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* Added another missing override keyword on a dtor (#1384)Sean McBride2022-01-291-1/+1
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* Fixed Spelling Errors (#1166)Scot Breitenfeld2021-12-071-1/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | * fixed missed closing of a dataset * fixed missed closing of a dataset * fixed typo in error return * Committing clang-format changes * minor edits * code format * Committing clang-format changes * code format * minor edit * switched from using MPI_count, to actual bytes written for H5FD_mpio_debug rw debugging * Committing clang-format changes * changed size_i in printf to reflect the I/O. * Committing clang-format changes * Fixed seg fault with xlf on BE with -qintsize=8 * fixed error function string * spelling corrections via codespell, added new spell check github actions * Committing clang-format changes * misc * misc * misc * misc * misc * misc * misc * misc * misc * misc * misc * misc * misc * misc * Committing clang-format changes * misc * misc * misc * misc * misc * misc * Committing clang-format changes * misc * work around for https://github.com/codespell-project/codespell/issues/2137 * misc * added missing file * misc * misc. * misc * switch to using Codespell with GitHub Actions * misc. * misc. * fixed more sp errors * Fix new typos found by codespell. * fixed proceed with precede * fixed variable in fortran test * fixed minnum * updated spelling list Co-authored-by: github-actions <41898282+github-actions[bot]@users.noreply.github.com> Co-authored-by: Larry Knox <lrknox@hdfgroup.org>
* Fixed many -Wreserved-id-macro warnings by fixing header guard spelling (#361)Sean McBride2021-02-231-3/+3
| | | | | | | | | | | | | | | | * Fixed many -Wreserved-id-macro warnings by fixing header guard spelling Removed leading underscore(s) from header guard spelling. Used 2 regexes: ` _H5(.*)_H` ` __H5(.*)_H` Applied case-insensitively to only .h files. * Modified scripts that generate header files to not use underscore prefix Interestingly, there was already no leading underscore in the trailing comment at the end of the file * Fixed remaining -Wreserved-id-macro warning not caught by regex
* Update license url part2 (#333)Larry Knox2021-02-171-1/+1
| | | | | | * Modify temporary rpath for testing in java example scripts. * Update URL in source file Copyright headers for web copy of COPYING file - files not in src or test.
* Clang-format of source filesAllen Byrne2020-09-301-291/+284
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* Trim trailing whitespaceQuincey Koziol2020-04-201-1/+1
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* Squashed commit of the token_refactoring branch:Dana Robinson2020-01-161-7/+28
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* Fixed typosBinh-Minh Ribler2018-07-231-1/+1
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* Added class DSetAccPropListBinh-Minh Ribler2018-07-221-5/+10
| | | | | | | | | | | | | | | | | | | | | | | | | | | | Description: - Added class DSetAccPropList for the dataset access property list. - Added wrapper for H5Dget_access_plist to class DataSet // Gets the access property list of this dataset. DSetAccPropList getAccessPlist() const; - Added wrappers for H5Pset_chunk_cache and H5Pget_chunk_cache to class DSetAccPropList // Sets the raw data chunk cache parameters. void setChunkCache(size_t rdcc_nslots, size_t rdcc_nbytes, double rdcc_w0) // Retrieves the raw data chunk cache parameters. void getChunkCache(size_t &rdcc_nslots, size_t &rdcc_nbytes, double &rdcc_w0) - Added two more arguments to H5Location::createDataSet: const DSetAccPropList& dapl = DSetAccPropList::DEFAULT const LinkCreatPropList& lcpl = LinkCreatPropList::DEFAULT - Added one more argument to H5Location::openDataSet: const DSetAccPropList& dapl = DSetAccPropList::DEFAULT Platforms tested: Linux/64 (jelly) Linux/32 (jam) Darwin (osx1010test)
* Code improvementBinh-Minh Ribler2018-07-211-1/+22
| | | | | | | | | | | Description: Moved the new H5Object::getInfo member functions to H5Location and made them overloaded with the existing H5Location::getObjinfo. This way is cleaner than the previous approach. Platforms tested: Linux/64 (jelly) Linux/32 (jam) Darwin (osx1010test)
* HDFFV-10149 continuedBinh-Minh Ribler2018-03-121-5/+81
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Description: - Moved the new wrappers committed on Mar 9: 43158f3bb352f374c31556a5d0dc463a09e0b32e to H5Location and renamed some of them for overloading. This is because the loc_id in the C APIs can be file, group, dataset, named datatype, and attribute. Previous implementation was wrong following some inaccurate C API reference manual. - Only the following wrappers are modified or added: + H5Lcreate_soft: changed name from newLink to link // Creates a soft link from link_name to target_name. void link(const char *target_name, const char *link_name,...) void link(const H5std_string& target_name,...) + H5Lcreate_hard: changed name from newLink to link // Creates a hard link from new_name to curr_name. void link(const char *curr_name, const Group& new_loc,...) void link(const H5std_string& curr_name, const Group& new_loc,...) // Creates a hard link from new_name to curr_name in same location. void link(const char *curr_name, const hid_t same_loc,...) void link(const H5std_string& curr_name, const hid_t same_loc,...) + H5Ldelete: modified existing functions to add 2nd argument // Removes the specified link from this location. void unlink(const char *link_name, const LinkAccPropList& lapl = LinkAccPropList::DEFAULT) void unlink(const H5std_string& link_name, const LinkAccPropList& lapl = LinkAccPropList::DEFAULT) - copyLink and moveLink were only moved from Group to H5Location, no change - Added class LinkCreatPropList - Added overloaded functions H5Location::createGroup to take a link creation property list Group createGroup(const char* name, const LinkCreatPropList& lcpl) Group createGroup(const H5std_string& name, const LinkCreatPropList& lcpl) - Added wrapper for H5Lget_info() to H5Location H5L_info_t getLinkInfo(const H5std_string& link_name,...) Platforms tested: Linux/64 (jelly) Linux/ppc64 (ostrich) Darwin (osx1010test)
* Various code cleanupBinh-Minh Ribler2017-12-041-0/+5
| | | | | | | | | | | Description: - Replaced H5Location::exists with H5Location::nameExists and marked H5Location::exists as deprecated. - Miscellaneous test cleanup for consistency. Platforms tested: Linux/32 2.6 (jam) Linux/64 (jelly) Darwin (osx1010test)
* Miscellaneous code cleanupBinh-Minh Ribler2017-09-151-7/+2
| | | | | | | | | | | | | Description: - Removed two inadvertently-added Group constructors in the header file. There was no implementation. - Removed deprecated H5Location and H5Object constructors that take an existing ID. - Miscellaneous improvements in comments, including updating URLs. Platforms tested: Linux/32 2.6 (jam) Linux/64 (jelly) Darwin (osx1010test)
* New overloaded functions and testsBinh-Minh Ribler2017-09-121-3/+3
| | | | | | | | | | | | | | | Description: - Added VarLenType::VarLenType(const DataType& base_type) - Marked VarLenType::VarLenType(const DataType* base_type) deprecated - Added a static wrapper for H5Tdetect_class for PredType static bool DataType::detectClass(const PredType& pred_type, ...) - Removed the deprecated function Exception::printError() from code - Miscellaneous improvements in comments - Added test functions test_detect_type_class() and test_vltype() Platforms tested: Linux/32 2.6 (jam) Linux/64 (jelly) Darwin (osx1010test)
* Miscellaneous improvements (cont.)Binh-Minh Ribler2017-08-251-0/+4
| | | | | | | | | Description: Put back H5Location::getNumObjs and marked as deprecated in favor of Group::getNumObjs. Platforms tested: Linux/32 2.6 (jam) Darwin (osx1010test)
* Miscellaneous improvementsBinh-Minh Ribler2017-08-241-3/+0
| | | | | | | | | | | Description: Moved H5Location::getNumObjs to Group::getNumObjs (i.e., H5Gget_info) Switched reinterpret_cast to static_cast in H5Object::iterateAttrs Miscellaneous cleanup Platforms tested: Linux/32 2.6 (jam) Linux/64 (platypus) Darwin (osx1010test)
* Merge pull request #426 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:hdf5_1_10 to ↵Larry Knox2017-04-251-6/+4
| | | | | | | | | | hdf5_1_10 * commit '54957d37f5aa73912763dbb6e308555e863c43f4': Commit copyright header change for src/H5PLpkg.c which was added after running script to make changes. Add new files in release_docs to MANIFEST. Cimmit changes to Makefile.in(s) and H5PL.c that resulted from running autogen.sh. Merge pull request #407 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:hdf5_1_10_1 to hdf5_1_10_1 Change copyright headers to replace url referring to file to be removed and replace it with new url for COPYING file.
* Description:Binh-Minh Ribler2017-03-211-0/+1
| | | | | | | | | Fixed typos and missing items in function headers, that were revealed by Doxygen, and revised various comments. Platforms tested: Linux/32 2.6 (jam) Linux/64 (platypus) Darwin (osx1010test)
* Description:Binh-Minh Ribler2017-03-171-2/+2
| | | | | | | Miscellaneous clean-up: format and comments Platforms tested: Linux/64 (jelly) Darwin (osx1010test)
* Description:Binh-Minh Ribler2017-03-031-149/+149
| | | | | | Only format changes: mostly tabs vs. spaces Platforms tested: Linux/64 (jelly) - very minor
* Purpose: Add new wrappersBinh-Minh Ribler2016-12-281-7/+5
| | | | | | | | | | | | | | Description: Added wrappers H5Location::exists() for H5Lexists. Added wrapper H5Object::objVersion() to return the header version of an HDF5 object. Added new class LinkAccPropList to be used by H5Location::exists() Added new exception: ObjHeaderIException for H5Object::objVersion() Rearranged source files in Makefile.am Platforms tested: Linux/32 2.6 (jam) Linux/64 (platypus) Darwin (osx1010test)
* Purpose: Improvement for HDFFV-10004Binh-Minh Ribler2016-12-191-34/+9
| | | | | | | | | | | | | | | | | | | | | Description: When adding wrappers for H5Lexists, a new class, LinkAccPropList, was added to the C++ API, triggered complicated circular dependencies. Thus, some improvement was made to resolve the problems. - Replaced existing functions openXxxType with individual type constructors + Added individual XxxType constructors to replace the existing functions openXxxType because it's rather awkward to use these functions. + Moved openXxxType from H5Location back to CommonFG + Put back CommonFG as a baseclass of Group for openXxxType functions. + This replacement should improve usability and prevent the problem of circular dependencies. - Removed overloaded constructor that takes an Attribute when there is already one that takes H5Location because Attribute inherits from H5Location now. Platforms tested: Linux/32 2.6 (jam) Darwin (osx1010test) Linux/64 (platypus)
* Description:Binh-Minh Ribler2016-10-191-4/+0
| | | | | | | | | | | | Removed obsolet macros from C++ API: H5_NO_NAMESPACE, H5_NO_STD, __cplusplus Leave OLD_HEADER_FILENAME because iostream.h might still be in use, until further checking is done. Platforms tested: Linux/32 2.6 (jam) Linux/64 (platypus) Darwin (osx1010test) Jelly
* Description:Binh-Minh Ribler2016-10-121-3/+0
| | | | | | | | Fixed typo that caused daily test failed when --enable-deprecated-symbols is used. Also, removed a commented-out function. Platforms tested: Linux/32 2.6 (jam) Linux/64 (platypus) with --enable-deprecated-symbols
* Purpose: Updated documentationBinh-Minh Ribler2016-09-271-23/+7
| | | | | | | | | Description: Revised class brief description and other comments for up-to-date info. Platforms tested: Linux/32 2.6 (jam) Linux/64 (platypus) Darwin (osx1010test)
* Purpose: Fix bug HDFFR-9920 cont.Binh-Minh Ribler2016-09-211-4/+130
| | | | | | | | | | | | | Description: Adding user's test revealed a flaw in the fix. Moved CommonFG's functions in Group to H5Location, so that they could be called by objects that can be used to specify a location Also, rearranged many "#include" header files to resolve conflicts. Platforms tested: Linux/32 2.6 (jam) Linux/64 (platypus) Darwin (osx1010test)
* [svn-r30311] Purpose: Fix bug HDFFR-9920 cont.Binh-Minh Ribler2016-08-221-37/+6
| | | | | | | | | | | | | | | | | | | | | | | | | | trunk: Description: Continued rearranging the classes to model the relationship of HDF5 objects more accurately. The changes included: - in the baseclass list of Attribute, changed "public IdComponent" to "public H5Location", because location sometime can be specified with attribute - moved H5A wrappers in H5Location to H5Object because H5A functions can't be called on attribute id - removed the stubs Attribute::iterateAttrs and Attribute::renameAttr - removed Attribute::getFileName and Attribute::flush, because H5Location has them - result of the modified partial class diagram, regarding Attribute IdComponent | H5Location AbstractDs / \ / H5Object Attribute Platforms tested: Linux/32 2.6 (jam) Linux/64 (platypus) Darwin (osx1010test)
* [svn-r28047] Purpose: Fix memory leaksBinh-Minh Ribler2015-10-131-3/+0
| | | | | | | | | | | | | Description: - Implemented the friend function void f_PropList_setId(PropList* plist, hid_t new_id) to work around the same problem described in trunk r26655, for the API DataSet::getCreatePlist() - Cleaned up some comments and obsolete functions Platforms tested: Linux/32 2.6 (jam) Linux/64 (platypus) Darwin (osx1010test)
* [svn-r26655] Purpose: Fixed HDFFV-7947Binh-Minh Ribler2015-03-301-0/+4
| | | | | | | | | | | | | | | | | | | | | | | | | | Description: When copy constructor or constructor that takes an existing id is invoked, the C ref counter stays the same but there is an extra C++ object which later is destroyed and may cause the HDF5 id to be closed prematurely. The C++ library needs to increment the ref counter in these situations, so that the C library will not close the id when it is still being referenced. However, the incrementing of ref count left some objects opened at the end of the program, perhaps, due to compiler's optimization on cons/destructors. The constructor, that takes an existing id, needs to increment the counter but it seems that the matching destructor wasn't invoked. The workaround is to have a function for each class that has "id" that only sets the id and not increment the ref count for the library to use in these situations. These functions are "friend" and not public. The friend functions are: void f_Attribute_setId(Attribute *, hid_t) void f_DataSet_setId(DataSet *, hid_t) void f_DataSpace_setId(DataSpace *, hid_t) void f_DataType_setId(DataType *, hid_t) Platforms tested: Linux/64 (platypus) Linux/32 2.6 (jam gnu and Intel 15.0) SunOS 5.11 (emu)
* [svn-r26462] Description:Binh-Minh Ribler2015-03-161-1/+1
| | | | | | Fixed typo that caused failure on Windows. Platforms tested: Linux/32 2.6 (jam)
* [svn-r26457] Purpose: Fix warnings HDFFV-8658Binh-Minh Ribler2015-03-151-1/+9
| | | | | | | | | | | | | | | | | | | | | | | | Description: The following two constructors of classes: AbstractDs, IdComponent, H5Location, and H5Object are no longer appropriate after the data member "id" had been moved from IdComponent to the sub-classes. The copy constructors are noop and will be generated by the compilers if needed so they can be removed in 1.8.15 without effecting applications. The other constructors will be removed from 1.10 release, and then from 1.8 if their removal does not raise any problems in at least two 1.10 releases. <Classname>(const hid_t h5_id); <Classname>(const <Classname>& original); Deprecation warnings are added to each of these classes. The other classes are changed to call the default constructor instead of one of the constructors above. Platforms tested: Linux/64 (platypus) Linux/32 2.6 (jam) SunOS 5.11 (emu)
* [svn-r24994] Purpose: Removed some warningsBinh-Minh Ribler2014-04-091-3/+3
| | | | | | | | | Description: Turned on warnings and removed some of those. Platforms tested: Linux/ppc64 (ostrich) Linux/32 2.6 (jam) SunOS 5.11 (emu)
* [svn-r24901] Description:Binh-Minh Ribler2014-03-261-2/+2
| | | | | | | | | Fixed mismatched function prototype/definition that caused daily test failure on emu/production/HDF5TestExpress=1. Platforms tested: Linux/ppc64 (ostrich) Linux/32 2.6 (jam) SunOS 5.11 (emu)
* [svn-r24865] Description:Binh-Minh Ribler2014-03-211-2/+3
| | | | | | | | | | | - Added another overload for char* argument: ssize_t getComment(const char* name, const size_t buf_size, char* comment) - Changed default value to 0 for the other two getComment methods - Added HDmemset to after every char string allocation to clear the buffer Platforms tested: Linux/ppc64 (ostrich) Linux/32 2.6 (jam) Linux/64 2.6 (platypus)/PGI compilers
* [svn-r24291] Description:Binh-Minh Ribler2013-10-151-11/+15
| | | | | | | | | - Added a lot of documentation to classes for Reference Manual. - Fixed some format inconsistencies Platforms tested: Linux/ppc64 (ostrich) Linux/32 2.6 (jam) Linux/64 2.6 (koala)/PGI compilers
* [svn-r24189] Purpose: Fixed bug HDFFV-1060Binh-Minh Ribler2013-09-231-3/+3
| | | | | | | | Description: Changed header guards from single underscore to double underscore. Platforms tested: Linux/32 2.6 (jam) - very minor Linux/64 2.6 (koala)/PGI compilers
* [svn-r24188] Purpose: Fixed bug introduced in r24163Binh-Minh Ribler2013-09-231-18/+35
| | | | | | | | | | | | | Description: - The failure in daily test was caused by missing initialization of member "id" in a few constructors. This is now fixed. - Added two overloaded H5Location::setComment - Improved some error reporting in H5Location - Improved error reporting in tests Platforms tested: Linux/32 2.6 (jam) SunOS 5.11 (emu) Linux/64 2.6 (koala)/PGI compilers
* [svn-r24178] Back out the changes that cause daily test to fail r24163Binh-Minh Ribler2013-09-201-33/+18
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* [svn-r24163] Purpose: More on HDFFV-7520 and HDFFV-533Binh-Minh Ribler2013-09-191-18/+33
| | | | | | | | | | | | Description: - Improved the changes in revisions r22836 and r23438, mainly on the wrappers of reference, dereference, get region, and set/getcomment. - Added more tests. Platforms tested: Linux/32 2.6 (jam) SunOS 5.11 (emu) Linux/ppc64 (ostrich)
* [svn-r24162] backing out a commit that includes wrong filesBinh-Minh Ribler2013-09-191-33/+18
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* [svn-r24161] Purpose: More on HDFFV-7520 and HDFFV-533Binh-Minh Ribler2013-09-191-18/+33
| | | | | | | | | | | Description: - Completed the changes in revisions r22836 and r23438 with improvement on wrappers such as reference, dereference, get region, and set/getcomment. - Added more tests. Platforms tested: Linux/32 2.6 (jam) SunOS 5.11 (emu) Linux/ppc64 (ostrich)
* [svn-r24143] Description:Binh-Minh Ribler2013-09-161-1/+1
| | | | | | | Fixed comments, documentation, and mis-matched DOXYGEN_SHOULD_SKIP_THIS pairs. Platforms tested: Linux/32 2.6 (jam) Regenerated and verified generated documentation.
* [svn-r23438] Purpose: Fix bug HDFFV-7520Binh-Minh Ribler2013-03-231-3/+7
| | | | | | | | | Description: Added wrappers for H5Aexists. Platforms Tested: Linux/32 2.6 (jam) Linux/64 2.6 (koala) Linux/ppc64 (ostrich)
* [svn-r22836] Purpose: Fix bug HDFFV-533 and add other missing functionsBinh-Minh Ribler2012-09-271-0/+146
Description: In this bug, H5File doesn't have the ability to create attribute. The following changes will provide that functionality and several others that were also missing: - Added an abstract class H5Location in between IdComponent and H5Object. - New class structure of IdComponent, H5Location, H5Object, H5File IdComponent | H5Location / \ H5Object H5File - Wrappers in H5Object were moved to H5Location because the related C functions take either file, group, dataset, or named datatype ID. - Added wrapper for H5Rget_obj_type2 - Added tests for file attributes and H5Rget_obj_type2 wrapper Platforms tested: Linux/32 2.6 (jam) Linux/64 2.6 (koala) SunOS 5.10 (linew)
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