table in routine SetOutputVar()tradke2009-05-18
| | | | | | | | so that no false warning is issued anymore about an option with unrecognized key 'reductions' git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@270 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* extend IOUtil_ParseVarsForOutput() to parse an options string for a list oftradke2009-04-21
| | | | | | | | reductions (to be used in scalar output methods) This applies patch http://www.cactuscode.org/old/pipermail/patches/2009-April/000259.html. git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@269 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* preallocate buffer in IOUtil_GetAllParameters(), to prevent too many subsequenttradke2008-10-17
| | | | | | | reallocs which may cause unnecessary memory fragmentation git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@261 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Change level 1 warning about non-existing directory to info messageschnetter2008-02-29
| | | | | | | when "autoprobe" is used git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@258 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Correct signatures of scheduled functionsschnetter2008-02-29
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@257 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Correct signatures of scheduled functionsschnetter2008-02-29
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@256 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Correct small (probably inconsequential) memory leak in recoveryschnetter2008-02-15
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@255 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Explicitly convert size_t to intschnetter2008-01-28
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@254 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* check for a valid cctkGH pointer passed into IOUtil_RecoverVarsFromDatafiles()tradke2007-06-01
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@253 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Implement variable-specific output request option 'compression_level'tradke2006-11-17
| | | | | | | | | | | | | | | | so that users can specify eg. IOHDF5::compression_level = 1 IOHDF5::out_vars = "admbase::metric admconstraints::hamiltonian admbase::lapse{ compression_level = 0 }" to request HDF5 dataset compression for every output variable except for the lapse. This is currently supported only by PUGH's and Carpet's HDF5 I/O thorns. git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@250 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Make only optional use of aliased function Coord_GetDefaultSystem().tradke2006-10-04
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@249 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Fixed a small memory leak in evaluation of option strings of I/O parameters.tradke2006-09-04
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@248 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Properly encode/decode non-printable characters as 3-digit octal numberstradke2006-08-30
| | | | | | | | in a parameter string to be checkpointed/recovered. Thanks to Erik Schnetter for this patch. git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@247 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* In DecodeString, convert char to unsigned char before printing it asschnetter2006-08-25
| | | | | | | | | | integer. This ensures that there are no negative numbers. Check for errors, and clean up and emit a warning and return NULL in such a case. git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@246 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* When encoding a non-printable character in a string, create aschnetter2006-08-25
| | | | | | | | zero-padded escape sequence ("\010") instead of a blank-padded one ("\ 10"). git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@245 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Have IOUtil_GetAllParameters() encode parameter values before concatenatingtradke2006-08-25
| | | | | | | | | | | "<parameter> = <value>" pairs by a newline delimiter, and its complement IOUtil_SetAllParameters() do the reverse. This fixes problems with checkpointing/recovery when parameter values themself contained newlines. git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@244 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Create the default output directory on all processors if IO::out_mode isn't settradke2006-07-03
| | | | | | | to "onefile". git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@243 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Fix evaluation of IO::truncate_files_after_recovering and IO::truncate_filestradke2006-06-08
| | | | | | | paramters in IO_TruncateOutputFiles(). git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@242 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Introduce new boolean parameter IO::truncate_files.tradke2006-05-11
| | | | | | | | | | | | | | | | | Currently Cactus always truncates existing output files unless the simulation has been recovered from a checkpoint (in which case existing output files will get appended unless the parameter IO::truncate_files_after_recovering is set to true). Christian Ott requested that it should also be possible to always append new datasets to existing output files. The new boolean I/O parameter IO::truncate_files implements that. Its default value is true, preserving the existing Cactus behaviour. This applies patch http://www.cactuscode.org/old/pipermail/patches/2006-May/000169.html. git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@240 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Introduce new boolean parameter IO::require_empty_output_directorytradke2006-05-11
| | | | | | | | | | | | | | | | which can be used to test if IO::out_dir points to either a non-existing or empty directory at simulation startup. If this parameter is set to "yes" and an already existing IO::out_dir is found to have any contents (eg. output files from a previous simulation which was using the same output directory) Cactus will print an appropriate error message and abort, as opposed to continuing and (potentially by accident) overwriting existing files. The default for IO::require_empty_output_directory is "no". This applies patch http://www.cactuscode.org/old/pipermail/patches/2006-May/000168.html. git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@239 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Remove old unused test code.tradke2006-05-08
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@238 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Auto-recovery from an unchunked checkpoint file got broken in my last commit.tradke2006-02-13
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@237 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* When searching for a list of checkpoint files in recovery modetradke2006-02-13
| | | | | | | | | | | | IO::recover = "{auto|autoprobe}": check for a '.file_<processor>' suffix for chunked output files (and not only for '.file_0' as processor 0's output). This allows for recovery from a chunked checkpoint in auto mode even if not all the chunked checkpoint files are visible to all processors (eg. if the checkpoint directory is local on a compute node on a cluster). git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@236 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* The general routine to parse the value of IO*::out_vars parameters now alsotradke2005-10-05
| | | | | | | | | checks for the option "out_unchunked = 'true|false|yes|no'" which can be used to overwrite the general output mode (as defined by IO::out_unchunked) on a per-variable basis. git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@230 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Check for valid variable index in IOUtil_DefaultIORequest().tradke2005-07-25
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@228 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Set the default slice centre for 1D/2D output to be the centre of the boxtradke2005-06-16
| | | | | | | if the user specified invalid values in the parfile. git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@226 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Parse option "refinement_levels" in an I/O parameter option string.tradke2005-02-04
| | | | | | | | If specified, it must be an array of positive integers selecting individual refinement levels to output. git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@223 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Do not recover accumulator parameters.tradke2005-01-13
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@222 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Add missing #include <stdio.h> statementschnetter2004-12-29
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@221 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Decreased warning level for "existing parameter file will not be overwritten"tradke2004-12-08
| | | | | | | messages from 1 to 2. git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@220 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Provide an aliased function IO_TruncateOutputFiles() for other I/O thornstradke2004-11-17
| | | | | | | | | to check whether or not to truncate existing output files. The default is to not truncate after recovering. This can be overwritten by the new boolean parameter IO::truncate_files_after_recovering. git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@219 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Removed definition of deprecated routine IOUtil_PrepareFilename().tradke2004-11-15
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@218 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Changed non-standard snprintf to Cactus Util_snprintf for portability.goodale2004-10-29
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@216 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* assert fixyye002004-08-12
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@215 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Erik preferred filereader_ID_dir to filereader_dirswhite2004-07-28
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@214 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Added new parameter IO::filereader_dirswhite2004-07-28
| | | | | | | | | | | | See bug 1809 doc/documentation.tex: Ran through spellchecker Fixed a little grammar Changed square brackets to curly ones in doc for filereader_ID_vars git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@213 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Added new routine IOUtil_AssembleFilename() to generate a checkpoint/filereadertradke2004-06-30
| | | | | | | | | | | filename and returns the pointer to that (allocated) string. This routine is meant to replace IOUtil_PrepareFilename() which is now marked as deprecated. This closes PR IO/1791: "IOUtil_PrepareFilename does not check buffer length". git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@212 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Don't generate separate checkpoint filenames for different refinement levels.tradke2004-06-28
| | | | | | | PUGH doesn't care, and Carpet stores everything into a single checkpoint file. git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@211 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Parse the 'IO::filereader_ID_vars' parameter for invalid variable/group names.tradke2004-06-23
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@210 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Extended API for IOUtil_ParseOutputFrequency() and IOUtil_ParseVarsForOutput()tradke2004-06-09
| | | | | | | | by a flag parameter indicating whether to stop on parsing errors. Requires cvs updates of all I/O thorns using this API. git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@209 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Fixed wrong defaults for 2D slice center setup.tradke2004-06-01
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@207 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Fixed a bug in the 1D line / 2D slice center setup.tradke2004-05-14
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@206 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Call aliased function Coord_GetDefaultSystem() to get the default coordinatetradke2004-05-09
| | | | | | | | | system for setting up 1D line and 2D slice centers. This closes PR IO/1681: "IOUtil still uses the old CCTK_Coord functions rather than the CoordBase functions". git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@204 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Add a check 'with_ghostzones' to the ioRequest structure and initialize ittradke2003-11-17
| | | | | | | to 0 by default. git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@196 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Change the way in which pointers are passed to and from Fortran.schnetter2003-10-28
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@195 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Don't call CCTK_GroupgshVI() on grid scalar variables.tradke2003-10-27
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@194 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Fix for the recovery of parameters: use CCTK_ActivatingThorn() to find thetradke2003-09-04
| | | | | | | thorn which actually provides an activated implementation. git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@193 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Evaluate the 'IO::verbose' parameter as a keyword (not as boolean).tradke2003-06-25
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@191 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Fixed IOUtil_1DLines() and IOUtil_2DPlanes() to setup slice centers even iftradke2003-06-12
| | | | | | | | | no coordinate system is available but slice index coordinates were specified by the user instead. This closes PR CactusBase/1536. git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@190 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
* Changed the recovery function registry to use a table to store function pointerstradke2003-03-26
| | | | | | | | | rather than a cHandledData data structure (which can store only 'void *' pointers). This prevents potential problems on platforms where function pointers have a different memory representation than data pointers. git-svn-id: http://svn.cactuscode.org/arrangements/CactusBase/IOUtil/trunk@187 b32723a9-ab3a-4a60-88e2-2e5d99d7c17a
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