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* [svn-r9727] Purpose:Quincey Koziol2004-12-291-17/+5
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bug Fix/Code Cleanup/Doc Cleanup/Optimization/Branch Sync :-) Description: Generally speaking, this is the "signed->unsigned" change to selections. However, in the process of merging code back, things got stickier and stickier until I ended up doing a big "sync the two branches up" operation. So... I brought back all the "infrastructure" fixes from the development branch to the release branch (which I think were actually making some improvement in performance) as well as fixed several bugs which had been fixed in one branch, but not the other. I've also tagged the repository before making this checkin with the label "before_signed_unsigned_changes". Platforms tested: FreeBSD 4.10 (sleipnir) w/parallel & fphdf5 FreeBSD 4.10 (sleipnir) w/threadsafe FreeBSD 4.10 (sleipnir) w/backward compatibility Solaris 2.7 (arabica) w/"purify options" Solaris 2.8 (sol) w/FORTRAN & C++ AIX 5.x (copper) w/parallel & FORTRAN IRIX64 6.5 (modi4) w/FORTRAN Linux 2.4 (heping) w/FORTRAN & C++ Misc. update:
* [svn-r9608] Purpose:Albert Cheng2004-12-011-0/+2
| | | | | | | Added comment of the fix. Platforms tested: only tested in heping as it is only a comment added.
* [svn-r9603] Purpose:Quincey Koziol2004-11-301-1/+1
| | | | | | | | | | | | | | | | Bug fix Description: Correct integer overflow situation for computing the size of a dataset. Solution: Rachet one of the dimensions down far enough that the total size of the dataset's raw data doesn't overflow a 64-bit int. Platforms tested: FreeBSD 4.10 (sleipnir) IRIX 6.? (tesla) w/-n32 Too minor to require h5committest
* [svn-r9494] Purpose:Robert E. McGrath2004-11-021-6/+10
| | | | | | | | | | | | Fix SZIP filter to dynmically detect encoder. Description: Solution: See: http://hdf.ncsa.uiuc.edu/RFC/SZIP/Szip_dynamic_12_Oct.pdf Changes to library tests, contingent on detecting SZIP encoder.
* [svn-r9073] Purpose: bug fixRaymond Lu2004-08-121-1/+1
| | | | | | | | | | Description: The test tried to read a dataset of H5T_STD_I32LE type and verify with the size of H5T_NATIVE_INT in function test_misc20(). This will fail on some machines like Crays where the size of H5T_NATIVE_INT is 8 bytes. Solution: Changed from H5T_NATIVE_INT to H5T_STD_I32LE. Platforms tested: Crays - very simple change.
* [svn-r9016] Purpose:Quincey Koziol2004-08-051-9/+10
| | | | | | | | | | | Code cleanup Description: Clean up ifdef's and close leaked ID. Platforms tested: FreeBSD 4.10 (sleipnir) Too minor to require h5committest
* [svn-r9014] Elena Pourmal2004-08-041-6/+9
| | | | | | | | | | | | | | | | Purpose: Small bug fix Description: When SZIP filter is present but encoding is not enabled test_misc21 and h5repack tests failed. Solution: Those tests should not run in this situation at all. Used conditonal compilation to disable the tests. Platforms tested: sol (today I will enable the daily tests with the szip library that doesn't have encoder for few other platforms) Misc. update:
* [svn-r9010] Purpose:Robert E. McGrath2004-08-041-1/+159
| | | | | | | | | | | | | Tests for SzIP n-bit precision (and other dt's) Description: See earlier checkins Solution: Platforms tested: Misc. update:
* [svn-r8969] Purpose:Quincey Koziol2004-07-301-5/+7
| | | | | | | | | | | | | | | | | | | | | | | | Bug fix. Description: Address two problems: - The computation of the scanline in the szip filter was being performed in the "can apply" callback routine instead of the "set local" routine. - The routine which allocated all the chunks for an entire dataset (which is invoked when the allocation time is early or late, rather than incremental) wasn't recording a failed filter in the information for the chunk, causing the library to believe that the chunk had the filter applied when it really hadn't. Solution: - Move the scanline computation to the "set local" callback. - Record the filter mask with each chunk created when allocating them. Platforms tested: FreeBSD 4.10 (sleipnir) w/szip Too obscure to require h5committest
* [svn-r8960] Purpose:Quincey Koziol2004-07-281-0/+1
| | | | | | | | | | | Bug fix Description: Clean up new testfile from earlier checkin. Platforms tested: FreeBSD 4.10 (sleipnir) Too minor to require h5committest
* [svn-r8958] Purpose:Quincey Koziol2004-07-271-1/+78
| | | | | | | | | | | | | Bug fix Description: Always write fill values to chunks when initializing entire B-tree and any filters are defined. Platforms tested: FreeBSD 4.10 (sleipnir) w/parallel Solaris 2.7 (arabica) Too minor to require h5committest
* [svn-r8614] Purpose:Quincey Koziol2004-06-051-2/+5
| | | | | | | | | | | | | | | Refactor code Description: Move chunk and contiguous cached raw data from file information to dataset information. This simplifies a number of internal interfaces, aligns the code with it's purpose better and should allow more optimizations to the chunked data I/O performance. Platforms tested: Solaris 2.7 (arabica) FreeBSD 4.10 (sleipnir) h5committest
* [svn-r8600] Purpose:Quincey Koziol2004-05-311-2/+2
| | | | | | | | | | | | | Code optimization Description: Don't recompute the internal index value for looking up the chunk in the hash table, just use the value already computed from iterating through the chunks. Platforms tested: Solaris 2.7 (arabica) FreeBSD 4.9 (sleipnir) w/parallel
* [svn-r8590] Purpose:Quincey Koziol2004-05-271-0/+189
| | | | | | | | | | | | | | | | | | | | | Code optimization & bug fix Description: When dimension information is being stored in the storage layout message on disk, it is stored as 32-bit quantities, possibly truncating the dimension information, if a dimension is greater than 32-bits in size. Solution: Fix the storage layout message problem by revising file format to not store dimension information, since it is already available in the dataspace. Also revise the storage layout data structures to be more compartmentalized for the information for contiguous, chunked and compact storage. Platforms tested: FreeBSD 4.9 (sleipnir) w/parallel Solaris 2.7 (arabica) h5committest
* [svn-r8331] Purpose: Last step of check-in for Null dataspaceRaymond Lu2004-04-081-82/+0
| | | | | | | | | | | | Description: Mainly are header message changes for dataspace. In last round of check-in, a new header message for dataspace to created, which is not a good way. Now, there will be no new message for dataspace, but just add the type of dataspace in the message while increment its version number. Backward compatibility is addressed. The attribute design is modified accordingly. Took out Null dataspace test from tmisc.c and put it in th5s.c. Platforms tested: h5committest
* [svn-r8315] *** empty log message ***Raymond Lu2004-04-061-2/+84
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* [svn-r8048] Purpose:Quincey Koziol2004-01-101-112/+58
| | | | | | | | | | | | | Code cleanup & reorganization Description: Move further in the testing framework cleanup, eliminating all the global variables (moving them into testframe.c as static variables) from the testing framework code and moving it into the libh5test.a. Platforms tested: FreeBSD 4.9 (sleipnir) w & w/o thread-safety, c++ & parallel h5committested
* [svn-r7932] Purpose:Quincey Koziol2003-12-111-2/+439
| | | | | | | | | | | Add new feature Description: Add new H5I{dec|get|inc}_ref() routines and tests for them. Platforms tested: FreeBSD 4.9 (sleipnir) h5committest
* [svn-r7582] Purpose:Quincey Koziol2003-10-091-4/+4
| | | | | | | | | | | | | | | | | | Bug fix Description: The tests recently added for checking a file's freespace and verifying the new fields added to the H5G_stat_t structure use H5T_NATIVE_INT as the type for the datasets and attributes they create. Because the tests check explicit file sizes, this causes problems on Crays, where a native int is 64-bit instead of 32-bit. Solution: Change the tests to use H5T_STD_U32LE instead of H5T_NATIVE_INT. Platforms tested: FreeBSD 4.9 (sleipnir) Cray SV1 (wind)
* [svn-r7561] Purpose:Quincey Koziol2003-10-071-0/+113
| | | | | | | | | | | | Feature add Description: Add a few new fields to the H5G_stat_t structure, to allow more information about the object header to be retrieved. Platforms tested: FreeBSD 4.9 (sleipnir) h5committest
* [svn-r7527] Purpose:Quincey Koziol2003-09-301-2/+2
| | | | | | | | | | | | Code cleanup Description: Clean up a few loose ends and warnings for the 1.6 compatibility changes to the error API. Platforms tested: FreeBSD 4.9 (sleipnir) too minor to require h5committest
* [svn-r7474] Purpose: Add more testRaymond Lu2003-09-151-1/+180
| | | | | | | | Description: test fixed-length strings in two ways: array of strings and array of character. Platforms tested: h5committest
* [svn-r7441] Purpose:Quincey Koziol2003-09-041-0/+55
| | | | | | | | | | | | | | | | | Bug fix Description: The VFL driver ID in a file's access proprty list wasn't being reference counted correctly, causing the VFL driver to get prematurely closed after several calls to "H5Pget_access_plist->H5Pclose". Solution: Increment VFL driver ID reference count when copy of file's access property list is made in H5Pget_access_plist() Platforms tested: FreeBSD 4.9 (sleipnir) h5committest
* [svn-r7426] Purpose:Quincey Koziol2003-08-281-2/+235
| | | | | | | | | | | | | | | | | Bug fix Description: When datasets are deleted from a file, they are removed from the sieve buffer, but instead of invalidating only the part of the sieve buffer affected, the sieve buffer code would throw away the entire sieve buffer, potentially including other raw data in the buffer that hadn't been written to disk yet. Solution: Improve the sieve buffer clearing code to handle partial invalidations. Platforms tested: FreeBSD 4.8 (sleipnir) h5committest
* [svn-r7379] Purpose:Quincey Koziol2003-08-181-0/+7
| | | | | | | | | | | | Code cleanup Description: Changed version #'s returned from H5Pget_version from 'int *' to 'unsigned *' since we are never going to be using negative version #'s... :-) Platforms tested: FreeBSD 4.8 (sleipnir) too small to need h5committest
* [svn-r7362] Purpose:Quincey Koziol2003-08-141-0/+382
| | | | | | | | | | | | | Bug fix Description: Allow a user block to be "inserted" in front of a file (probably by writing a validly-sized userblock to a new file and then appending another HDF5 file to the new file). Platforms tested: FreeBSD 4.8 (sleipnir) h5committested
* [svn-r7320] Purpose:Quincey Koziol2003-08-081-4/+3
| | | | | | | | | | Refactored code Description: Chase changes for the 'fileno' and 'objno' fields in H5G_stat_t Platforms tested: h5committested
* [svn-r7243] Purpose:Quincey Koziol2003-07-211-0/+136
| | | | | | | | | | | | Bug fix Description: Fix bug with combination of fill-values, chunked datasets and variable-length strings. Platforms tested: FreeBSD 4.8 (sleipnir) h5committest
* [svn-r7232] Purpose:Quincey Koziol2003-07-161-12/+177
| | | | | | | | | | | | | | | | | | | | Bug fix Description: When a non-default indexed storage B-tree internal 'K' value is set by the user, the chunked datasets created in that file (until it is closed) use the user's 'K' value and the data can be accessed correctly, but the 'K' value is not stored in the file. However, once the file is closed and re-opened, the non-default 'K' value is lost and the data in the chunked datasets will not be able to be accessed correctly. Solution: Store the indexed storage B-tree internal 'K' value in the superblock. Platforms tested: FreeBSD 4.8 (sleipnir) h5committest
* [svn-r7181] Purpose:Quincey Koziol2003-07-071-4/+0
| | | | | | | | | | | Version update Description: Removed 1.4 compatibility code in the library. Platforms tested: FreeBSD 4.8 (sleipnir) h5committest
* [svn-r7038] Purpose:Quincey Koziol2003-06-131-1/+87
| | | | | | | | | | | | | | | | | | Test bug fix Description: The fill time in a dataset with no fill value information created with an older version of the library was getting set to H5D_FILL_TIME_ALLOC instead of the new default H5D_FILL_TIME_IFSET and was causing H5Dcreate() calls with that dataset creation property list to fail now. Solution: Set the new default in the fill time initialization for missing fill value information. Platforms tested: FreeBSD 4.8 (sleipnir) h5committest
* [svn-r7029] Purpose:Quincey Koziol2003-06-121-0/+4
| | | | | | | | | | | | | New feature/Bug fix Description: Add new fill time value - H5D_FILL_TIME_IFSET which writes the fill value to a dataset if the user has defined one, otherwise not writing the fill value to the dataset. Platforms tested: FreeBSD 4.8 (sleipnir) serial & parallel h5committest
* [svn-r6757] Elena Pourmal2003-04-251-2/+2
| | | | | | | | | | | | | | | | Purpose: Bug fix Description: on Cray T90IEEE compact storage test (in test_misc8) fails since dataset dimensions are too big; dataset will not fit into the message header. Solution: Reduced dimension sizes from 100 to 50. Platforms tested: h5committested on arabica and mod4; verbena failed because of the F90 license problem. I tested on verbena by hand and C only; Cray T90IEEE Misc. update:
* [svn-r6538] Purpose:Bill Wendling2003-03-311-11/+13
| | | | | | | | | | | | | Update Description: Updated the Copyright statement Platforms tested: Linux (This change is only in the comments, so I just check that the modules still compile) Misc. update:
* [svn-r6330] Purpose:Quincey Koziol2003-01-241-0/+33
| | | | | | | | | | | | | | | Bug Fix Description: When calling H5Fopen with the core VFL driver, but without the H5F_ACC_CREAT flag goes ahead and creates a memory file. Solution: Check for the H5F_ACC_CREAT flag before allowing the memory file to be created. Platforms tested: FreeBSD 4.7 (sleipnir)
* [svn-r6115] Purpose:Quincey Koziol2002-11-201-12/+12
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Code Cleanup & New Tests Description: tmisc.c: Switched from using H5_HAVE_COMPRESSION flag in favor of H5_HAVE_FILTER_DEFLATE. dsets.c: Switched from using H5_HAVE_COMPRESSION flag in favor of H5_HAVE_FILTER_DEFLATE. Refactored I/O filter tests to allow new filters to be [more] easily added. Added tests for shuffle & deflate+shuffle I/O filters (if the filter(s) are enabled). Added test for creating a new dataset with a filter that is not available. Added test for attempting to read a dataset created with a filter that is not available. Platforms tested: Tested h5committest {arabica (fortran), eirene (fortran, C++) modi4 (parallel, fortran)} FreeBSD 4.7 (sleipnir)
* [svn-r5926] Purpose:Quincey Koziol2002-09-131-24/+24
| | | | | | | | | | | | | API name change Description: Change all "space time" references to "alloc time", including API functions and macro definitions, etc. Platforms tested: FreeBSD 4.6 (sleipnir) w/C++ Solaris 2.7 (arabica) w/FORTRAN IRIX64 6.5 (modi4) w/parallel & FORTRAN
* [svn-r5895] Purpose:Quincey Koziol2002-08-271-9/+154
| | | | | | | | | | | | Code cleanup/More tests Description: Cleaned up some compiler warnings and wrote additional tests for space allocation and storage size routines. Platforms tested: FreeBSD 4.6 (sleipnir) w/serial & parallel. Will be testing on IRIX64 6.5 (modi4) in serial & parallel shortly.
* [svn-r5893] Raymond Lu2002-08-261-0/+9
| | | | | | | | | | Purpose: bug fix Description: The H5Dget_storage_size test doesn't handle the situation when no compression is configured. Platforms tested: IRIX 6.5
* [svn-r5887] Purpose:Quincey Koziol2002-08-231-3/+10
| | | | | | | | | | | Regression test for bug fix Description: Adjust selection so chunked data needs to be read from pre-allocated chunks w/filters, to verify that filter is applied correctly. Platforms tested: FreeBSD 4.6 (sleipnir) w/parallel
* [svn-r5879] Raymond Lu2002-08-201-0/+47
| | | | | | | | | Purpose: Design for compact dataset Description: Compact dataset is stored in the header message for dataset layout. Platforms tested: arabica, eirene.
* [svn-r5875] Purpose:Quincey Koziol2002-08-141-0/+320
| | | | | | | | | | | | | | Additional regression tests & bug fixes Description: There was no testing for the H5Dget_storage_size function and it seemed to be having problems with compressed, chunked datasets, so write some tests to verify that its working correctly. Also, fix case for allocating storage early for chunked datasets Platforms tested: FreeBSD 4.6 (sleipnir) serial & parallel
* [svn-r5586] Purpose:Quincey Koziol2002-06-111-1/+110
| | | | | | | | | | | | | | | | Bug Fix Description: H5Dcreate and H5Tcommit allow "empty" compound and enumerated types (i.e. ones with no members) to be stored in the file, but this causes an assertion failure and is somewhat vapid. Solution: Check the datatype "makes sense" before using it for H5Dcreate and H5Tcommit. Platforms tested: FreeBSD 4.5 (sleipnir)
* [svn-r5502] Purpose:Quincey Koziol2002-06-011-0/+110
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Test Bug Fix Description: Under certain [obscure] circumstances, an object header would get paged out of the metadata cache, and when it was accessed again and brought back into the cache, and immediately had additional metadata added to it (an attribute, usually, or perhaps adding an object to a group), and needed to be extended with a continuation message, but there was no room in any existing object header chunks for the continuation message and an existing object header message needed to be moved to the new object header chunk (I told you it was obscure :-), the object header message moved to the new chunk (not the new metadata being added) would get corrupted. *whew* :-) Solution: Actually copy the "raw" object header message information of the object header message being moved to the new chunk, instead of relying on the "native" object header message information being re-encoded when the object header is flushed. This is because when an object header is paged out of the metadata cache and subsequently brought back in, the "native" information pointer in memory is reset to NULL and only the "raw" information exists. [Actually, this additional testing doesn't trigger the bug, which needs _lots_ of objects to be created and accessed, but it does execise the object header continuation code more than other tests in the library.] Platforms tested: Solaris 2.7 (arabica) & FreeBSD 4.5 (sleipnir)
* [svn-r5191] Purpose:Quincey Koziol2002-04-171-0/+359
| | | | | | | | | | | | | | | | | | | Bug fix Description: When several level deep nested compound & VL datatypes are used, the data in the nested compound datatypes is incorrectly sharing the same "background buffer", causing data corruption when the data is written to the file. Solution: Allocate a separate background buffer for each level of the nested types to convert. (Also allocate temporary background buffers for array datatypes, where this sort of problem could occur also) Added more regression tests to check for these errors. Platforms tested: FreeBSD 4.5 (sleipnir) & Solaris 2.6 (baldric)
* [svn-r5097] Purpose:Quincey Koziol2002-03-271-0/+81
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bug Fix Description: Regression test for following bug: The H5Gget_objinfo() function was not setting the 'fileno' field in the H5G_stat_t struct passed in. Solution: Added a "file serial number" to each file currently open in the library and put that in the 'fileno' field. If a file is opened twice (with H5Fopen) and the VFL driver detects that it is the same file (i.e. the two file structures have the same "shared file info" in the library's memory structures), they will have the same serial number. This serial number has two drawbacks: - If a VFL driver doesn't/can't detect that two calls to H5Fopen with the same file actually _are_ the same file, each will get a different serial number - If the same file is closed and re-opened, the serial number will be different. It is be possible to fix the second drawback for many VFL drivers, but it would be a lot of effort and probably isn't worth it until we've got a good reason to do it. Dunno if we'll ever be able to fix the first drawback... Platforms tested: FreeBSD 4.5 (sleipnir) VS: ----------------------------------------------------------------------
* [svn-r4965] Purpose:Quincey Koziol2002-02-141-1/+80
| | | | | | | | | | | | | Bug Fix Description: If a non-zero fill-value is used for a chunked dataset, any non-existent chunked read with an "all" selection (or a contiguous hyperslab selection) will return zero for those instead of the user's fill-value. Solution: Fixed I/O code to pass down fill-value to "optimized" I/O routines, so it will be available to fill the user's buffer with. Platforms tested: FreeBSD 4.5 (sleipnir)
* [svn-r4869] Purpose:Quincey Koziol2002-01-271-6/+179
| | | | | | | | Add regression tests Description: Added regression test for using a VL-datatype in two separate files. Platforms tested: FreeBSD 4.5 (sleipnir)
* [svn-r4851] Purpose:Quincey Koziol2002-01-231-0/+150
Bug Fix Description: When file space was returned to the file space free-list for reuse, occasionally raw data allocations which used space from the free-list would overlap with the metadata accumulator and get over-written with the cached information in the accumulator, corrupting the data. Solution: Check if the space about to be recycled on the free-list is going to be used for raw data and also overlaps with the metadata accumulator cache, avoiding using space that fits those criteria. This fixes bug #701 Platforms tested: FreeBSD 4.5 (sleipnir)
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