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* [svn-r17573] Description:Quincey Koziol2009-10-011-10/+20
| | | | | | | | | | Fix several errors in code, which was not compiling... :-( Tested on: FreeBSD/32 6.3 (duty) in debug mode Mac OS X/32 10.5.8 (amazon) in debug mode Mac OS X/32 10.5.8 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r17567] Purpose:Mike McGreevy2009-10-011-21/+22
| | | | | | | | | | | | | | | | | | | | | Configure Fix Description: Modified configure to set FC and CXX to "no" when fortran and c++ are not being compiled, respectively. This will prevent configure from running some checks on these compilers when they are not being used. This fixes a problem that was occuring when FC and/or CXX are set to a nonexistant or invalid compiler. Even if the languages were disabled, a libtool test would fail, thus preventing libtool from properly linking any libraries, yet configure would not flag an error message due to this because the languages were disabled. Tested: - h5committest (jam, smirom, linew) - manually eyeballed configure output and logfile.
* [svn-r17566] Fix for Bug 1562. H5DSis_attached needed to account for ↵Allen Byrne2009-10-016-265/+2848
| | | | | | | | | platform dependent types. Added test and test files for LE and BE dimension scales. Reworked part of test_ds file as part of debug. Added missing H5Tclose in region reference routines. H5DS.c checked for other locations which need to account for platform dependent types in dealing with ds_list_t. Added generator program for test files of LE and BE dimension scales. Tested: local linux, h5committest
* [svn-r17345] Purpose:Mike McGreevy2009-08-121-28/+62
| | | | | | | | | | | | | | | | | | | | | | | | Updating autotools Description: Installed new autotools and used them to reconfigure HDF5. - Automake upgraded to 1.11 - Autoconf upgraded to 2.64 - bin/reconfigure script edited to use new versions (on jam), and run to generate new configure script and Makefile.in's. - configure.in script edited to add "_cv_" to all AC_CACHE_VAL strings (in order to comply with new autoconf standard). Tested: Tested on machines jam, smirom, liberty, linew. Tested w/ features c++, fortran, parallel. Tested w/ compilers gcc, pgcc, icc. Further testing via Daily Tests should catch any other outliers. Upon passing DT's, I'll propogate the new tools into 1.8, hdf4, et cetera.
* [svn-r16995] Snapshot version 1.9 release 39Larry Knox2009-06-011-1/+1
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* [svn-r16880] Fixed a bug in H5LTtext_to_dtype. When the data type is ↵Raymond Lu2009-04-281-0/+14
| | | | | | | | enumerate and the super type is different from the native integer, the value wasn't converted. I fixed it and corrected the test, too. Tested with h5committest.
* [svn-r16859] I fixed some memory leak of H5LTdtype_to_text in the HL ↵Raymond Lu2009-04-241-8/+11
| | | | | | | | library. I fixed some test verification, too. Tested on jam - simple change.
* [svn-r16847] Description:Quincey Koziol2009-04-231-1/+1
| | | | | | | | | | | | | Bring r16846 from revise_chunks branch back to trunk: Fix broken (for how long?) H5_ASSIGN_OVERFLOW macro to actually detect overflows during assignments, along with several errors it [now] detected. Cleaned up a fix minor warnings and/or pieces of code also. Tested on: FreeBSD/32 6.3 (duty) in debug mode (h5committest not needed - multi-platform test performed on branch)
* [svn-r16792] Description:Mike McGreevy2009-04-201-4/+4
| | | | | | | | | | | | - Updated bin/reconfigure to use latest version of automake (1.10.2). Re-generated Makefile.in's by running bin/reconfigure. - Added libtool version numbers to c++, fortran, hl, hl c++, and hl fortran libraries. Tested: jam, liberty, smirom
* [svn-r16727] clean linux warningsPedro Vicente Nunes2009-04-101-15/+15
| | | | tested: linux
* [svn-r16719] clean linux warningsPedro Vicente Nunes2009-04-094-1307/+1298
| | | | tested: linux
* [svn-r16717] added some print messagesPedro Vicente Nunes2009-04-091-28/+43
| | | | tested: linux
* [svn-r16706] #1538 (B2) Problems with Dim Scale APIs reported by MathworksPedro Vicente Nunes2009-04-081-14/+58
| | | | | | | ISSUE2: the scale index input/output parameter value passed to H5DSiterate_scales was not always incremented (it returns the scale index current iteration). SOLUTION FOR ISSUE2: modified the cycle in H5DSiterate_scales so that the scale index is always incremented TEST: added some test cases with calls to invalid indices and H5DSiterate_scales with return scale indices and visitor data tested: windows, linux
* [svn-r16696] #1538 (B2) Problems with Dim Scale APIs reported by MathworksPedro Vicente Nunes2009-04-081-31/+228
| | | | | | | ISSUE: When some functions are called with an invalid dimension index (for example, greater than the rank of the dataset) the function does not immediately fail, rather asserts down the code. SOLUTION: added this check for H5DSdetach_scale, H5DSset_label, H5DSget_label (the other functions have this check) . H5DSiterate_scales also added a check for an invalid dimension scale index TEST: added some test cases with calls to invalid indices DOCS: Nothing added
* [svn-r16588] Pedro Vicente Nunes2009-03-191-2462/+2480
| | | | | | 1. #1487 (B1) DS memory leaks ISSUE 1: On a "go to" error condition, previously allocated buffers were not freed. NOTE: these are "potential" memory leaks because typically the error conditions do not occur, so the potential memory leaks also do NOT occur. ISSUE 2: A function used to read dimension scales realistic data (topography of the North Atlantic, latitude and longitude) was being called without the data buffer being freed. SOLUTION FOR ISSUE 1: added "free" calls for the allocated buffers on the error sections. SOLUTION FOR ISSUE 2: added a "free" call after the read_data function, after using the buffer (on a H5Dwrite and H5Screate_simple). The read_data function reads both data and dimensions from the ASCII data files. DOCS: no docs added. Done for 1.9 and 1.8 STATUS: Closed bug tested: h5committest
* [svn-r16561] Purpose:Mike McGreevy2009-03-101-3/+3
| | | | | | | | | | | | | | | | | | Bug Fix Description: Fixing BZ #1381. The --includedir=DIR configure option, which is used to specify the installation location of C header files, did not work correctly as the path was hard-coded in config/commence.am. I'm presuming this is because an older version of automake didn't know where to put c header files. In any case, removing this line now defaults the includedir to the same directory that it is currently hard-coded to, and also fixes the configure flag to allow customization of this value. Tested: jam, liberty
* [svn-r16518] have 2 expected outputs for 2 h5ls runs depending if run on a ↵Pedro Vicente Nunes2009-02-261-0/+1
| | | | | | | big or little endian machine. Configure.in was modified to export a variable carrying endianess information to testh5ls.sh. This script then compares the current run with 2 expected outputs, one for a big-endian machine (linew was used to generate the output), other for little endian (jam was used to generate the output) the way h5ls prints types, it starts searching for NATIVE types first. One solution would be h5ls not to detect these native types, using for example the same print datatype function that h5dump does, that would make the output look the same on all platforms ("32-bit little-endian integer" would be printed instead). Drawback, this "native" information would not be available. Other solution is to have not one but 2 expected outputs and make the shell script detect the endianess and compare with one output or other tested: h5committest
* [svn-r16340] Description:Frank Baker2009-01-221-1/+1
| | | | | | Changed 'THG' to 'The HDF Group' in various HDF5 source files, most of which are <subdirectory>/COPYING. -- Closes Bugzilla entry 1403.
* [svn-r16133] H5TBdelete_record was not handlong correctly records at the end ↵Pedro Vicente Nunes2008-11-251-0/+16
| | | | | | | | of the table added a ckeck that avoids to read these records if they are not needed (for pushing down the table) tested: windows, linux
* [svn-r16128] revised test tablePedro Vicente Nunes2008-11-241-1476/+1486
| | | | tested windows linux
* [svn-r15942] Purpose: Bug Fixes and Libtool UpgradeMike McGreevy2008-10-241-6/+6
| | | | | | | | | | | | | | | | | | Description: - Remove need to set LD_LIBRARY_PATH when using shared szip library. - Libtool 2.2.6a is now used to generate libraries. - 'make check install' dependency bug is fixed, and should no longer break the build. - removed hard coding of shell in config/commence.am, as this causes problems on Solaris with the new version of libtool. - RELEASE.txt with appropriate changes. Tested: - kagiso, smirom, linew (merged from 1.8, pretty quick tests)
* [svn-r15628] Description:Quincey Koziol2008-09-163-150/+150
| | | | | | | | | | | | | 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-r15036] Bug fix.Albert Cheng2008-05-191-4/+4
| | | | | | | | | | | | | | | | | | | Description: The fortran Makefile.am used HDF_FORTRAN to indicate it is part of the Fortran API source so that conclude.am will give fortran api prefix in the test output. The symbox HDF_FORTRAN is also used in configure for a different purpose (indicated --enable-fortran). They conflicted. Similar problem for the symbol HDF_CXX. Solution: Changed all the involved Makefile.am to use "FORTRAN_API" instead. It is a more appropriate name. Same for CXX_API. Along the way, discovered that the Makefile.am of hl/fortran/test and hl/cxx/test did not have those symbols at all. Added them in. Platform tested: Kagiso only. It is a trivia change.
* [svn-r15007] Purpose: configure cleanupMike McGreevy2008-05-151-1/+0
| | | | | | | Description: cleaning up configure related to removal of --disable-hsizet flag, which we no longer support. Tested: kagiso
* [svn-r15003] Purpose:Albert Cheng2008-05-151-0/+15
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Improvement. Description: src/libhdf5.settings was the initial configure summary and is installed. Then configure is changed to dump a summary of the configure settings to the output and also append it to src/libhdf5.settings. That created two different output formats and duplicated information. This is the initial attempt to clean up this confusion and unify the output format. It is decided to use the src/libhdf5.settings template as the unified means. This requires more macros symbols be defined. The following symbols are all related to generating the src/libhdf5.settings file. AC_SUBST(EXTERNAL_FILTERS) AC_SUBST(MPE) MPE=no AC_SUBST(STATIC_EXEC) STATIC_EXEC=no AC_SUBST(HDF_FORTRAN) HDF_FORTRAN=no AC_SUBST(FC) HDF_FORTRAN=no AC_SUBST(HDF_CXX) HDF_CXX=no AC_SUBST(CXX) HDF_CXX=no AC_SUBST(HDF5_HL) HDF5_HL=yes AC_SUBST(GPFS) GPFS=no AC_SUBST(LINUX_LFS) LINUX_LFS=no AC_SUBST(INSTRUMENT) INSTRUMENT=no AC_SUBST(CODESTACK) CODESTACK=no AC_SUBST(HAVE_DMALLOC) HAVE_DMALLOC=no AC_SUBST(DIRECT_VFD) DIRECT_VFD=no AC_SUBST(THREADSAFE) THREADSAFE=no AC_SUBST(STATIC_SHARED) AC_SUBST(enable_shared) AC_SUBST(enable_static) AC_SUBST(UNAME_INFO) UNAME_INFO=`uname -a` The src/libhdf5.settings.in has CONDITIONAL's added to it too. The untrue conditions turned into a "#" and these lines are cleaned by the post processing script. Platform tested: h5committest on kagiso, smirom and linew.
* [svn-r14933] Purpose: Updating HDF5 to use automake 1.10.1 and libtool 2.2.2Mike McGreevy2008-05-051-14/+18
| | | | | | | | | | | | | | | | | | Description: Applying update to autotools that was applied to 1.8 a couple of weeks ago to the trunk. Updated bin/reconfigure script to reflect the new versions of libtool and automake in the /home1/packages/ directory. Rearranged configure.in script. When using libtool 2.2.2, the libtool script doesn't generate until later in the configuration process, so I had to move a test that parsed through the libtool script to a point after where it was actually being generated. Ran libtoolize on the project, and ran bin/reconfigure to regenerate configure and Makefile.in's throughout. Tested: kagiso, smirom, linew (h5committest)
* [svn-r14402] Description:Quincey Koziol2008-01-131-0/+1
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Add work-around to allow reading files that were produced with a buggy earlier version of the library, which could create objects with the wrong object header message count. There is now a configure flag "--enable-strict-format-checks" which triggers a failure on reading a file with this sort of corruption (when enabled) and allows the object to be read (when disabled). The default value for the "strict-format-checks" flag is yes when the "debug" flag is enabled and no when the "debug" flag is disabled. Note that if strict format checks are disabled (allowing objects with this particular kind of corruption to be read) and the file is opened with write access, the library will re-write the object header for the corrupt object with the correct # of object header messages. This closes bugzilla bug #1010. 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-r14212] Description:Quincey Koziol2007-10-181-1/+1
| | | | | | | | | | | | | | | | | | | | | | Make H5Tarray_create() and H5Tget_array_dims() versioned, and drop the "perm" parameter from the '2' versions. Shift internal library usage to '2' versions. Add simple regression tests for '1' versions. 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
* [svn-r14208] Description:Quincey Koziol2007-10-181-12/+2
| | | | | | | | | | | | | | | | | | | | Make H5Pget_filter_by_id() API versioned and switch internal usage to H5Pget_filter_by_id2(). Add simple regression test for H5Pget_filter_by_id1(). 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
* [svn-r14199] Description:Quincey Koziol2007-10-112-519/+514
| | | | | | | | | | | | | | | | | | | | | Add H5Dcreate to API versioned routines, replacing internal usage with H5Dcreate2 Fix thread-safe error stack initialization for API versioned error stack printing routines. 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
* [svn-r14193] Description:Quincey Koziol2007-10-083-103/+103
| | | | | | | | | | | | | | | | | | | Make H5Dopen versioned and change all internal usage to use H5Dopen2 Add simple regression test for H5Dopen1 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
* [svn-r14126] Description:Quincey Koziol2007-08-291-4/+4
| | | | | | | | | | | | | Move H5Gunlink to deprecated symbol section, replacing internal calls with H5Ldelete. Tested on: FreeBSD/32 6.2 (duty) FreeBSD/64 6.2 (liberty) Linux/32 2.6 (kagiso) Linux/64 2.6 (smirom) Solaris/32 5.10 (linew) Mac OS X/32 10.4.10 (amazon)
* [svn-r14115] Description:Quincey Koziol2007-08-281-4/+4
| | | | | | | | | | | | | | | | | Remove all plain calls to H5Gopen() from source, replacing them with either H5Gopen2(). Add test for H5Gopen1(). Reformatted several pieces of code, to clean them up. Tested on: FreeBSD/32 6.2 (duty) FreeBSD/64 6.2 (liberty) Linux/32 2.6 (kagiso) Linux/64 2.6 (smirom) Solaris/32 5.10 (linew) Mac OS X/32 10.4.10 (amazon)
* [svn-r14104] Description:Quincey Koziol2007-08-232-80/+75
| | | | | | | | | | | | | Pursue calls to H5Gcreate() relentlessly and ruthlessly exterminate them, leaving only a few tame specimens in text files and comments. ;-) Tested on: Mac OS X/32 10.4.10 (amazon) FreeBSD/32 6.2 (duty) FreeBSD/64 6.2 (liberty) Linux/32 2.6 (kagiso) Linux/64 2.6 (smirom) Solaris/32 5.10 (linew)
* [svn-r14060] Corrected verifiy to verify.H. Joe Lee2007-08-091-9/+9
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* [svn-r13972] Description:Quincey Koziol2007-07-131-0/+1
| | | | | | | | | Add --with-default-api-version configure flag. Tested on: Mac OS X/32 10.4.10 (amazon) FreeBSD/32 6.2 (duty) Linux/32 2.6 (kagiso)
* [svn-r13971] Description:Quincey Koziol2007-07-121-0/+1
| | | | | | | | | | | | | | Add --enable-deprecated-symbols configure option, to allow users to remove deprecated public API symbols at configure time. Add bin/make_vers script to bin/reconfigure actions. Run bin/reconfigure to regenerate autotool components. Tested on: Mac OS X/32 10.4.10 (amazon) FreeBSD/32 6.2 (duty) Linux/32 2.6 (kagiso)
* [svn-r13928] Purpose: 1) Moving H5_CXX_HAVE_OFFSETOF macro to ↵Mike McGreevy2007-06-291-3/+2
| | | | | | | | | | src/H5pubconf.h file. 2) Removing configuration of c++/src/H5cxx_pubconf.h file. Reasoning: the additional pubconf file caused compilation complications, this is cleaner. Tested: kagiso, smirom
* [svn-r13925] Purpose: intermediate checkin for offsetof fix for PGI compiler.Mike McGreevy2007-06-281-2/+3
| | | | | | | | | | Description: added new configuration to generate a pubconf file in the c++/src directory, H5cxx_pubconf.h. When C++ compiler recognizes 'offsetof', the macro H5_CXX_HAVE_OFFSETOF is defined in the new pubconf file. tested: kagiso, smirom
* [svn-r13846] Purpose: To remove changes from version #13839 (regarding ↵Mike McGreevy2007-06-081-1/+0
| | | | | | | | DEFAULT_VFD). Description: Changes made during this checkin need to be greatly modified, so I'm removing them now rather than leaving them in and fixing them later.
* [svn-r13839] Purpose: creation of a DEFAULT_VFD macro in the ↵Mike McGreevy2007-06-071-0/+1
| | | | | | | | | | | test/Makefile. Description: a new configure flag has been created that will now set a macro in the test/Makefile. The flag is with-default-vfd=. When set to a virtual file driver (e.g. "--with-default-vfd=sec2"), the macro DEFAULT_VFD will hold this value. Tested: kagiso, smirom, linew
* [svn-r13829] Some systems (only SGI Altix ProPack 4 discovered so far) ↵Raymond Lu2007-06-022-3/+1
| | | | | | | | | | | | doesn't return correct file size from MPI_File_get_size. Bypass this problem by replacing it with stat. Add an option --disable-mpi-size in configure to indicate this function doesn't work properly. Add a test in testpar/t_mpi.c, too. If it returns wrong file size, print out a warning. Tested on kagiso (parallel) because already tested the same change to v1.6 on several platforms (kagiso, cobalt, copper, and sol).
* [svn-r13815] Description:Quincey Koziol2007-05-291-0/+2
| | | | Regenerate configuration files after latest checkin
* [svn-r13616] This check-in updates the bin/reconfigure file to point to the ↵Mike McGreevy2007-04-091-85/+66
| | | | | | | | most recent versions of the autotools. Updated autotool versions are: autoconf 2.61, automake 1.10.0, and libtool 1.5.22. Tested on kagiso.
* [svn-r13615] Pedro Vicente Nunes2007-04-092-769/+766
| | | | | | | | | | | bug fixes substituted hize_t array index variables for int stack corruption in the h52gif reading routine, wrote a new routine shell script for gif tests, added check of program return value enabled the gif test script tested: linux pgcc, solaris, linux 64
* [svn-r13549] Description:Quincey Koziol2007-03-272-75/+77
| | | | | | | | | Check in changes from Elena and I to get pgcc compiler working again. Primarily (all?) changes to move from using 'hsize_t' as array index to using something else ('size_t') mostly. Tested on: Linux/32 2.4 kagiso w/pgcc
* [svn-r13418] Cleaned up some old paths in config/commence.am and removed ↵James Laird2007-02-271-7/+7
| | | | | | | | some comments in the template file config/Makefile.am.blank. This is just a cleanup checkin. Tested on kagiso.
* [svn-r13379] Added 'make help' target. This actually runs a script, ↵James Laird2007-02-231-1/+4
| | | | | | | | bin/makehelp (formatting the output in the makefile was pretty hard). Tested that make still works on kagiso; no code changes at all.
* [svn-r13365] Bug fix.Albert Cheng2007-02-211-26/+0
| | | | | | | | | | | | Description: Multiple copies of Copyright appeared in Makefile.in. This was due to automake copying the copyright right in the included files such as config/commence.am. Solution: Automake treats double hashes as comments and does not copy them to Makefile.in. Changed all the copyright notices in config/*.am to use double hashes for the Copyright right notice. Tested: kagiso via bin/reconfigure.
* [svn-r13359] Fixed a bug where the -shlib flag for h5cc would end up on the ↵James Laird2007-02-201-5/+31
| | | | | | | | Dependency line in the Makefile. Makefile change only. Tested on kagiso, to be used to test on cobalt.
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