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* [svn-r22076] #Issue 7922 - H5Pset_data_transform had seg fault with some ↵Raymond Lu2012-03-151-4/+176
| | | | | | | | | operations like x*-100. The parser mistaked "-" as substraction. I fixed it and also fixed another problem with some special cases like 100-x and 2/x. Tested on jam, koala, and ostrich.
* [svn-r22072] Purpose: Fix rare corruption bug (HDFFV-7879)Neil Fortner2012-03-151-0/+135
| | | | | | | | | | | | | | Description: When using the new object header format, it was possible for corruption to occur if the first object header chunk changed size such that the lenght of the "chunk 0 size" field changed. This only occurred if there were messages that had not been decoded. The original algorithm that changed the object header chunk size marked all messages as dirty, causing those that had not been decoded to have both the raw and native form invalidated. Changed the algorithm to avoid marking messages dirty and added assertions to catch the case where messages are dirtied without being decoded (or recently created) first. Tested: jam, koala, ostrich (h5committest), durandal
* [svn-r22070] Purpose: Fix rare corruption bugNeil Fortner2012-03-151-1/+206
| | | | | | | | | | Description: When using the new object header format and adding an attribute with a size near 64K, it was possible for file corruption to occur. This happened only if the first object header chunk was smaller than 256 bytes and then grew to larger than 64K after the attribute was added. Tested: ostrich, jam, koala (h5committest), durandal
* [svn-r22053] Description:Quincey Koziol2012-03-121-472/+494
| | | | | | | | | | Correct corner case for creating a contiguous dataset with a zero-sized dataspace, when the allocation time is set to early. Also clean up a few compiler warnings in the dataspace code. Tested on: Mac OSX/64 10.7.3 (amazon) w/debug & parallel
* [svn-r22024] Add HD prefix to tools library based tests. Cleaned ↵Allen Byrne2012-03-052-330/+326
| | | | | | allocation/free in tests. Tested: local linux/ changes h5committetest against 1.8 version
* [svn-r21934] Description:Quincey Koziol2012-02-131-1/+1
| | | | | | | | | Remove some leftover uses of the __FUNCTION__ macro, replacing them with FUNC macro, as used everywhere else. Tested on: Mac OSX/64 10.7.3 (amazon) w/debug, production & parallel (too minor to require h5committest)
* [svn-r21923] Description:Quincey Koziol2012-02-105-163/+163
| | | | | | | | | Add FUNC_ENTER macros for package-private routines and begin process of switching package routines to use them. All H5G routines are currently finished. Tested on: Mac OSX/64 10.7.3 (amazon) w/debug, production & parallel
* [svn-r21904] This is a followup commit for Issue 7756 - Creating a dataset ↵Raymond Lu2012-02-021-3/+3
| | | | | | in a read-only file caused seg fault when the file is closed. I changed the error ID from H5E_CACHE to H5E_OHDR in the error report macro in H5O_create and fixed a minor problem in tfile.c. Tested on jam and MacGoblin - minor changes.
* [svn-r21891] Issue 7756 - Creating a dataset in a read-only file caused seg ↵Raymond Lu2012-01-251-0/+74
| | | | | | fault when the file is closed. I fixed the problem by putting a condition check early in H5O_create of H5O.c. The old code checked it too late, not until a file space is created. I added a test case in tfile.c to check the creation of group, dataset, attribute, and datatype. Tested on koala, jam, and linew.
* [svn-r21804] Update CMake Required version in all folders to match current ↵Allen Byrne2011-12-051-1/+1
| | | | standard 2.8.6
* [svn-r21801] Remove unintentional change to dsets.c from r21793.Neil Fortner2011-12-051-115/+0
| | | | Tested: durandal
* [svn-r21793] Add RELEASE.txt note for r21789Neil Fortner2011-12-011-0/+115
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* [svn-r21792] Add ^L marker to test introduced in r21789Neil Fortner2011-12-011-1/+1
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* [svn-r21789] Purpose: Fix HDFFV-7833Neil Fortner2011-12-011-0/+116
| | | | | | | | | | | | Description: When shrinking a chunked dataset, the library fills in the unused parts of chunks that have been shrunk. The fill value buffer allocated for this purpose had a maximum size of 1 MB, but the fill was performed in a single operation. Therefore, if the amount of unused space in a chunk after being shrunk was greater than 1 MB, the library would read off the end of the fill value buffer. Changed the maximum fill buffer size to be equal to the chunk size. Tested: durandal; jam, koala, heiwa (h5committest)
* [svn-r21736] Issue 7582 - The library allowed the conversion of strings ↵Raymond Lu2011-11-101-22/+107
| | | | | | between ASCII and UTF8. I added more test cases to the previous commit. Now it has conversion from UTF8 to ASCII, ASCII to UTF8, VL and fixed length, and H5Tconvert. Tested on jam, koala, linew.
* [svn-r21734] Issue 7582 - The library allowed the conversion of strings ↵Raymond Lu2011-11-081-0/+132
| | | | | | between ASCII and UTF8. I corrected it by adding a condition check in H5T_conv_s_s and H5T_conv_vlen to report an error under this situation. Tested on jam, koala, linew.
* [svn-r21712] Change export decoration for windows linking.Allen Byrne2011-11-041-26/+26
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* [svn-r21675] Description:Quincey Koziol2011-10-261-1/+2
| | | | | | | | | Don't check dataset storage size for compressed datasets with region reference datatypes. (The address of the region reference type in the file varies and affects the compressed size) Tested on: Mac OS X/32 10.7.2 (amazon) w/debug & production + check-vfd
* [svn-r21674] Issue 7618 - the library had seg fault when it tried to shrink ↵Raymond Lu2011-10-261-0/+14
| | | | | | | | the size of compound data type through H5Tset_size immedia tely after the type was created. I fixed it in this commit. Tested on jam, linew, and koala.
* [svn-r21667] Update FOLDER solution option for target properties. Added ↵Allen Byrne2011-10-251-20/+12
| | | | | | OPTION command for solution folder and no packaging. Tested: local linux
* [svn-r21664] Added solution folders for most of the projects. This still ↵Dana Robinson2011-10-251-0/+16
| | | | | | needs some polish - the solution folder assignment should go closer to the target declaration and not all projects are grouped (parallel, c++, fortran, hl, and a few others). Tested on Windows.
* [svn-r21629] Purpose: Update fix committed in r21556Neil Fortner2011-10-201-1/+2
| | | | | | | | Description: An old patch was mistakenly committed in r21556. Replaced this fix with the latest. Tested: jam, koala, heiwa (h5committest)
* [svn-r21617] Description:Quincey Koziol2011-10-201-413/+434
| | | | | | | | | | Recalculate the size of destination attribute message when the source and destination versions are different during an object copy operation. (Jira: HDFF-7718) Tested on: Mac OS X/32 10.7.2 (amazon) w/debug (h5committest upcoming)
* [svn-r21603] Purpose: Add generic skip list implementationNeil Fortner2011-10-181-74/+210
| | | | | | | | | | | | | Description: Added new H5SL_TYPE_GENERIC skip list type, which uses void *'s as keys and a client-supplied callback for key comparison. This was added to support the upcoming "merge named datatype" feature for H5Ocopy, but may be used in other places as well. Also added testing. Also fixed a potential bug with the H5SL_TYPE_OBJ implementation, and added testing for that. Tested: jam, koala, heiwa (h5committest), durandal
* [svn-r21564] Improve testing for H5Pset_libver_bounds (bring in line with ↵Neil Fortner2011-10-141-23/+41
| | | | | | 1.8 branch) Tested: durandal (too minor for full h5committest)
* [svn-r21562] Improve testing for H5Pset_libver_boundsNeil Fortner2011-10-141-2/+34
| | | | Tested: durandal (too minor for full h5committest)
* [svn-r21561] Description:Quincey Koziol2011-10-143-5/+93
| | | | | | | | | | | | Correct error in loading local heap prefix & data block from the file. Sometimes the local heap's prefix could be loaded before the data block (e.g. using H5Oget_info), but then when the data block was loaded later, the free list information would get lost, causing the heap's size to grow larger than necessary. This is Jira bug #HDFFV-7767 Tested on: Mac OS X/32 10.7.2 (amazon) w/debug (h5committest coming up)
* [svn-r21556] Purpose: Fix bug in H5OcopyNeil Fortner2011-10-131-3/+147
| | | | | | | | | | | | | Description: H5Ocopy could get confused when copying a named datatype containing an attribute which used that named datatype as its datatype. This happened because H5Ocopy would recurse into the attribute's datatype before the object the attribute was in was fully copied (i.e. before the "post-copy" pass). Modified H5Ocopy to avoid recursing before the post-copy step in this case. Required many changes, including to how non-committed shared messages are copied. Tested: jam, koala, heiwa (h5committest); durandal
* [svn-r21508] Revoked svn check-ins 20913 and 20921 (fix for HDFFV-7579) ↵Dana Robinson2011-10-102-124/+6
| | | | pending a careful evaluation of enum conversion behavior.
* [svn-r21459] Problem:Albert Cheng2011-10-041-1/+1
| | | | | | | | | | Some machines, like LLNL udawn, a blue-gene machine, requires all executables, be launched by some command like mpirun. Solution: Added $RUNSERIAL to launch the executable. Tested: LLNL uDawn.
* [svn-r21366] JIRA HDFFV-2748 replace use of _WIN32 in source. Created new ↵Allen Byrne2011-09-063-389/+386
| | | | | | defines H5_HAVE_WIN32_API and H5_HAVE_VISUAL_STUDIO defines to use. These can be properly set during configurration. Tested: windows and local linux - reviewed internally
* [svn-r21342] Issue 7674 - clang compiler with -fcatch-undefined-behavior ↵Raymond Lu2011-08-311-6/+12
| | | | | | | | | -ftrapv discovered several problems in the test suite. One of them is in the INIT_INTEGER macro definition in dt_arith.c. It complained about line 150 where it tried to subtract 1 from the negative minimal value of "int", causing it to overflow (or underflow). So I revised the code to avoid it. Tested on jam, koala, linew, and Mac OS Lion with CLANG compiler.
* [svn-r21258] Issue 7674 - clang compiler reported an error with line 334:Raymond Lu2011-08-181-1/+1
| | | | | | | | | temp_point->l = (unsigned long long)((i * 100 + j * 1000) * n); The value can overflow the signed int before being converted to unsigned long long. So I changed it to temp_point->l = (unsigned long long)((i * 40 + j * 400) * n); to keep it under the maximal value. Tested on jam. Simple change.
* [svn-r21256] Add libinfo and test to cmake - JIRA 1243Allen Byrne2011-08-181-0/+14
| | | | Tested: local linux
* [svn-r21249] Description: Part II of F2003 branch merge into the trunk.Scot Breitenfeld2011-08-181-0/+3
| | | | | | Ran bin/reconfigure to update the Makefile.in in directories not part of the fortran directory check=in. Updates Makefile.in due to changes made in configure.in for the Fortran 2003 additions. Tested on all platforms run under daily tests.
* [svn-r21220] The original code Raymond Lu2011-08-121-1/+12
| | | | | | | | | i_mask = ~((unsigned)~0 << (precision[0] + offset[0])) & ((unsigned)~0 << offset[0]); in line 3680 left shifted a 32-bit integer for 32-bit. The result is undefined by C language. A user discovered it using clang compiler with -fcatch-undefined-behavior option (see Issue 7674 in Jira). So I changed it in a funny way to avoid it. Tested on jam, koala, and heiwa.
* [svn-r21163] Remove test library from export listAllen Byrne2011-08-011-1/+0
| | | | Tested: local linux
* [svn-r21152] Description:Quincey Koziol2011-07-282-0/+160
| | | | | | | | | | | | | | | | | | | | Further patches for Jira 7638, to ensure that H5D/Aget_type will be attached to the correct top file. (This change to the library should reverted when Jira 7638 is finally finished) Tested on: FreeBSD/32 8.2 (loyalty) w/gcc4.6, w/C++ & FORTRAN, in debug mode FreeBSD/64 8.2 (freedom) w/gcc4.6, 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 (koala) 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, w/threadsafe, in production mode Linux/PPC 2.6 (heiwa) w/C++ & FORTRAN, w/threadsafe, in debug mode Mac OS X/32 10.6.8 (amazon) in debug mode Mac OS X/32 10.6.8 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r21131] Description:Quincey Koziol2011-07-201-3/+16
| | | | | | | | | | | | | | | | | Disable some test code that isn't going to work correctly again until we've completely resolved Jira issue #7638. Tested on: FreeBSD/32 8.2 (loyalty) w/gcc4.6, w/C++ & FORTRAN, in debug mode FreeBSD/64 8.2 (freedom) w/gcc4.6, 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 (koala) 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, w/threadsafe, in production mode Linux/PPC 2.6 (heiwa) w/C++ & FORTRAN, w/threadsafe, in debug mode Mac OS X/32 10.6.8 (amazon) in debug mode
* [svn-r21127] Description:Quincey Koziol2011-07-201-4/+4
| | | | | | | Correct to use correct FAPL, to fix error when running 'make check-vfd' Tested on: Linux/64 2.6 (koala) w/make check-vfd
* [svn-r21124] Issue 2763 - adding OAPL_ID as a new parameter to ↵Raymond Lu2011-07-191-0/+2
| | | | | | | | | H5Rdereference. A followup commit for r21117. I made 2 changes: 1. Quincey changed H5P_DATASET_ACCESS_DEFAULT to H5P_DEFAULT for the tests that call H5Rdereference. Inside H5R_dereference, I assigned H5P_DATASET_ACCESS_DEFAULT to OAPL_ID if it is H5P_DEFAULT. 2. I added the test for invalid OAPL_ID in trefer.c. Tested on jam, koala, heiwa.
* [svn-r21121] Description:Quincey Koziol2011-07-185-37/+37
| | | | | | | | | Switch from H5P_DATASET_ACCESS_DEFAULT to H5P_DEFAULT for calls to H5Rdereference2(). Tested on: Mac OS X/32 10.6.8 (amazon) w/debug (too minor to require h5committest)
* [svn-r21120] Description:Quincey Koziol2011-07-183-2/+201
| | | | | | | | | | | Check in ugly version of fix for Jira #7638. I'm going to leave the issue open in Jira and when the library has been refactored to use shared file pointers (instead of top file pointers) for file operations, I'll uncomment the check in src/H5Oshared.c Tested on: Mac OS X/32 10.6.8 (amazon) w/debug (too small for h5committest)
* [svn-r21117] Issue 2763 - I added a new parameter of object access property ↵Raymond Lu2011-07-185-46/+120
| | | | | | list to the function H5Rdereference. It's called H5Rdereference2 now. H5Rdereference function has been deprecated to H5Rdereference1. I also added some test cases in trefer.c. Tested on jam, heiwa, and koala.
* [svn-r21078] Update test script to remove generated test files per test ↵Allen Byrne2011-07-081-21/+89
| | | | rather then in one group. Discovered from public 1.8 CDash reports.
* [svn-r21017] This is a follow-up checkin for r21015 (bug fix for Issue ↵Raymond Lu2011-06-224-2/+9
| | | | | | | | 2598). I added two minor changes: 1. put the output file for vfd.c test in the list for cleanup in Makefile.am; 2. put the data file in the list in CMakeLists.txt. Tested on jam - simple change.
* [svn-r21015] Bug fix for Issue 2598 - In v1.6 library, there was EOA for the ↵Raymond Lu2011-06-223-1/+172
| | | | | | | | | | | | | whole MULTI file saved in the super block. We took it out in v1.8 library because it's meaningless for the MULTI file. v1.8 library saves the EOA for the metadata file, instead. But this caused some backward compatibility problem. v1.8 library couldn't open the file created with v1.6 library. I fixed the problem by checking the EOA value to detect the file created with v1.6 library. Tested on jam, koala, and heiwa.
* [svn-r20971] Issue 4278 - When reading data fails, the error message should ↵Raymond Lu2011-06-131-2/+3
| | | | | | say which filter isn't registered. This is the follow-up commit. The previous way to construct the name of the existent data file wasn't very safe. It could be cleaned up if any user builds the library in the source directory. Tested on jam - simple change.
* [svn-r20944] Issue 4278 - When reading data fails, the error message should ↵Raymond Lu2011-06-071-14/+15
| | | | | | say which filter isn't registered. This is the follow-up commit. In my previous commit, I changed HDsnprintf to snprintf, which caused trouble for Windows because the name is _snprintf instead. So I changed it back to HDsnprintf for properly defined macro. I also changed all fprintf to HDprintf to be consistent. Tested on jam - simple change.
* [svn-r20942] Add filter_error.h5 test file to list - used by error_test test.Allen Byrne2011-06-071-0/+1
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