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* Replace Cactus complex number type with C/C++ complex numbersHEADmastereschnett2013-03-08
| | | | | | | | | | | | | | | | Map CCTK_COMPLEX to "double complex" in C, and "complex<double>" in C++. (It is already mapped to "double complex" in Fortran.) Update type definitions. Re-implement Cactus complex number math functions by calling the respective C functions. Update thorn that access real and imaginary parts of complex numbers to use standard-conforming methods instead. git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@165 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Remove unused variableeschnett2012-11-22
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@164 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Correct format stringeschnett2012-11-22
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@163 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Move MPI support from flesh to a thorneschnett2012-07-21
| | | | | | | | | | Move MPI support from flesh to thorn ExternalLibraries/MPI. This also requires thorns that call MPI directly to declare this in their configuration.ccl. Existing configurations using MPI need to include ExternalLibraries/MPI into their thorn list. git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@160 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Add missing #includeeschnett2012-07-21
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@159 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Correct signatures of scheduled functionseschnett2011-01-21
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@153 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* IOHDF5Util: Adapt to the new parsing API in IOUtilschnetter2009-12-05
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@148 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Remove empty fileschnetter2009-09-24
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@147 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Require capability HDF5 via configuration.ccl instead of checking itsschnetter2009-09-24
| | | | | | | presence in the makefile git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@146 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Include Licence in READMEknarf2009-01-27
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@142 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Unify README file formatknarf2009-01-26
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@141 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* use correct latex package in documentationknarf2009-01-22
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@140 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* #include <strlen.h>schnetter2008-12-18
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@139 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* use collective transfers when writing datasets using parallel HDF5tradke2008-10-28
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@138 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Choose HDF5 1.6 API when compiled with HDF5 1.8.schnetter2008-01-15
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@137 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* bugfix: return the correct number of recovered variables also on non-I/O ↵tradke2007-06-28
| | | | | | processors git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@136 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* declare parameters before using them in function WriteDataCollective().tradke2007-01-04
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@135 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Implement variable-specific output request option 'compression_level'tradke2006-11-17
| | | | | | | | | | | | | | | | so that users can specify eg. IOHDF5Util::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 modification also requires an update of thorn CactusBase/IOUtil. git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@134 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Make only optional use of aliased function Coord_GroupSystem().tradke2006-10-04
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@133 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Do not checkpoint groups tagged with 'CHECKPOINT = "no"' in their interface.ccltradke2006-09-11
| | | | | | | definition. git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@132 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Fix datatype of the 'origin' argument in H5Sselect_hyperslab() calls.tradke2006-06-15
| | | | | | | This has changed after HDF5-1.6.3. git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@131 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Correct email address in copyright statement.schnetter2005-10-22
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@130 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Fixed small memory when using Util_snprintf().tradke2005-07-26
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@127 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Use CCTK_BYTE instead of CCTK_CHAR.schnetter2005-01-29
| | | | | | | | Store CCTK_BYTE as HDF5_NATIVE_UCHAR instead of HDF5_NATIVE_CHAR. Store CCTK_INT1 as HDF5_NATIVE_SCHAR instead of HDF5_NATIVE_CHAR. git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@126 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Slightly reworded error message when Cactus wasn't configured with HDF5=yes.tradke2004-11-08
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@125 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Test the makefile variable HDF5_LFS_FLAGS to check for HDF5 LFS support.tradke2004-11-08
| | | | | | | This makefile variable is set by the Cactus HDF5 configure script. git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@124 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Adding missing copyright files to all thorns and making themgoodale2004-11-02
| | | | | | | consistent. git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@122 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Fixed a memory leak during checkpointing.tradke2004-11-02
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@121 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Include "util_Table.h".tradke2004-05-10
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@119 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Use aliased function Coord_GroupSystem().tradke2004-05-10
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@118 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Remove calls to deprecated CCTK_Coord*() routines and use aliased functionstradke2004-05-08
| | | | | | | from CoordBase instead. git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@117 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Fixed declaration of Hyperslab_GetList() which was mismatching with itstradke2004-05-05
| | | | | | | prototype in PUGHSlab. git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@116 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Fixed check for HDF5.tradke2004-04-29
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@115 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Inherit from IO.tradke2004-04-28
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@114 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* IOHDF5Util doesn't need to inherit from Hyperslab anymore.tradke2004-04-23
| | | | | | | Instead it REQUIRES the hyperslab functions to be provided. git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@113 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Clean up the check for HDF5schnetter2004-04-10
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@112 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Do not require Hyperslab any more.schnetter2004-04-02
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@111 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Use the capability Hyperslab instead of inheriting from theschnetter2004-04-01
| | | | | | | implementation Hyperslab. git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@110 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Updated configuration.ccl files. In Beta14 some of these willgoodale2004-03-27
| | | | | | | | | | | | | | disappear as function aliasing will be updated to have aliased functions either be optional or required, as opposed to optional as they are at the moment. This will thus remove the configuration.ccl files which are merely there to ensure that certain aliased functions are actually provided. Also far more stuff will be done via function aliasing which should remove some more of these dependencies. Tom git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@108 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Do not check for PUGH, because this is handled by theschnetter2004-03-10
| | | | | | | configuration.ccl file. git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@107 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Write all the Cactus parameters into a dataset rather than a single stringtradke2004-02-04
| | | | | | | | attribute. This fixes a problem with very many parameters to dump as HDF5 has a 16k size limit on attributes. git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@106 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Renamed some aliased hyperslab functions to comply with the maximum lengthtradke2004-01-22
| | | | | | | | | | | | | | for names of Fortran routines (31 characters): Hyperslab_DefineGlobalMappingByPhys -> Hyperslab_GlobalMappingByPhys Hyperslab_DefineGlobalMappingByIndex -> Hyperslab_GlobalMappingByIndex Hyperslab_DefineLocalMappingByPhys -> Hyperslab_LocalMappingByPhys Hyperslab_DefineLocalMappingByIndex -> Hyperslab_LocalMappingByIndex Also renamed the providing functions accordingly. git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@105 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* When looping over all groups for checkpointing: skip groups with no variablestradke2003-11-24
| | | | | | | | attached to them (eg. vector groups with vector length 0) and zero-sized groups (grid arrays with SIZE=<parameter> and parameter = 0). git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@104 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Correct inter-thorn dependencies.schnetter2003-11-19
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@103 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* For checkpointing: set the with_ghostzones flag in the ioRequest structure ↵tradke2003-11-17
| | | | | | | | | to true. Note: you will need to update IOUtil also. git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@102 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Be backwards compatible for group type codes when reading old checkpoint files.schnetter2003-10-29
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@101 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Change the way in which pointers are passed to and from Fortran.schnetter2003-10-28
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@100 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Fixed a problem with recovering small distributed grid arraystradke2003-10-24
| | | | | | | which have zero size on some processors. git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@99 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Fix for recovery of grid scalars: their rank should be compared against 0 now.tradke2003-10-23
| | | | git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@98 7842ec3a-9562-4be5-9c5b-06ba18f2b668
* Introduce the new Cactus variable type CCTK_INT1.schnetter2003-10-13
| | | | | | | Extend routines to handle the new type. git-svn-id: http://svn.cactuscode.org/arrangements/CactusPUGHIO/IOHDF5Util/trunk@97 7842ec3a-9562-4be5-9c5b-06ba18f2b668
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