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* [svn-r16710] Purpose: Fix bug 1423Neil Fortner2009-04-081-11/+9
| | | | | | | | | | | | | | Description: Versions of the library between 1.3.0 and 1.6.3 have a bug which prevents them from opening any file that does not have the root group's symbol table information cached in the root group's entry in the superblock. Prior to 1.8 this was not an issue as this information was always cached. However, 1.8.0 stopped writing this information (which is not required by the file format specification), and these older versions can therefore not read files created or last written by versions 1.8.0 to 1.8.2. This fix modifies the library to once again add this information to the superblock (when using the old file format). Tested: jam, linew, smirom (h5committest)
* [svn-r16615] Purpose: Fix bug 1499Neil Fortner2009-03-261-1/+2
| | | | | | | | | | | Description: Due to a bug in H5F_super_read, every time a file with a user block was opened it would grow by the size of the user block. The bug has been fixed, and comments have been added to clarify when an eoa address should be relative and when it should be absolute. Tested: jam, linew (h5committest)
* [svn-r16611] In previous checkin (r16609), the flag "write_driver" wasn't ↵Raymond Lu2009-03-251-11/+9
| | | | | | | | necessary as Quincey pointed out. I took it out and used the driver address instead. Tested on jam - simple change.
* [svn-r16609] Bug fix (#1161): When a family file created with v1.6 library ↵Raymond Lu2009-03-241-1/+11
| | | | | | | | | | | is opened and closed with v1.8 library, v1.8 library writes the driver info block in the superblock. But v1.6 doesn't write it. This caused the data after the superblock to be overwritten. The solution is to use a flag to indicate when the original file doesn't have the driver info, v1.8 library doesn't write it either. Tested on jam. I have some trouble to access smirom and linew using h5committest.
* [svn-r16594] Purpose: fix bug 1189Neil Fortner2009-03-231-1/+2
| | | | | | | | | | | Description: Some files apparently exist in the wild which have corrupt symbol table messages on the root group. These files can be opened by 1.6 (which uses the cached information in the superblock) but not by 1.8. This patch fixes 1.8 and 1.9 so they can now open these files, and will correct them if necessary. Also fix some potential (rare) problems with array datatype versions. Tested: jam (parallel; h5committest not working on linew or smirom)
* [svn-r16182] Description:Quincey Koziol2008-12-111-8/+8
| | | | | | | | | | | | | | | | | | | | | | Rename internal routines, variables, macros, typedefs, etc. for chunked dataset storage from "istore" to some variant of "chunk" or "btree". Tested on: Mac OS X/32 10.5.5 (amazon) in debug mode Mac OS X/32 10.5.5 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode 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/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 production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode
* [svn-r15861] Description:Quincey Koziol2008-10-141-34/+93
| | | | | | | | | | | | | | | | | | | | | | | | Various bug fixes & cleanups with VFDs and file free space changes, along with cleaning up compiler warnings. Enable more VFDs (for 'make check-vfd' testing) for many tests. Tested on: Mac OS X/32 10.5.5 (amazon) in debug mode Mac OS X/32 10.5.5 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (kagiso) w/PGI compilers, 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 production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode
* [svn-r15800] Description:Quincey Koziol2008-10-071-35/+58
| | | | | | | | | | | | | | | | | | | | | | | Bring file free space branch changes through r15795 into trunk, which includes a fair bit of code cleanup & rearrangement along with a couple of bug fixes also. Tested on: Mac OS X/32 10.5.5 (amazon) in debug mode Mac OS X/32 10.5.5 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (kagiso) w/PGI compilers, 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 production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode
* [svn-r15628] Description:Quincey Koziol2008-09-161-3/+3
| | | | | | | | | | | | | 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-r15510] Description:Quincey Koziol2008-08-211-3/+3
| | | | | | | | Clean up warnings & formatting Tested on: Mac OS X/32 10.5.4 (amazon) More tests forthcoming
* [svn-r13986] Description:Quincey Koziol2007-07-171-1/+1
| | | | | | | | | Add flag to bypass (expensive) B-tree & heap size retrieval for internal calls to H5O_get_info(). Teted on: Mac OS X/32 10.4.10 (amazon) FreeBSD/32 6.2 (duty)
* [svn-r13984] Description:Quincey Koziol2007-07-171-8/+22
| | | | | | | | | | | Various code cleanups and refactor recent changes for h5stat to fit into the existing library data structures better. Tested on: Mac OS X/32 10.4.10 (amazon) FreeBSD/32 6.2 (duty) Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13978] purpose:Vailin Choi2007-07-131-0/+27
| | | | | | | | | | | | | | New feature. Description: Added routines to report on the amount of storage for: 1) 1.6 btree and heap storage info for groups 2) 1.8 btree, fractal heap storage info for groups, attributes and SOHM table 3) btree storage for chunked datasets 4) 1.8 superblock extension size. Platform tested: h5committested.
* [svn-r13495] Description:Quincey Koziol2007-03-111-14/+15
| | | | | | | Cleanup handling of file consistency/status flags a bit. Tested on: FreeBSD/32 6.2 (duty)
* [svn-r13465] Description:Quincey Koziol2007-03-061-2/+2
| | | | | | | | | | | | Fix bug in external links when "strong" file close degree is used. Make external link callbacks use standard error reporting mechanisms. Other minor code cleanups... Tested on: Mac OS X/32 10.4.8 (amazon) FreeBSD/32 6.2 (duty)
* [svn-r13440] Description:Quincey Koziol2007-03-011-279/+438
| | | | | | | | | | | | | | | | | | | Revise latest form of superblock format pretty drastically, to eliminate unused fields and move rarely used fields into superblock extension. Finished removing last vestiges of references to (never used) i"shared" object header message ID. Added object header messages for non-default v1 B-tree 'K' values and for driver info. Updated testfiles to reflect size changes, etc. Various minor cleanups, etc. Tested on: FreeBSD/32 6.2 (duty) Mac OS X/32 10.4.8 (amazon)
* [svn-r13427] Description:Quincey Koziol2007-02-271-48/+51
| | | | | | | Eliminate some unnecessary properties for unused aspects of superblock. Tested on: Mac OS X/32 10.4.8 (amazon)
* [svn-r13422] Description:Quincey Koziol2007-02-271-21/+28
| | | | | | | | | | | Move split between "fixed" and "variable length" portions of superblock to be immediately after the superblock version number. Minor cleanups in h5debug's handling of superblock signature. Tested on: Mac OS X/32 10.4.8 (amazon) FreeBSD/32 6.2 (duty)
* [svn-r13420] Description:Quincey Koziol2007-02-271-3/+3
| | | | | | | | | Update the file offsets for files created with "latest version" flag of h5mkgrp to reflect changes to superblock size. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13419] Description:Quincey Koziol2007-02-271-6/+6
| | | | | | | | | Fix error introduced into driver info block size computation, which caused the test/big test to fail. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13413] Description:Quincey Koziol2007-02-271-167/+174
| | | | | | | | | | | | | Further cleanups to superblock code: - Move most of the ISOHM-specific code into the H5SM module - Make only one checksum, for combined superblock & driver info block Minor other cleanups, etc. Tested on: Mac OS X/32 10.4.8 (amazon) FreeBSD/32 6.2 (duty)
* [svn-r13375] Description:Quincey Koziol2007-02-221-174/+235
| | | | | | | | | | Straighten out some of the code for handling superblocks, in preparation for revising the format of the latest version of the superblock before the beta release. Tested on: Mac OS X/32 10.4.8 (amazon) FreeBSD/32 6.2 (duty)
* [svn-r13254] Cleaned up superblock extension code and added some more ↵James Laird2007-02-071-25/+7
| | | | | | helpful comments. Tested on Windows, smirom, and kagiso.
* [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-r13245] Added "superblock extension" object header to hold shared ↵James Laird2007-02-061-3/+44
| | | | | | | | | object header information, rather than storing it directly in the superblock. This should make future updates to the superblock much less painful. Tested on Windows, kagiso, and smirom.
* [svn-r13186] Cleaned up a few warnings by initializing variables and doing a ↵James Laird2007-01-241-3/+3
| | | | | | few casts. Tested on kagiso, smirom, copper.
* [svn-r13153] Added checksum to superblock and driver info block (in latest ↵James Laird2007-01-181-99/+128
| | | | | | | | | | | version of superblock). Tried to standardize sizes and added #defines to H5Fpkg.h so that hopefully the code is a little easier to read. Of course this is a file format change. Tested on Windows, juniper, smirom, kagiso.
* [svn-r13139] Fixed the MULTI problem (Bug #731) that corrupted the data. ↵Raymond Lu2007-01-121-6/+6
| | | | | | | The problem came from the EOA for the whole MULTI file. It's taken out because it's meaningless for MULTI file. Instead, each individual file has its EOA.
* [svn-r13119] More code cleanup. Made shared messages zero-indexed instead ofJames Laird2007-01-081-3/+3
| | | | | | one-indexed. Changed the names of some constants to be more consistent. Tested on juniper, smirom, and copper.
* [svn-r13102] Found a bug: shared message list sizes above the maximum were ↵James Laird2007-01-031-3/+3
| | | | | | | | | | | not caught. Fixed bug and a related one where the number of indexes could be set above the maximum. Added tests for both bugs. Tested on kagiso and smirom.
* [svn-r13021] Cleaned up some mismatched types that were causing errors on ↵James Laird2006-12-041-2/+2
| | | | | | | | copper in 64-bit mode. Tested on copper.
* [svn-r13004] Much improved shared object header message test, along with ↵James Laird2006-12-011-1/+4
| | | | | | | | | | | some bug fixes to make the test pass. These changes involve changes to the file format of SOHMs, but that's okay because nobody should have been using SOHMs yet anyway. Tested on Windows, kagiso, copper, and heping
* [svn-r12957] Clean up some purify warnings in the code by making sure thatJames Laird2006-11-211-1/+1
| | | | | | memory is always initialized. Tested on heping, kagiso, and juniper.
* [svn-r12935] Added list-to-btree conversion, changed SOHM apis, and pushed ↵James Laird2006-11-171-10/+14
| | | | | | | | | | | SOHM table version and size information into the superblock to eliminate a read when loading it. This is a file format change, and hopefully the last one (knock on wood). Tested on kagiso and Windows (mostly just a SOHM change).
* [svn-r12902] Checkin of Shared Object Header Message work.James Laird2006-11-131-7/+51
| | | | | | | | | | | | This feature is still in progress; Shared Object Header Messages are not complete as a feature and are not thoroughly tested. There are still "TODO" comments in the code (comments with the word "JAMES" in them, so as not to be confused with other TODO comments). Hopefully this checkin will reduce the liklihood of conflicts as I finish implementing this feature. All current tests pass on juniper, copper (parallel), heping, kagiso, and mir.
* [svn-r12866] Description:Quincey Koziol2006-11-061-1/+1
| | | | | | | Clean up initialization of H5F & H5L APIs. Tested on: Linux/64 2.6 (chicago2)
* [svn-r12708] Description:Quincey Koziol2006-10-031-5/+2
| | | | | | | | | | | | | | | | | | | Add the "use the latest version of the format" support to datatype messages. And a regression test to check that it's working. Also, found that we have been over-allocating space for compound datatype messages (when they have array datatypes or can use the latest version of the format) and trimmed the size back. Clean up datatype & dataspace encode/decode routines by having them allocate & release "fake" file structures, which gets them out of needing to "know" about the internals of file structures. Other minor whitespace/formatting cleanups, etc. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r12706] Description:Quincey Koziol2006-10-021-2/+2
| | | | | | | | | Clean up some of the warnings on 64-bit Linux... Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2) Too minor to require h5committest
* [svn-r12705] Description:Quincey Koziol2006-10-021-8/+2
| | | | | | | | | | | | Fix file handle destroy routine to not attempt to flush out partially initialized file handles (when opening a file fails). Tested on: (until they finished testing, this time... :-) FreeBSD/32 4.11 (sleipnir) w/threadsafe Linux/64 2.4 (mir) w/1.6 compat Linux/32 2.4 (heping) w/FORTRAN & C++ Mac OSX/32 10.4.8 (amazon)
* [svn-r12292] Purpose:Quincey Koziol2006-04-201-5/+2
| | | | | | | | | | | | | Code maintenance Description: Remove flexible parallel code Platforms tested: FreeBSD 4.11 (sleipnir) Linux 2.4 (heping) Solaris 2.9 (shanti) Linux 2.4/64 (mir)
* [svn-r11712] Purpose:Quincey Koziol2005-11-151-12/+3
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | New feature Description: Check in baseline for compact group revisions, which radically revises the source code for managing groups and object headers. WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! This initiates the "unstable" phase of the 1.7.x branch, leading up to the 1.8.0 release. Please test this code, but do _NOT_ keep files created with it - the format will change again before the release and you will not be able to read your old files!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! WARNING!!!! Solution: There's too many changes to really describe them all, but some of them include: - Stop abusing the H5G_entry_t structure and split it into two separate structures for non-symbol table node use within the library: H5O_loc_t for object locations in a file and H5G_name_t to store the path to an opened object. H5G_entry_t is now only used for storing symbol table entries on disk. - Retire H5G_namei() in favor of a more general mechanism for traversing group paths and issuing callbacks on objects located. This gets us out of the business of hacking H5G_namei() for new features, generally. - Revised H5O* routines to take a H5O_loc_t instead of H5G_entry_t - Lots more... Platforms tested: h5committested and maybe another dozen configurations.... :-)
* [svn-r11245] Purpose:Quincey Koziol2005-08-131-15/+15
| | | | | | | | | | | | | | | | | | | | 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
* [svn-r11022] Purpose:Quincey Koziol2005-07-051-0/+646
Bug fix & code cleanup Description: Don't unmount child files from a parent file if the parent file is being held open by an object. Also, moved the mounting routines into their own source file and the superblock routines into their own file also. Solution: Moved the code for unmounting child files down in the H5F_close routine and also add checks to the file and group mounting code to unmount child files when the last object holding open a file closes. Platforms tested: FreeBSD 4.11 (sleipnir) h5committest
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