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* Clang-format of source filesAllen Byrne2020-09-301-123/+139
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* Removed H5I_REFERENCE from the library. It has always been unusedDana Robinson2018-12-081-1/+0
| | | | and has been marked 'deprecated' since 1.10.0. Fixes HDFFV-10252.
* VOL FEATUREDana Robinson2018-10-101-0/+1
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* Fixed HDFFV-10404Binh-Minh Ribler2018-07-131-1/+1
| | | | | | | | | Description: Applied the typo fixes from user's report. The previous pull request couldn't be merged because it was too old, and it was too complicated for me to resolve conflicts. Platform tested: Linux/64 (jelly) - very minor
* Fixed documentationBinh-Minh Ribler2018-03-131-1/+1
| | | | | | | | Description: - Updated the description of copy constructor for clarification. - Removed unnecessary comments. Platforms tested: Linux/64 (jelly)
* * Reverted removal of H5I_REFERENCE to avoid breaking binaryDana Robinson2017-07-031-0/+18
| | | | | | compatibility. * Added a quick H5I_REFERENCE smoke check to test_misc19() in tmisc.c.
* 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 Ribler2017-03-171-4/+4
| | | | | | Fixed typos. Platforms tested: Linux/64 (jelly)
* Description:Binh-Minh Ribler2017-03-171-1/+60
| | | | | | | | | Deprecating versions of PropList::setProperty that have arguments that miss "const" Platforms tested: Linux/64 (jelly) Linux/64 (platypus) Darwin (osx1010test)
* Description:Binh-Minh Ribler2017-03-031-386/+383
| | | | | | Only format changes: mostly tabs vs. spaces Platforms tested: Linux/64 (jelly) - very minor
* Purpose: Add new C++ wrappersBinh-Minh Ribler2017-02-231-1/+1
| | | | | | | | | | | | | | | | | | | Description: Added wrappers for H5Fget_info2, H5Inmembers, and H5Itype_exists // Gets general information about this file. void getFileInfo(H5F_info2_t& file_info) const; // Returns the number of members in a type. static hsize_t getNumMembers(H5I_type_t type); // Determines if an element type exists. static bool typeExists(H5I_type_t type); Platforms tested: Linux/32 2.6 (jam) Linux/64 (jelly) Darwin (osx1010test)
* Description:Binh-Minh Ribler2016-12-231-1/+1
| | | | | | Removed commented out code and fixed miscellaneous typos. Platforms tested: Linux/32 2.6 (jam) (very minor)
* Purpose: Improvement for HDFFV-10004Binh-Minh Ribler2016-12-191-1/+1
| | | | | | | | | | | | | | | | | | | | | 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 Ribler2016-10-191-6/+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
* [svn-r29759] Purpose: Code improvementsBinh-Minh Ribler2016-04-221-3/+3
| | | | | | | | | | | | Description: - Changed object in catch statements to reference - Replaced old-style casts or reinterpret_cast with static_cast - Removed unused name H5Library::need_cleanup - Removed Exception::printError from documentation Platforms tested: Linux/32 2.6 (jam) Linux/64 (platypus) Darwin (osx1010test)
* [svn-r29340] Purpose: Code cleanupBinh-Minh Ribler2016-03-081-1/+1
| | | | | | | | | | | | | | | Description: - Removed many warnings: warning: use of old-style cast warning: enumeration value ‘H5D_VIRTUAL’ not handled in switch warning: comparison between signed and unsigned There are others of the same warnings and they will be taken care of in the next release. - Made some code reuse between overloads Platforms tested: Linux/32 2.6 (jam) Linux/64 (platypus) Darwin (osx1010test)
* [svn-r29306] Purpose: Add functionBinh-Minh Ribler2016-03-071-2/+1
| | | | | | | | | | Description: Added member function ArrayType::operator= because ArrayType has pointer data members. Platforms tested: Linux/32 2.6 (jam) Linux/64 (platypus) Darwin (osx1010test)
* [svn-r27945] Purpose: Fix HDFFV-9529Binh-Minh Ribler2015-10-041-2/+52
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Description: Merged from hdf5_CppAPI_Constants r27942: ------ Description: - Added H5dont_atexit() to getPredType and all the getConstant's to prevent the C library from terminating before the C++ library cleanup. - More cleanup and added more comments r27923: ------ - Updated more comments and moved some things around for consistency - Removed check for "new" failure, exceptions would be thrown r27922: ------ Description: Added function headers and more comments for clarity. r27917: ------ Description: The C++ library has several types of global constants from different classes, such as PropList, PredType, DataSpace, etc... Previously, these global constants were declared statically and the C++ library used a constant, called PredType::AtExit, to detect when all the global contants are destroyed then close the C library (H5close). This method relied on the order of the constants being created and destroyed and that PredType constants be the last to be destroyed. In September 2015, it was recognized that the order in which the global constants were created and destroyed was actually undefined, thus can be different between different compilers. This resulted in failure when compilers destroy PredType constants before others because when PredType::AtExit was destroyed, the C library was closed, so when the constants of other classes such as PropList or DataSpace were being deleted, the C library would not be available. Solution: The static approach is changed to dynamic. In order to avoid an impact on existing applications, the static global constants are changed to constant references to the dynamically allocated objects. A detailed explanation of the new method and a description of the changes are in a Design Notes at the end of the file H5PredType.cpp. New functions added to support the new methods are listed below. class H5Library: // Returns a singleton H5Library to initialize the global // constants, invoked in IdComponent default constructor static H5Library* getInstance(); // public // Registers cleanup and terminating functions with atexit(), // called in IdComponent default constructor static void initH5cpp(void); // public // Calls H5close to terminate the library, registered with // atexit(), as the last thing to be done. static void termH5cpp(void); // public class PredType: // Creates the constants static void makePredTypes(); // private // Calls makePredTypes to create the constants and returns // the dummy constant PREDTYPE_CONST; static PredType* getPredTypes(); // private class DataSpace: // Creates the constant static DataSpace* getConstant(); // private class PropList: // Creates the constant static PropList* getConstant(); // private class DSetCreatPropList: // Creates the constant static DSetCreatPropList* getConstant(); // private class DSetMemXferPropList: // Creates the constant static DSetMemXferPropList* getConstant(); // private class FileCreatPropList: // Creates the constant static FileCreatPropList* getConstant(); // private class FileAccPropList: // Creates the constant static FileAccPropList* getConstant(); // private This function is added to PredType, DataSpace, PropList, and the four subclasses of PropList: // Deletes the constant static void deleteConstants(); // public Platforms tested: Linux/32 2.6 (jam) Linux/64 (platypus) Darwin (osx1010test)
* [svn-r26655] Purpose: Fixed HDFFV-7947Binh-Minh Ribler2015-03-301-0/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | 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-r26457] Purpose: Fix warnings HDFFV-8658Binh-Minh Ribler2015-03-151-1/+1
| | | | | | | | | | | | | | | | | | | | | | | | 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-r25644] Purpose: Fixed HDFFV-8928Binh-Minh Ribler2014-10-011-0/+1
| | | | | | | | | | Description: Followed hints on the JIRA issue to remove several potential memory leaks. Platforms tested: Linux/ppc64 (ostrich) Linux/32 2.6 (jam) SunOS 5.11 (emu)
* [svn-r25640] Purpose: Fixed HDFFV-4259Binh-Minh Ribler2014-09-301-3/+3
| | | | | | | | | | | | | | Description: - Used H5I_INVALID_HID instead of 0 to initialized member "id" in classes that represent HDF5 objects. For PropList, H5P_DEFAULT has to be used instead of H5I_INVALID_HID. - Added try/catch block to some dynamically allocating memory code and re-throw the bad_alloc exception with a message informing the location of the failure. Platforms tested: Linux/ppc64 (ostrich) Linux/32 2.6 (jam) SunOS 5.11 (emu)
* [svn-r24937] Adds an H5free_memory() function to the library for use withDana Robinson2014-03-311-1/+1
| | | | | | | | | | | | functions that return library-allocated memory. The test and tool code were modified to use this new function where it's appropriate. Fixes HDFFV-7710, HDFFV-8519, and HDFFV-8551 Tested on: 64-bit Windows 7 w/ VS2012 32-bit LE linux w/ parallel and fortran (jam) 32-bit LE linux w/ fortran and C++ (jam)
* [svn-r24865] Description:Binh-Minh Ribler2014-03-211-0/+5
| | | | | | | | | | | - 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-r24188] Purpose: Fixed bug introduced in r24163Binh-Minh Ribler2013-09-231-1/+4
| | | | | | | | | | | | | 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 Ribler2013-09-201-4/+1
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* [svn-r24163] Purpose: More on HDFFV-7520 and HDFFV-533Binh-Minh Ribler2013-09-191-1/+4
| | | | | | | | | | | | 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 Ribler2013-09-191-4/+1
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* [svn-r24161] Purpose: More on HDFFV-7520 and HDFFV-533Binh-Minh Ribler2013-09-191-1/+4
| | | | | | | | | | | 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/+4
| | | | | | | Fixed comments, documentation, and mis-matched DOXYGEN_SHOULD_SKIP_THIS pairs. Platforms tested: Linux/32 2.6 (jam) Regenerated and verified generated documentation.
* [svn-r22235] Purpose: Fixed bugs HDFFV-2761 & HDFFV-7852Binh-Minh Ribler2012-04-021-1/+1
| | | | | | | | | | | | | | | | | | | | Description: - Replaced PredType::NotAtexit() with PredType::AtExit(H5CPP_EXITED); and used PredType::AtExit as a flag to detect when all predefined types have been destroyed. Then, H5close will be called to terminate the library after its being re-initiated when the PredType destructors were activated. This change removed the memory leaks shown by the user's sample program. - Added H5CPP_EXITED for PredType::AtExit to use as a flag - Updated some inaccurate comments - Removed stream functions from FileAccPropList - Replaced H5_VMS with appropriate macro in H5IdComponent.cpp - Corrected many URLs (hdfgroup vs. ncsa) in comments - Replaced std::string with H5std_string in comments Platforms tested: Linux/32 2.6 (jam) Linux/64 2.6 (amani) SunOS 5.10 (linew)
* [svn-r19395] Purpose: Fixed bug 1903Binh-Minh Ribler2010-09-161-4/+2
| | | | | | | | | | | Description: After a C++ API object is closed, its id should be reset regardless of the reference count of the underlying HDF5 object. User reported the bug for Group, but it's applicable to all other objects. Fixed. Platforms tested: Linux/32 2.6 (jam) FreeBSD/64 6.3 (liberty) SunOS 5.10 (linew)
* [svn-r18745] Purpose: Fixed bug 1852Binh-Minh Ribler2010-05-091-19/+25
| | | | | | | | | | Description: When a property class id is given to PropList(id), create new prop list, but when a property list id is given, make a copy of it. Platforms tested: Linux/32 2.6 (jam) FreeBSD/64 6.3 (liberty) SunOS 5.10 (linew)
* [svn-r18030] Description:Quincey Koziol2009-12-171-0/+1
| | | | | | | | | | | | | | | | | | | | | | | Bring "brush clearing" changes (whitespace & style issues, mostly) from metadata_journaling branch to the "merging" branch, to converge the trunk and the metadata_journaling branch. Tested on: FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (jam) w/PGI compilers, w/default API=1.8.x, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (smirom) w/Intel compilers, w/default API=1.6.x, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, in production mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in debug mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode Mac OS X/32 10.6.2 (amazon) in debug mode Mac OS X/32 10.6.2 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r15407] Purpose: Fix bugBinh-Minh Ribler2008-07-251-3/+3
| | | | | | | | | | | | | | | | | Description: Changed all subclasses' setId to protected p_setId and put back setId in IdComponent. p_setId is used in the library where the id provided by a C API passed on to user's application in the form of a C++ API object, which will be destroyed properly, and so p_setId does not call incRefCount. On the other hand, the public version setId is used by other applications, in which the id passed to setId needs to be closed properly by the application, so setId must call incRefCount for the new object to prevent prematurely closing of the id. Platforms tested: Linux 2.6 (kagiso) SunOS 5.10 (linew) FreeBSD (duty)
* [svn-r15395] When an attribute was opened twice and data was written with ↵Raymond Lu2008-07-221-5/+4
| | | | | | | | | | | one of the handles, the file didn't have the data. It happened because each handle had its own object structure, and the empty one overwrote the data with fill value. This is fixed by making some attribute information like the data be shared in the attribute structure. Tested on smirom, kagiso, and linew.
* [svn-r15309] Purpose: Fixed bugsBinh-Minh Ribler2008-07-021-3/+50
| | | | | | | | | | | | | | | | Description: The class hierarchy was revised to address the problem reported in bugzilla #1068. Classes AbstractDS and Attribute are moved out of H5Object. Class Attribute now multiply inherits from IdComponent and AbstractDs and class DataSet from H5Object and AbstractDs. In addition, data member IdComponent::id was moved into subclasses: Attribute, DataSet, DataSpace, DataType, H5File, Group, and PropList. Platforms tested: SunOS 5.10 (linew) Linux 2.6 (kagiso) FreeBSD (duty)
* [svn-r14903] Undoing change committed in r14902.Scot Breitenfeld2008-04-301-16/+18
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* [svn-r14902] Merged fortran_1_8 branch changes r14505:14901 into the trunk. ↵Scot Breitenfeld2008-04-301-18/+16
| | | | New fortran wrappers added.
* [svn-r14850] Purpose: Fixed bugsBinh-Minh Ribler2008-04-201-16/+18
| | | | | | | | | | | | | | | | Description: - Revised Attribute::write and Attribute::read wrappers to handle memory allocation/deallocation properly. (bugzilla 1045) - Changed free() to H5Dfree(), also needed H5private.h - Corrected quite a few typos in documenting! Platforms tested: SunOS 5.10 (linew) Linux 2.6 (kagiso) FreeBSD (duty) - there was something wrong in the C tests for makecheck hung quite a long time; I went ahead with makecheck just in c++ dir, since the changes didn't effect the C tests. I'll keep an eye on the tests tonight...
* [svn-r13253] Updated all C and C++ style source code files with the THG ↵Albert Cheng2007-02-071-2/+3
| | | | | | | | | copyright notice. Tested platform: Kagiso only since it is only a comment block change. If it works in one machine, it should work in all, I hope. Still need to check the parallel build on copper.
* [svn-r12842] Description:Quincey Koziol2006-11-021-5/+5
| | | | | | | | | | | | | | | | Refactor generic property list initialization code to put property list specific routines in property list modules, instead of scattered to the four winds. Also, introduce property list class initialization objects, to make adding new property list classes in the library easier. Fix daily test failure by using H5Pget_elink_prefix() API routine instead of looking at the "raw" generic property list information. Tested on: Mac OS X/32 10.4.8 (amazon) FreeBSD/32 4.11 (sleipnir) w/threadsafe Linux/32 2.4 (heping) w/C++ & FORTRAN Linux/64 2.4 (mir) w/build-all & 1.6 compat
* [svn-r12795] Purpose: Fixing bugBinh-Minh Ribler2006-10-221-3/+1
| | | | | | | | | | | | | | | | | | | | | | | | | Description: Wrappers of H5Rcreate had incorrect prototypes. Solution: Added these overloaded functions for H5Rcreate wrapper to IdComponent: void reference(void* ref, const char* name, DataSpace& dataspace, H5R_type_t ref_type = H5R_DATASET_REGION) const; void reference(void* ref, const char* name) const; void reference(void* ref, const H5std_string& name) const; Added these overloaded functions for H5Rdereference: void dereference(IdComponent& obj, void* ref); DataSet(IdComponent& obj, void* ref); Group(IdComponent& obj, void* ref); DataType(IdComponent& obj, void* ref); The incorrect wrappers will be removed after announcing. Platform tested: Linux 2.4 (heping) AIX 5.1 (copper) SunOS 5.8 64-bit (sol)
* [svn-r12404] Purpose: Fix typos/formatsBinh-Minh Ribler2006-06-051-19/+23
| | | | | | | | | | Description: Fixed typos and re-arranged some functions to be in sync with 1.6. Platforms tested: Linux 2.4 (heping) SunOS 5.9 (shanti) AIX 5.1 (copper)
* [svn-r12368] Purpose: Fixed bugBinh-Minh Ribler2006-05-231-25/+24
| | | | | | | | | | | | | | | | | Description: Shanti compiler destroy unnamed objects later than others, which caused some reference counting test fail. Revised the test so that destructors are called at the same time, regardless the differences of compiler implementation. Revised some constructors, close, operator=, and destructors to make sure that all the object ids are handled properly. Platforms tested: Linux 2.4 (heping) SunOS 5.9 (shanti) HPUX 11.00 (kelgia) AIX 5.1 (copper)
* [svn-r12200] Purpose: MaintenanceBinh-Minh Ribler2006-04-051-14/+14
| | | | | | | | | | | | Description: Changed to alias string instead of std, i.e. H5std_string instead of H5std, because the old way wasn't working when std didn't exist. Platforms tested: Linux 2.4 (heping) SunOS 5.8 64-bit (sol) HPUX 11.00 (kelgia) - this was the problematic platform but I wasn't able to test before.
* [svn-r12185] Purpose: Code cleanupBinh-Minh Ribler2006-03-311-2/+0
| | | | | | | | Description: Removed an empty #ifdef block that was left by mistake. Platforms tested: Linux 2.4 (heping) - very minor
* [svn-r12180] Purpose: MaintenanceBinh-Minh Ribler2006-03-301-17/+14
| | | | | | | | | | | Description: Added alias H5_std so either the global or std namespace can be used, depending on H5_NO_STD. Platforms tested: Linux 2.4 (heping) SunOS 5.8 64-bit (sol) AIX 5.1 (copper)
* [svn-r11755] Purpose: Code improvementBinh-Minh Ribler2005-12-031-2/+9
| | | | | | | | | | | | | | | | | Description: There was a workaround for predefined types, in the C++ library, implemented when the C++ library was handling the reference counting of the object ids on its own. Currently, the C++ library is using the available APIs from the C library for that purpose, and there were bugs reported involving that part of the C++ library. So, I decided to remove the workaround completely. Also, improved the use of std members. Platforms tested: Linux 2.4 (heping) SunOS 5.8 64-bit (sol) Linux 2.4 w/PGI (colonelk)
* [svn-r11555] Purpose: Code cleanupBinh-Minh Ribler2005-10-121-1/+1
| | | | | | | | | | Description: Removed obsolete function CompType::getMemberDims. Fixed some typos. Platforms tested: Linux 2.4 (heping) SunOS 5.8 64-bit (sol)
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