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* [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-r29322] Purpose: Remove obsoletesBinh-Minh Ribler2016-03-071-9/+10
| | | | | | | | | | Description: Removed obsolete functions from the documentation. They are still in the code, however, until the next two releases, just in case. Platforms tested: Linux/32 2.6 (jam) Linux/64 (platypus) Darwin (osx1010test)
* [svn-r29306] Purpose: Add functionBinh-Minh Ribler2016-03-071-4/+2
| | | | | | | | | | 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-r27961] Purpose: Partial fix of issues HDFFV-9169 and HDFFV-9167Binh-Minh Ribler2015-10-061-0/+1
| | | | | | | | | | | | | | | | | | | | | | Description: Added wrappers for H5P[s/g]et_attr_phase_change and H5P[s/g]et_attr_creation_order // Sets attribute storage phase change thresholds. void setAttrPhaseChange(unsigned max_compact = 8, unsigned min_dense = 6) // Gets attribute storage phase change thresholds. void getAttrPhaseChange(unsigned& max_compact, unsigned& min_dense) // Sets tracking and indexing of attribute creation order. void setAttrCrtOrder(unsigned crt_order_flags) // Gets tracking and indexing settings for attribute creation order. unsigned getAttrCrtOrder() Platforms tested: Linux/32 2.6 (jam) Linux/64 (platypus) Darwin (osx1010test)
* [svn-r27945] Purpose: Fix HDFFV-9529Binh-Minh Ribler2015-10-041-0/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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-r26695] Purpose: Fixed HDFFV-7947 (cont.)Binh-Minh Ribler2015-04-011-1/+2
| | | | | | | | | | | | Description: - Put back the UNUSED parameters in dsets test because the change to remove the warning last time caused failure in setting filter, in turn, caused failure in the test with such obscure/unrelated errors! - Added incRefCount() to other constructors that missed from last time. Platforms tested: Linux/64 (platypus) Linux/32 2.6 (jam) SunOS 5.11 (emu)
* [svn-r26655] Purpose: Fixed HDFFV-7947Binh-Minh Ribler2015-03-301-2/+3
| | | | | | | | | | | | | | | | | | | | | | | | | | 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-r26456] Purpose: Fix warnings HDFFV-8658Binh-Minh Ribler2015-03-151-4/+6
| | | | | | | | | | Description: Fixed base classes that were in wrong order on the prototype lines and some misc. warnings. Platforms tested: Linux/64 (platypus) Linux/32 2.6 (jam) SunOS 5.11 (emu)
* [svn-r25640] Purpose: Fixed HDFFV-4259Binh-Minh Ribler2014-09-301-6/+6
| | | | | | | | | | | | | | 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-r25061] Description:Binh-Minh Ribler2014-04-171-1/+41
| | | | | | | | | | | Put back overloaded functions for backward compatibility: - were replaced by better prototyped versions, such as Attribute::getName. - were modified to add const to constant arguments. Added notes for future removal in documentation. Platforms tested: Linux/ppc64 (ostrich) Linux/32 2.6 (jam) SunOS 5.11 (emu)
* [svn-r25020] Description:Binh-Minh Ribler2014-04-121-0/+2
| | | | | | | | | | - Fixed a few comments that Doxygen gave warnings on. - Removed stylesheet from configuration so Doxygen will use the default stylesheet and removed the CLANG-related lines to eliminate another error since we're not using that feature, so the lines should not present. (from cpp_doc_config) Platforms tested: Linux/32 2.6 (jam) - only changing comments
* [svn-r24969] Description:Binh-Minh Ribler2014-04-061-3/+3
| | | | | | | | | | | | | | - Added wrappers to H5Object for H5Iget_name() to get object's name ssize_t getObjName(char *obj_name, size_t buf_size = 0) const; ssize_t getObjName(H5std_string& obj_name, size_t len = 0) const; H5std_string getObjName() const; - Added tests tobject.cpp - Added to various cleanup_* functions in tests to remove generated files - Added an overload H5I_type_t getHDFObjType() to get object's type Platforms tested: Linux/ppc64 (ostrich) Linux/32 2.6 (jam) SunOS 5.11 (emu) with gmake
* [svn-r24938] Description:Binh-Minh Ribler2014-04-011-47/+101
| | | | | | | | | | | | | | | | | | | - Overloaded Atribute::getName to take a char* for the attribute name: ssize_t Attribute::getName(char* attr_name, size_t buf_size) - Switched the arguments in this function: ssize_t getName(size_t buf_size, H5std_string& attr_name) so it became: ssize_t getName(H5std_string& attr_name, size_t buf_size) The second argument is default to 0, and can be skipped. - Removed this function: H5std_string getName(size_t buf_size); it'll collide with the first function when that function takes a NULL for the first argument, and uses default value for the second argument. - Added more tests Platforms tested: Linux/ppc64 (ostrich) Linux/32 2.6 (jam) SunOS 5.11 (emu)
* [svn-r24188] Purpose: Fixed bug introduced in r24163Binh-Minh Ribler2013-09-231-0/+1
| | | | | | | | | | | | | 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 Ribler2013-09-201-1/+0
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* [svn-r24163] Purpose: More on HDFFV-7520 and HDFFV-533Binh-Minh Ribler2013-09-191-0/+1
| | | | | | | | | | | | 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 Ribler2013-09-191-1/+0
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* [svn-r24161] Purpose: More on HDFFV-7520 and HDFFV-533Binh-Minh Ribler2013-09-191-0/+1
| | | | | | | | | | | 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/+2
| | | | | | | Fixed comments, documentation, and mis-matched DOXYGEN_SHOULD_SKIP_THIS pairs. Platforms tested: Linux/32 2.6 (jam) Regenerated and verified generated documentation.
* [svn-r22836] Purpose: Fix bug HDFFV-533 and add other missing functionsBinh-Minh Ribler2012-09-271-0/+25
| | | | | | | | | | | | | | | | | | | | | | 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)
* [svn-r22235] Purpose: Fixed bugs HDFFV-2761 & HDFFV-7852Binh-Minh Ribler2012-04-021-4/+3
| | | | | | | | | | | | | | | | | | | | 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-r22128] Purpose: Fixed bug 4279Binh-Minh Ribler2012-03-231-3/+21
| | | | | | | | | | Description: Closed various HDF5 objects in DataSet::getInMemDataSize and Attribute::getInMemDataSize to remove some memory leaks. 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-r18640] Description:Binh-Minh Ribler2010-04-271-5/+2
| | | | | | | | Added a null character to terminate a fixed-length string returned by H5Aread. Platforms tested: Linux/32 2.6 (jam) FreeBSD/64 6.3 (liberty)
* [svn-r18197] Description:Quincey Koziol2010-01-301-1/+1
| | | | | | | | | Trim trailing whitespace from source code files with this command: find . \( -name "*.[ch]" -or -name "*.cpp" -or -name "*.f90" \) -print |xargs -n 1 sed -i "" 's/[[:blank:]]*$//' Tested on: None - eyeballed only
* [svn-r17238] Purpose: Fix bug and improve readabilityBinh-Minh Ribler2009-07-271-6/+8
| | | | | | | | | | | | | | | Description: - Revised DataSet::write to pass in correct string buffer - Added member function DataSet::getInMemDataSize() to simplify getting the dataset's data size in memory. - Added private functions for reading fixed- and variable-length string data: p_read_fixed_len and p_read_variable_len. - Added tests to write/read array of strings to datasets. Platforms tested: Linux/32 2.6 (jam) FreeBSD/64 6.3 (liberty) SunOS 5.10 (linew)
* [svn-r17216] Purpose: Improve readabilityBinh-Minh Ribler2009-07-211-106/+135
| | | | | | | | | | | | Description: Divided Attribute::read into specific private functions for fixed- and variable-len string data: p_read_fixed_len and p_read_variable_len. Added test to write/read array of strings to attributes. Platforms tested: Linux/32 2.6 (jam) FreeBSD/64 6.3 (liberty) SunOS 5.10 (linew)
* [svn-r16815] Description:Binh-Minh Ribler2009-04-211-12/+67
| | | | | | | | | | | | | | Added member function Attribute::getInMemDataSize(), which is a wrapper of several C calls, to simplify getting the attribute's data size in memory. Used this new function in Attribute::read to get the fixed-len string attribute data. Added to tests in tattr.cpp. Platforms tested: Linux/32 2.6 (jam) FreeBSD/64 6.3 (liberty) SunOS 5.10 (linew)
* [svn-r16787] Description:Binh-Minh Ribler2009-04-191-39/+87
| | | | | | | | | | | | | Fixed to pass parameters to H5Awrite/H5Aread correctly so that all Attribute::write and Attribute::read methods work correctly for both fixed-length and variable-length string attributes. Added more test cases. Platforms tested: Linux/32 2.6 (jam) FreeBSD/64 6.3 (liberty) SunOS 5.10 (linew)
* [svn-r15959] Description:Binh-Minh Ribler2008-10-271-21/+0
| | | | | | | | | | | | Added missing wrappers for H5Rdereference. Also, for these wrappers, improved exception handlings to report specific overloaded functions, where failure occurs. Will do the same for more functions later... Platforms tested: Linux 2.6 (kagiso) SunOS 5.10 (linew) FreeBSD (duty)
* [svn-r15628] Description:Quincey Koziol2008-09-161-1/+1
| | | | | | | | | | | | | Remove trailing whitespace from C/C++ source files, with the following script: foreach f (*.[ch] *.cpp) sed 's/[[:blank:]]*$//' $f > sed.out && mv sed.out $f end Tested on: Mac OS X/32 10.5.5 (amazon) No need for h5committest, just whitespace changes...
* [svn-r15462] Description:Quincey Koziol2008-08-121-1/+1
| | | | | | | | Correct compiler warnings from Visual Studio. Tested on: Mac OS X/32 10.5.4 (amazon) w/FORTRAN & C++ (Too minor to require full h5committest)
* [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 Ribler2008-07-021-5/+95
| | | | | | | | | | | | | | | | 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 Breitenfeld2008-04-301-8/+22
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* [svn-r14902] Merged fortran_1_8 branch changes r14505:14901 into the trunk. ↵Scot Breitenfeld2008-04-301-22/+8
| | | | New fortran wrappers added.
* [svn-r14850] Purpose: Fixed bugsBinh-Minh Ribler2008-04-201-8/+22
| | | | | | | | | | | | | | | | 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-r13038] Purpose: Fixed user reported bugBinh-Minh Ribler2006-12-111-5/+11
| | | | | | | | | | | | | | | Description: In Attribute::read, H5Aread malloc's memory for the read data buffer, so Attribute::read shouldn't allocate the buffer, but needs to deallocate with HDfree. Fixed a typo in H5StrType.cpp, should pass PredType::C_S1 to "copy" instead of H5T_C_S1. Platforms tested: AIX 5.1 (copper) Linux 2.6 (kagiso) SunOS 5.8 64-bit (sol)
* [svn-r12404] Purpose: Fix typos/formatsBinh-Minh Ribler2006-06-051-18/+19
| | | | | | | | | | 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 Ribler2006-05-231-14/+16
| | | | | | | | | | | | | | | | | 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 Ribler2006-04-051-7/+7
| | | | | | | | | | | | 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 Ribler2006-03-301-10/+7
| | | | | | | | | | | 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-r11845] Purpose: Adding another wrapper/Fixing typosBinh-Minh Ribler2005-12-291-2/+2
| | | | | | | | | | | Description: Added missing member function H5File::flush Fixed parameters passed to H5Awrite Other typos Platforms tested: Linux 2.4 (heping) SunOS 5.8 64-bit (sol)
* [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-r11487] Purpose:Quincey Koziol2005-10-011-12/+12
| | | | | | | | | | | Code cleanup Description: Tweak copyright on C++ source files to reduce whining by copyright checking script. Platforms tested: FreeBSD 4.11 (sleipnir) w/C++
* [svn-r11264] Purpose: Additional code improvementBinh-Minh Ribler2005-08-181-0/+3
| | | | | | | | | | Description: Used "using" declaration and directive better to reduce namespace pollution. Platforms tested: Linux 2.4 (heping) SunOS 5.8 64-bit (sol)
* [svn-r11245] Purpose:Quincey Koziol2005-08-131-8/+8
| | | | | | | | | | | | | | | | | | | | Code cleanup Description: Trim trailing whitespace, which is making 'diff'ing the two branches difficult. Solution: Ran this script in each directory: foreach f (*.[ch] *.cpp) sed 's/[[:blank:]]*$//' $f > sed.out && mv sed.out $f end Platforms tested: FreeBSD 4.11 (sleipnir) Too minor to require h5committest
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