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* Hdf5 1 10 Update license url (#403)Larry Knox2021-03-011-1/+1
| | | | | | | | | | | | | | | | | | | | | | | * close #195. (#196) * Update HDF5PluginMacros.cmake * Update HDF5PluginMacros.cmake * Modify temporary rpath for testing in java example scripts. (#230) * Fix undefined left shifting of negative numbers (#338) Undefined Bahavior Sanitizer errored here about left shifting negative numbers. * Update license url (#332) * Modify temporary rpath for testing in java example scripts. * Update URL in source file Copyright headers for web copy of COPYING file - src and test directories. Co-authored-by: H. Joe Lee <hyoklee@hdfgroup.org> Co-authored-by: Sean McBride <sean@rogue-research.com>
* Source formattedAllen Byrne2020-10-011-145/+127
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* Normalizations with developDana Robinson2020-08-161-32/+26
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* merge intel warning fixKimmy Mu2020-01-091-1/+1
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* Merge branch 'develop' of https://bitbucket.hdfgroup.org/scm/hdffv/hdf5 into ↵Quincey Koziol2018-03-181-2/+3
|\ | | | | | | | | | | merge_func_enter_vol Plus initial steps toward merging API context push into FUNC_ENTER_API* macros
| * Fix for HDFFV-10355 (CVE-2017-17506).Dana Robinson2018-02-271-2/+3
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* | Add API context interface and use it throughout the library.Quincey Koziol2018-03-151-66/+62
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* Merge pull request #426 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:hdf5_1_10 to ↵Larry Knox2017-04-251-6/+4
| | | | | | | | | | hdf5_1_10 * commit '54957d37f5aa73912763dbb6e308555e863c43f4': Commit copyright header change for src/H5PLpkg.c which was added after running script to make changes. Add new files in release_docs to MANIFEST. Cimmit changes to Makefile.in(s) and H5PL.c that resulted from running autogen.sh. Merge pull request #407 in HDFFV/hdf5 from ~LRKNOX/hdf5_lrk:hdf5_1_10_1 to hdf5_1_10_1 Change copyright headers to replace url referring to file to be removed and replace it with new url for COPYING file.
* [svn-r27768] Description:Quincey Koziol2015-09-141-9/+10
| | | | | | | | | | | | | | | | | | | | | | Complete revamp of package initialization/shutdown mechanism in the library. Each package now has a single init/term routine. This new way should avoid packages being re-initialized during library shutdown and is also be _much_ more proactive about giving feedback for resource leaks internal to the library. Introduces a new "module" header file for packages in the library (e.g src/H5Fmodule.h) which sets up some necessary package configuration macros for the FUNC_ENTER/LEAVE macros. (The VFL drivers have their own slightly modified version of this header, src/H5FDdrvr_module.h) Also cleaned up a bunch of resources leaks all across the library and tests, along with addressing many warnings, as I encountered them. Tested on: MacOSX/64 10.10.5 (amazon) w/serial & parallel Linux/64 3.10.x (kituo) w/serial & parallel Linux/64 2.6.x (ostrich) w/serial
* [svn-r27133] - Add a new attribute function characterstic for format:Mohamad Chaarawi2015-06-011-9/+9
| | | | | | | | * H5_ATTR_FORMAT(X,Y,Z) __attribute__((format(X, Y, Z))) - Rename UNUSED attribute characterstic to H5_ATTR_UNUSED. - Rename NORETURN attribute characterstic to H5_ATTR_NORETURN tested with h5committest.
* [svn-r22608] Description:Quincey Koziol2012-07-261-5/+5
| | | | | | | | | | | | | | | Switch propert list/class iteration from internal to external form of iteration, cleaning up and simplifying the code a bit. Bring other general improvements from plist_encode_decode branch back to trunk. Clean up many warnings. Tested on: Mac OSX/64 10.7.4 (amazon) w/gcc 4.7, debug and C++ & FORTRAN (too minor to require h5committest)
* [svn-r22601] Purpose: Fix HDFFV-5853Neil Fortner2012-07-251-1/+1
| | | | | | | | | | | | | | Description: When jumping out from between H5_BEGIN_TAG and H5_END_TAG macros using HGOTO_ERROR or HGOTO_DONE, the previous metadata tag is not reset on the dxpl. This could cause problems when, for example, calling H5Ocopy within an H5Literate callback. Added new HGOTO_ERROR_TAG and HGOTO_DONE_TAG macros which must be used in place of the above between H5_BEGIN_TAG and H5_END_TAG. Tested: jam, koala, ostrich (h5committest), durandal
* [svn-r22171] Description:Quincey Koziol2012-03-281-7/+9
| | | | | | | | | Bring "merge committed datatypes during H5Ocopy" feature from branch to trunk. (Also has some minor bugfixes with it) Tested on: Mac OSX/64 10.7.3 (amazon) w/debug (h5committest coming up)
* [svn-r21923] Description:Quincey Koziol2012-02-101-5/+7
| | | | | | | | | 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-r21919] Description:Quincey Koziol2012-02-091-10/+10
| | | | | | | | Refactor function name macros and simplify the FUNC_ENTER macros, to clear away the cruft and prepare for further cleanups. Tested on: Mac OSX/64 10.7.3 (amazon) w/debug, production & parallel
* [svn-r19005] Purpose:Mike McGreevy2010-06-151-2/+8
| | | | | | | | | | | | | | | | | | | | | | | Commit metadata tagging framework. Description: This check-in contains a new framework whose goal is to apply a tag value to each new entry in the metadata cache as it is created. This tag value is such that it relates each piece of metadata to the HDF5 object that it belongs to (dataset, group, et cetera). This changeset includes the framework that applies the tags as well as a suite of tests to verify correct tag application, though does not yet make use of the tag values to flush/evict individual objects. Please refer to the "flush/evict individual objects" RFC for further discussion of these changes. Tested: jam, amani, linew (h5committest) liberty, abe, blue print
* [svn-r18595] Description:Quincey Koziol2010-04-201-3/+3
| | | | | | | | Clean up compiler warnings Tested on: Mac OS X/32 10.6.3 (amazon) w/debug (too minor to require h5committest)
* [svn-r17623] Description:Quincey Koziol2009-10-091-2/+4
| | | | | | | | | | | | | | | | | | | | | | Bring "compress group's fractal heap" feature from branch back to trunk. Tested on: 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/default API=1.8.x, 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 debug mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode Mac OS X/32 10.6.1 (amazon) in debug mode Mac OS X/32 10.6.1 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r16473] Purpose: fix problems related to 'self-referential' attributesNeil Fortner2009-02-121-4/+4
| | | | | | | | | | | | Description: When an attribute was created with a datatype or dataspace that was shared in the same object header that the attribute was in, the attribute could not be deleted. Changes made to ensure that the attribute can be deleted both when the attribute is in the object header and when it is shared in the heap. Object header message decode routines now take an "open_oh" parameter to enable them to avoid opening the same object header twice. Tested: jam, smirom (h5committest)
* [svn-r15510] Description:Quincey Koziol2008-08-211-4/+4
| | | | | | | | Clean up warnings & formatting Tested on: Mac OS X/32 10.5.4 (amazon) More tests forthcoming
* [svn-r15458] Purpose: Modify the library to take the proper action when ↵inactive/jpeg_converterNeil Fortner2008-08-111-2/+3
| | | | | | | | | | | | | | files with incorrect datatype versions are encountered. Description: The library now recognizes some problems with datatype versions in H5O_decode_helper(), and, if not performing strict format checks, automatically corrects them. Framework added for other message decode routines to automatically correct file errors. Datatype version information added to h5debug. Tested: kagiso, smirom, linew (h5committest)
* [svn-r14284] Description:Quincey Koziol2007-11-241-6/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Add H5Lvisit_by_name() API routine to library. Eliminated all (five!) other group traversal routines and changed them all to use the new API routine. Cleaned up output of h5ls & h5stat: - Issue error when requesting recursive traversal of a file with the "group info" flag, but no group given - Print info about root group in all(?) appropriate situations - Don't print "verbose" information about root group until the root group is in the list of objects to display (mostly because h5ls & h5stat had a different twist on traversing the groups in a file that the other utilities) Tested on: FreeBSD/32 6.2 (duty) in debug mode FreeBSD/64 6.2 (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/default API=1.6.x, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, in production mode Mac OS X/32 10.4.10 (amazon) in debug mode Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in production mode
* [svn-r13753] Description:Quincey Koziol2007-05-141-9/+11
| | | | | | | | | | | | | Check in "unique, but sharable" optimization to ISOHM code, which allows object header messages that are only used in one object to remain in the sole user's header, but migrates messages that are used in more than one header into the ISOHM heap. Tested on: Mac OS X/32 10.4.9 (amazon) FreeBSD/32 6.2 (duty) Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13498] Description:Quincey Koziol2007-03-121-13/+9
| | | | | | | | | Eliminate storing # of links in "link info" message, regenerate it when the object is opened instead. Tested on: FreeBSD/32 6.2 (duty) Mac OS X/32 10.4.8 (amazon)
* [svn-r13490] Description:Quincey Koziol2007-03-101-9/+15
| | | | | | | | | | | | Move "creation order tracked" flag from "group info" to "link info" object header message and make the "max. creation order value" optional in the "link info", if the creation order for links is not tracked. Also, get rid of unused "index names" flag - names are always indexed currently. Tested on: FreeBSD/32 6.2 (duty)
* [svn-r13488] Description:Quincey Koziol2007-03-101-6/+1
| | | | | | | | | Remove unused "min. creation order" field from link info object header message. Tested on: FreeBSD/32 6.2 (duty) Mac OS X/32 10.4.8 (amazon)
* [svn-r13472] Description:Quincey Koziol2007-03-061-10/+9
| | | | | | | | Add new object header message to track attribute information (unused currently). Tested on: Mac OS X/32 10.4.8 (amazon)
* [svn-r13440] Description:Quincey Koziol2007-03-011-1/+1
| | | | | | | | | | | | | | | | | | | 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-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-r13240] Description:Quincey Koziol2007-02-051-3/+3
| | | | | | | | | | More cleanups on the object header message handling code, to make it easier to work with and move forward on the creation order coding. Various other minor cleanups & warning fixes. Tested on: FreeBSD/32 6.2 (duty)
* [svn-r13232] Description:Quincey Koziol2007-02-041-10/+8
| | | | | | | | | Remove the "scaffolding" for shared message method invocation and simplify the way shared messages are dealt with in general. Tested on: FreeBSD/32 6.2 (duty) Mac OS X/32 10.4.8 (amazon)
* [svn-r13176] Description:Quincey Koziol2007-01-231-6/+5
| | | | | | | | Push code further toward shared message method calling refactor. Tested on: FreeBSD/32 6.2 (duty) Too minor to require h5committest
* [svn-r13155] Description:Quincey Koziol2007-01-191-0/+2
| | | | | | | | | | | | | | Add "set_crt_index" and "get_crt_index" methods for the object header message class. Unify fractal heap definitions for shared messages and attributes, under "object header" fractal heap definitions. Initial code for adding creation order index to object header messages. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13143] Refactoring.James Laird2007-01-161-0/+1
| | | | | | | | | | | | | | Added can_share callback for OH messages. This determines whether the message is allowed to be shared in the heap (committed and immutable datatypes can't be). Fixed a bug in the dense attribute storage that tried to open the shared message heap when it hadn't been created yet. Made the test to extend shared dataspace messages a bit more robust. Refactored the code the searches a shared message list index to be a little more efficient. A few other minor changes. Tested on smirom, kagiso, Windows, and juniper.
* [svn-r13045] Description:Quincey Koziol2006-12-121-1/+1
| | | | | | | | | | | | | | Switch from using H5L_index_t/H5L_INDEX_<foo> to H5_index_t/H5_INDEX_<foo> in order to accommodate indices on aspects of attributes as well as links. Add basic support for deleting attributes in dense storage (needs more support/tests for shared attributes in dense storage still). Misc. cleanups, etc. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r13028] Description:Quincey Koziol2006-12-061-3/+3
| | | | | | | | | | | | | | | | | Add first pass of "dense" attribute storage to objects. Lots of parts of this are stubbed out, but all the tests are passing and I'll work on the corner cases soon. Eliminated several unused parameters from object header message callback routines. Other, miscellaneous code cleanups, etc. (and probably some things I've forgotten about... :-) Tested on: FreeBSD/32 4.11 (sleipnir) Linux/32 2.4 (heping) AIX/32 5.? (copper)
* [svn-r13015] Description:Quincey Koziol2006-12-041-1/+1
| | | | | | | | | | | Migrate more object header routines to use the H5O_msg_ prefix and put them into the src/H5Omessage.c code module. Tested on: Mac OS X/32 10.4.8 (amazon) FreeBSD/32 4.11 (sleipnir) Linux/32 2.4 (heping) AIX/32 5.? (copper)
* [svn-r12949] Description:Quincey Koziol2006-11-201-3/+3
| | | | | | | | | | | | | | | | Finish implementation of H5Literate() [still needs real tests] Clean up datatype macro warnings a bit more. Unify iterator callback macros and put up in public header file, with the iterator directions. Tested on: Mac OS X/32 10.4.8 (amazon) FreeBSD/32 4.11 (sleipnir) Linux/32 2.4 (heping) Linux/64 2.4 (mir) AIX/32 5.? (copper)
* [svn-r12932] Description:Quincey Koziol2006-11-171-2/+3
| | | | | | | | | | | | Basic support for H5Literate() routine. Still needs to be fleshed out and refactored to simplify. Also, needs tests. :-) Tested on: FreeBSD/32 4.11 (sleipnir) Linux/32 2.4 (heping) Linux/64 2.4 (mir) AIX/32 5.? (copper) Mac OS X/32 10.4.8 (amazon)
* [svn-r12902] Checkin of Shared Object Header Message work.James Laird2006-11-131-4/+7
| | | | | | | | | | | | 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-r12740] Description:Quincey Koziol2006-10-101-20/+0
| | | | | | | | | | | Update datasets and the layout, attributes and fill-value object header messages to use the latest version of the file format flag. Tested on: FreeBSD 4.11 (sleipnir) Linux/64 2.4 (mir) Linux/32 2.4 (heping)
* [svn-r12707] Description:Quincey Koziol2006-10-021-26/+60
| | | | | | | | | Further minor modifications to the file format for tracking links in groups. This is tentatively the "final" file format for groups. Tested on: Linux/32 2.6 (chicago) Linux/64 2.6 (chicago2)
* [svn-r12700] Alert:Quincey Koziol2006-10-021-13/+224
| | | | | | | | | | | | | | | | | | | | | | | | | | | | File format is not stable, don't keep files produced! Description: First stage of checkins modifying the format of groups to support creation order. Implement "dense" storage for links in groups. Try to clarify some of the symbols for the H5L API. Add the H5Pset_latest_format() flag for FAPLs, to choose to use the newest file format options (including "dense" link storage in groups) Add the H5Pset_track_creation_order() flag for GCPLs, to enable creation order tracking in groups (although no index on creation order yet). Remove --enable-group-revision configure flag, as file format issues are now handled in a backwardly/forwardly compatible way. Clean up lots of compiler warnings and other minor formatting issues. Tested on: FreeBSD/32 4.11 (sleipnir) w/threadsafe Linux/32 2.4 (heping) w/FORTRAN & C++ Linux/64 2.4 (mir) w/enable-v1.6 compa Mac OSX/32 10.4.8 (amazon) AIX 5.3 (copper) w/parallel & FORTRAN
* [svn-r12440] Purpose:Quincey Koziol2006-06-271-1/+1
| | | | | | | | | | | Code cleanup Description: Trim trailing whitespace in Makefile.am and C/C++ source files to make diffing changes easier. Platforms tested: None necessary, whitespace only change
* [svn-r12439] Purpose:Quincey Koziol2006-06-261-1/+54
| | | | | | | | | | | | | New feature Description: Check in Peter's code to add support for "shallow copy", "create intermediate groups", "no attributes" and "expand soft links" support. Platforms tested: FreeBSD 4.11 (sleipnir) Linux 2.4 (chicago) w/ & w/o group-revision enabled h5committest
* [svn-r12221] Purpose:Quincey Koziol2006-04-101-0/+2
| | | | | | | | | | | | | | | "Hide" file format changes (for now) Description: Add ifdef's (controlled by the --enable-group-revision configure flag) to disable group revision changes to the file format, in order to allow alpha release to go ahead without releasing an unsupported version into the wild. Platforms tested: FreeBSD 4.11 (sleipnir) Linux 2.4 32-bit (heping) Linux 2.4 64-bit (mir) Solaris 2.9 (shanti)
* [svn-r11758] Purpose:Quincey Koziol2005-12-041-2/+3
| | | | | | | | | | | | | New feature Description: Add in a combination of Peter's & my code to support copying variable-length data from one file to another, although currently only supported with contiguous data storage. Platforms tested: FreeBSD 4.11 (sleipnir) h5committest
* [svn-r11712] Purpose:Quincey Koziol2005-11-151-0/+301
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.... :-)
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