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* [svn-r26743] Purpose: Fix daily test failureBinh-Minh Ribler2015-04-063-13/+18
| | | | | | | | | | | | | | | Description: - In DataType::DataType(const PredType& pred_type), using DataType::copy will invoke DataType::close() unnecessarily, which will produce undefined behavior. Changed to call H5Tcopy directly, code reuse is not useful in this case. - Also, fixed CommonFG::childObjVersion to return expected value outside of an if/else block. Merged from trunk r26737. Platforms tested: Linux/ppc64 (ostrich) Linux/64 (platypus) Linux/32 2.6 (jam)
* [svn-r26742] Purpose: Fixed HDFFV-7947 (cont.)Binh-Minh Ribler2015-04-067-23/+7
| | | | | | | | | | Description: - Added incRefCount() to other constructors that missed from last time. - Added default value for H5File::getObjCount and removed its extra version Platforms tested: Linux/64 (platypus) Linux/32 2.6 (jam) SunOS 5.11 (emu)
* [svn-r26741] Description:Binh-Minh Ribler2015-04-063-0/+55
| | | | | | | | | | | Per user Jason Newton request, the following constructor is added: H5File(hid_t existing_id); Also, fixed H5File::openFile to close current file first before re-using the object. Platforms tested: Linux/64 (platypus) Linux/32 2.6 (jam) SunOS 5.11 (emu)
* [svn-r26738] Update cmake and plugin in new features.Allen Byrne2015-04-061-2/+24
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* [svn-r26736] Maintenance: Larry and I updated the Supported Platforms and ↵Elena Pourmal2015-04-061-26/+24
| | | | | | | | Tested Configuration Summary sections. We also verified jam, platypus, loyalty and freedom info in the More Tested Platforms section. Other flavors of UNIX in the More Tested Platforms section will be checked by Allen.
* [svn-r26734] Maintenance: Removed Ubuntu record for dt_arith since it ↵Elena Pourmal2015-04-061-14/+0
| | | | | | mentioned the old system. We will need to add the new record since the dt_arith is still failing according to the CDash.
* [svn-r26733] Maintenance: Removed old entries from the Known Problems section.Elena Pourmal2015-04-061-34/+2
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* [svn-r26732] replace PGI compilers with GNU ones for building HDF5 on Hopper.Mohamad Chaarawi2015-04-061-4/+4
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* [svn-r26731] Purpose: Fixed HDFFV-7947Binh-Minh Ribler2015-04-0621-76/+225
| | | | | | | | | | | | | | | | | | | | | | | | | | | | 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) Merged from trunk: r26655 Platforms tested: Linux/64 (platypus) Linux/32 2.6 (jam Intel 15.0) SunOS 5.11 (emu)
* [svn-r26730] Purpose: Adding new wrappers (HDFFR-9167 partially)Binh-Minh Ribler2015-04-057-2/+256
| | | | | | | | | | | | | | | | | | | | | | | | | Description: Added wrappers for C functions H5P[s/g]et_libver_bounds and wrappers for getting object header version // Sets bounds on versions of library format to be used when creating // or writing objects. void setLibverBounds(H5F_libver_t libver_low, H5F_libver_t libver_high) const; // Gets the current settings for the library version format bounds. void getLibverBounds(H5F_libver_t& libver_low, H5F_libver_t& libver_high) const; // Returns the object header version of an object in a file or group, // given the object's name. unsigned childObjVersion(const char* objname) const; unsigned childObjVersion(const H5std_string& objname) const; Merge from trunk r26643 Platforms tested: Linux/64 (platypus) Linux/32 2.6 (jam Intel 15.0) SunOS 5.11 (emu)
* [svn-r26729] Purpose: Fix bugsBinh-Minh Ribler2015-04-056-8/+55
| | | | | | | | | | | | | | | | | | | | Description: - Changed DataType::operator= to simply copy the id of rhs instead of calling H5Tcopy because, when the operator= is invoked, a different datatype id is created and it won't have the same characteristics as rhs', specifically, if the rhs represents a named datatype, "this" would still be a transient datatype. - Added a DataType constructor that takes a PredType object, and this constructor will cause H5Tcopy to generate another datatype id, from a predefined datatype. - Fixed various mistakes in tests. - Fixed typo that caused failure on Windows. Merged from trunk r26640 and r26462 Platforms tested: Linux/64 (platypus) Linux/32 2.6 (jam/gnu and jam/icc 15) SunOS 5.11 (emu)
* [svn-r26728] Merge trunk reviwions 26669 and 26670.Larry Knox2015-04-0444-364/+2
| | | | | | Removed from configure.ac VPATH section, LONE_COLON check and checks for redundant addition of /usr/include and /usr/lib to compile flags, with reconfigure. Tested h5committest
* [svn-r26727] Purpose: Fix warnings HDFFV-8658 cont.Binh-Minh Ribler2015-04-047-90/+102
| | | | | | | | | | | | | Description: Fixed many type conversion warnings and unused variables. Merged from trunk r26458, but also combined the fix in r26695 (dsets.cpp) to avoid test failure, that was undetected before committing to trunk until r26695. Platforms tested: Linux/64 (platypus) Linux/32 2.6 (jam) SunOS 5.11 (emu)
* [svn-r26726] Purpose: Fix warnings HDFFV-8658Binh-Minh Ribler2015-04-0411-30/+102
| | | | | | | | | | | | | | | | | | | | | | | | | Description: (r26457) 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-r26723] Purpose: Fixed warningsBinh-Minh Ribler2015-04-035-38/+40
| | | | | | | | | | | | | | | | | | | Description: Fixed base classes that were in wrong order on the prototype lines and some misc. warnings. Parameter had the same name as the class' member's. Replaced parameter with a different name. Missing initializing one of the base classes in multiple inheritance. Added CommonFG() to constructors' prototype. Merged from trunk r26454, r26455, and r26456. Platforms tested: Linux/64 (platypus) Linux/32 2.6 (jam) SunOS 5.11 (emu)
* [svn-r26722] Disable failing testAllen Byrne2015-04-031-1/+1
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* [svn-r26720] Add HL to default componentsAllen Byrne2015-04-031-1/+1
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* [svn-r26717] Merge revisions 26387, 26649, 26650, 26678, and 26691 from ↵Mohamad Chaarawi2015-04-0321-109/+117
| | | | trunk to squish warnings.
* [svn-r26713] Merge r26712 from trunk to v18.hdf5_1_8_15_precodefreeze_final_commitAlbert Cheng2015-04-031-0/+11
| | | | | | | | | | | | | Bug fix: cmakehdf5 broken because zlib is no longer configure in by default. That broke the testings as some testfiles have zlib compressed datasets. Added options control to enable the linking of zlib external libarary by default and turn off the szip library linking as szip library may not be avaiable. This matches the established settings. Tested: run cmakehdf5 by hand in jam and platypus. Also tested in wren but it failed in the testing stage. Also tried "cmakehdf5 --script" in jam. It failed.
* [svn-r26710] Update fortran cmake commandsAllen Byrne2015-04-021-22/+13
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* [svn-r26709] Port r26690 from trunk to 1.8 branch.Neil Fortner2015-04-023-0/+39
| | | | | | | | | | | | | Tested: jam, koala, ostrich (h5committest) Log from r26690: Fix error in H5Sextent_copy When the selection is set to all, H5Sextent_copy did not update the number of elements in the selection in the destination space. Fixed H5Sextent_copy to do this. Added tests for this functionality. Tested: jam, koala, ostrich (h5committest)
* [svn-r26708] Port r26301 from trunk to 1.8 branch.Neil Fortner2015-04-023-3/+99
| | | | | | | | | | | | Tested: jam, koala, ostrich (h5committest) Log from r26633: Description: Bring Neil's fix for error in H5S_extent_copy() back to the trunk. Tested on: Mac OSX/64 10.10.2 (amazon) w/serial (h5committest forthcoming)
* [svn-r26707] Port r26633 from trunk to 1.8 branch.Neil Fortner2015-04-023-0/+17
| | | | | | | | | | | | Tested: jam, koala, ostrich (h5committest) Log from r26633: Add -D_DEFAULT_SOURCE to CPPFLAGS on Linux systems. -D_BSD_SOURCE is deprecated in recent versions of glibc, and -D_DEFAULT_SOURCE is the replacement. Keep -D_BSD_SOURCE for now to support older systems. gcc will not issue a warning about -D_BSD_SOURCE being deprecated when -D_DEFAULT_SOURCE is supplied as well. Tested: jam, koala, ostrich (h5committest)
* [svn-r26706] Merge r26702 of trunk to v18 branch.Albert Cheng2015-04-021-3/+16
| | | | | | | | | | | | | HDFFV-8667: h5repack crashes on enumerated 8-bit type nested in compound type. Description: The test added failed in some machines because the data file contains infinity values that different machines print them differently as "inf", "INF", "Inf", ... Solution: Added a "ignorecase" option to TOOLTEST() to do caseless matching between generated output vs expected output. This solved most machines problem for now. Tested: h5committest, emu by hand for both development and production modes. But cmake built h5dump failed to read the data file. Using the same source to build h5dump by autotools produced a h5dump that can read the test data file. Don't know why cmake could not produce a correct binary.
* [svn-r26703] Merge of r26392 from trunk.Dana Robinson2015-04-017-62/+263
| | | | | | | | | | | Adds new memory allocation functions that use the library's memory allocator. Intended for use with third-party filter code. Tested on: h5committest, Solaris (emu), OS X (quail) Note: emu fails with the existing Inf/inf case problem in h5dump but no other tests fail.
* [svn-r26700] Generators are only built staticAllen Byrne2015-04-0111-29/+30
| | | | Plugin test for disable state does not print error stack and does not print FAILED
* [svn-r26697] HDFFV-9131: Remove obsolete/unneeded sections.Allen Byrne2015-04-0146-646/+61
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* [svn-r26696] Merge from trunkAllen Byrne2015-04-017-123/+336
| | | | Tested local linux cmake
* [svn-r26688] HDFFV-8667: h5repack crashes on enumerated 8-bit type nested in ↵Albert Cheng2015-04-017-1/+25762
| | | | | | | | compound type Fixed and added user provided test file to verify the fix. (Test added to h5dump/testh5dump.sh.in). Tested: h5committest
* [svn-r26686] Add new test from test scriptAllen Byrne2015-03-311-1/+19
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* [svn-r26681] Merge r26677 from trunk.Albert Cheng2015-03-316-25/+73
| | | | | | | | | | | | | | | HDFFV-8957: h52gif crashes when run against one of our own examples The tool claimed it could handle 24bit images but there was no code to handle it. (or might be there were but was removed by previous revisions.) Also discovered that it does not accept multiple images nor -p for palette as its user document and online help message indicated. Solution: Added code to verify dimension sizes are within 8 bit raster images limit and added tests to verify the tools correctness. Need to update user document tool. Tested: h5committested.
* [svn-r26676] HDFFV-9201: Create md5s for bzip, gzip and zip filesAlbert Cheng2015-03-311-11/+15
| | | | | | An md5 checksum is produced for each archive created and stored in the md5 file Tested: jam by hand.
* [svn-r26674] merged r26657 and r26642 from the trunk into the branch.Scot Breitenfeld2015-03-316-10/+195
| | | | tested: h5committest
* [svn-r26672] Since cmake always redoes everything from start, I change the ↵Albert Cheng2015-03-311-1/+1
| | | | | | | | logfiles to start fresh everytime. Tested: platypus
* [svn-r26666] Description:Frank Baker2015-03-301-1/+1
| | | | Update HDF Group copyright dates to include 2015.
* [svn-r26663] added option to configure support for fortran2003 API.Albert Cheng2015-03-301-1/+12
| | | | | | | --enable-fortran2003 | --disable-fortran2003: enable or disable fortran2003 API. Default is off. Tested: by hand in platypus.
* [svn-r26658] Correct windows define for exports/importsAllen Byrne2015-03-304-145/+145
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* [svn-r26656] Correct windows define for exports/importsAllen Byrne2015-03-301-1/+1
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* [svn-r26654] Bring trunk CMake changes to branch.Allen Byrne2015-03-3020-357/+226
| | | | Tested: local linux
* [svn-r26648] Description:Quincey Koziol2015-03-308-202/+7
| | | | | | | | | | | | | Bring r26635 from trunk to 1.8 branch: Bring r26651 from autotools_rework branch to trunk: Remove the VSNPRINTF_WORKS macro, it's working around bugs in old SGI & HP compilers. Tested on: Linux/32 2.6.18 (jam) w/serial & parallel (Daily tested on trunk for 2+ days)
* [svn-r26644] Snapshot version 1.8 release 15 (snap13)HDF Tester2015-03-295-17/+17
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* [svn-r26638] Description:Quincey Koziol2015-03-288-341/+5
| | | | | | | | | | | | | Bring r26598 from trunk to 1.8 branch: Bring r26501 from the autotools_rework branch to the trunk: Remove ULLONG_TO_LDOUBLE_PRECISION macro/define, as it's targeting bugs in the FreeBSD and Cygwin compilers. Tested on: Linux/32 2.6.18 (jam) w/serial & parallel (Daily tested on trunk for 2+ days)
* [svn-r26637] Description:Quincey Koziol2015-03-287-93/+3
| | | | | | | | | | | | | Bring r26597 from trunk to 1.8 branch: Bring r26500 from autotools_rework branch to trunk: Remove the LLONG_TO_FP_CAST_WORKS macro/define, as it targets problems with the Visual Studio 6 compilers. Tested on: Linux/32 2.6.18 (jam) w/serial & parallel (Daily tested on trunk for 2+ days)
* [svn-r26636] Description:Quincey Koziol2015-03-2811-136/+8
| | | | | | | | | | | | | Bring r26596 from trunk to 1.8 branch: Bring r26499 from autotools_rework branch to trunk: Remove ULLONG_TO_FP_CAST_WORKS macro/define, as it only applies to older platforms we aren't supporting any longer. Tested on: Linux/32 2.6.18 (jam) w/serial & parallel (Daily tested on trunk for 2+ days)
* [svn-r26630] Description:Quincey Koziol2015-03-2710-157/+1
| | | | | | | | | | | | | Bring r26595 from trunk to 1.8 branch: Bring r26494 from autotools_rework branch back to trunk: Remove the LDOUBLE_TO_UINT_ACCURATE macro/define, it was addressing problems with older Intel compilers on Linux that are no longer supported. Tested on: Linux/32 2.6.18 (jam) w/serial & parallel (Daily tested on trunk for 2+ days)
* [svn-r26628] Description:Quincey Koziol2015-03-2710-334/+5
| | | | | | | | | | | | | | Bring r26591 from trunk to 1.8 branch: Bring r26492 from autotools_rework branch back to trunk: Remove the FP_TO_ULLONG_ACCURATE and FP_TO_ULLONG_RIGHT_MAXIMUM macros/defines, which were added to address problems with older PGI compilers and HP-UX systems and are no longer supported. Tested on: Linux/32 2.6.18 (jam) w/serial & parallel) (Daily tested for 2+ days on trunk)
* [svn-r26626] Description:Quincey Koziol2015-03-279-323/+4
| | | | | | | | | | | | | Bring r26587 from trunk to 1.8 branch: Bring r26489 from autotools_rework branch to trunk: Remove the ULONG_TO_FP_BOTTOM_BIT_ACCURATE macro/define, as it was added for SGI systems and old Solaris systems, which are no longer supported. Tested on: Linux/32 2.6.18 (jam) w/serial & parallel (Daily tested on trunk for 2+ days)
* [svn-r26624] Description:Quincey Koziol2015-03-278-177/+2
| | | | | | | | | | | | | Bring r26584 from trunk to 1.8 branch: Bring r26485 from the autotools_rework branch to the trunk: Remove the ULONG_TO_FLOAT_ACCURATE macro/define, we no longer support the Sandia system where it was necessary. Tested on: Linux/32 2.6.18 (jam) w/serial & parallel (Daily tested on trunk for 2+ days)
* [svn-r26617] Merged r26616 from the trunk into the branch.Scot Breitenfeld2015-03-271-1/+0
| | | | Tested: Text changes only.
* [svn-r26615] merged r26575 from the trunk into the branch.Scot Breitenfeld2015-03-276-48/+52
| | | | Tested: h5committest
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